miRNA display CGI


Results 1 - 20 of 68 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
23110 3' -59.6 NC_005178.1 + 5119 0.66 0.433708
Target:  5'- gCGcCACGGCugaacugauacagCCGCACCGg-CUGcCCa -3'
miRNA:   3'- aGCuGUGCCG-------------GGCGUGGCagGACuGG- -5'
23110 3' -59.6 NC_005178.1 + 21379 0.66 0.425209
Target:  5'- uUCGcgGCGGCCCcCACCa-CCUGGCa -3'
miRNA:   3'- -AGCugUGCCGGGcGUGGcaGGACUGg -5'
23110 3' -59.6 NC_005178.1 + 6429 0.66 0.425209
Target:  5'- aUUGACcacggGCGGgCCGUcgguGCCGaUgCUGACCg -3'
miRNA:   3'- -AGCUG-----UGCCgGGCG----UGGC-AgGACUGG- -5'
23110 3' -59.6 NC_005178.1 + 13320 0.66 0.415883
Target:  5'- -gGGCGCcgggcuGCUCGCGCUGUCggugaUGACCa -3'
miRNA:   3'- agCUGUGc-----CGGGCGUGGCAGg----ACUGG- -5'
23110 3' -59.6 NC_005178.1 + 24322 0.66 0.415883
Target:  5'- cCGACGCcGGcCCCGacccaGCCGUUCaaagcGGCCu -3'
miRNA:   3'- aGCUGUG-CC-GGGCg----UGGCAGGa----CUGG- -5'
23110 3' -59.6 NC_005178.1 + 3716 0.66 0.415883
Target:  5'- cCGACAUGGaCCGCcagGCCaagCUGGCCa -3'
miRNA:   3'- aGCUGUGCCgGGCG---UGGcagGACUGG- -5'
23110 3' -59.6 NC_005178.1 + 3489 0.66 0.415883
Target:  5'- aCGugAC-GCCUGCAUcaagggcggCGUCCcGGCCa -3'
miRNA:   3'- aGCugUGcCGGGCGUG---------GCAGGaCUGG- -5'
23110 3' -59.6 NC_005178.1 + 27437 0.66 0.410348
Target:  5'- gCGACaaaaguuccaccacgGCGGCCCaGCGCaucagCCUGgACCa -3'
miRNA:   3'- aGCUG---------------UGCCGGG-CGUGgca--GGAC-UGG- -5'
23110 3' -59.6 NC_005178.1 + 16980 0.66 0.406683
Target:  5'- -aGGCGagaGGUCaGCGCCGcgaCCUGGCCc -3'
miRNA:   3'- agCUGUg--CCGGgCGUGGCa--GGACUGG- -5'
23110 3' -59.6 NC_005178.1 + 18913 0.66 0.397613
Target:  5'- ---uUACGGCCuCGC-CCaG-CCUGACCg -3'
miRNA:   3'- agcuGUGCCGG-GCGuGG-CaGGACUGG- -5'
23110 3' -59.6 NC_005178.1 + 20019 0.66 0.397613
Target:  5'- aCGGC-CaGCCCGCGCCcgcugCC-GGCCg -3'
miRNA:   3'- aGCUGuGcCGGGCGUGGca---GGaCUGG- -5'
23110 3' -59.6 NC_005178.1 + 30826 0.67 0.379866
Target:  5'- cUCGGCGCauGG-CgGCACC-UCCUGGCUc -3'
miRNA:   3'- -AGCUGUG--CCgGgCGUGGcAGGACUGG- -5'
23110 3' -59.6 NC_005178.1 + 13003 0.67 0.374646
Target:  5'- -aGACGCGgacaucaaGCCCGCcgugaaggugcagcuGCUGgccagCCUGGCCg -3'
miRNA:   3'- agCUGUGC--------CGGGCG---------------UGGCa----GGACUGG- -5'
23110 3' -59.6 NC_005178.1 + 11208 0.67 0.371193
Target:  5'- cCGcCACGGCCUcauacugaGUGCCGUucgcCCUGGCg -3'
miRNA:   3'- aGCuGUGCCGGG--------CGUGGCA----GGACUGg -5'
23110 3' -59.6 NC_005178.1 + 10902 0.67 0.371193
Target:  5'- cUCGACGaucUGGCUCGC-CCGcucguccauugCCUGGCUa -3'
miRNA:   3'- -AGCUGU---GCCGGGCGuGGCa----------GGACUGG- -5'
23110 3' -59.6 NC_005178.1 + 31493 0.67 0.371193
Target:  5'- gCGACACGGCCgGCcUCGacuUCCgcGACg -3'
miRNA:   3'- aGCUGUGCCGGgCGuGGC---AGGa-CUGg -5'
23110 3' -59.6 NC_005178.1 + 21673 0.67 0.362657
Target:  5'- gUCGAa--GGCCUGCGgcaaccacucCCGUCCcuggaggGACCa -3'
miRNA:   3'- -AGCUgugCCGGGCGU----------GGCAGGa------CUGG- -5'
23110 3' -59.6 NC_005178.1 + 34660 0.67 0.362657
Target:  5'- uUCGACcgcCGcGCCCGUAgCCugaacCCUGGCCa -3'
miRNA:   3'- -AGCUGu--GC-CGGGCGU-GGca---GGACUGG- -5'
23110 3' -59.6 NC_005178.1 + 23469 0.67 0.357601
Target:  5'- cCGGCGCgaagccGGCCCGCugcucgGCCGgcugcucaaggcaCUGACCg -3'
miRNA:   3'- aGCUGUG------CCGGGCG------UGGCag-----------GACUGG- -5'
23110 3' -59.6 NC_005178.1 + 32155 0.67 0.354258
Target:  5'- aCGGCACGGUCUaucacCGCCGcaUCCUcACCa -3'
miRNA:   3'- aGCUGUGCCGGGc----GUGGC--AGGAcUGG- -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.