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
15886 3' -56.3 NC_004065.1 + 64166 0.66 0.95618
Target:  5'- cGGGACCGUGAGagaccgucCGGcccCGcCGUCCCUa- -3'
miRNA:   3'- -UCUUGGCACUC--------GUCa--GC-GCAGGGAgu -5'
15886 3' -56.3 NC_004065.1 + 103618 0.66 0.95618
Target:  5'- cGGGACCGcGGGCAGcugaCGCGUUaCCUgGa -3'
miRNA:   3'- -UCUUGGCaCUCGUCa---GCGCAG-GGAgU- -5'
15886 3' -56.3 NC_004065.1 + 41136 0.66 0.95618
Target:  5'- cGGGCCGUGAGCuucUCGUGguaCCUgAg -3'
miRNA:   3'- uCUUGGCACUCGuc-AGCGCag-GGAgU- -5'
15886 3' -56.3 NC_004065.1 + 116244 0.66 0.955059
Target:  5'- aAGaAGCCGcccGAGuCGGUCGUcugccgccgcggcuGUCCCUCGg -3'
miRNA:   3'- -UC-UUGGCa--CUC-GUCAGCG--------------CAGGGAGU- -5'
15886 3' -56.3 NC_004065.1 + 183277 0.66 0.952368
Target:  5'- gGGGACCuGgaggaGAGCAG-CGCGUgCgCCUCGu -3'
miRNA:   3'- -UCUUGG-Ca----CUCGUCaGCGCA-G-GGAGU- -5'
15886 3' -56.3 NC_004065.1 + 119185 0.66 0.939622
Target:  5'- aGGAugGCCGUGAGCgAGUCuggagGCGUgCCg-- -3'
miRNA:   3'- -UCU--UGGCACUCG-UCAG-----CGCAgGGagu -5'
15886 3' -56.3 NC_004065.1 + 44855 0.66 0.934929
Target:  5'- cGGGCCG-GAGCAG-CGuCGcCUCUCGc -3'
miRNA:   3'- uCUUGGCaCUCGUCaGC-GCaGGGAGU- -5'
15886 3' -56.3 NC_004065.1 + 24973 0.67 0.930011
Target:  5'- ---gUCGUGGGUGG--GCGUCCCUCGg -3'
miRNA:   3'- ucuuGGCACUCGUCagCGCAGGGAGU- -5'
15886 3' -56.3 NC_004065.1 + 184170 0.67 0.924867
Target:  5'- ---uCCGUcgGAGCGGccaUCGCGUCCCgugCGg -3'
miRNA:   3'- ucuuGGCA--CUCGUC---AGCGCAGGGa--GU- -5'
15886 3' -56.3 NC_004065.1 + 96149 0.67 0.919497
Target:  5'- ---uCCGUGGG-GGUCGCGcUCCUCAa -3'
miRNA:   3'- ucuuGGCACUCgUCAGCGCaGGGAGU- -5'
15886 3' -56.3 NC_004065.1 + 144278 0.67 0.908083
Target:  5'- cAGcACCGUGAuGCcgauGUUGaUGUCCCUCGc -3'
miRNA:   3'- -UCuUGGCACU-CGu---CAGC-GCAGGGAGU- -5'
15886 3' -56.3 NC_004065.1 + 183651 0.67 0.907489
Target:  5'- aGGGACCGgcUGAGguGgcccacaUCGUGUCCCa-- -3'
miRNA:   3'- -UCUUGGC--ACUCguC-------AGCGCAGGGagu -5'
15886 3' -56.3 NC_004065.1 + 71692 0.68 0.882612
Target:  5'- cGGcAACgG-GAGCGG-CGCGUCCuCUCGa -3'
miRNA:   3'- -UC-UUGgCaCUCGUCaGCGCAGG-GAGU- -5'
15886 3' -56.3 NC_004065.1 + 32852 0.68 0.882612
Target:  5'- cGAACCGcGGGgAGcUgGCGUCCCUg- -3'
miRNA:   3'- uCUUGGCaCUCgUC-AgCGCAGGGAgu -5'
15886 3' -56.3 NC_004065.1 + 188315 0.68 0.868603
Target:  5'- uGAucACCGUGuugauGGCcGUcucCGCGUCCCUCGc -3'
miRNA:   3'- uCU--UGGCAC-----UCGuCA---GCGCAGGGAGU- -5'
15886 3' -56.3 NC_004065.1 + 29637 0.69 0.853792
Target:  5'- cGGGCgCGUaGAuGUAGaCGCGUCCCUCc -3'
miRNA:   3'- uCUUG-GCA-CU-CGUCaGCGCAGGGAGu -5'
15886 3' -56.3 NC_004065.1 + 41258 0.69 0.853792
Target:  5'- -cAGCgUGUGGGCGGUCGCGaucgCCCUg- -3'
miRNA:   3'- ucUUG-GCACUCGUCAGCGCa---GGGAgu -5'
15886 3' -56.3 NC_004065.1 + 94828 0.69 0.830172
Target:  5'- cGGGCCGUcGGCGGcggCGCccaacaGUCCCUCGg -3'
miRNA:   3'- uCUUGGCAcUCGUCa--GCG------CAGGGAGU- -5'
15886 3' -56.3 NC_004065.1 + 49676 0.7 0.778544
Target:  5'- cGGuGCCGccgGAGCAG--GCGUCCCUCc -3'
miRNA:   3'- -UCuUGGCa--CUCGUCagCGCAGGGAGu -5'
15886 3' -56.3 NC_004065.1 + 89234 0.71 0.741547
Target:  5'- ---cCCGaUGAGC-GUCGCGUCUCUCu -3'
miRNA:   3'- ucuuGGC-ACUCGuCAGCGCAGGGAGu -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.