miRNA display CGI


Results 1 - 20 of 126 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
10963 3' -55.9 NC_002794.1 + 18591 0.66 0.962781
Target:  5'- gACGGAacacaacacGUCuaCCUCG-ACGGCAccGGCCg -3'
miRNA:   3'- -UGCCU---------CAGcaGGAGCuUGCUGU--CCGG- -5'
10963 3' -55.9 NC_002794.1 + 89397 0.66 0.959372
Target:  5'- cGCGGuGagGUCCgUgGAGCGcCGGcGCCa -3'
miRNA:   3'- -UGCCuCagCAGG-AgCUUGCuGUC-CGG- -5'
10963 3' -55.9 NC_002794.1 + 112621 0.66 0.959372
Target:  5'- uGCGc-GUCGUCCacgggcggcuucUCGAGCaGCAGGCa -3'
miRNA:   3'- -UGCcuCAGCAGG------------AGCUUGcUGUCCGg -5'
10963 3' -55.9 NC_002794.1 + 111313 0.66 0.959372
Target:  5'- gACGGAGaCG-CCgggCcAGCGGCgcGGGCCg -3'
miRNA:   3'- -UGCCUCaGCaGGa--GcUUGCUG--UCCGG- -5'
10963 3' -55.9 NC_002794.1 + 157833 0.66 0.959372
Target:  5'- gACGGAGUUGaUCCUUcuAGCGGauaauccGGCCa -3'
miRNA:   3'- -UGCCUCAGC-AGGAGc-UUGCUgu-----CCGG- -5'
10963 3' -55.9 NC_002794.1 + 114507 0.66 0.959372
Target:  5'- cCGGAc-CGUCCcggagcgagUCGAGCGGCAG-CCg -3'
miRNA:   3'- uGCCUcaGCAGG---------AGCUUGCUGUCcGG- -5'
10963 3' -55.9 NC_002794.1 + 99709 0.66 0.959372
Target:  5'- cGCGGA--UGUUCUUucGCGACcGGCCg -3'
miRNA:   3'- -UGCCUcaGCAGGAGcuUGCUGuCCGG- -5'
10963 3' -55.9 NC_002794.1 + 133377 0.66 0.959372
Target:  5'- uCGGucGUCGUCCggCGGucAUGAUcGGCCc -3'
miRNA:   3'- uGCCu-CAGCAGGa-GCU--UGCUGuCCGG- -5'
10963 3' -55.9 NC_002794.1 + 143328 0.66 0.959372
Target:  5'- uCGGucgCGUgCUCGGGCaGCGGGCUc -3'
miRNA:   3'- uGCCucaGCAgGAGCUUGcUGUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 137727 0.66 0.959372
Target:  5'- uUGGAG-CGUCa---GGCGAUGGGCCg -3'
miRNA:   3'- uGCCUCaGCAGgagcUUGCUGUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 181904 0.66 0.959372
Target:  5'- aGCGcGGGUCGUacaccaCC-CGcGCGAC-GGCCg -3'
miRNA:   3'- -UGC-CUCAGCA------GGaGCuUGCUGuCCGG- -5'
10963 3' -55.9 NC_002794.1 + 143892 0.66 0.959372
Target:  5'- cGCcGAG-CGUCCUguUGAccuGCGACGgGGCCu -3'
miRNA:   3'- -UGcCUCaGCAGGA--GCU---UGCUGU-CCGG- -5'
10963 3' -55.9 NC_002794.1 + 39051 0.66 0.957227
Target:  5'- gGCGGgcaccacgugaaccAGUCGUCCcgCGAcaucgccuacauggGCGACAG-CCu -3'
miRNA:   3'- -UGCC--------------UCAGCAGGa-GCU--------------UGCUGUCcGG- -5'
10963 3' -55.9 NC_002794.1 + 120032 0.66 0.955755
Target:  5'- cGCGGGGaCGUCgUCauGACGGCGgcgguggcGGCCg -3'
miRNA:   3'- -UGCCUCaGCAGgAGc-UUGCUGU--------CCGG- -5'
10963 3' -55.9 NC_002794.1 + 114319 0.66 0.955381
Target:  5'- cCGGAGgCGcUCCUCGuagucccgccgcAGCGGCucguccgccgccaGGGCCg -3'
miRNA:   3'- uGCCUCaGC-AGGAGC------------UUGCUG-------------UCCGG- -5'
10963 3' -55.9 NC_002794.1 + 93996 0.66 0.951924
Target:  5'- cGCGGA--CG-CCggCGccGGCGGCGGGCCg -3'
miRNA:   3'- -UGCCUcaGCaGGa-GC--UUGCUGUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 14073 0.66 0.947878
Target:  5'- gGCGGAGcgccccagcuUUGUCCUC--ACGGuCGGGUCu -3'
miRNA:   3'- -UGCCUC----------AGCAGGAGcuUGCU-GUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 195043 0.66 0.947878
Target:  5'- -aGGuGcaUCGUCgUCGu-CGACAGGUCg -3'
miRNA:   3'- ugCCuC--AGCAGgAGCuuGCUGUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 114581 0.66 0.947461
Target:  5'- aGCGGAGggugcUCGUCgCUCuGGACGAgcucuucCAGGUg -3'
miRNA:   3'- -UGCCUC-----AGCAG-GAG-CUUGCU-------GUCCGg -5'
10963 3' -55.9 NC_002794.1 + 23697 0.66 0.947461
Target:  5'- cGCcGAGgccccgaagCGUCC-CGAaccgcgcGCGGCGGGCCc -3'
miRNA:   3'- -UGcCUCa--------GCAGGaGCU-------UGCUGUCCGG- -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.