miRNA display CGI


Results 1 - 20 of 25 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
17028 3' -68.3 NC_004333.2 + 11925 0.66 0.190226
Target:  5'- aGCGGcGCGcGCGCcauUACGcGCGCUCCa- -3'
miRNA:   3'- gCGCC-CGCcCGCG---AUGC-CGCGGGGgc -5'
17028 3' -68.3 NC_004333.2 + 26045 0.66 0.188817
Target:  5'- uCGaCGGuGCGccggauuugccaguGGCGCcgcagcgGCGGCGCUUCCGg -3'
miRNA:   3'- -GC-GCC-CGC--------------CCGCGa------UGCCGCGGGGGC- -5'
17028 3' -68.3 NC_004333.2 + 47480 0.66 0.185565
Target:  5'- uCGCGGGCGGcG-GC-ACGaucGCGCUCaCCGa -3'
miRNA:   3'- -GCGCCCGCC-CgCGaUGC---CGCGGG-GGC- -5'
17028 3' -68.3 NC_004333.2 + 45499 0.66 0.182817
Target:  5'- aGCGagaucgucuacaacuGGCGGGCGg---GGCGCCCCg- -3'
miRNA:   3'- gCGC---------------CCGCCCGCgaugCCGCGGGGgc -5'
17028 3' -68.3 NC_004333.2 + 9560 0.66 0.176544
Target:  5'- -aCGGGCaccacGGGCa--GCGGCGCgCCCGg -3'
miRNA:   3'- gcGCCCG-----CCCGcgaUGCCGCGgGGGC- -5'
17028 3' -68.3 NC_004333.2 + 28221 0.66 0.17348
Target:  5'- gCGCGucCGGGCGCgucacggUgaccgugacgcgcgcGCGGCGCUCCUGg -3'
miRNA:   3'- -GCGCccGCCCGCG-------A---------------UGCCGCGGGGGC- -5'
17028 3' -68.3 NC_004333.2 + 17746 0.66 0.172182
Target:  5'- aCGUGGcGCGaGGCagucGCUACGGCGCgCgaauucgguCCGg -3'
miRNA:   3'- -GCGCC-CGC-CCG----CGAUGCCGCGgG---------GGC- -5'
17028 3' -68.3 NC_004333.2 + 22047 0.66 0.167494
Target:  5'- aCGCGGGCGGacagaucGUGC-ACGGCGCguagCgCCa -3'
miRNA:   3'- -GCGCCCGCC-------CGCGaUGCCGCG----GgGGc -5'
17028 3' -68.3 NC_004333.2 + 18606 0.67 0.155681
Target:  5'- gGCGcGGCaGGCGCggGCGGCaaCCCUu -3'
miRNA:   3'- gCGC-CCGcCCGCGa-UGCCGcgGGGGc -5'
17028 3' -68.3 NC_004333.2 + 1263 0.67 0.155287
Target:  5'- uCGCGGcGCucgcGGCGCUGCagcaugaacagcaGGCGCUCgCGg -3'
miRNA:   3'- -GCGCC-CGc---CCGCGAUG-------------CCGCGGGgGC- -5'
17028 3' -68.3 NC_004333.2 + 11709 0.67 0.151785
Target:  5'- gCGcCGGGCGGcGUGCU--GGCGUCCUg- -3'
miRNA:   3'- -GC-GCCCGCC-CGCGAugCCGCGGGGgc -5'
17028 3' -68.3 NC_004333.2 + 35868 0.67 0.147978
Target:  5'- gCGCGaGGCuGGCGCgcaggACGccgcaaugcGCGCCgCCGg -3'
miRNA:   3'- -GCGC-CCGcCCGCGa----UGC---------CGCGGgGGC- -5'
17028 3' -68.3 NC_004333.2 + 17868 0.67 0.144258
Target:  5'- gGCGGGUGGugucgcagGCGCgacgGCGGCcaGCUCgCCGu -3'
miRNA:   3'- gCGCCCGCC--------CGCGa---UGCCG--CGGG-GGC- -5'
17028 3' -68.3 NC_004333.2 + 628 0.67 0.144258
Target:  5'- aGCGGGCcGGUGCUGCcaguGaCGCCCgUGa -3'
miRNA:   3'- gCGCCCGcCCGCGAUGc---C-GCGGGgGC- -5'
17028 3' -68.3 NC_004333.2 + 3571 0.67 0.140624
Target:  5'- uGCGcGGCGGcaGCGgUACGGUGUuuUCCCa -3'
miRNA:   3'- gCGC-CCGCC--CGCgAUGCCGCG--GGGGc -5'
17028 3' -68.3 NC_004333.2 + 22284 0.67 0.140624
Target:  5'- gGCGGcgaaGCGcGGCGCU-UGGCGCUCgCGc -3'
miRNA:   3'- gCGCC----CGC-CCGCGAuGCCGCGGGgGC- -5'
17028 3' -68.3 NC_004333.2 + 42977 0.68 0.13022
Target:  5'- uCGCcGGCGGacgaGCggGCGGCGCUCUCGa -3'
miRNA:   3'- -GCGcCCGCCcg--CGa-UGCCGCGGGGGC- -5'
17028 3' -68.3 NC_004333.2 + 19490 0.68 0.13022
Target:  5'- uGCGaucGGCGcuGGCGCgcugGCGGCGCUCgUGg -3'
miRNA:   3'- gCGC---CCGC--CCGCGa---UGCCGCGGGgGC- -5'
17028 3' -68.3 NC_004333.2 + 12288 0.68 0.13022
Target:  5'- gGCaccGGCGGcGCGCauUGCGGCGUCCUg- -3'
miRNA:   3'- gCGc--CCGCC-CGCG--AUGCCGCGGGGgc -5'
17028 3' -68.3 NC_004333.2 + 19723 0.68 0.114447
Target:  5'- gCGCuGGUGGcGUGCaagACGGCGCCgCUGc -3'
miRNA:   3'- -GCGcCCGCC-CGCGa--UGCCGCGGgGGC- -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.