miRNA display CGI


Results 1 - 20 of 42 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
23366 3' -56.5 NC_005259.1 + 67844 0.69 0.594643
Target:  5'- gCCCGgUGaGCggGUCGACCaauCGGUGCCGu -3'
miRNA:   3'- -GGGCaGC-CGa-UAGCUGGg--GCUAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 67722 0.72 0.426184
Target:  5'- aCCCGUCaGCc-UCGA-UCCGAUACCGg -3'
miRNA:   3'- -GGGCAGcCGauAGCUgGGGCUAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 67212 0.69 0.563418
Target:  5'- gCUGUCGGCgggGUCGAUgCCGA--CCa -3'
miRNA:   3'- gGGCAGCCGa--UAGCUGgGGCUauGGc -5'
23366 3' -56.5 NC_005259.1 + 60551 0.67 0.678576
Target:  5'- gCUCGUCGGCaug----CCCGGUGCCGa -3'
miRNA:   3'- -GGGCAGCCGauagcugGGGCUAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 56386 0.68 0.626126
Target:  5'- gCCgCGUCGGCUgaucgucucgAUgGugCCCGGcccGCCGa -3'
miRNA:   3'- -GG-GCAGCCGA----------UAgCugGGGCUa--UGGC- -5'
23366 3' -56.5 NC_005259.1 + 54311 0.66 0.769609
Target:  5'- aCCGUgcaCGGCUAUUucACCUCGggGCCa -3'
miRNA:   3'- gGGCA---GCCGAUAGc-UGGGGCuaUGGc -5'
23366 3' -56.5 NC_005259.1 + 53257 0.67 0.699338
Target:  5'- aCCGUCGccgccGCUGUCG---CCGGUGCCGc -3'
miRNA:   3'- gGGCAGC-----CGAUAGCuggGGCUAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 52770 0.66 0.77921
Target:  5'- gCUCGUCGG-UGUCGGCagCGuGUGCCGu -3'
miRNA:   3'- -GGGCAGCCgAUAGCUGggGC-UAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 49642 0.76 0.238013
Target:  5'- gCCgCGUCGGCgauggCGGCCUCGAUACgCGc -3'
miRNA:   3'- -GG-GCAGCCGaua--GCUGGGGCUAUG-GC- -5'
23366 3' -56.5 NC_005259.1 + 48367 0.66 0.77921
Target:  5'- -aCGUCGGUUGUCGACgcgUCUGuugucguUGCCGc -3'
miRNA:   3'- ggGCAGCCGAUAGCUG---GGGCu------AUGGC- -5'
23366 3' -56.5 NC_005259.1 + 48268 0.66 0.759879
Target:  5'- gUCGUacuuaCGGUUGUCGACCuuGcgguugucGUACCGu -3'
miRNA:   3'- gGGCA-----GCCGAUAGCUGGggC--------UAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 44406 0.66 0.778256
Target:  5'- -aCGUCGGUgcccgccUGACCggcagcgCCGAUACCGg -3'
miRNA:   3'- ggGCAGCCGaua----GCUGG-------GGCUAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 42676 0.68 0.657652
Target:  5'- gCUGUUGGCgaucUCGACCCCGuugagGgCGa -3'
miRNA:   3'- gGGCAGCCGau--AGCUGGGGCua---UgGC- -5'
23366 3' -56.5 NC_005259.1 + 42501 0.73 0.388111
Target:  5'- aCCCGUcCGGCggUGUggccagcagccgucCGGCCCCGAUgggcACCGa -3'
miRNA:   3'- -GGGCA-GCCG--AUA--------------GCUGGGGCUA----UGGC- -5'
23366 3' -56.5 NC_005259.1 + 41306 0.66 0.750029
Target:  5'- aUCCGUgaGcGCgagGUCGACCUCGAaaagggcggUGCCGu -3'
miRNA:   3'- -GGGCAg-C-CGa--UAGCUGGGGCU---------AUGGC- -5'
23366 3' -56.5 NC_005259.1 + 40621 0.66 0.74007
Target:  5'- gCCGUCGcGCa--CGAaCUCGAUGCCGu -3'
miRNA:   3'- gGGCAGC-CGauaGCUgGGGCUAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 40148 0.77 0.215303
Target:  5'- gCCGUCGGUUGUCGgugcccGCCCCGGcagcucgACCGu -3'
miRNA:   3'- gGGCAGCCGAUAGC------UGGGGCUa------UGGC- -5'
23366 3' -56.5 NC_005259.1 + 39567 0.7 0.522521
Target:  5'- gUCGUcCGGCc--CGACCUCGAUGCUGu -3'
miRNA:   3'- gGGCA-GCCGauaGCUGGGGCUAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 38929 0.72 0.408198
Target:  5'- -aCGUCGGUguugcUGugCCCGGUGCCGc -3'
miRNA:   3'- ggGCAGCCGaua--GCugGGGCUAUGGC- -5'
23366 3' -56.5 NC_005259.1 + 37015 0.66 0.786792
Target:  5'- gCCCGcCGGggaacaugacaaUGUCGAUCuuGGUGCCc -3'
miRNA:   3'- -GGGCaGCCg-----------AUAGCUGGggCUAUGGc -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.