miRNA display CGI


Results 1 - 20 of 20 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
28370 3' -55.5 NC_005946.1 + 48499 0.66 0.858435
Target:  5'- cCCAgUCUCCUgacCCAGGACC-CU--CCUGa -3'
miRNA:   3'- -GGU-AGAGGA---GGUCCUGGaGGuuGGAU- -5'
28370 3' -55.5 NC_005946.1 + 34253 0.66 0.850388
Target:  5'- uCCcUCUCgUCCugcaaGGCCUCCAGCUg- -3'
miRNA:   3'- -GGuAGAGgAGGuc---CUGGAGGUUGGau -5'
28370 3' -55.5 NC_005946.1 + 74501 0.66 0.850388
Target:  5'- ---cCUCCUCCucGGCCU-CGACCUGg -3'
miRNA:   3'- gguaGAGGAGGucCUGGAgGUUGGAU- -5'
28370 3' -55.5 NC_005946.1 + 36826 0.66 0.84213
Target:  5'- --uUCUCCcCCAGaGACC-CCGGCCc- -3'
miRNA:   3'- gguAGAGGaGGUC-CUGGaGGUUGGau -5'
28370 3' -55.5 NC_005946.1 + 86130 0.66 0.833668
Target:  5'- cUCAUgUCCcugUCgAGGGCUUCCAGCUUc -3'
miRNA:   3'- -GGUAgAGG---AGgUCCUGGAGGUUGGAu -5'
28370 3' -55.5 NC_005946.1 + 47944 0.67 0.825012
Target:  5'- gCCAUCacCCUcCCGGcGGCCUCCAugagcuCCUc -3'
miRNA:   3'- -GGUAGa-GGA-GGUC-CUGGAGGUu-----GGAu -5'
28370 3' -55.5 NC_005946.1 + 47656 0.67 0.81617
Target:  5'- cCCAUCUCCaCCAGGggucuACCUCuCAGguCCa- -3'
miRNA:   3'- -GGUAGAGGaGGUCC-----UGGAG-GUU--GGau -5'
28370 3' -55.5 NC_005946.1 + 8547 0.67 0.810778
Target:  5'- cUCGUCcaCCUCCAGGgugccgucuggacccACCaCCGACCUGc -3'
miRNA:   3'- -GGUAGa-GGAGGUCC---------------UGGaGGUUGGAU- -5'
28370 3' -55.5 NC_005946.1 + 14243 0.67 0.788612
Target:  5'- gCCGUCUCgUCCuacuaccaguucAGGACCUacgaGACCUu -3'
miRNA:   3'- -GGUAGAGgAGG------------UCCUGGAgg--UUGGAu -5'
28370 3' -55.5 NC_005946.1 + 104353 0.67 0.788612
Target:  5'- aCCAUCUCCUCgGGaGCUUCgCAGUCUGa -3'
miRNA:   3'- -GGUAGAGGAGgUCcUGGAG-GUUGGAU- -5'
28370 3' -55.5 NC_005946.1 + 94107 0.68 0.759708
Target:  5'- --cUgUCCUCCAGGAUC-CCAGCUc- -3'
miRNA:   3'- gguAgAGGAGGUCCUGGaGGUUGGau -5'
28370 3' -55.5 NC_005946.1 + 9556 0.68 0.739821
Target:  5'- aCCGUCUCCUC--GGGCCUCU--CCg- -3'
miRNA:   3'- -GGUAGAGGAGguCCUGGAGGuuGGau -5'
28370 3' -55.5 NC_005946.1 + 35789 0.68 0.739821
Target:  5'- cCCGUCUcCCUUgAGGACC-CUGAuCCUGg -3'
miRNA:   3'- -GGUAGA-GGAGgUCCUGGaGGUU-GGAU- -5'
28370 3' -55.5 NC_005946.1 + 49642 0.69 0.68749
Target:  5'- cCCAgUCUgCUucggcaaagggucCCGGGGCCUCgAACCUGg -3'
miRNA:   3'- -GGU-AGAgGA-------------GGUCCUGGAGgUUGGAU- -5'
28370 3' -55.5 NC_005946.1 + 60937 0.69 0.667599
Target:  5'- uCCGUCUCUgUCAGGGCCggaaagaCCGugCUAg -3'
miRNA:   3'- -GGUAGAGGaGGUCCUGGa------GGUugGAU- -5'
28370 3' -55.5 NC_005946.1 + 73934 0.72 0.490515
Target:  5'- gUCAcCUCUUCCGGGAgagugccCCUCCGACCc- -3'
miRNA:   3'- -GGUaGAGGAGGUCCU-------GGAGGUUGGau -5'
28370 3' -55.5 NC_005946.1 + 8729 0.73 0.480705
Target:  5'- gCCGUCUCCauguggUCCccgugagAGGGCCUCCAcucggaggGCCUGu -3'
miRNA:   3'- -GGUAGAGG------AGG-------UCCUGGAGGU--------UGGAU- -5'
28370 3' -55.5 NC_005946.1 + 67896 0.75 0.38079
Target:  5'- cCCcUCUCggCCAGGACCUCC-GCCUc -3'
miRNA:   3'- -GGuAGAGgaGGUCCUGGAGGuUGGAu -5'
28370 3' -55.5 NC_005946.1 + 37646 0.83 0.113907
Target:  5'- aCCAcuaaUCCUCCAGGACCUCCAgggACCUc -3'
miRNA:   3'- -GGUag--AGGAGGUCCUGGAGGU---UGGAu -5'
28370 3' -55.5 NC_005946.1 + 31418 1.08 0.002239
Target:  5'- gCCAUCUCCUCCAGGACCUCCAACCUAu -3'
miRNA:   3'- -GGUAGAGGAGGUCCUGGAGGUUGGAU- -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.