miRNA display CGI


Results 1 - 20 of 59 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
1506 3' -55.2 NC_001335.1 + 38251 1.12 0.000702
Target:  5'- cGUCCACGAAUCCCAGACCGAACCGGCu -3'
miRNA:   3'- -CAGGUGCUUAGGGUCUGGCUUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 32976 0.76 0.20917
Target:  5'- -aCCGCcccugCCCAGcCCGAGCCGGCc -3'
miRNA:   3'- caGGUGcuua-GGGUCuGGCUUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 34887 0.75 0.238438
Target:  5'- cGUCCACGA--CCCucucGACCGuuuCCGGCc -3'
miRNA:   3'- -CAGGUGCUuaGGGu---CUGGCuu-GGCCG- -5'
1506 3' -55.2 NC_001335.1 + 40655 0.73 0.338617
Target:  5'- --aCGCGGAgaggCCCAGgaucGCCGAuCCGGCg -3'
miRNA:   3'- cagGUGCUUa---GGGUC----UGGCUuGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 36790 0.73 0.338617
Target:  5'- uGUCCACGAGggcaaCCAcGACC--GCCGGCc -3'
miRNA:   3'- -CAGGUGCUUag---GGU-CUGGcuUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 27449 0.73 0.355199
Target:  5'- gGUCugCACGGugccAUCCCAGAuCUGAuccGCCGGCu -3'
miRNA:   3'- -CAG--GUGCU----UAGGGUCU-GGCU---UGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 11515 0.72 0.363703
Target:  5'- --gCACGAccggccagaagAUCCCGcACUGGACCGGCg -3'
miRNA:   3'- cagGUGCU-----------UAGGGUcUGGCUUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 623 0.72 0.380244
Target:  5'- --aCGCGGcauAUUCCAGGCCGcgagauaGGCCGGCa -3'
miRNA:   3'- cagGUGCU---UAGGGUCUGGC-------UUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 38366 0.72 0.390047
Target:  5'- uUUgGCGAGUCgCGGGCUG-GCCGGCc -3'
miRNA:   3'- cAGgUGCUUAGgGUCUGGCuUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 47259 0.72 0.399102
Target:  5'- cUCC-CGAGUUcgggCCAGACCGcgUCGGCu -3'
miRNA:   3'- cAGGuGCUUAG----GGUCUGGCuuGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 28928 0.71 0.43663
Target:  5'- uGUCCGCGAgcuGUCaCCGGcaGCC--GCCGGCc -3'
miRNA:   3'- -CAGGUGCU---UAG-GGUC--UGGcuUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 31734 0.71 0.446325
Target:  5'- -gCCGCGGAUgCCgAGAUCcguGAGCUGGCa -3'
miRNA:   3'- caGGUGCUUA-GGgUCUGG---CUUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 49111 0.71 0.45614
Target:  5'- gGUCUACaAGUUCCacgaGGACCGcaucGACCGGCu -3'
miRNA:   3'- -CAGGUGcUUAGGG----UCUGGC----UUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 23016 0.7 0.463078
Target:  5'- -aCCugGggUgCUGGAUCGAucuucgcucugaccGCCGGCa -3'
miRNA:   3'- caGGugCuuAgGGUCUGGCU--------------UGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 1027 0.7 0.506847
Target:  5'- gGUCCGCGAAUaCCC-GACCu-ACUGGg -3'
miRNA:   3'- -CAGGUGCUUA-GGGuCUGGcuUGGCCg -5'
1506 3' -55.2 NC_001335.1 + 25837 0.69 0.527802
Target:  5'- cGUUCACGGcUCUCAG--CGAGCUGGCu -3'
miRNA:   3'- -CAGGUGCUuAGGGUCugGCUUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 39790 0.69 0.527802
Target:  5'- -gCCaACGcuUCCCAGACCGugGugCGGUc -3'
miRNA:   3'- caGG-UGCuuAGGGUCUGGC--UugGCCG- -5'
1506 3' -55.2 NC_001335.1 + 3329 0.69 0.5384
Target:  5'- gGUCCAgCGGaaGUCCCGGcCUGuGACCaGGCa -3'
miRNA:   3'- -CAGGU-GCU--UAGGGUCuGGC-UUGG-CCG- -5'
1506 3' -55.2 NC_001335.1 + 12184 0.69 0.5384
Target:  5'- -aCCugGc--CCCAGA-CGAGCUGGCg -3'
miRNA:   3'- caGGugCuuaGGGUCUgGCUUGGCCG- -5'
1506 3' -55.2 NC_001335.1 + 9773 0.69 0.559806
Target:  5'- -aCC-CGAcgGUCCCAGGcuccCCGAGCCccacGGCa -3'
miRNA:   3'- caGGuGCU--UAGGGUCU----GGCUUGG----CCG- -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.