miRNA display CGI


Results 1 - 20 of 36 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
12898 3' -56.8 NC_003387.1 + 125 0.67 0.55077
Target:  5'- -----gCCUCGAUgcGGUCGCCCUCGc -3'
miRNA:   3'- guucaaGGAGCUGguCCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 1725 0.71 0.357248
Target:  5'- ----cUCCUCGACguGGCgGCCgUCGu -3'
miRNA:   3'- guucaAGGAGCUGguCCGgUGGgAGC- -5'
12898 3' -56.8 NC_003387.1 + 2369 0.71 0.340666
Target:  5'- -cAGUUCCUUGACUucgucgcuGG-CGCCCUCGg -3'
miRNA:   3'- guUCAAGGAGCUGGu-------CCgGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 5494 0.71 0.340666
Target:  5'- uCGAGUugUCCUCGG-CGGGCUugCCUuCGg -3'
miRNA:   3'- -GUUCA--AGGAGCUgGUCCGGugGGA-GC- -5'
12898 3' -56.8 NC_003387.1 + 6345 0.67 0.572225
Target:  5'- gCAAGaagCUCGACCAGGCCgucAUuuUCGg -3'
miRNA:   3'- -GUUCaagGAGCUGGUCCGG---UGggAGC- -5'
12898 3' -56.8 NC_003387.1 + 6738 1.09 0.000705
Target:  5'- uCAAGUUCCUCGACCAGGCCACCCUCGg -3'
miRNA:   3'- -GUUCAAGGAGCUGGUCCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 9445 0.67 0.572225
Target:  5'- gGGGUcgCCUCGGCC--GCCACCggCUCGu -3'
miRNA:   3'- gUUCAa-GGAGCUGGucCGGUGG--GAGC- -5'
12898 3' -56.8 NC_003387.1 + 12085 0.69 0.448284
Target:  5'- gCAuGcgCCgugUCGACCAGGCCGCgccacacguCCUCGa -3'
miRNA:   3'- -GUuCaaGG---AGCUGGUCCGGUG---------GGAGC- -5'
12898 3' -56.8 NC_003387.1 + 12537 0.7 0.383167
Target:  5'- cCAGGc-CCgCGGCCAGGCCGCcgccagcgaaCCUCGg -3'
miRNA:   3'- -GUUCaaGGaGCUGGUCCGGUG----------GGAGC- -5'
12898 3' -56.8 NC_003387.1 + 13248 0.69 0.448284
Target:  5'- -----gCgUCGGCCAGGUCGCgCUCGg -3'
miRNA:   3'- guucaaGgAGCUGGUCCGGUGgGAGC- -5'
12898 3' -56.8 NC_003387.1 + 16017 0.67 0.55077
Target:  5'- gCAGGcgCgagUCGGCCGGGCgGCCUUCu -3'
miRNA:   3'- -GUUCaaGg--AGCUGGUCCGgUGGGAGc -5'
12898 3' -56.8 NC_003387.1 + 17284 0.71 0.324647
Target:  5'- -cGGUguaucugCCUCGGCCucGGCCACUUUCGc -3'
miRNA:   3'- guUCAa------GGAGCUGGu-CCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 19078 0.68 0.519078
Target:  5'- aCAGGUUCgUCGAggcCCAcGCCGCCagCUCGu -3'
miRNA:   3'- -GUUCAAGgAGCU---GGUcCGGUGG--GAGC- -5'
12898 3' -56.8 NC_003387.1 + 19254 0.66 0.593873
Target:  5'- --cGUgCCguuagCGACCgugcGGGCCgcGCCCUCGa -3'
miRNA:   3'- guuCAaGGa----GCUGG----UCCGG--UGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 19916 0.67 0.55077
Target:  5'- gCAAGaccUCaagaUCGACCAGGCUgGCaCCUCGa -3'
miRNA:   3'- -GUUCa--AGg---AGCUGGUCCGG-UG-GGAGC- -5'
12898 3' -56.8 NC_003387.1 + 21796 0.66 0.626561
Target:  5'- aCGAuUUCCacgaccaggUCGGCgCGGGCCGCgCUCGc -3'
miRNA:   3'- -GUUcAAGG---------AGCUG-GUCCGGUGgGAGC- -5'
12898 3' -56.8 NC_003387.1 + 25441 0.69 0.429047
Target:  5'- -----cCCUCGACCucGCCGCUCUUGg -3'
miRNA:   3'- guucaaGGAGCUGGucCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 25943 0.7 0.36575
Target:  5'- cCAGGccgCUCGGCaacugCAGGCCACCCUUGc -3'
miRNA:   3'- -GUUCaagGAGCUG-----GUCCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 26001 0.67 0.572225
Target:  5'- -----gCCUCGACgAGGCCGCgCUgGu -3'
miRNA:   3'- guucaaGGAGCUGgUCCGGUGgGAgC- -5'
12898 3' -56.8 NC_003387.1 + 26230 0.67 0.572225
Target:  5'- gGGGUugacUCCUCGGggUCAGGCCGCgCgagCGg -3'
miRNA:   3'- gUUCA----AGGAGCU--GGUCCGGUGgGa--GC- -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.