miRNA display CGI


Results 1 - 20 of 20 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
23446 3' -55.8 NC_005259.1 + 18351 0.66 0.763777
Target:  5'- aCGccGACGGCGacaUGUGGcacaUGCCCGAGg -3'
miRNA:   3'- -GCucCUGUCGUc--ACACU----ACGGGCUCg -5'
23446 3' -55.8 NC_005259.1 + 61216 0.66 0.743504
Target:  5'- uCGcAGGaaGCGGCGGUGUGc-GCaCCGAGa -3'
miRNA:   3'- -GC-UCC--UGUCGUCACACuaCG-GGCUCg -5'
23446 3' -55.8 NC_005259.1 + 59140 0.66 0.743504
Target:  5'- uCGAGcucGGCAGCGGUGccgggGAgcUGCUCaGGGCg -3'
miRNA:   3'- -GCUC---CUGUCGUCACa----CU--ACGGG-CUCG- -5'
23446 3' -55.8 NC_005259.1 + 31978 0.67 0.712308
Target:  5'- -cAGGACAGCGGUGacg-GCCauAGCa -3'
miRNA:   3'- gcUCCUGUCGUCACacuaCGGgcUCG- -5'
23446 3' -55.8 NC_005259.1 + 47945 0.67 0.701743
Target:  5'- cCGAuGACGGCGGUGccGAUGgCCGccGCg -3'
miRNA:   3'- -GCUcCUGUCGUCACa-CUACgGGCu-CG- -5'
23446 3' -55.8 NC_005259.1 + 11292 0.67 0.691113
Target:  5'- uGAGGACGGUcgacgGGcGUGAgGCCgagaCGGGCg -3'
miRNA:   3'- gCUCCUGUCG-----UCaCACUaCGG----GCUCG- -5'
23446 3' -55.8 NC_005259.1 + 67219 0.67 0.680427
Target:  5'- gCGGGGucgaugccgaccACGGCGGUGUagggguugagcGggGCCuCGGGCa -3'
miRNA:   3'- -GCUCC------------UGUCGUCACA-----------CuaCGG-GCUCG- -5'
23446 3' -55.8 NC_005259.1 + 20144 0.67 0.680427
Target:  5'- gCGAuGACGGCAGcc-GGUGCCCuGGCc -3'
miRNA:   3'- -GCUcCUGUCGUCacaCUACGGGcUCG- -5'
23446 3' -55.8 NC_005259.1 + 50434 0.68 0.637345
Target:  5'- --cGGGCAGCGGUGcGG-GCUCGGGg -3'
miRNA:   3'- gcuCCUGUCGUCACaCUaCGGGCUCg -5'
23446 3' -55.8 NC_005259.1 + 45186 0.68 0.604949
Target:  5'- cCGAGGuCAGCGcgGUGAUGa-CGGGCg -3'
miRNA:   3'- -GCUCCuGUCGUcaCACUACggGCUCG- -5'
23446 3' -55.8 NC_005259.1 + 29890 0.69 0.58345
Target:  5'- uCGAGGuCGGCAagcacaagggGUGGcUGCCCGAGa -3'
miRNA:   3'- -GCUCCuGUCGUca--------CACU-ACGGGCUCg -5'
23446 3' -55.8 NC_005259.1 + 3129 0.69 0.582378
Target:  5'- cCGuGGGCAGCGgacggcaccgcccGUgggacuacacgGUGAUGCCCG-GCg -3'
miRNA:   3'- -GCuCCUGUCGU-------------CA-----------CACUACGGGCuCG- -5'
23446 3' -55.8 NC_005259.1 + 55326 0.69 0.561045
Target:  5'- aGGGGuggucuuggcgGCAGCGGUGgcGAUGCCgaacgccUGAGCg -3'
miRNA:   3'- gCUCC-----------UGUCGUCACa-CUACGG-------GCUCG- -5'
23446 3' -55.8 NC_005259.1 + 19963 0.69 0.558922
Target:  5'- aCGGcGGcuCGGCGGUGUgGGUGCCCGucuacaacgaggacGGCa -3'
miRNA:   3'- -GCU-CCu-GUCGUCACA-CUACGGGC--------------UCG- -5'
23446 3' -55.8 NC_005259.1 + 68700 0.7 0.499595
Target:  5'- uCGAGGcgGGCAGcgcGUcGGUGCCCGAGa -3'
miRNA:   3'- -GCUCCugUCGUCa--CA-CUACGGGCUCg -5'
23446 3' -55.8 NC_005259.1 + 27141 0.7 0.489465
Target:  5'- uGAGGGCGGCugcGGUGUuggggccaacGAUGCCgucggcgaUGAGCa -3'
miRNA:   3'- gCUCCUGUCG---UCACA----------CUACGG--------GCUCG- -5'
23446 3' -55.8 NC_005259.1 + 4264 0.71 0.4695
Target:  5'- gCGAGGACaacgGGCGGcUGcGcUGCCaCGAGCa -3'
miRNA:   3'- -GCUCCUG----UCGUC-ACaCuACGG-GCUCG- -5'
23446 3' -55.8 NC_005259.1 + 28391 0.71 0.44996
Target:  5'- --cGGACGaCAGUGUGuagGUGCCCGcGCg -3'
miRNA:   3'- gcuCCUGUcGUCACAC---UACGGGCuCG- -5'
23446 3' -55.8 NC_005259.1 + 8761 0.71 0.440359
Target:  5'- uCGAGGcccuuggccagcGCGGCGGUGaUGAgcucgGCCCGcuuGGCg -3'
miRNA:   3'- -GCUCC------------UGUCGUCAC-ACUa----CGGGC---UCG- -5'
23446 3' -55.8 NC_005259.1 + 10184 0.78 0.177796
Target:  5'- uGAGGGCAGCAcaucGUGAUGacgaCCGGGCa -3'
miRNA:   3'- gCUCCUGUCGUca--CACUACg---GGCUCG- -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.