miRNA display CGI


Results 1 - 20 of 66 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
6947 5' -55.4 NC_001875.2 + 19853 0.66 0.932986
Target:  5'- cGCGCAAGAcucggcCGCGUCGCggcgCGGGcgCc- -3'
miRNA:   3'- -CGCGUUUU------GCGCAGCGg---GCCCaaGcc -5'
6947 5' -55.4 NC_001875.2 + 98863 0.66 0.925742
Target:  5'- aGCGCAAcaccguGCGCGUCGUaaacaCGGGcgacauggcgagCGGc -3'
miRNA:   3'- -CGCGUUu-----UGCGCAGCGg----GCCCaa----------GCC- -5'
6947 5' -55.4 NC_001875.2 + 63211 0.66 0.924129
Target:  5'- aGCGCAGcuuuacgucgccCGCGUCGCCCGucaccacaaacgcgUCGGg -3'
miRNA:   3'- -CGCGUUuu----------GCGCAGCGGGCcca-----------AGCC- -5'
6947 5' -55.4 NC_001875.2 + 111051 0.66 0.922495
Target:  5'- cGCGCAcuGCGCGUCGa-CGGcUUCu- -3'
miRNA:   3'- -CGCGUuuUGCGCAGCggGCCcAAGcc -5'
6947 5' -55.4 NC_001875.2 + 38164 0.66 0.922495
Target:  5'- uGCGCGuGAACGCGagCGCCCGacgcaGG-UCGu -3'
miRNA:   3'- -CGCGU-UUUGCGCa-GCGGGC-----CCaAGCc -5'
6947 5' -55.4 NC_001875.2 + 34903 0.66 0.921945
Target:  5'- aGCGCGAGAUcaagGCG-CGCCaguuuuuUGGGUgCGGc -3'
miRNA:   3'- -CGCGUUUUG----CGCaGCGG-------GCCCAaGCC- -5'
6947 5' -55.4 NC_001875.2 + 53451 0.66 0.916895
Target:  5'- cGUGCAGcacuGCGgGUCGCUCGGc-UUGGc -3'
miRNA:   3'- -CGCGUUu---UGCgCAGCGGGCCcaAGCC- -5'
6947 5' -55.4 NC_001875.2 + 117942 0.66 0.916895
Target:  5'- gGCGU---GCGCGcCGCCgCGuuuGGUUUGGu -3'
miRNA:   3'- -CGCGuuuUGCGCaGCGG-GC---CCAAGCC- -5'
6947 5' -55.4 NC_001875.2 + 11954 0.66 0.914589
Target:  5'- cGCGCGAccggcGGCGCGUUGCaaagcacuggcgaCGGcGUUgGGc -3'
miRNA:   3'- -CGCGUU-----UUGCGCAGCGg------------GCC-CAAgCC- -5'
6947 5' -55.4 NC_001875.2 + 59906 0.66 0.913422
Target:  5'- cGCGCGGAGCGCGcggucaaggcgcUCGCCgacgcgcacgcccagUGGG--CGGa -3'
miRNA:   3'- -CGCGUUUUGCGC------------AGCGG---------------GCCCaaGCC- -5'
6947 5' -55.4 NC_001875.2 + 45121 0.66 0.911059
Target:  5'- uGUGCGacGAGCaGUGUCGgCCGGG--CGGc -3'
miRNA:   3'- -CGCGU--UUUG-CGCAGCgGGCCCaaGCC- -5'
6947 5' -55.4 NC_001875.2 + 92507 0.66 0.911059
Target:  5'- gGCGCAAAACgggcgcucguGCG-CGCCCGGcg-CGu -3'
miRNA:   3'- -CGCGUUUUG----------CGCaGCGGGCCcaaGCc -5'
6947 5' -55.4 NC_001875.2 + 60304 0.66 0.911059
Target:  5'- cUGCAGgcGACGCGUCGCagcGGUUCuuGGg -3'
miRNA:   3'- cGCGUU--UUGCGCAGCGggcCCAAG--CC- -5'
6947 5' -55.4 NC_001875.2 + 89093 0.66 0.909864
Target:  5'- aGCGCGccgcucaccauGCGCGUCGCcgcgcgcgacgaCCGGGUgCGc -3'
miRNA:   3'- -CGCGUuu---------UGCGCAGCG------------GGCCCAaGCc -5'
6947 5' -55.4 NC_001875.2 + 36598 0.67 0.90499
Target:  5'- gGCGCAGccgcuGCGCGUCGCCCu------- -3'
miRNA:   3'- -CGCGUUu----UGCGCAGCGGGcccaagcc -5'
6947 5' -55.4 NC_001875.2 + 112724 0.67 0.90499
Target:  5'- cGUGguAGGCGCGUCGCgCGcacagcaacacGGcccugUCGGg -3'
miRNA:   3'- -CGCguUUUGCGCAGCGgGC-----------CCa----AGCC- -5'
6947 5' -55.4 NC_001875.2 + 83320 0.67 0.89869
Target:  5'- cCGCGGGGCGCG-CGCC-GGG--CGGc -3'
miRNA:   3'- cGCGUUUUGCGCaGCGGgCCCaaGCC- -5'
6947 5' -55.4 NC_001875.2 + 41596 0.67 0.89869
Target:  5'- aCGCcgAAGGCGCGg-GCgCGGGcgCGGg -3'
miRNA:   3'- cGCG--UUUUGCGCagCGgGCCCaaGCC- -5'
6947 5' -55.4 NC_001875.2 + 43313 0.67 0.89869
Target:  5'- -aGCG--GCGCG-CGCgCGGGU-CGGc -3'
miRNA:   3'- cgCGUuuUGCGCaGCGgGCCCAaGCC- -5'
6947 5' -55.4 NC_001875.2 + 33321 0.67 0.89869
Target:  5'- aGCGC--GugGCGUUGCCaaGGGUcgUCGc -3'
miRNA:   3'- -CGCGuuUugCGCAGCGGg-CCCA--AGCc -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.