miRNA display CGI


Results 1 - 18 of 18 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
26689 5' -52.5 NC_005808.1 + 26571 0.72 0.476055
Target:  5'- -aCAacUgGcAGGCCAACGGUUucgUCACCGGc -3'
miRNA:   3'- caGU--AgC-UCCGGUUGCCAA---AGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 26481 0.66 0.815507
Target:  5'- -aCGUCGGGGCCAcCGacGUgcaGCCGGu -3'
miRNA:   3'- caGUAGCUCCGGUuGC--CAaagUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 26344 0.66 0.792746
Target:  5'- -gCG-CGAGGCCAACGccauccgccauaucGUgccgcUCACCGAg -3'
miRNA:   3'- caGUaGCUCCGGUUGC--------------CAa----AGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 37853 0.66 0.782544
Target:  5'- -aCAUCGcGGCCGuggccgagaacaucGCGGUcaUCAUCGAa -3'
miRNA:   3'- caGUAGCuCCGGU--------------UGCCAa-AGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 23417 0.67 0.732558
Target:  5'- aUCAUCGAcGCCGGCGGcacgggCAgCGAc -3'
miRNA:   3'- cAGUAGCUcCGGUUGCCaaa---GUgGCU- -5'
26689 5' -52.5 NC_005808.1 + 39144 0.67 0.732558
Target:  5'- -aCAUCGGGGCgcGCGGcgUCugUGAc -3'
miRNA:   3'- caGUAGCUCCGguUGCCaaAGugGCU- -5'
26689 5' -52.5 NC_005808.1 + 4823 0.68 0.710486
Target:  5'- --gGUCGGGGCCGGCGccgUCGUCGAa -3'
miRNA:   3'- cagUAGCUCCGGUUGCcaaAGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 30040 0.68 0.665449
Target:  5'- -gCAgcgCGAGGCCGGCaagaaaUUCACCGAc -3'
miRNA:   3'- caGUa--GCUCCGGUUGcca---AAGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 19375 0.69 0.597108
Target:  5'- gGUCGguggcCGAGGCCGA-GGccgaaUUCACCGAc -3'
miRNA:   3'- -CAGUa----GCUCCGGUUgCCa----AAGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 18159 0.72 0.465612
Target:  5'- uGUCGcCGAGGCCGcgcGCGG---CACCGAc -3'
miRNA:   3'- -CAGUaGCUCCGGU---UGCCaaaGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 38286 0.72 0.451196
Target:  5'- aUCGUgGAGGUCAACGGcaagcuggugcagUUCACCGc -3'
miRNA:   3'- cAGUAgCUCCGGUUGCCa------------AAGUGGCu -5'
26689 5' -52.5 NC_005808.1 + 23068 1.1 0.001269
Target:  5'- cGUCAUCGAGGCCAACGGUUUCACCGAg -3'
miRNA:   3'- -CAGUAGCUCCGGUUGCCAAAGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 17454 0.67 0.72157
Target:  5'- -gCAUCGAGGCCA--GGUgccaCGCCa- -3'
miRNA:   3'- caGUAGCUCCGGUugCCAaa--GUGGcu -5'
26689 5' -52.5 NC_005808.1 + 11570 0.66 0.819358
Target:  5'- gGUCAUCGAagccaugccgcccagGGCCGcCGGcuggcCGCCGGg -3'
miRNA:   3'- -CAGUAGCU---------------CCGGUuGCCaaa--GUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 18462 0.66 0.815507
Target:  5'- gGUCG-CGGcGCCGGCGGcgUCgGCCGAu -3'
miRNA:   3'- -CAGUaGCUcCGGUUGCCaaAG-UGGCU- -5'
26689 5' -52.5 NC_005808.1 + 38000 0.66 0.804749
Target:  5'- aUCGcCGAGGCCGAgcaguuccucgccUGGcg-CACCGAg -3'
miRNA:   3'- cAGUaGCUCCGGUU-------------GCCaaaGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 4175 0.66 0.775303
Target:  5'- cGUgGUCGAGguguaGCCAGUGGg--CGCCGAa -3'
miRNA:   3'- -CAgUAGCUC-----CGGUUGCCaaaGUGGCU- -5'
26689 5' -52.5 NC_005808.1 + 19758 0.67 0.732558
Target:  5'- cGUUGUUGccGGCCAcgagGCGGUcUUCACUGAu -3'
miRNA:   3'- -CAGUAGCu-CCGGU----UGCCA-AAGUGGCU- -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.