miRNA display CGI


Results 1 - 20 of 28 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
25990 3' -52 NC_005340.1 + 17801 1.14 0.000488
Target:  5'- aCCGGGCAUCAGCAAUUUAACCCCGGCc -3'
miRNA:   3'- -GGCCCGUAGUCGUUAAAUUGGGGCCG- -5'
25990 3' -52 NC_005340.1 + 16207 0.75 0.27346
Target:  5'- aUGGcGCggCAGCGA-UUGACCUCGGCc -3'
miRNA:   3'- gGCC-CGuaGUCGUUaAAUUGGGGCCG- -5'
25990 3' -52 NC_005340.1 + 28873 0.74 0.288536
Target:  5'- aCCGGcCAUCAgguGCAGggcuucGCCCCGGCu -3'
miRNA:   3'- -GGCCcGUAGU---CGUUaaau--UGGGGCCG- -5'
25990 3' -52 NC_005340.1 + 15713 0.73 0.364392
Target:  5'- aCCGuccuuGCGUacCAGCGuugUAACCCCGGCc -3'
miRNA:   3'- -GGCc----CGUA--GUCGUuaaAUUGGGGCCG- -5'
25990 3' -52 NC_005340.1 + 11460 0.71 0.421114
Target:  5'- cUCGGGCGcgauauccguaaaUCAGCGAUUUAugccGCCCU-GCa -3'
miRNA:   3'- -GGCCCGU-------------AGUCGUUAAAU----UGGGGcCG- -5'
25990 3' -52 NC_005340.1 + 20406 0.71 0.422121
Target:  5'- -aGGGUAUCAgGCGc----GCCCCGGUg -3'
miRNA:   3'- ggCCCGUAGU-CGUuaaauUGGGGCCG- -5'
25990 3' -52 NC_005340.1 + 6606 0.71 0.431245
Target:  5'- gCGGGCGUCcaucaaaGGCGGUaaaAACCgCCGGUu -3'
miRNA:   3'- gGCCCGUAG-------UCGUUAaa-UUGG-GGCCG- -5'
25990 3' -52 NC_005340.1 + 7309 0.71 0.451925
Target:  5'- -aGGGCAUUGuugaaacggugcuGCAGgcUAAUCCCGGCc -3'
miRNA:   3'- ggCCCGUAGU-------------CGUUaaAUUGGGGCCG- -5'
25990 3' -52 NC_005340.1 + 838 0.71 0.452973
Target:  5'- gCCGGugaaGUCAGCAGUUUGAUuaaCUGGCc -3'
miRNA:   3'- -GGCCcg--UAGUCGUUAAAUUGg--GGCCG- -5'
25990 3' -52 NC_005340.1 + 12254 0.7 0.473135
Target:  5'- cCCGGcauggugGCcgCAGCAAgcuuagcGGCUCCGGCa -3'
miRNA:   3'- -GGCC-------CGuaGUCGUUaaa----UUGGGGCCG- -5'
25990 3' -52 NC_005340.1 + 19480 0.7 0.506962
Target:  5'- gCCgGGGCAUCAGC---UUGACCgCCaGUu -3'
miRNA:   3'- -GG-CCCGUAGUCGuuaAAUUGG-GGcCG- -5'
25990 3' -52 NC_005340.1 + 24348 0.7 0.506962
Target:  5'- cCCGuGGCGUUAGCGAgcgucuGgUCUGGCa -3'
miRNA:   3'- -GGC-CCGUAGUCGUUaaau--UgGGGCCG- -5'
25990 3' -52 NC_005340.1 + 8638 0.7 0.506962
Target:  5'- cUCGGGCAUCcGCugaccacAAUCaCCGGCg -3'
miRNA:   3'- -GGCCCGUAGuCGuuaaa--UUGG-GGCCG- -5'
25990 3' -52 NC_005340.1 + 10494 0.69 0.541776
Target:  5'- gCCGaccGGCGUCAGCAGaaugucgcgcauGCUCUGGCu -3'
miRNA:   3'- -GGC---CCGUAGUCGUUaaau--------UGGGGCCG- -5'
25990 3' -52 NC_005340.1 + 16292 0.68 0.609907
Target:  5'- gUGGGCG-CAGUAcgcc-GCCCCGGg -3'
miRNA:   3'- gGCCCGUaGUCGUuaaauUGGGGCCg -5'
25990 3' -52 NC_005340.1 + 6659 0.68 0.626264
Target:  5'- gCCGGGCGgcacgccggucaaAGCGGguUUUGACCCugacagcgacCGGCg -3'
miRNA:   3'- -GGCCCGUag-----------UCGUU--AAAUUGGG----------GCCG- -5'
25990 3' -52 NC_005340.1 + 17767 0.68 0.63328
Target:  5'- cCCGc-CGUC-GCAAUaccGACCCCGGCa -3'
miRNA:   3'- -GGCccGUAGuCGUUAaa-UUGGGGCCG- -5'
25990 3' -52 NC_005340.1 + 15583 0.68 0.637957
Target:  5'- aCCGG-CAUCAGCGccucaguguucugggAUUUGcagGCaUCCGGCa -3'
miRNA:   3'- -GGCCcGUAGUCGU---------------UAAAU---UG-GGGCCG- -5'
25990 3' -52 NC_005340.1 + 20081 0.67 0.691475
Target:  5'- aCGGGCAUgAcCA--UUGACgCCGGUg -3'
miRNA:   3'- gGCCCGUAgUcGUuaAAUUGgGGCCG- -5'
25990 3' -52 NC_005340.1 + 8131 0.66 0.714391
Target:  5'- uCUGGGCGUCAuuGCcg---GGCgCCGGUu -3'
miRNA:   3'- -GGCCCGUAGU--CGuuaaaUUGgGGCCG- -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.