miRNA display CGI


Results 1 - 20 of 26 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
1342 3' -56.3 NC_001335.1 + 43735 0.66 0.631234
Target:  5'- -cGGCGugguuGCcGCAGGgcaccgcguuucacaCCGUCGCUGAg -3'
miRNA:   3'- uaCUGCu----UGuCGUCC---------------GGCAGCGACUg -5'
1342 3' -56.3 NC_001335.1 + 22971 0.66 0.62678
Target:  5'- gGUGAUGccGACGGUcggAGcGuuGUCGUUGACg -3'
miRNA:   3'- -UACUGC--UUGUCG---UC-CggCAGCGACUG- -5'
1342 3' -56.3 NC_001335.1 + 1155 0.66 0.62678
Target:  5'- -gGAuCGGGCGGCguAGGCggCGUCGgaGGCg -3'
miRNA:   3'- uaCU-GCUUGUCG--UCCG--GCAGCgaCUG- -5'
1342 3' -56.3 NC_001335.1 + 29080 0.66 0.62678
Target:  5'- gGUGugGAGCGGCuGaGCaagaaGCUGGCg -3'
miRNA:   3'- -UACugCUUGUCGuC-CGgcag-CGACUG- -5'
1342 3' -56.3 NC_001335.1 + 4688 0.66 0.615648
Target:  5'- --cGCGAGC-GCGGGCCauGUCGUgGACc -3'
miRNA:   3'- uacUGCUUGuCGUCCGG--CAGCGaCUG- -5'
1342 3' -56.3 NC_001335.1 + 34330 0.66 0.615648
Target:  5'- --aGCGAacgGCAGCGGGCC---GCUGGCc -3'
miRNA:   3'- uacUGCU---UGUCGUCCGGcagCGACUG- -5'
1342 3' -56.3 NC_001335.1 + 26675 0.66 0.612311
Target:  5'- -cGACGGcCGGCucaAGGCCGUUcggcucgguccccgGCUGAUc -3'
miRNA:   3'- uaCUGCUuGUCG---UCCGGCAG--------------CGACUG- -5'
1342 3' -56.3 NC_001335.1 + 45201 0.66 0.59233
Target:  5'- cUGGCGGGCGGUcuccuucAGGUCGgacuUCGCcGACa -3'
miRNA:   3'- uACUGCUUGUCG-------UCCGGC----AGCGaCUG- -5'
1342 3' -56.3 NC_001335.1 + 42285 0.66 0.582378
Target:  5'- cGUGACGAcGCGGCAGaggaGCUGcacgCGCUGGu -3'
miRNA:   3'- -UACUGCU-UGUCGUC----CGGCa---GCGACUg -5'
1342 3' -56.3 NC_001335.1 + 37260 0.67 0.560394
Target:  5'- -gGACGAGCGGUaucccaagGGGCC-UCGCcaguggGACa -3'
miRNA:   3'- uaCUGCUUGUCG--------UCCGGcAGCGa-----CUG- -5'
1342 3' -56.3 NC_001335.1 + 42590 0.67 0.560394
Target:  5'- cAUGACGAACu--GGGauccaaaccacCCGUCGCUGAg -3'
miRNA:   3'- -UACUGCUUGucgUCC-----------GGCAGCGACUg -5'
1342 3' -56.3 NC_001335.1 + 4162 0.67 0.517194
Target:  5'- -aGAUGGugGGCcagacggccuucGGGCCGUCccCUGACg -3'
miRNA:   3'- uaCUGCUugUCG------------UCCGGCAGc-GACUG- -5'
1342 3' -56.3 NC_001335.1 + 3110 0.68 0.475386
Target:  5'- -aGGCGAGCGGCGGGa----GCUGAUg -3'
miRNA:   3'- uaCUGCUUGUCGUCCggcagCGACUG- -5'
1342 3' -56.3 NC_001335.1 + 21262 0.69 0.435333
Target:  5'- uUGugGAaguGCGGCuuucGGCaCGUCGaCUGGCu -3'
miRNA:   3'- uACugCU---UGUCGu---CCG-GCAGC-GACUG- -5'
1342 3' -56.3 NC_001335.1 + 50181 0.69 0.435333
Target:  5'- uUGGC--ACAGaAGGCCGUCGCguccgGGCa -3'
miRNA:   3'- uACUGcuUGUCgUCCGGCAGCGa----CUG- -5'
1342 3' -56.3 NC_001335.1 + 32102 0.69 0.432407
Target:  5'- -cGGCGAcguucuacaucgagGcCAGCAGGUCGgUGCUGACc -3'
miRNA:   3'- uaCUGCU--------------U-GUCGUCCGGCaGCGACUG- -5'
1342 3' -56.3 NC_001335.1 + 41340 0.69 0.426592
Target:  5'- -cGaACGAGCuacGCGGGCUGUCGCgagcagaacaucgagGACg -3'
miRNA:   3'- uaC-UGCUUGu--CGUCCGGCAGCGa--------------CUG- -5'
1342 3' -56.3 NC_001335.1 + 19432 0.7 0.36147
Target:  5'- gAUGGCGAcuuccGCcuGCGcGGCCugGUCGCUGGCg -3'
miRNA:   3'- -UACUGCU-----UGu-CGU-CCGG--CAGCGACUG- -5'
1342 3' -56.3 NC_001335.1 + 22232 0.7 0.36147
Target:  5'- -cGGCGAacuucaggaACAGCGGGCCGUC-UUGGa -3'
miRNA:   3'- uaCUGCU---------UGUCGUCCGGCAGcGACUg -5'
1342 3' -56.3 NC_001335.1 + 42159 0.71 0.336111
Target:  5'- cAUGGCuuccuuucaGAACGGCGGGCCGUacaGCUcGAUc -3'
miRNA:   3'- -UACUG---------CUUGUCGUCCGGCAg--CGA-CUG- -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.