miRNA display CGI


Results 1 - 20 of 223 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
23325 5' -63.2 NC_005259.1 + 1357 0.68 0.315736
Target:  5'- -uGCCuacugGGCCGCUCG-CCG-CGCCGCCc -3'
miRNA:   3'- cuCGG-----CUGGCGGGCuGGUgGCGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 1829 0.82 0.028293
Target:  5'- -cGCCGACCuGCUCG-CCGCUGCCGCCg -3'
miRNA:   3'- cuCGGCUGG-CGGGCuGGUGGCGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 2219 0.71 0.195687
Target:  5'- --aCCGAgCGCCCGGCC-UCGCCAUUu -3'
miRNA:   3'- cucGGCUgGCGGGCUGGuGGCGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 2779 0.65 0.425033
Target:  5'- cGAGCCGACgcaccucgacugguCGCacgucaaCCGgaucuccuagucACC-CCGCCACCa -3'
miRNA:   3'- -CUCGGCUG--------------GCG-------GGC------------UGGuGGCGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 3530 0.66 0.419753
Target:  5'- cGGGCaCGACa--CCGACCACaGCCAgauCCg -3'
miRNA:   3'- -CUCG-GCUGgcgGGCUGGUGgCGGU---GG- -5'
23325 5' -63.2 NC_005259.1 + 3677 0.67 0.330399
Target:  5'- uGAGCCaGAUCGUC--ACCGCCGCCcagcuugagACCg -3'
miRNA:   3'- -CUCGG-CUGGCGGgcUGGUGGCGG---------UGG- -5'
23325 5' -63.2 NC_005259.1 + 3866 0.66 0.385592
Target:  5'- cGGUCGAgCGCCuCGAgcCCACC-CCGCa -3'
miRNA:   3'- cUCGGCUgGCGG-GCU--GGUGGcGGUGg -5'
23325 5' -63.2 NC_005259.1 + 4360 0.66 0.419753
Target:  5'- -cGCCGGacggcaCGCCCGugCcCUGCuCAUCg -3'
miRNA:   3'- cuCGGCUg-----GCGGGCugGuGGCG-GUGG- -5'
23325 5' -63.2 NC_005259.1 + 4416 0.66 0.385592
Target:  5'- aGGGCCGccACCGCgCGcCCGaggucgaGCCGCCc -3'
miRNA:   3'- -CUCGGC--UGGCGgGCuGGUgg-----CGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 4571 0.71 0.181568
Target:  5'- -cGCCGAUCGucggcacguucCCCGACaaCACCGCCAUa -3'
miRNA:   3'- cuCGGCUGGC-----------GGGCUG--GUGGCGGUGg -5'
23325 5' -63.2 NC_005259.1 + 4688 0.7 0.231827
Target:  5'- cGGGCCGACaGCUCGGCC-CCGUggugcgaugaccgCGCCc -3'
miRNA:   3'- -CUCGGCUGgCGGGCUGGuGGCG-------------GUGG- -5'
23325 5' -63.2 NC_005259.1 + 5170 0.69 0.255866
Target:  5'- gGGGaCCGACCaaugaaacucUCCGA-CGCCGCCGCCa -3'
miRNA:   3'- -CUC-GGCUGGc---------GGGCUgGUGGCGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 5417 0.76 0.085455
Target:  5'- -cGCUGGCCGCCacgucgaggucugCGcCCGCUGCCGCCg -3'
miRNA:   3'- cuCGGCUGGCGG-------------GCuGGUGGCGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 6055 0.7 0.238084
Target:  5'- cGAGCuCGugUGCgCGGugAUCGCCGCCg -3'
miRNA:   3'- -CUCG-GCugGCGgGCUggUGGCGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 6100 0.72 0.168359
Target:  5'- -cGCCGAgaUCGCCgaGGCCgagGCCGCCGCUa -3'
miRNA:   3'- cuCGGCU--GGCGGg-CUGG---UGGCGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 6217 0.76 0.083437
Target:  5'- uGAGCCG-CCGCgCCGA-CACCGUgACCg -3'
miRNA:   3'- -CUCGGCuGGCG-GGCUgGUGGCGgUGG- -5'
23325 5' -63.2 NC_005259.1 + 6252 0.75 0.092768
Target:  5'- uGGGUCGAUauCCCGcACCGCCGCCGCg -3'
miRNA:   3'- -CUCGGCUGgcGGGC-UGGUGGCGGUGg -5'
23325 5' -63.2 NC_005259.1 + 6912 0.79 0.048776
Target:  5'- -cGCCG-CCGCCaucgaGaACCGCCGCCGCCu -3'
miRNA:   3'- cuCGGCuGGCGGg----C-UGGUGGCGGUGG- -5'
23325 5' -63.2 NC_005259.1 + 7176 0.67 0.345556
Target:  5'- aGGGCaccggCGAgUGCCCGGCCugCGgacgCACCg -3'
miRNA:   3'- -CUCG-----GCUgGCGGGCUGGugGCg---GUGG- -5'
23325 5' -63.2 NC_005259.1 + 7264 0.72 0.172664
Target:  5'- -cGCCaagaaACUGCUCGGCUACCGCC-CCg -3'
miRNA:   3'- cuCGGc----UGGCGGGCUGGUGGCGGuGG- -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.