miRNA display CGI


Results 1 - 20 of 40 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
23347 5' -58.9 NC_005259.1 + 46037 0.66 0.644766
Target:  5'- uGUUCUGCGUGACCUCGuagccgauGGccUUGAGCu -3'
miRNA:   3'- gCAGGACGUGCUGGGGCu-------CC--AGCUCG- -5'
23347 5' -58.9 NC_005259.1 + 8185 0.66 0.644766
Target:  5'- cCGUggCCUGC-CGuuuacGCgCCCGAuGUCGGGCa -3'
miRNA:   3'- -GCA--GGACGuGC-----UG-GGGCUcCAGCUCG- -5'
23347 5' -58.9 NC_005259.1 + 565 0.66 0.644766
Target:  5'- --cCCgcacCACGGCgUgGGGGUCGAGCu -3'
miRNA:   3'- gcaGGac--GUGCUGgGgCUCCAGCUCG- -5'
23347 5' -58.9 NC_005259.1 + 25804 0.66 0.634325
Target:  5'- aCGUgCUGCACGGCgagaCCGAuauaGGUcugacCGGGCc -3'
miRNA:   3'- -GCAgGACGUGCUGg---GGCU----CCA-----GCUCG- -5'
23347 5' -58.9 NC_005259.1 + 31406 0.66 0.634325
Target:  5'- -----aGCACagcGCCCCGAGGUCgccgcuGAGCa -3'
miRNA:   3'- gcaggaCGUGc--UGGGGCUCCAG------CUCG- -5'
23347 5' -58.9 NC_005259.1 + 41245 0.66 0.622838
Target:  5'- aCGaUCCgGUGCGccucaccGCCCC--GGUCGAGCa -3'
miRNA:   3'- -GC-AGGaCGUGC-------UGGGGcuCCAGCUCG- -5'
23347 5' -58.9 NC_005259.1 + 6269 0.66 0.613446
Target:  5'- cCG-CCgccGCGCcuACCUCGuGGUCGAGUg -3'
miRNA:   3'- -GCaGGa--CGUGc-UGGGGCuCCAGCUCG- -5'
23347 5' -58.9 NC_005259.1 + 36430 0.66 0.613446
Target:  5'- gGUCUgcGCAgCGuCgCCGAGGUCGAccGCg -3'
miRNA:   3'- gCAGGa-CGU-GCuGgGGCUCCAGCU--CG- -5'
23347 5' -58.9 NC_005259.1 + 10087 0.66 0.603024
Target:  5'- cCGaCgaGUA-GACCCCGAGGccacCGAGCu -3'
miRNA:   3'- -GCaGgaCGUgCUGGGGCUCCa---GCUCG- -5'
23347 5' -58.9 NC_005259.1 + 42042 0.66 0.603024
Target:  5'- gGUCgaCUGCGCuGuCCUCGGGGU-GGGCg -3'
miRNA:   3'- gCAG--GACGUG-CuGGGGCUCCAgCUCG- -5'
23347 5' -58.9 NC_005259.1 + 42526 0.66 0.603024
Target:  5'- cCGUCCgGCccCGAUgggcaCCGAGGUggCGGGCa -3'
miRNA:   3'- -GCAGGaCGu-GCUGg----GGCUCCA--GCUCG- -5'
23347 5' -58.9 NC_005259.1 + 39298 0.66 0.592625
Target:  5'- gCGUCaucgaagUGCACGACgCCCGcuGUCGcGCc -3'
miRNA:   3'- -GCAGg------ACGUGCUG-GGGCucCAGCuCG- -5'
23347 5' -58.9 NC_005259.1 + 17028 0.67 0.568833
Target:  5'- -aUCCUcggcGCuggcaucgacaaccGCGACCCCGAGG-CGGuGCg -3'
miRNA:   3'- gcAGGA----CG--------------UGCUGGGGCUCCaGCU-CG- -5'
23347 5' -58.9 NC_005259.1 + 20327 0.67 0.561637
Target:  5'- cCGUUCacgUGCACGACCUau-GG-CGGGCg -3'
miRNA:   3'- -GCAGG---ACGUGCUGGGgcuCCaGCUCG- -5'
23347 5' -58.9 NC_005259.1 + 17308 0.67 0.561637
Target:  5'- --cCCUGUACGccgagcgguACCCCGAGGgUGuGCc -3'
miRNA:   3'- gcaGGACGUGC---------UGGGGCUCCaGCuCG- -5'
23347 5' -58.9 NC_005259.1 + 12439 0.67 0.561637
Target:  5'- uCGUUCc-CAUGGCCCCGAGGUU-AGUu -3'
miRNA:   3'- -GCAGGacGUGCUGGGGCUCCAGcUCG- -5'
23347 5' -58.9 NC_005259.1 + 10636 0.67 0.541222
Target:  5'- aGgCCgaacaGCuuGGCCUCGcGGUCGAGCg -3'
miRNA:   3'- gCaGGa----CGugCUGGGGCuCCAGCUCG- -5'
23347 5' -58.9 NC_005259.1 + 60746 0.68 0.511089
Target:  5'- gGUCCauuugcagUGCAguCGGCUCggCGAGGUUGGGCu -3'
miRNA:   3'- gCAGG--------ACGU--GCUGGG--GCUCCAGCUCG- -5'
23347 5' -58.9 NC_005259.1 + 46572 0.68 0.510096
Target:  5'- gGUCgCgGCGuCGACcgcgccgCCCGAGG-CGAGCa -3'
miRNA:   3'- gCAG-GaCGU-GCUG-------GGGCUCCaGCUCG- -5'
23347 5' -58.9 NC_005259.1 + 18181 0.68 0.505145
Target:  5'- aGUCgaGguCGACCCCGAcaucgcacccaagcaGGUCGAc- -3'
miRNA:   3'- gCAGgaCguGCUGGGGCU---------------CCAGCUcg -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.