miRNA display CGI


Results 1 - 20 of 41 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
13370 3' -47 NC_003409.1 + 25938 0.66 0.999873
Target:  5'- cGAGCCG--GACGGGggCCCGAAcgaCCg -3'
miRNA:   3'- cUUUGGCauUUGUCCa-GGGUUUag-GG- -5'
13370 3' -47 NC_003409.1 + 68257 0.66 0.999873
Target:  5'- cGAGGCCucuggccAGACGGG-CCCAuacgCCCa -3'
miRNA:   3'- -CUUUGGca-----UUUGUCCaGGGUuua-GGG- -5'
13370 3' -47 NC_003409.1 + 111929 0.66 0.999862
Target:  5'- gGGGACCaGaGGACAGGgugguuauacugcuUCCCGAGaCCCc -3'
miRNA:   3'- -CUUUGG-CaUUUGUCC--------------AGGGUUUaGGG- -5'
13370 3' -47 NC_003409.1 + 34368 0.66 0.999851
Target:  5'- --cGCCGc--GCAGGUCCCugucaacggagaaguGAggGUCCCc -3'
miRNA:   3'- cuuUGGCauuUGUCCAGGG---------------UU--UAGGG- -5'
13370 3' -47 NC_003409.1 + 132581 0.66 0.999835
Target:  5'- -uGGCCGagAGGguGGcgCCCAGAgugCCCg -3'
miRNA:   3'- cuUUGGCa-UUUguCCa-GGGUUUa--GGG- -5'
13370 3' -47 NC_003409.1 + 22529 0.66 0.999831
Target:  5'- uGAugCGcAAAgGGGUgcauuacCCUAAAUCCCa -3'
miRNA:   3'- cUUugGCaUUUgUCCA-------GGGUUUAGGG- -5'
13370 3' -47 NC_003409.1 + 3691 0.66 0.999787
Target:  5'- aGAGACUGUAcggcggcaAACuGGUgCCCGug-CCCu -3'
miRNA:   3'- -CUUUGGCAU--------UUGuCCA-GGGUuuaGGG- -5'
13370 3' -47 NC_003409.1 + 89008 0.66 0.999787
Target:  5'- --uGCUGgcggAAACAGGugUCCCGAuguAUCCUc -3'
miRNA:   3'- cuuUGGCa---UUUGUCC--AGGGUU---UAGGG- -5'
13370 3' -47 NC_003409.1 + 93992 0.66 0.999787
Target:  5'- aGGAGCgaCGUAGGCAcGGgcugCCagAAAUCCCg -3'
miRNA:   3'- -CUUUG--GCAUUUGU-CCa---GGg-UUUAGGG- -5'
13370 3' -47 NC_003409.1 + 49136 0.66 0.999727
Target:  5'- --cACCGUGGcguauCAGGUCCUucgcaCCCu -3'
miRNA:   3'- cuuUGGCAUUu----GUCCAGGGuuua-GGG- -5'
13370 3' -47 NC_003409.1 + 61392 0.66 0.999727
Target:  5'- cGAcuCCGUAuuaucGCGGGUCUCGuccauuGUCUCa -3'
miRNA:   3'- -CUuuGGCAUu----UGUCCAGGGUu-----UAGGG- -5'
13370 3' -47 NC_003409.1 + 48933 0.66 0.999727
Target:  5'- aAAAUCaGUGGGC-GGUUUUAAAUCCCg -3'
miRNA:   3'- cUUUGG-CAUUUGuCCAGGGUUUAGGG- -5'
13370 3' -47 NC_003409.1 + 41157 0.67 0.999653
Target:  5'- ---uCCGU--GCAGGUCCaacgugGAGUUCCa -3'
miRNA:   3'- cuuuGGCAuuUGUCCAGGg-----UUUAGGG- -5'
13370 3' -47 NC_003409.1 + 132521 0.67 0.999653
Target:  5'- uGAGGCCGUugGAGCAucGGUCCauguGUCgCg -3'
miRNA:   3'- -CUUUGGCA--UUUGU--CCAGGguu-UAGgG- -5'
13370 3' -47 NC_003409.1 + 81175 0.67 0.999653
Target:  5'- ---uCCG-GAGCuGGUCCaCAGAUuCCCg -3'
miRNA:   3'- cuuuGGCaUUUGuCCAGG-GUUUA-GGG- -5'
13370 3' -47 NC_003409.1 + 132143 0.67 0.999562
Target:  5'- aGAAACgGUGG--AGGUCCU---UCCCu -3'
miRNA:   3'- -CUUUGgCAUUugUCCAGGGuuuAGGG- -5'
13370 3' -47 NC_003409.1 + 131789 0.67 0.99945
Target:  5'- -cGACCGUGGACGGGUUCagaggggguauUggGUgCCu -3'
miRNA:   3'- cuUUGGCAUUUGUCCAGG-----------GuuUAgGG- -5'
13370 3' -47 NC_003409.1 + 133757 0.67 0.99945
Target:  5'- uGGAACUGUGccaGACAGGcgUUCgGGAUCCa -3'
miRNA:   3'- -CUUUGGCAU---UUGUCC--AGGgUUUAGGg -5'
13370 3' -47 NC_003409.1 + 112549 0.67 0.999315
Target:  5'- -cGACgCGUGcuaGGGUCCCGcGUCCg -3'
miRNA:   3'- cuUUG-GCAUuugUCCAGGGUuUAGGg -5'
13370 3' -47 NC_003409.1 + 130243 0.67 0.999152
Target:  5'- ----gCGUAuAGCAGcuGUCCCGGAUCCa -3'
miRNA:   3'- cuuugGCAU-UUGUC--CAGGGUUUAGGg -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.