miRNA display CGI


Results 1 - 20 of 39 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
12785 5' -56.7 NC_003387.1 + 631 0.7 0.412535
Target:  5'- --aGGGCAGCGUCGccgccGCGGcagcgacGCCCGAu -3'
miRNA:   3'- cagCUCGUCGUAGCa----CGCCa------UGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 3403 0.67 0.586158
Target:  5'- aUCGAGCAccuGCuGUCGa-UGGUGCCCGGc -3'
miRNA:   3'- cAGCUCGU---CG-UAGCacGCCAUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 8840 0.67 0.575311
Target:  5'- -aCGAGCGGCucacCGUGCGcGaugGCCCa- -3'
miRNA:   3'- caGCUCGUCGua--GCACGC-Ca--UGGGcu -5'
12785 5' -56.7 NC_003387.1 + 11422 0.67 0.532463
Target:  5'- -cCGAGguGCuGUCGU-CGGUGCUCGu -3'
miRNA:   3'- caGCUCguCG-UAGCAcGCCAUGGGCu -5'
12785 5' -56.7 NC_003387.1 + 12197 0.66 0.629838
Target:  5'- cUCGGGCAG-GUCGcUGCucGGUGCCgGGc -3'
miRNA:   3'- cAGCUCGUCgUAGC-ACG--CCAUGGgCU- -5'
12785 5' -56.7 NC_003387.1 + 13895 0.69 0.4219
Target:  5'- -cCGGGCAGguUCGacgucggGUGGcGCCCGAu -3'
miRNA:   3'- caGCUCGUCguAGCa------CGCCaUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 14515 0.68 0.521923
Target:  5'- ---cAGguGCGccugCGUGCGGUACUCGGc -3'
miRNA:   3'- cagcUCguCGUa---GCACGCCAUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 15856 0.67 0.586158
Target:  5'- -gCGGGCuGCAaCGUGCGcGcguacauguggcUGCCCGAg -3'
miRNA:   3'- caGCUCGuCGUaGCACGC-C------------AUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 17706 0.73 0.274371
Target:  5'- -aCGGGCAGCAaguUCGagGCGGUgcgccccgGCCCGGc -3'
miRNA:   3'- caGCUCGUCGU---AGCa-CGCCA--------UGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 18057 0.67 0.553764
Target:  5'- cGUCGGGCucguGCAgcUCGUuggGCGagauaacgguGUGCCCGAg -3'
miRNA:   3'- -CAGCUCGu---CGU--AGCA---CGC----------CAUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 18189 0.68 0.490816
Target:  5'- cGUCGAGCGG-GUCGa-CGGgcaGCCCGAg -3'
miRNA:   3'- -CAGCUCGUCgUAGCacGCCa--UGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 19398 0.8 0.087788
Target:  5'- cGUUGuGCAGCGUCGUGCGGgcCuuGAu -3'
miRNA:   3'- -CAGCuCGUCGUAGCACGCCauGggCU- -5'
12785 5' -56.7 NC_003387.1 + 22447 0.7 0.376393
Target:  5'- -gCGGGCcgcGGCGUUGgccucGCGGUACUCGAc -3'
miRNA:   3'- caGCUCG---UCGUAGCa----CGCCAUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 22605 0.66 0.629838
Target:  5'- gGUCGaAGCucaGGCccuugCG-GCGGUACCCGc -3'
miRNA:   3'- -CAGC-UCG---UCGua---GCaCGCCAUGGGCu -5'
12785 5' -56.7 NC_003387.1 + 23075 0.76 0.165208
Target:  5'- uUCGAGCAGCcgguuacucgcgccGUCGcgcgUGCGGUGCaCCGAc -3'
miRNA:   3'- cAGCUCGUCG--------------UAGC----ACGCCAUG-GGCU- -5'
12785 5' -56.7 NC_003387.1 + 23204 0.7 0.376393
Target:  5'- cGUCGAgggcauuuucGCAGCAUUGUcugcggcuGUGGUGCUCGGc -3'
miRNA:   3'- -CAGCU----------CGUCGUAGCA--------CGCCAUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 23489 0.7 0.376393
Target:  5'- uUCGAGCGGCGguuc-UGGUGCCCGGc -3'
miRNA:   3'- cAGCUCGUCGUagcacGCCAUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 26659 0.66 0.629838
Target:  5'- -cCGGgcGCAGCcUCGcgaaUGUGGUACUCGAu -3'
miRNA:   3'- caGCU--CGUCGuAGC----ACGCCAUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 26941 0.67 0.563434
Target:  5'- -cCGAGCGGCcgagaauGUCGaGCGgGUugCCGGu -3'
miRNA:   3'- caGCUCGUCG-------UAGCaCGC-CAugGGCU- -5'
12785 5' -56.7 NC_003387.1 + 27279 0.7 0.376393
Target:  5'- -gCGGGCAGCG-CGcccUGCGaGUAUCCGAu -3'
miRNA:   3'- caGCUCGUCGUaGC---ACGC-CAUGGGCU- -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.