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
3116 3' -55.2 NC_001493.1 + 38736 0.66 0.927911
Target:  5'- uCGCGACCaucGACUCCAUgGCcucgGCg -3'
miRNA:   3'- -GCGCUGGcu-UUGAGGUGgCGcaa-CGa -5'
3116 3' -55.2 NC_001493.1 + 125505 0.66 0.927911
Target:  5'- cCGCGACCaucACaaaCCACCGCGUauaucUGUa -3'
miRNA:   3'- -GCGCUGGcuuUGa--GGUGGCGCA-----ACGa -5'
3116 3' -55.2 NC_001493.1 + 29872 0.66 0.922474
Target:  5'- gGCGaACCGccAGCUCgAgagUCGCGUUGCg -3'
miRNA:   3'- gCGC-UGGCu-UUGAGgU---GGCGCAACGa -5'
3116 3' -55.2 NC_001493.1 + 106485 0.66 0.922474
Target:  5'- gGCGGCCGccGACUCCGCgGUGa---- -3'
miRNA:   3'- gCGCUGGCu-UUGAGGUGgCGCaacga -5'
3116 3' -55.2 NC_001493.1 + 36596 0.66 0.916794
Target:  5'- gGUcACCGc--CUCCACUGCGcUGCUg -3'
miRNA:   3'- gCGcUGGCuuuGAGGUGGCGCaACGA- -5'
3116 3' -55.2 NC_001493.1 + 42914 0.66 0.916794
Target:  5'- gGCGAUCGGuuguGGCUUCACgGCGg-GCUc -3'
miRNA:   3'- gCGCUGGCU----UUGAGGUGgCGCaaCGA- -5'
3116 3' -55.2 NC_001493.1 + 87407 0.66 0.904711
Target:  5'- uCGCGACCau--CUCCGauaucccccCCGCGUUGg- -3'
miRNA:   3'- -GCGCUGGcuuuGAGGU---------GGCGCAACga -5'
3116 3' -55.2 NC_001493.1 + 72122 0.66 0.904711
Target:  5'- aCGUGACCcaauGGGACgCCACCGCGa---- -3'
miRNA:   3'- -GCGCUGG----CUUUGaGGUGGCGCaacga -5'
3116 3' -55.2 NC_001493.1 + 19002 0.67 0.891678
Target:  5'- aGCGACCGAuccccacCUCCcgcGCCGCGa-GCc -3'
miRNA:   3'- gCGCUGGCUuu-----GAGG---UGGCGCaaCGa -5'
3116 3' -55.2 NC_001493.1 + 62474 0.67 0.884812
Target:  5'- cCGUGGCCGGcucccgcgGGCUUCGCCGuCGUgGUg -3'
miRNA:   3'- -GCGCUGGCU--------UUGAGGUGGC-GCAaCGa -5'
3116 3' -55.2 NC_001493.1 + 15277 0.67 0.862872
Target:  5'- aGCGccCCGAGACUCCcgaACCGgGgcGCc -3'
miRNA:   3'- gCGCu-GGCUUUGAGG---UGGCgCaaCGa -5'
3116 3' -55.2 NC_001493.1 + 55625 0.67 0.862872
Target:  5'- aGCGAUCGggGCUCUgAUCGCGa---- -3'
miRNA:   3'- gCGCUGGCuuUGAGG-UGGCGCaacga -5'
3116 3' -55.2 NC_001493.1 + 130831 0.67 0.862872
Target:  5'- aGCGccCCGAGACUCCcgaACCGgGgcGCc -3'
miRNA:   3'- gCGCu-GGCUUUGAGG---UGGCgCaaCGa -5'
3116 3' -55.2 NC_001493.1 + 61981 0.68 0.84718
Target:  5'- uCGgGAUCGAGACaUCgGCCGCGUcauaGCc -3'
miRNA:   3'- -GCgCUGGCUUUG-AGgUGGCGCAa---CGa -5'
3116 3' -55.2 NC_001493.1 + 106960 0.68 0.839033
Target:  5'- gGCGuuCGAGACgCCgggcaugacacgGCCGUGUUGCa -3'
miRNA:   3'- gCGCugGCUUUGaGG------------UGGCGCAACGa -5'
3116 3' -55.2 NC_001493.1 + 32595 0.68 0.830695
Target:  5'- uCGCGACCGGGACgggcguuuacggUCCGgggccauauCCGCGcgUGCc -3'
miRNA:   3'- -GCGCUGGCUUUG------------AGGU---------GGCGCa-ACGa -5'
3116 3' -55.2 NC_001493.1 + 123990 0.69 0.79559
Target:  5'- cCGCG-CCGggGCUCCcACCcauCGgUGCUg -3'
miRNA:   3'- -GCGCuGGCuuUGAGG-UGGc--GCaACGA- -5'
3116 3' -55.2 NC_001493.1 + 8436 0.69 0.79559
Target:  5'- cCGCG-CCGggGCUCCcACCcauCGgUGCUg -3'
miRNA:   3'- -GCGCuGGCuuUGAGG-UGGc--GCaACGA- -5'
3116 3' -55.2 NC_001493.1 + 36205 0.69 0.777104
Target:  5'- aGCGAggguuguaCCGggGCggCCugCGCGggggUGCUc -3'
miRNA:   3'- gCGCU--------GGCuuUGa-GGugGCGCa---ACGA- -5'
3116 3' -55.2 NC_001493.1 + 29624 0.7 0.75809
Target:  5'- uCGCGAUCu--GCUCCGCCuGCGccuugUGCUg -3'
miRNA:   3'- -GCGCUGGcuuUGAGGUGG-CGCa----ACGA- -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.