miRNA display CGI


Results 1 - 20 of 24 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
23452 3' -62.5 NC_005259.1 + 4528 0.66 0.403974
Target:  5'- cGCGGCaccccgGUCGauUGuGCCCagUGCGGGCAc -3'
miRNA:   3'- -CGCCGa-----CGGCgcAC-CGGG--AUGUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 47763 0.66 0.403974
Target:  5'- aGCGGCUG-CGCGaUGGCCUUuuggaaaucgcGCAG-CGg -3'
miRNA:   3'- -CGCCGACgGCGC-ACCGGGA-----------UGUCcGU- -5'
23452 3' -62.5 NC_005259.1 + 54166 0.66 0.392716
Target:  5'- -gGGCauaCCGCaacuguugaucuugGUGGCCCU-CAGGCGg -3'
miRNA:   3'- cgCCGac-GGCG--------------CACCGGGAuGUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 23354 0.66 0.38674
Target:  5'- -aGGCUGCCuGCGaGGCCgccgAGGCAu -3'
miRNA:   3'- cgCCGACGG-CGCaCCGGgaugUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 63859 0.66 0.378306
Target:  5'- cCGGCgaggugGCCGgcUGGCCUUGCguGGGCGu -3'
miRNA:   3'- cGCCGa-----CGGCgcACCGGGAUG--UCCGU- -5'
23452 3' -62.5 NC_005259.1 + 47963 0.66 0.378306
Target:  5'- aUGGCcGCCGCGccGCCCgcgaauaugcCGGGCAg -3'
miRNA:   3'- cGCCGaCGGCGCacCGGGau--------GUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 64818 0.66 0.37747
Target:  5'- gGCGGCaaUGagCGUGUGGugacggaCCCUGCuGGCGa -3'
miRNA:   3'- -CGCCG--ACg-GCGCACC-------GGGAUGuCCGU- -5'
23452 3' -62.5 NC_005259.1 + 49542 0.66 0.375801
Target:  5'- cGUGGCcaccucagUGCCGggcuguucgucgguCGUGGCCagaccgGCGGGCGg -3'
miRNA:   3'- -CGCCG--------ACGGC--------------GCACCGGga----UGUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 27095 0.66 0.369997
Target:  5'- gGCGGCUGCCauGCGgugGGCUgUGuCAuGCGg -3'
miRNA:   3'- -CGCCGACGG--CGCa--CCGGgAU-GUcCGU- -5'
23452 3' -62.5 NC_005259.1 + 42514 0.67 0.353758
Target:  5'- uGUGGCcagcaGCCGUccGGCCCcgAUGGGCAc -3'
miRNA:   3'- -CGCCGa----CGGCGcaCCGGGa-UGUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 58941 0.67 0.353758
Target:  5'- cGCGGUgGCaGCGUcGGCCUUGgccagcagguCGGGCAg -3'
miRNA:   3'- -CGCCGaCGgCGCA-CCGGGAU----------GUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 26826 0.67 0.353758
Target:  5'- gGCGGUggUGCCGgGgcGGUCUgcuCGGGCAg -3'
miRNA:   3'- -CGCCG--ACGGCgCa-CCGGGau-GUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 2177 0.67 0.345828
Target:  5'- cCGGUUGCCGaGgucaugGGCCgCUAC-GGCAa -3'
miRNA:   3'- cGCCGACGGCgCa-----CCGG-GAUGuCCGU- -5'
23452 3' -62.5 NC_005259.1 + 41667 0.67 0.330356
Target:  5'- aGCGGgauCUGCaccgcguGCGUGGCCaccgcgcacACAGGCAu -3'
miRNA:   3'- -CGCC---GACGg------CGCACCGGga-------UGUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 27145 0.68 0.300959
Target:  5'- gGCGGCUGCgGUGUuggGGCCaacgaUGCcgucGGCGa -3'
miRNA:   3'- -CGCCGACGgCGCA---CCGGg----AUGu---CCGU- -5'
23452 3' -62.5 NC_005259.1 + 37250 0.68 0.287035
Target:  5'- uUGGCUGCCGcCGUuGCCaggCUugAGGCc -3'
miRNA:   3'- cGCCGACGGC-GCAcCGG---GAugUCCGu -5'
23452 3' -62.5 NC_005259.1 + 51658 0.69 0.254455
Target:  5'- -gGGUUGCCGCGcgGGCgCguCGGGCAc -3'
miRNA:   3'- cgCCGACGGCGCa-CCGgGauGUCCGU- -5'
23452 3' -62.5 NC_005259.1 + 784 0.69 0.253835
Target:  5'- gGCGGCUGCCcucgguuGgGUGGCCa-AgGGGCc -3'
miRNA:   3'- -CGCCGACGG-------CgCACCGGgaUgUCCGu -5'
23452 3' -62.5 NC_005259.1 + 55125 0.69 0.248315
Target:  5'- cCGGCUGCCGU---GCCgaGCAGGCc -3'
miRNA:   3'- cGCCGACGGCGcacCGGgaUGUCCGu -5'
23452 3' -62.5 NC_005259.1 + 60144 0.7 0.219436
Target:  5'- cGCGGCcuugGCCGCcgccucagcGGCCUcACGGGCGg -3'
miRNA:   3'- -CGCCGa---CGGCGca-------CCGGGaUGUCCGU- -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.