miRNA display CGI


Results 1 - 16 of 16 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
23379 3' -54.4 NC_005259.1 + 17367 0.75 0.333446
Target:  5'- gGCUcGGCGCUGGUCGUGGUCGACugcgacacugCCg -3'
miRNA:   3'- -CGA-CCGUGACCAGCGCUGGUUGua--------GG- -5'
23379 3' -54.4 NC_005259.1 + 49556 0.66 0.812046
Target:  5'- uGCcgGGCugUucgucGGUCGUGGCCAGa--CCg -3'
miRNA:   3'- -CGa-CCGugA-----CCAGCGCUGGUUguaGG- -5'
23379 3' -54.4 NC_005259.1 + 57914 0.66 0.812046
Target:  5'- --cGGaugUUGGUCGCGACCAGug-CCa -3'
miRNA:   3'- cgaCCgu-GACCAGCGCUGGUUguaGG- -5'
23379 3' -54.4 NC_005259.1 + 8655 0.66 0.812046
Target:  5'- --aGGCugUGGUCgggcugccacGCGGgCAACGgggCCg -3'
miRNA:   3'- cgaCCGugACCAG----------CGCUgGUUGUa--GG- -5'
23379 3' -54.4 NC_005259.1 + 66477 0.66 0.802687
Target:  5'- uGgUGGCGgUGGUCuCGAUCAugGgauuUCCu -3'
miRNA:   3'- -CgACCGUgACCAGcGCUGGUugU----AGG- -5'
23379 3' -54.4 NC_005259.1 + 52932 0.67 0.793155
Target:  5'- -aUGGC-CUGGUCGC--UCAACGcCCg -3'
miRNA:   3'- cgACCGuGACCAGCGcuGGUUGUaGG- -5'
23379 3' -54.4 NC_005259.1 + 8085 0.67 0.773611
Target:  5'- uGCc-GCGCUGG-CGUGACCGuGCgAUCCu -3'
miRNA:   3'- -CGacCGUGACCaGCGCUGGU-UG-UAGG- -5'
23379 3' -54.4 NC_005259.1 + 15330 0.68 0.743257
Target:  5'- gGC-GGUACUGGUaaaGgGGCCAAgcugGUCCa -3'
miRNA:   3'- -CGaCCGUGACCAg--CgCUGGUUg---UAGG- -5'
23379 3' -54.4 NC_005259.1 + 55914 0.68 0.742226
Target:  5'- cGCUGGCcagaccGCUGGUCuGCucggcgaGACCGAgGUUg -3'
miRNA:   3'- -CGACCG------UGACCAG-CG-------CUGGUUgUAGg -5'
23379 3' -54.4 NC_005259.1 + 66212 0.68 0.722456
Target:  5'- --aGGCGC-GGUCGCG-CCGACGc-- -3'
miRNA:   3'- cgaCCGUGaCCAGCGCuGGUUGUagg -5'
23379 3' -54.4 NC_005259.1 + 36872 0.68 0.690627
Target:  5'- uGCUGGCACcGccCGCG-CCGACGacgCCg -3'
miRNA:   3'- -CGACCGUGaCcaGCGCuGGUUGUa--GG- -5'
23379 3' -54.4 NC_005259.1 + 45492 0.69 0.679894
Target:  5'- cGCUGGUGgccUUGGUCGCuguGGCCAccGCG-CCg -3'
miRNA:   3'- -CGACCGU---GACCAGCG---CUGGU--UGUaGG- -5'
23379 3' -54.4 NC_005259.1 + 15790 0.71 0.561078
Target:  5'- uGCUGGcCGCcgGGaUCGacCGcCCGACAUCCa -3'
miRNA:   3'- -CGACC-GUGa-CC-AGC--GCuGGUUGUAGG- -5'
23379 3' -54.4 NC_005259.1 + 50241 0.71 0.539873
Target:  5'- cGCgGGCGC-GGaUCGUGGCCAACGggCUa -3'
miRNA:   3'- -CGaCCGUGaCC-AGCGCUGGUUGUa-GG- -5'
23379 3' -54.4 NC_005259.1 + 1442 0.74 0.366465
Target:  5'- gGCUGGCACUGcUCGCGugCuucGCAcugcacuucUCCc -3'
miRNA:   3'- -CGACCGUGACcAGCGCugGu--UGU---------AGG- -5'
23379 3' -54.4 NC_005259.1 + 57025 0.66 0.830203
Target:  5'- gGCUcGGCGCgguggGGUCGCacucgucguaGGCCcACA-CCg -3'
miRNA:   3'- -CGA-CCGUGa----CCAGCG----------CUGGuUGUaGG- -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.