miRNA display CGI


Results 1 - 20 of 56 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
23250 5' -57.5 NC_005259.1 + 17878 0.66 0.714575
Target:  5'- -aGCCGCUCgguuggACCCC-CGcACCGCGc-- -3'
miRNA:   3'- ggUGGCGAG------UGGGGaGC-UGGUGCauc -5'
23250 5' -57.5 NC_005259.1 + 6602 0.66 0.714575
Target:  5'- aCUACCGgaUCACCCCgUCGAUCAa---- -3'
miRNA:   3'- -GGUGGCg-AGUGGGG-AGCUGGUgcauc -5'
23250 5' -57.5 NC_005259.1 + 67029 0.66 0.714575
Target:  5'- -gGCgGUggugUACCCCUCGACgGCGa-- -3'
miRNA:   3'- ggUGgCGa---GUGGGGAGCUGgUGCauc -5'
23250 5' -57.5 NC_005259.1 + 55829 0.66 0.704289
Target:  5'- -gGCCGC-CGCgUCCUCGACgCGUGUGGa -3'
miRNA:   3'- ggUGGCGaGUG-GGGAGCUG-GUGCAUC- -5'
23250 5' -57.5 NC_005259.1 + 37358 0.66 0.704289
Target:  5'- gCCGCUgugcgaguaGCUCACgCCCUCGgcaccgcccGCCGCGc-- -3'
miRNA:   3'- -GGUGG---------CGAGUG-GGGAGC---------UGGUGCauc -5'
23250 5' -57.5 NC_005259.1 + 45322 0.66 0.70119
Target:  5'- gCCGCCGCcgaacugcguggccUgCGCCgCCUgGGCCgccGCGUAGu -3'
miRNA:   3'- -GGUGGCG--------------A-GUGG-GGAgCUGG---UGCAUC- -5'
23250 5' -57.5 NC_005259.1 + 24755 0.66 0.693938
Target:  5'- gCCGaggCGCUCAUcgaaUCCUCGACCACc--- -3'
miRNA:   3'- -GGUg--GCGAGUG----GGGAGCUGGUGcauc -5'
23250 5' -57.5 NC_005259.1 + 39514 0.66 0.693938
Target:  5'- gCGCCGCUgGCCaCCagucCGGCCcaACGUGc -3'
miRNA:   3'- gGUGGCGAgUGG-GGa---GCUGG--UGCAUc -5'
23250 5' -57.5 NC_005259.1 + 1366 0.66 0.693938
Target:  5'- -gGCCGCUCGCCgCgcCGcCCGCG-AGg -3'
miRNA:   3'- ggUGGCGAGUGGgGa-GCuGGUGCaUC- -5'
23250 5' -57.5 NC_005259.1 + 12345 0.66 0.6929
Target:  5'- aCCGCCGcCUCgaaaccgGCCUCgCGACCGagGUAGu -3'
miRNA:   3'- -GGUGGC-GAG-------UGGGGaGCUGGUg-CAUC- -5'
23250 5' -57.5 NC_005259.1 + 4422 0.66 0.683533
Target:  5'- gCCACCGCgCGCCCgaggUCGAgCCGCccgugcgaGUGGg -3'
miRNA:   3'- -GGUGGCGaGUGGGg---AGCU-GGUG--------CAUC- -5'
23250 5' -57.5 NC_005259.1 + 5397 0.66 0.683533
Target:  5'- aCCACCGUcgucaUCACCCgCgcuggCcGCCACGUcgAGg -3'
miRNA:   3'- -GGUGGCG-----AGUGGG-Ga----GcUGGUGCA--UC- -5'
23250 5' -57.5 NC_005259.1 + 46166 0.66 0.683533
Target:  5'- aUACCGCUUGCCCgC-CGGgCGCGUc- -3'
miRNA:   3'- gGUGGCGAGUGGG-GaGCUgGUGCAuc -5'
23250 5' -57.5 NC_005259.1 + 15300 0.66 0.683533
Target:  5'- aCCGCCGacCUCGCCgcccacggUCUCGACgGCGg-- -3'
miRNA:   3'- -GGUGGC--GAGUGG--------GGAGCUGgUGCauc -5'
23250 5' -57.5 NC_005259.1 + 8056 0.66 0.673083
Target:  5'- aCCGCCGgUCGCCgCCgacaucgagaUCGuGCCGCGcUGGc -3'
miRNA:   3'- -GGUGGCgAGUGG-GG----------AGC-UGGUGC-AUC- -5'
23250 5' -57.5 NC_005259.1 + 68280 0.66 0.662597
Target:  5'- gCACCGUccUCGCCCCauacaucgggaUCGGgCGCGUc- -3'
miRNA:   3'- gGUGGCG--AGUGGGG-----------AGCUgGUGCAuc -5'
23250 5' -57.5 NC_005259.1 + 1191 0.66 0.662597
Target:  5'- -aGCCGCUCACCUgCUaCGACUGCa--- -3'
miRNA:   3'- ggUGGCGAGUGGG-GA-GCUGGUGcauc -5'
23250 5' -57.5 NC_005259.1 + 6497 0.67 0.652085
Target:  5'- gUACUGCUgGCCCacaUCGACCGacgcCGUGc -3'
miRNA:   3'- gGUGGCGAgUGGGg--AGCUGGU----GCAUc -5'
23250 5' -57.5 NC_005259.1 + 18301 0.67 0.641557
Target:  5'- gCCGCCGUUCugCCCg-GugUGCGa-- -3'
miRNA:   3'- -GGUGGCGAGugGGGagCugGUGCauc -5'
23250 5' -57.5 NC_005259.1 + 62823 0.67 0.641557
Target:  5'- gCGCCGCUUGCCCgCgaggUCGAgCGCGcGGu -3'
miRNA:   3'- gGUGGCGAGUGGG-G----AGCUgGUGCaUC- -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.