miRNA display CGI


Results 1 - 20 of 21 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
11610 5' -59.1 NC_003085.1 + 28319 0.66 0.492761
Target:  5'- cGCGgUGGGacgGGCGuGGGAGUGGauuugGCUa -3'
miRNA:   3'- -CGCgACCCg--CUGUcCCCUCACUa----CGG- -5'
11610 5' -59.1 NC_003085.1 + 36447 0.66 0.472755
Target:  5'- uGCGgaGGGCGGCGccucauGGcGAGguaGUGCCa -3'
miRNA:   3'- -CGCgaCCCGCUGU------CCcCUCac-UACGG- -5'
11610 5' -59.1 NC_003085.1 + 28598 0.66 0.462906
Target:  5'- uGCGCUGGGUGggcggcaccGCAGcGGcGAGcucGgcGCCg -3'
miRNA:   3'- -CGCGACCCGC---------UGUC-CC-CUCa--CuaCGG- -5'
11610 5' -59.1 NC_003085.1 + 11696 0.67 0.452199
Target:  5'- nCGCuaccaguucaUGGGCGAgCAGGaGGAcgccgaccucgacGUGGUGCUg -3'
miRNA:   3'- cGCG----------ACCCGCU-GUCC-CCU-------------CACUACGG- -5'
11610 5' -59.1 NC_003085.1 + 20090 0.67 0.44354
Target:  5'- cGCGCUGugacgugccgcaGGUGGCGGGgcuGGAGUccgGCCu -3'
miRNA:   3'- -CGCGAC------------CCGCUGUCC---CCUCAcuaCGG- -5'
11610 5' -59.1 NC_003085.1 + 12759 0.67 0.424637
Target:  5'- cGUGUcGaGGUGGCcuGGG-GUGAUGCCc -3'
miRNA:   3'- -CGCGaC-CCGCUGucCCCuCACUACGG- -5'
11610 5' -59.1 NC_003085.1 + 10822 0.67 0.424637
Target:  5'- cGCGCaccgGGcaGCGACuGcGGGAGUGGgaUGCg -3'
miRNA:   3'- -CGCGa---CC--CGCUGuC-CCCUCACU--ACGg -5'
11610 5' -59.1 NC_003085.1 + 9048 0.67 0.406224
Target:  5'- cGCgGCUgcacGGGCGGCAGGuGuGGUGGUucgGCCc -3'
miRNA:   3'- -CG-CGA----CCCGCUGUCC-CcUCACUA---CGG- -5'
11610 5' -59.1 NC_003085.1 + 7538 0.68 0.379566
Target:  5'- cGCGC-GGGCcg-AGGGGuGUGAcgucgaccuUGCCg -3'
miRNA:   3'- -CGCGaCCCGcugUCCCCuCACU---------ACGG- -5'
11610 5' -59.1 NC_003085.1 + 3387 0.68 0.370944
Target:  5'- uGgGCUGuGGCGACugagcgccgaAGGGcGGGUGcaGCCg -3'
miRNA:   3'- -CgCGAC-CCGCUG----------UCCC-CUCACuaCGG- -5'
11610 5' -59.1 NC_003085.1 + 19593 0.69 0.337813
Target:  5'- aGCGUcaGGUGGCAGGgaaggacgcGGAGUGGgugGCCg -3'
miRNA:   3'- -CGCGacCCGCUGUCC---------CCUCACUa--CGG- -5'
11610 5' -59.1 NC_003085.1 + 32127 0.69 0.306887
Target:  5'- uCGgUGGuGCGACGGGGGcGGcUGGUGgCg -3'
miRNA:   3'- cGCgACC-CGCUGUCCCC-UC-ACUACgG- -5'
11610 5' -59.1 NC_003085.1 + 13645 0.7 0.299503
Target:  5'- gGCGCUcGGCGAgCAGGuGGAacgGUGuucacgGUGCCa -3'
miRNA:   3'- -CGCGAcCCGCU-GUCC-CCU---CAC------UACGG- -5'
11610 5' -59.1 NC_003085.1 + 20419 0.7 0.292256
Target:  5'- aGgGCUGGGCccaacgcuGGCAGGaGGAGaUGuccGCCg -3'
miRNA:   3'- -CgCGACCCG--------CUGUCC-CCUC-ACua-CGG- -5'
11610 5' -59.1 NC_003085.1 + 19153 0.7 0.287974
Target:  5'- cCGCUGGGUGGCcauGGGGucguccucaaaaccgAGUGcgGCa -3'
miRNA:   3'- cGCGACCCGCUGu--CCCC---------------UCACuaCGg -5'
11610 5' -59.1 NC_003085.1 + 44334 0.7 0.27134
Target:  5'- uGC-CUGGGCGGCGacGcGGGAGaggGcgGCCa -3'
miRNA:   3'- -CGcGACCCGCUGU--C-CCCUCa--CuaCGG- -5'
11610 5' -59.1 NC_003085.1 + 11660 0.7 0.27134
Target:  5'- uGCGCcGGGUGGCcgaggagguGGGGcuGUGAguUGCCg -3'
miRNA:   3'- -CGCGaCCCGCUGu--------CCCCu-CACU--ACGG- -5'
11610 5' -59.1 NC_003085.1 + 12718 0.71 0.227234
Target:  5'- uGCGCUGGGaguacCGGCaagaaaAGGGGccggaGGUGGUGCg -3'
miRNA:   3'- -CGCGACCC-----GCUG------UCCCC-----UCACUACGg -5'
11610 5' -59.1 NC_003085.1 + 19203 0.73 0.179595
Target:  5'- cCGCcugGGGCGGCGGGGGcugGgcGCCg -3'
miRNA:   3'- cGCGa--CCCGCUGUCCCCucaCuaCGG- -5'
11610 5' -59.1 NC_003085.1 + 46855 0.82 0.039786
Target:  5'- aGCGuCUGGGCcuuggccucggaGGCAGGGGAGagGGUGCCc -3'
miRNA:   3'- -CGC-GACCCG------------CUGUCCCCUCa-CUACGG- -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.