miRNA display CGI


Results 1 - 17 of 17 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
23215 5' -56.3 NC_005259.1 + 1020 0.67 0.672714
Target:  5'- uAUGCCCuACGGCaaaacaCUGUGcCGGguacGGUCCg -3'
miRNA:   3'- cUACGGG-UGCUG------GAUACaGCC----CCAGG- -5'
23215 5' -56.3 NC_005259.1 + 20334 0.7 0.474
Target:  5'- --cGUgCACGACCUAUGgCGGGcgguacuacgcGUCCa -3'
miRNA:   3'- cuaCGgGUGCUGGAUACaGCCC-----------CAGG- -5'
23215 5' -56.3 NC_005259.1 + 23261 0.67 0.683334
Target:  5'- cGGUGgCCACcaugagcaccaaGACCgggcgcgGUGguuggguaUCGGGGUCCg -3'
miRNA:   3'- -CUACgGGUG------------CUGGa------UAC--------AGCCCCAGG- -5'
23215 5' -56.3 NC_005259.1 + 40686 0.74 0.294355
Target:  5'- uGGUGCUCAcCGGCCcgAUGaUCGGGGUgCCc -3'
miRNA:   3'- -CUACGGGU-GCUGGa-UAC-AGCCCCA-GG- -5'
23215 5' -56.3 NC_005259.1 + 40880 0.67 0.693908
Target:  5'- --aGCUCAcCGGCCaccGUGgCGGGGUCg -3'
miRNA:   3'- cuaCGGGU-GCUGGa--UACaGCCCCAGg -5'
23215 5' -56.3 NC_005259.1 + 46518 0.7 0.503949
Target:  5'- cGAU-CCCGCGAgCCg--GUCGGGGaucgCCg -3'
miRNA:   3'- -CUAcGGGUGCU-GGauaCAGCCCCa---GG- -5'
23215 5' -56.3 NC_005259.1 + 49286 0.68 0.640675
Target:  5'- --cGUCUACGuCgUAgucgacaucGUCGGGGUCCa -3'
miRNA:   3'- cuaCGGGUGCuGgAUa--------CAGCCCCAGG- -5'
23215 5' -56.3 NC_005259.1 + 55238 1.12 0.000648
Target:  5'- cGAUGCCCACGACCUAUGUCGGGGUCCa -3'
miRNA:   3'- -CUACGGGUGCUGGAUACAGCCCCAGG- -5'
23215 5' -56.3 NC_005259.1 + 55885 0.71 0.444971
Target:  5'- --cGCCC-CGACCUcgGgggucgcgcCGGGGUCg -3'
miRNA:   3'- cuaCGGGuGCUGGAuaCa--------GCCCCAGg -5'
23215 5' -56.3 NC_005259.1 + 56750 0.68 0.608567
Target:  5'- cGAUGaCCCACGugUggcccaUCGGGGaCCg -3'
miRNA:   3'- -CUAC-GGGUGCugGauac--AGCCCCaGG- -5'
23215 5' -56.3 NC_005259.1 + 57195 0.71 0.448784
Target:  5'- --gGCCCGCGaACCUcgacgccguugaaaaAccgguUGUCGGGGUCg -3'
miRNA:   3'- cuaCGGGUGC-UGGA---------------U-----ACAGCCCCAGg -5'
23215 5' -56.3 NC_005259.1 + 58642 0.66 0.725251
Target:  5'- aGUGCCCAUGcCCUcgcgguagcccgGUGcacCGGGGUgCa -3'
miRNA:   3'- cUACGGGUGCuGGA------------UACa--GCCCCAgG- -5'
23215 5' -56.3 NC_005259.1 + 60581 0.66 0.704426
Target:  5'- gGcgGCCCACGGCga--GUCGGGuG-CCg -3'
miRNA:   3'- -CuaCGGGUGCUGgauaCAGCCC-CaGG- -5'
23215 5' -56.3 NC_005259.1 + 60719 0.82 0.084941
Target:  5'- uGUGUCCGaauaucCGGCCcGUGUCGGGGUCCa -3'
miRNA:   3'- cUACGGGU------GCUGGaUACAGCCCCAGG- -5'
23215 5' -56.3 NC_005259.1 + 63289 0.68 0.587245
Target:  5'- cGAUGCCuuCACGugCgagcagCGGGGUCa -3'
miRNA:   3'- -CUACGG--GUGCugGauaca-GCCCCAGg -5'
23215 5' -56.3 NC_005259.1 + 67187 0.66 0.702327
Target:  5'- uGAUGCCCGCcucgucucccucGCCgcUGUCggcGGGGUCg -3'
miRNA:   3'- -CUACGGGUGc-----------UGGauACAG---CCCCAGg -5'
23215 5' -56.3 NC_005259.1 + 67226 0.66 0.714877
Target:  5'- cGAUGCcgaCCACGGCg-GUGUaGGGGUUg -3'
miRNA:   3'- -CUACG---GGUGCUGgaUACAgCCCCAGg -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.