miRNA display CGI


Results 1 - 20 of 22 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
12012 3' -55.6 NC_003278.1 + 8855 0.66 0.593586
Target:  5'- cCGGCGGcgACGaggucggcguUCugCAGCaggUGcGAGCa -3'
miRNA:   3'- -GCCGCCaaUGU----------AGugGUCGg--AC-CUCG- -5'
12012 3' -55.6 NC_003278.1 + 9122 0.66 0.59133
Target:  5'- gCGGCGGUaucgucgaucugGCGagcguUCGCCAGgCgCUGGuGCu -3'
miRNA:   3'- -GCCGCCAa-----------UGU-----AGUGGUC-G-GACCuCG- -5'
12012 3' -55.6 NC_003278.1 + 3396 0.66 0.5711
Target:  5'- cCGGCGGUagcgcuucUGCAUCGCCAuaccGCU---GGCg -3'
miRNA:   3'- -GCCGCCA--------AUGUAGUGGU----CGGaccUCG- -5'
12012 3' -55.6 NC_003278.1 + 30119 0.66 0.568862
Target:  5'- aGGUGGUUGagguugucggCugCGGCCUGGcucucGCg -3'
miRNA:   3'- gCCGCCAAUgua-------GugGUCGGACCu----CG- -5'
12012 3' -55.6 NC_003278.1 + 12796 0.66 0.559932
Target:  5'- aGGCGGaa--AUCGCCGcccgccucGcCCUGGAGUc -3'
miRNA:   3'- gCCGCCaaugUAGUGGU--------C-GGACCUCG- -5'
12012 3' -55.6 NC_003278.1 + 21532 0.66 0.548826
Target:  5'- aGcGCGGgccgucagGCuGUCGCCGGCCUcgacggGGAGUu -3'
miRNA:   3'- gC-CGCCaa------UG-UAGUGGUCGGA------CCUCG- -5'
12012 3' -55.6 NC_003278.1 + 14648 0.66 0.542195
Target:  5'- uCGGCGGUggcgauuugucUGCGgaucgcaccaucgccUUACCAGCCUccGGCg -3'
miRNA:   3'- -GCCGCCA-----------AUGU---------------AGUGGUCGGAccUCG- -5'
12012 3' -55.6 NC_003278.1 + 4191 0.67 0.515956
Target:  5'- uGGCGuGUcugcgACAUCGCCGaccaCCUGG-GCg -3'
miRNA:   3'- gCCGC-CAa----UGUAGUGGUc---GGACCuCG- -5'
12012 3' -55.6 NC_003278.1 + 29328 0.67 0.511631
Target:  5'- aCGGUGGccacCAUCGauuaccugggcuaCAGCCgGGAGCa -3'
miRNA:   3'- -GCCGCCaau-GUAGUg------------GUCGGaCCUCG- -5'
12012 3' -55.6 NC_003278.1 + 22961 0.67 0.483907
Target:  5'- uGGCGGcaagACugcCAgCGGCCUGGcGCu -3'
miRNA:   3'- gCCGCCaa--UGua-GUgGUCGGACCuCG- -5'
12012 3' -55.6 NC_003278.1 + 8432 0.67 0.479705
Target:  5'- uCGGCGcauccauggcCAUCugCGGCCUGGAa- -3'
miRNA:   3'- -GCCGCcaau------GUAGugGUCGGACCUcg -5'
12012 3' -55.6 NC_003278.1 + 21758 0.68 0.452845
Target:  5'- uCGGCGGcgacacuuacUACAUCACCauccaGGCCggcgcgGGcAGCg -3'
miRNA:   3'- -GCCGCCa---------AUGUAGUGG-----UCGGa-----CC-UCG- -5'
12012 3' -55.6 NC_003278.1 + 16789 0.68 0.432751
Target:  5'- gCGGCGG-UACGcCugCAgcGCCUGGuacuGCu -3'
miRNA:   3'- -GCCGCCaAUGUaGugGU--CGGACCu---CG- -5'
12012 3' -55.6 NC_003278.1 + 8441 0.68 0.422901
Target:  5'- gCGGCGGaaGCGggCGCCgcAGCgCUGGuAGCa -3'
miRNA:   3'- -GCCGCCaaUGUa-GUGG--UCG-GACC-UCG- -5'
12012 3' -55.6 NC_003278.1 + 21847 0.69 0.394177
Target:  5'- -uGCGGUgucgcUGCccgCGCCGGCCUGGAu- -3'
miRNA:   3'- gcCGCCA-----AUGua-GUGGUCGGACCUcg -5'
12012 3' -55.6 NC_003278.1 + 6950 0.69 0.384887
Target:  5'- uGGCGGUUgaccgaGCGUaccccgcgcccCGCCGGC-UGGGGCc -3'
miRNA:   3'- gCCGCCAA------UGUA-----------GUGGUCGgACCUCG- -5'
12012 3' -55.6 NC_003278.1 + 6561 0.69 0.375743
Target:  5'- aCGGUGGUgaccaccuCGUCcugggcgcccuuGCCGGCCUGcAGCa -3'
miRNA:   3'- -GCCGCCAau------GUAG------------UGGUCGGACcUCG- -5'
12012 3' -55.6 NC_003278.1 + 9822 0.7 0.333101
Target:  5'- aCGGCGGUcUACAgacugaggucgagcgUAUCGGCCUGGccugGGCc -3'
miRNA:   3'- -GCCGCCA-AUGUa--------------GUGGUCGGACC----UCG- -5'
12012 3' -55.6 NC_003278.1 + 26052 0.71 0.277805
Target:  5'- --cUGG--GCGUCGCCAGCCUgcGGAGCu -3'
miRNA:   3'- gccGCCaaUGUAGUGGUCGGA--CCUCG- -5'
12012 3' -55.6 NC_003278.1 + 20752 0.73 0.2307
Target:  5'- uCGGCGGcgaGC-UCGCgCAGCCaGGGGCu -3'
miRNA:   3'- -GCCGCCaa-UGuAGUG-GUCGGaCCUCG- -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.