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 + 17706 0.73 0.274371
Target:  5'- -aCGGGCAGCAaguUCGagGCGGUgcgccccgGCCCGGc -3'
miRNA:   3'- caGCUCGUCGU---AGCa-CGCCA--------UGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 30367 0.67 0.581814
Target:  5'- aGUCGAccgccugcagcucGCuGCGcaucacgaccaugaUCGUGUGGcUGCCCGAg -3'
miRNA:   3'- -CAGCU-------------CGuCGU--------------AGCACGCC-AUGGGCU- -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 + 49679 0.68 0.470563
Target:  5'- gGUCGAGCAGUgcugagCGUGCa--GCCCGGc -3'
miRNA:   3'- -CAGCUCGUCGua----GCACGccaUGGGCU- -5'
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 + 49736 0.7 0.385227
Target:  5'- aUCGAGCAGCGccUCGU-CGaGgcCCCGAg -3'
miRNA:   3'- cAGCUCGUCGU--AGCAcGC-CauGGGCU- -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 + 27799 0.67 0.575311
Target:  5'- -cUGAGCA-CccCG-GCGGUGCCCGAc -3'
miRNA:   3'- caGCUCGUcGuaGCaCGCCAUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 42056 0.69 0.435224
Target:  5'- aUCGAccGCGGCGUguacgaccuggcgcgCGUGCugcgGGUGCCCGGc -3'
miRNA:   3'- cAGCU--CGUCGUA---------------GCACG----CCAUGGGCU- -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 + 30750 0.71 0.350724
Target:  5'- cGUCGGGCAGCAcCGUGuCGG-GCgUGAc -3'
miRNA:   3'- -CAGCUCGUCGUaGCAC-GCCaUGgGCU- -5'
12785 5' -56.7 NC_003387.1 + 51743 0.66 0.618892
Target:  5'- gGUCGAGC-GCcUCGgcgGCGGcauacacaacUACCCGc -3'
miRNA:   3'- -CAGCUCGuCGuAGCa--CGCC----------AUGGGCu -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 + 47485 0.67 0.553764
Target:  5'- cGUCGGcCAGCGg-GUcGCGGUucACCCGAu -3'
miRNA:   3'- -CAGCUcGUCGUagCA-CGCCA--UGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 48465 0.66 0.640786
Target:  5'- cGUCGAcccgcugucGCAGaCGUUGUGCGGcg-CCGAc -3'
miRNA:   3'- -CAGCU---------CGUC-GUAGCACGCCaugGGCU- -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 + 27279 0.7 0.376393
Target:  5'- -gCGGGCAGCG-CGcccUGCGaGUAUCCGAu -3'
miRNA:   3'- caGCUCGUCGUaGC---ACGC-CAUGGGCU- -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 + 42486 0.69 0.4219
Target:  5'- cUCGGcGCGGCucaucgCGUcGCGGaUGCCCGAc -3'
miRNA:   3'- cAGCU-CGUCGua----GCA-CGCC-AUGGGCU- -5'
12785 5' -56.7 NC_003387.1 + 18189 0.68 0.490816
Target:  5'- cGUCGAGCGG-GUCGa-CGGgcaGCCCGAg -3'
miRNA:   3'- -CAGCUCGUCgUAGCacGCCa--UGGGCU- -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.