miRNA display CGI


Results 1 - 20 of 25 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
16448 5' -57 NC_004084.1 + 16949 0.66 0.687766
Target:  5'- gGGCgucgcgacgUCGGGUCUU-CGAGcGCCugGACGa -3'
miRNA:   3'- gCCGa--------AGCUCAGGAuGCUC-CGG--CUGC- -5'
16448 5' -57 NC_004084.1 + 53146 0.66 0.687766
Target:  5'- -cGCUgCGGGacgUCgucgACGAGGCCGAUGa -3'
miRNA:   3'- gcCGAaGCUCa--GGa---UGCUCCGGCUGC- -5'
16448 5' -57 NC_004084.1 + 32213 0.66 0.687766
Target:  5'- aGcGCcUCGAGaugcUCCUcgACGAcGCCGACGg -3'
miRNA:   3'- gC-CGaAGCUC----AGGA--UGCUcCGGCUGC- -5'
16448 5' -57 NC_004084.1 + 35568 0.66 0.67716
Target:  5'- gGGUUcgUCGAG-CaucACGAGGCCGuCGa -3'
miRNA:   3'- gCCGA--AGCUCaGga-UGCUCCGGCuGC- -5'
16448 5' -57 NC_004084.1 + 27606 0.66 0.666514
Target:  5'- aCGGCUUCGAGaaaUACGAcaucuGGuUCGACGc -3'
miRNA:   3'- -GCCGAAGCUCaggAUGCU-----CC-GGCUGC- -5'
16448 5' -57 NC_004084.1 + 11850 0.66 0.666514
Target:  5'- aCGGCgauaUCGAGUUC-ACGA--CCGACGa -3'
miRNA:   3'- -GCCGa---AGCUCAGGaUGCUccGGCUGC- -5'
16448 5' -57 NC_004084.1 + 22974 0.66 0.663314
Target:  5'- aGGCcgacCGAGUCCUggucgaccucgcgaGCGAGaUCGACGa -3'
miRNA:   3'- gCCGaa--GCUCAGGA--------------UGCUCcGGCUGC- -5'
16448 5' -57 NC_004084.1 + 33080 0.67 0.62372
Target:  5'- cCGaGCcaCGAGcCCUGCGAgaaggGGCgCGACGg -3'
miRNA:   3'- -GC-CGaaGCUCaGGAUGCU-----CCG-GCUGC- -5'
16448 5' -57 NC_004084.1 + 28273 0.67 0.622649
Target:  5'- gCGGCUUCGAcucguggacgggaGUCUcGCGAucgGGgCGGCGa -3'
miRNA:   3'- -GCCGAAGCU-------------CAGGaUGCU---CCgGCUGC- -5'
16448 5' -57 NC_004084.1 + 49871 0.67 0.613016
Target:  5'- cCGGC---GAGUCCUGCG-GGaCGAUGg -3'
miRNA:   3'- -GCCGaagCUCAGGAUGCuCCgGCUGC- -5'
16448 5' -57 NC_004084.1 + 45889 0.67 0.599126
Target:  5'- gGGCcggUCGAGUCCUGCuugcguacuucuccGAGGaggucgaucCCGAUGu -3'
miRNA:   3'- gCCGa--AGCUCAGGAUG--------------CUCC---------GGCUGC- -5'
16448 5' -57 NC_004084.1 + 43791 0.68 0.570441
Target:  5'- cCGGCggaGAGUCCggcgGCGAGGagCGcCGg -3'
miRNA:   3'- -GCCGaagCUCAGGa---UGCUCCg-GCuGC- -5'
16448 5' -57 NC_004084.1 + 9817 0.68 0.559897
Target:  5'- aCGGCguugacaucUCGA-UCCagcacUACGAGGUCGGCGa -3'
miRNA:   3'- -GCCGa--------AGCUcAGG-----AUGCUCCGGCUGC- -5'
16448 5' -57 NC_004084.1 + 39837 0.68 0.538982
Target:  5'- uGGCgcUCGAGUCCauCGGcGGCCG-CGg -3'
miRNA:   3'- gCCGa-AGCUCAGGauGCU-CCGGCuGC- -5'
16448 5' -57 NC_004084.1 + 1602 0.68 0.532757
Target:  5'- cCGGCUggGAGcucugcucgaugaacUCCUcgAgGAGGCCGACc -3'
miRNA:   3'- -GCCGAagCUC---------------AGGA--UgCUCCGGCUGc -5'
16448 5' -57 NC_004084.1 + 15023 0.68 0.528622
Target:  5'- gGGCUUCGAGaaCCU-CGAGGuUCGAUu -3'
miRNA:   3'- gCCGAAGCUCa-GGAuGCUCC-GGCUGc -5'
16448 5' -57 NC_004084.1 + 8614 0.68 0.528622
Target:  5'- aGGCU----GUCCU-CGAGGCCGAUc -3'
miRNA:   3'- gCCGAagcuCAGGAuGCUCCGGCUGc -5'
16448 5' -57 NC_004084.1 + 51405 0.68 0.518338
Target:  5'- gCGGCcgacgccgUCGAGgCCUuCGAGGgCGACa -3'
miRNA:   3'- -GCCGa-------AGCUCaGGAuGCUCCgGCUGc -5'
16448 5' -57 NC_004084.1 + 1040 0.7 0.448886
Target:  5'- gGGCgcgcUCGAGUUCgcCGAGGUCGAa- -3'
miRNA:   3'- gCCGa---AGCUCAGGauGCUCCGGCUgc -5'
16448 5' -57 NC_004084.1 + 1428 0.7 0.429994
Target:  5'- gGGCUaCGAGUUCgACGAGuacCCGGCGa -3'
miRNA:   3'- gCCGAaGCUCAGGaUGCUCc--GGCUGC- -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.