miRNA display CGI


Results 1 - 17 of 17 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
23392 3' -51.8 NC_005259.1 + 2117 0.66 0.929181
Target:  5'- uGGCAcacgCUCGcCGAGGUCACGc-- -3'
miRNA:   3'- gUCGUuaaaGGGC-GCUCCAGUGCuac -5'
23392 3' -51.8 NC_005259.1 + 1376 0.66 0.923366
Target:  5'- -cGCGccg-CCCGCGAGGccCGCGcAUGa -3'
miRNA:   3'- guCGUuaaaGGGCGCUCCa-GUGC-UAC- -5'
23392 3' -51.8 NC_005259.1 + 27414 0.66 0.922769
Target:  5'- gCAGCucggugCCCGCGAGGaauuggcUCACGc-- -3'
miRNA:   3'- -GUCGuuaaa-GGGCGCUCC-------AGUGCuac -5'
23392 3' -51.8 NC_005259.1 + 14075 0.66 0.897297
Target:  5'- aCGGCGGUggCCUacgugcgcaGCGAGGUCGagGGUGc -3'
miRNA:   3'- -GUCGUUAaaGGG---------CGCUCCAGUg-CUAC- -5'
23392 3' -51.8 NC_005259.1 + 48455 0.67 0.882613
Target:  5'- gCAGCGcgUUCcaCCGCGcgccGGGUCGCGu-- -3'
miRNA:   3'- -GUCGUuaAAG--GGCGC----UCCAGUGCuac -5'
23392 3' -51.8 NC_005259.1 + 8741 0.67 0.882613
Target:  5'- aGGCAGUcagCCCGuCGAGGUCGaGGc- -3'
miRNA:   3'- gUCGUUAaa-GGGC-GCUCCAGUgCUac -5'
23392 3' -51.8 NC_005259.1 + 67531 0.67 0.866878
Target:  5'- gCGGCAAUcaccuugCCCGCGAGauccUCAgGAUGc -3'
miRNA:   3'- -GUCGUUAaa-----GGGCGCUCc---AGUgCUAC- -5'
23392 3' -51.8 NC_005259.1 + 40804 0.68 0.840539
Target:  5'- gUAGCGGUcaCCCuCGGGGUCgacgcgcACGAUGg -3'
miRNA:   3'- -GUCGUUAaaGGGcGCUCCAG-------UGCUAC- -5'
23392 3' -51.8 NC_005259.1 + 62821 0.69 0.804385
Target:  5'- aAGCGccgcuugCCCGCGAGGUCgagcGCGcgGu -3'
miRNA:   3'- gUCGUuaaa---GGGCGCUCCAG----UGCuaC- -5'
23392 3' -51.8 NC_005259.1 + 27838 0.69 0.794638
Target:  5'- -cGCGAggUaggCCGCGAGGUCGCGc-- -3'
miRNA:   3'- guCGUUaaAg--GGCGCUCCAGUGCuac -5'
23392 3' -51.8 NC_005259.1 + 22543 0.69 0.774634
Target:  5'- cCAGCAGUccgacCUCGcCGAGGUCAUGGa- -3'
miRNA:   3'- -GUCGUUAaa---GGGC-GCUCCAGUGCUac -5'
23392 3' -51.8 NC_005259.1 + 51254 0.7 0.732915
Target:  5'- -cGCcGUUgcggCUCGCGGuGGUCACGGUGc -3'
miRNA:   3'- guCGuUAAa---GGGCGCU-CCAGUGCUAC- -5'
23392 3' -51.8 NC_005259.1 + 58533 0.7 0.722197
Target:  5'- gGGCAAaUUCCUGCccgucGAGGUUACGGc- -3'
miRNA:   3'- gUCGUUaAAGGGCG-----CUCCAGUGCUac -5'
23392 3' -51.8 NC_005259.1 + 67914 0.71 0.678527
Target:  5'- uCGGCGAggUCaagCGCGuAGGUCGCGAg- -3'
miRNA:   3'- -GUCGUUaaAGg--GCGC-UCCAGUGCUac -5'
23392 3' -51.8 NC_005259.1 + 60826 0.75 0.472004
Target:  5'- uCGGCGAUgcuggCCaccauCGCGAGGUCGCGAg- -3'
miRNA:   3'- -GUCGUUAaa---GG-----GCGCUCCAGUGCUac -5'
23392 3' -51.8 NC_005259.1 + 3961 0.77 0.373535
Target:  5'- gGGCGAUUcuggaccugagcggUCCCGCGAGcaCGCGAUGg -3'
miRNA:   3'- gUCGUUAA--------------AGGGCGCUCcaGUGCUAC- -5'
23392 3' -51.8 NC_005259.1 + 4144 0.78 0.309591
Target:  5'- uCGGCGAgUUCaaggaCGCGAuGGUCACGAUGg -3'
miRNA:   3'- -GUCGUUaAAGg----GCGCU-CCAGUGCUAC- -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.