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
31769 3' -65 NC_006938.1 + 4827 0.67 0.263848
Target:  5'- -aUGaCCUGGCaCCGGCCGaggaguuCGGCGAGg -3'
miRNA:   3'- ugACgGGGCCGaGGCCGGC-------GCUGCUC- -5'
31769 3' -65 NC_006938.1 + 7899 0.66 0.318541
Target:  5'- gGCUGCUC--GCUCCuGGUCGuUGACGAGu -3'
miRNA:   3'- -UGACGGGgcCGAGG-CCGGC-GCUGCUC- -5'
31769 3' -65 NC_006938.1 + 8134 0.68 0.228994
Target:  5'- uCUGCCCCugGGCUCCuauggagacucGGCCGUGcacCGAu -3'
miRNA:   3'- uGACGGGG--CCGAGG-----------CCGGCGCu--GCUc -5'
31769 3' -65 NC_006938.1 + 9160 0.75 0.068144
Target:  5'- --gGCCUCGaCUCCGGCCGCGACa-- -3'
miRNA:   3'- ugaCGGGGCcGAGGCCGGCGCUGcuc -5'
31769 3' -65 NC_006938.1 + 9703 0.73 0.104186
Target:  5'- gAUUGCCCCGGCUCCGaacugaGCCuGUGugGu- -3'
miRNA:   3'- -UGACGGGGCCGAGGC------CGG-CGCugCuc -5'
31769 3' -65 NC_006938.1 + 12088 1.08 0.000191
Target:  5'- gACUGCCCCGGCUCCGGCCGCGACGAGg -3'
miRNA:   3'- -UGACGGGGCCGAGGCCGGCGCUGCUC- -5'
31769 3' -65 NC_006938.1 + 12254 0.67 0.270804
Target:  5'- aGCUGgaCCaCGGCcugCaCGGUCGUGGCGAGc -3'
miRNA:   3'- -UGACg-GG-GCCGa--G-GCCGGCGCUGCUC- -5'
31769 3' -65 NC_006938.1 + 12819 0.66 0.318541
Target:  5'- -gUGCCCCGGacgCCaGGCC-CuGCGAGa -3'
miRNA:   3'- ugACGGGGCCga-GG-CCGGcGcUGCUC- -5'
31769 3' -65 NC_006938.1 + 14282 0.66 0.293237
Target:  5'- uGCUGCCCUGG-UCCGGgaugagagacuucuuCUugGCGAUGAGc -3'
miRNA:   3'- -UGACGGGGCCgAGGCC---------------GG--CGCUGCUC- -5'
31769 3' -65 NC_006938.1 + 15777 0.66 0.310639
Target:  5'- --aGCCgacgacuugaacaUUGGCUCCGGCCG-GAgGAGa -3'
miRNA:   3'- ugaCGG-------------GGCCGAGGCCGGCgCUgCUC- -5'
31769 3' -65 NC_006938.1 + 21140 0.66 0.290524
Target:  5'- gGCagGCgUC-GCUCCGGCCGCGucgGCGAa -3'
miRNA:   3'- -UGa-CGgGGcCGAGGCCGGCGC---UGCUc -5'
31769 3' -65 NC_006938.1 + 21267 0.7 0.149776
Target:  5'- -aUGCCCUGGUU-CGGuCCGCGuCGAGc -3'
miRNA:   3'- ugACGGGGCCGAgGCC-GGCGCuGCUC- -5'
31769 3' -65 NC_006938.1 + 21689 0.67 0.264474
Target:  5'- cCUGCCCCGGCUCU--CUGagauaGACGAc -3'
miRNA:   3'- uGACGGGGCCGAGGccGGCg----CUGCUc -5'
31769 3' -65 NC_006938.1 + 22949 0.69 0.183384
Target:  5'- cCUGCCCCGGUccgccagcUCCGGggaGCGcAUGAGg -3'
miRNA:   3'- uGACGGGGCCG--------AGGCCgg-CGC-UGCUC- -5'
31769 3' -65 NC_006938.1 + 23947 0.71 0.145993
Target:  5'- cCUGCCUgGGCU-CGGCUGUGAUGGu -3'
miRNA:   3'- uGACGGGgCCGAgGCCGGCGCUGCUc -5'
31769 3' -65 NC_006938.1 + 24751 0.67 0.257651
Target:  5'- --aGCCCaagGGCuUCCGGCCcagcaagaagggcGCGGCGAu -3'
miRNA:   3'- ugaCGGGg--CCG-AGGCCGG-------------CGCUGCUc -5'
31769 3' -65 NC_006938.1 + 26036 0.67 0.250372
Target:  5'- cACUGCCCaGGCcaggguggaucccgUaCCGGCUGCGugGcAGc -3'
miRNA:   3'- -UGACGGGgCCG--------------A-GGCCGGCGCugC-UC- -5'
31769 3' -65 NC_006938.1 + 26972 0.66 0.30851
Target:  5'- cACUGCCCCGGCg-CGGUuacaaguggguguCGUacacgagcuggcacGGCGAGg -3'
miRNA:   3'- -UGACGGGGCCGagGCCG-------------GCG--------------CUGCUC- -5'
31769 3' -65 NC_006938.1 + 29148 0.7 0.157212
Target:  5'- gGCUGgUCUGGCUCCGGCacgauguCGC-ACGAGu -3'
miRNA:   3'- -UGACgGGGCCGAGGCCG-------GCGcUGCUC- -5'
31769 3' -65 NC_006938.1 + 30965 0.66 0.311351
Target:  5'- -gUGCCCCGGC-CCguacggguuGGUCGUGGCa-- -3'
miRNA:   3'- ugACGGGGCCGaGG---------CCGGCGCUGcuc -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.