miRNA display CGI


Results 1 - 20 of 21 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
28445 3' -58.3 NC_005946.1 + 86256 0.66 0.749421
Target:  5'- --uCUCCCGcaucgaggaaccCCAGGGAgcucaccaucugcaUGACACCCAGa -3'
miRNA:   3'- agcGAGGGU------------GGUCCCU--------------GUUGUGGGUC- -5'
28445 3' -58.3 NC_005946.1 + 32409 0.66 0.742576
Target:  5'- gUCGUagCaCAUCAGGGACAugGaCCAGu -3'
miRNA:   3'- -AGCGagG-GUGGUCCCUGUugUgGGUC- -5'
28445 3' -58.3 NC_005946.1 + 76677 0.66 0.732717
Target:  5'- -aGCaugaCCC-CCGGGGAUGACggcaaccagggGCCCAGg -3'
miRNA:   3'- agCGa---GGGuGGUCCCUGUUG-----------UGGGUC- -5'
28445 3' -58.3 NC_005946.1 + 76365 0.66 0.722768
Target:  5'- cCGgUCCCAgCGGGGcgccuggaucuCAGgGCCCGGa -3'
miRNA:   3'- aGCgAGGGUgGUCCCu----------GUUgUGGGUC- -5'
28445 3' -58.3 NC_005946.1 + 89266 0.66 0.721769
Target:  5'- uUUGC-CUCugCAGGGcguGCAcccuccugcucccGCACCCGGg -3'
miRNA:   3'- -AGCGaGGGugGUCCC---UGU-------------UGUGGGUC- -5'
28445 3' -58.3 NC_005946.1 + 91920 0.66 0.71274
Target:  5'- cCGgaCgCCACCAGGacuccuccGAaAACACCCAGg -3'
miRNA:   3'- aGCgaG-GGUGGUCC--------CUgUUGUGGGUC- -5'
28445 3' -58.3 NC_005946.1 + 3027 0.67 0.682274
Target:  5'- gUCGUcCCgGCCuccaggAGGGACAggaggAUGCCCAGg -3'
miRNA:   3'- -AGCGaGGgUGG------UCCCUGU-----UGUGGGUC- -5'
28445 3' -58.3 NC_005946.1 + 10236 0.67 0.672022
Target:  5'- aCGCUggucaCCGCCGGGGACcuGAgACCUg- -3'
miRNA:   3'- aGCGAg----GGUGGUCCCUG--UUgUGGGuc -5'
28445 3' -58.3 NC_005946.1 + 89858 0.68 0.63077
Target:  5'- -gGC-CUCGCCGGGGACGAUgACCguGc -3'
miRNA:   3'- agCGaGGGUGGUCCCUGUUG-UGGguC- -5'
28445 3' -58.3 NC_005946.1 + 71750 0.68 0.62044
Target:  5'- cUCaCUCCCugggGCCGGGaGGCAAC-CCCAu -3'
miRNA:   3'- -AGcGAGGG----UGGUCC-CUGUUGuGGGUc -5'
28445 3' -58.3 NC_005946.1 + 83043 0.68 0.62044
Target:  5'- cUCGCUCCCcucACCAcGGcaGACAACAUcauggCCGGa -3'
miRNA:   3'- -AGCGAGGG---UGGU-CC--CUGUUGUG-----GGUC- -5'
28445 3' -58.3 NC_005946.1 + 55742 0.68 0.589531
Target:  5'- aCGUUCCCAUCAGGGcCAGuuccuuuCCCAu -3'
miRNA:   3'- aGCGAGGGUGGUCCCuGUUgu-----GGGUc -5'
28445 3' -58.3 NC_005946.1 + 71183 0.68 0.589531
Target:  5'- aCGCUCUCACCAGGcagcccguGGCgGGCAggUCCAGg -3'
miRNA:   3'- aGCGAGGGUGGUCC--------CUG-UUGU--GGGUC- -5'
28445 3' -58.3 NC_005946.1 + 2287 0.69 0.532732
Target:  5'- aCGCggacCCCGCCGGGGGCugguGCagaaagugguacucgGCCCAc -3'
miRNA:   3'- aGCGa---GGGUGGUCCCUGu---UG---------------UGGGUc -5'
28445 3' -58.3 NC_005946.1 + 2652 0.69 0.526752
Target:  5'- cUGCUa-CGCCGGGGGCugcagcgccuucACACCCAGg -3'
miRNA:   3'- aGCGAggGUGGUCCCUGu-----------UGUGGGUC- -5'
28445 3' -58.3 NC_005946.1 + 59556 0.7 0.470417
Target:  5'- cCGCUCCCAU--GGGA--GCACCCAc -3'
miRNA:   3'- aGCGAGGGUGguCCCUguUGUGGGUc -5'
28445 3' -58.3 NC_005946.1 + 20989 0.72 0.389622
Target:  5'- gUGCUCCaaGCuCAGGGACAugGCAuCCCAGu -3'
miRNA:   3'- aGCGAGGg-UG-GUCCCUGU--UGU-GGGUC- -5'
28445 3' -58.3 NC_005946.1 + 40709 0.73 0.341052
Target:  5'- cUGCUCCCACCAggauGGGuuucCAugACUCAGa -3'
miRNA:   3'- aGCGAGGGUGGU----CCCu---GUugUGGGUC- -5'
28445 3' -58.3 NC_005946.1 + 72754 0.77 0.20136
Target:  5'- gCGCUCCCGCCAGGcuGGCGugGUCCGGc -3'
miRNA:   3'- aGCGAGGGUGGUCC--CUGUugUGGGUC- -5'
28445 3' -58.3 NC_005946.1 + 13142 0.77 0.182047
Target:  5'- cUGUUCCCAggggCAGGGAC-ACACCCAGg -3'
miRNA:   3'- aGCGAGGGUg---GUCCCUGuUGUGGGUC- -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.