miRNA display CGI


Results 1 - 20 of 147 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
12779 5' -57.3 NC_003387.1 + 16010 0.66 0.589308
Target:  5'- gGCCGGGCAg---CUCGaCCG-GGUCGAg -3'
miRNA:   3'- -CGGCUCGUguugGAGC-GGCuCCAGUU- -5'
12779 5' -57.3 NC_003387.1 + 9332 0.66 0.589308
Target:  5'- cCCGAGguCGACgUCGUCGAGcaccaggacGUCGAc -3'
miRNA:   3'- cGGCUCguGUUGgAGCGGCUC---------CAGUU- -5'
12779 5' -57.3 NC_003387.1 + 27418 0.66 0.589308
Target:  5'- cGCUG-GCACcACCgCGCCGAcGUCGc -3'
miRNA:   3'- -CGGCuCGUGuUGGaGCGGCUcCAGUu -5'
12779 5' -57.3 NC_003387.1 + 43203 0.66 0.589308
Target:  5'- gGCCGGGUACGcgGCgaUCGgCGAGGUg-- -3'
miRNA:   3'- -CGGCUCGUGU--UGg-AGCgGCUCCAguu -5'
12779 5' -57.3 NC_003387.1 + 52040 0.66 0.589308
Target:  5'- cGUgGcGCGCGACCUCGCUaAGcGUCGc -3'
miRNA:   3'- -CGgCuCGUGUUGGAGCGGcUC-CAGUu -5'
12779 5' -57.3 NC_003387.1 + 12802 0.66 0.588217
Target:  5'- cGCCucGCaACGACCgcagucgUCGCCGGGG-CAGu -3'
miRNA:   3'- -CGGcuCG-UGUUGG-------AGCGGCUCCaGUU- -5'
12779 5' -57.3 NC_003387.1 + 42895 0.66 0.58277
Target:  5'- gGCCGggggccagcacaaaAGCGCAGCCUgcagCGCCGGucgcucgacaacauGGUCGc -3'
miRNA:   3'- -CGGC--------------UCGUGUUGGA----GCGGCU--------------CCAGUu -5'
12779 5' -57.3 NC_003387.1 + 24779 0.66 0.567574
Target:  5'- cGCCGAGCGCcccGACCgagccCGCCcccGAGG-CGc -3'
miRNA:   3'- -CGGCUCGUG---UUGGa----GCGG---CUCCaGUu -5'
12779 5' -57.3 NC_003387.1 + 2601 0.66 0.567574
Target:  5'- gGCCGcAGUACGcCCUCGaaaCGuGGGUCGc -3'
miRNA:   3'- -CGGC-UCGUGUuGGAGCg--GC-UCCAGUu -5'
12779 5' -57.3 NC_003387.1 + 1782 0.66 0.567574
Target:  5'- cCCGAGCugAaaGCC-CGCa-AGGUCAAg -3'
miRNA:   3'- cGGCUCGugU--UGGaGCGgcUCCAGUU- -5'
12779 5' -57.3 NC_003387.1 + 8088 0.66 0.567574
Target:  5'- uGCCGgucGGCGcCAACC-CGcCCGAGGgCGAg -3'
miRNA:   3'- -CGGC---UCGU-GUUGGaGC-GGCUCCaGUU- -5'
12779 5' -57.3 NC_003387.1 + 43627 0.66 0.567574
Target:  5'- cCCGAGCGCGAgCggGUCGAGGg--- -3'
miRNA:   3'- cGGCUCGUGUUgGagCGGCUCCaguu -5'
12779 5' -57.3 NC_003387.1 + 464 0.66 0.567574
Target:  5'- cGCuCGGGCGCGGCgUUGCCGucaGUCu- -3'
miRNA:   3'- -CG-GCUCGUGUUGgAGCGGCuc-CAGuu -5'
12779 5' -57.3 NC_003387.1 + 5823 0.66 0.566492
Target:  5'- gGCCGuGCACGacgACCUCgggcugcGCCGcAGGUgGGg -3'
miRNA:   3'- -CGGCuCGUGU---UGGAG-------CGGC-UCCAgUU- -5'
12779 5' -57.3 NC_003387.1 + 39244 0.66 0.566492
Target:  5'- cGCCGGGCGaggccgucgaguuCGACCUCGgCGAGcugggCAAg -3'
miRNA:   3'- -CGGCUCGU-------------GUUGGAGCgGCUCca---GUU- -5'
12779 5' -57.3 NC_003387.1 + 18951 0.66 0.556781
Target:  5'- aGCCGGGCcaaacgcucGCGGcgccgccguugcCCUUGCCGGGGUg-- -3'
miRNA:   3'- -CGGCUCG---------UGUU------------GGAGCGGCUCCAguu -5'
12779 5' -57.3 NC_003387.1 + 617 0.66 0.556781
Target:  5'- gGCCGAGCagggcgaggGCAGCgUCGCCGccgcGG-CAGc -3'
miRNA:   3'- -CGGCUCG---------UGUUGgAGCGGCu---CCaGUU- -5'
12779 5' -57.3 NC_003387.1 + 44374 0.66 0.556781
Target:  5'- uGCCGAacagcgGCACGucggggUCGUCGAGGUCGg -3'
miRNA:   3'- -CGGCU------CGUGUugg---AGCGGCUCCAGUu -5'
12779 5' -57.3 NC_003387.1 + 24636 0.66 0.556781
Target:  5'- cCCGA-CGC-ACCUCGCCcugcugcgcGAGGUCGc -3'
miRNA:   3'- cGGCUcGUGuUGGAGCGG---------CUCCAGUu -5'
12779 5' -57.3 NC_003387.1 + 48399 0.66 0.556781
Target:  5'- gGCCGGGCGCAGCCUgGgCaaccaGuGGUaCAGc -3'
miRNA:   3'- -CGGCUCGUGUUGGAgC-Gg----CuCCA-GUU- -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.