miRNA display CGI


Results 1 - 20 of 30 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
11990 5' -60.6 NC_003278.1 + 34346 0.66 0.32048
Target:  5'- cCCGGCGcUGCGCgcacUGCagcaGCAGGCCa -3'
miRNA:   3'- uGGUCGCcAUGCG----ACGgg--CGUUCGGa -5'
11990 5' -60.6 NC_003278.1 + 2580 0.66 0.32048
Target:  5'- gGCCGGCGGUAUaggugaacugGC-GCCCaCcGGCCg -3'
miRNA:   3'- -UGGUCGCCAUG----------CGaCGGGcGuUCGGa -5'
11990 5' -60.6 NC_003278.1 + 21535 0.66 0.317319
Target:  5'- cCCAGCGGgccggccuggccgGCGCcgagGCCCugggcCAGGCCg -3'
miRNA:   3'- uGGUCGCCa------------UGCGa---CGGGc----GUUCGGa -5'
11990 5' -60.6 NC_003278.1 + 22064 0.66 0.312622
Target:  5'- cCCGGC-GUGCuGCUGCCggaGCuGGCCg -3'
miRNA:   3'- uGGUCGcCAUG-CGACGGg--CGuUCGGa -5'
11990 5' -60.6 NC_003278.1 + 3467 0.66 0.310293
Target:  5'- cGCCAGCGGUauggcgaugcagaaGCGCUa-CCGCcGGaCCUa -3'
miRNA:   3'- -UGGUCGCCA--------------UGCGAcgGGCGuUC-GGA- -5'
11990 5' -60.6 NC_003278.1 + 15920 0.66 0.301867
Target:  5'- cGCCGGCGGUcuguacugGCGCUG-CCGCuacaacggaacauGGUCa -3'
miRNA:   3'- -UGGUCGCCA--------UGCGACgGGCGu------------UCGGa -5'
11990 5' -60.6 NC_003278.1 + 30263 0.66 0.297345
Target:  5'- cGCCuGGUGGUGcCGCUGUCCgagcaccaGCucGCCUg -3'
miRNA:   3'- -UGG-UCGCCAU-GCGACGGG--------CGuuCGGA- -5'
11990 5' -60.6 NC_003278.1 + 27424 0.66 0.297345
Target:  5'- aGCCGGaggaaagauacUGGUugGCguugGCCUGCAGGUa- -3'
miRNA:   3'- -UGGUC-----------GCCAugCGa---CGGGCGUUCGga -5'
11990 5' -60.6 NC_003278.1 + 9080 0.66 0.297345
Target:  5'- uGCuCGGCGGUGC-C-GCCgGCAuAGCCg -3'
miRNA:   3'- -UG-GUCGCCAUGcGaCGGgCGU-UCGGa -5'
11990 5' -60.6 NC_003278.1 + 26600 0.66 0.274822
Target:  5'- uACCcuGGCGGacgcgaaUGCGCcgccGCCCGCcuGGGCCUc -3'
miRNA:   3'- -UGG--UCGCC-------AUGCGa---CGGGCG--UUCGGA- -5'
11990 5' -60.6 NC_003278.1 + 16789 0.67 0.268544
Target:  5'- -gCGGCGGUAC---GCCUGCAGcGCCUg -3'
miRNA:   3'- ugGUCGCCAUGcgaCGGGCGUU-CGGA- -5'
11990 5' -60.6 NC_003278.1 + 12336 0.67 0.268544
Target:  5'- uACCGGCGGcGCcCUcGCCCGCuuGGCa- -3'
miRNA:   3'- -UGGUCGCCaUGcGA-CGGGCGu-UCGga -5'
11990 5' -60.6 NC_003278.1 + 26509 0.67 0.255008
Target:  5'- gGCUGcGCGGUGgGCUucGCCaCGCAGGCaCUu -3'
miRNA:   3'- -UGGU-CGCCAUgCGA--CGG-GCGUUCG-GA- -5'
11990 5' -60.6 NC_003278.1 + 3395 0.67 0.255008
Target:  5'- uCCGGCGGUaGCGCU-UCUGCAucGCCa -3'
miRNA:   3'- uGGUCGCCA-UGCGAcGGGCGUu-CGGa -5'
11990 5' -60.6 NC_003278.1 + 8405 0.67 0.242037
Target:  5'- -gCAGCGucuCGUUGCUCGCcAGCCUg -3'
miRNA:   3'- ugGUCGCcauGCGACGGGCGuUCGGA- -5'
11990 5' -60.6 NC_003278.1 + 6038 0.67 0.23576
Target:  5'- cGCCGGUGGaagugcccUACG-UGCCCGagaaGGGCCUc -3'
miRNA:   3'- -UGGUCGCC--------AUGCgACGGGCg---UUCGGA- -5'
11990 5' -60.6 NC_003278.1 + 8377 0.67 0.23576
Target:  5'- uACCAGCGcUGCgGC-GCCCGCuuccGCCg -3'
miRNA:   3'- -UGGUCGCcAUG-CGaCGGGCGuu--CGGa -5'
11990 5' -60.6 NC_003278.1 + 13272 0.67 0.23576
Target:  5'- gGCCAGCaGGUccgccgggGCGCUGCCguUGCccugggcGGCCUg -3'
miRNA:   3'- -UGGUCG-CCA--------UGCGACGG--GCGu------UCGGA- -5'
11990 5' -60.6 NC_003278.1 + 31706 0.67 0.23576
Target:  5'- gACCcGCGG-ACGC-GCCCGguugAAGCCUg -3'
miRNA:   3'- -UGGuCGCCaUGCGaCGGGCg---UUCGGA- -5'
11990 5' -60.6 NC_003278.1 + 23022 0.68 0.22962
Target:  5'- gACCAGCac--CGCUaCCUGCAGGCCg -3'
miRNA:   3'- -UGGUCGccauGCGAcGGGCGUUCGGa -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.