miRNA display CGI


Results 1 - 20 of 23 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
23204 3' -57.5 NC_005259.1 + 66651 0.66 0.648817
Target:  5'- gAUUGCUGCCggUCg--GCGguGCUGCg -3'
miRNA:   3'- -UGAUGACGGgaGGagaUGCguCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 784 0.66 0.638062
Target:  5'- gGCgGCUGCCCUCggUUGgGUGGCCa- -3'
miRNA:   3'- -UGaUGACGGGAGgaGAUgCGUCGGcg -5'
23204 3' -57.5 NC_005259.1 + 18828 0.66 0.638062
Target:  5'- uGCUGuauCUGCCCggugagggUCUCgcCGguGCCGUg -3'
miRNA:   3'- -UGAU---GACGGGa-------GGAGauGCguCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 63142 0.66 0.627301
Target:  5'- aGCcGCUGUCCUCgCccacgUUGaGCAGCCGCc -3'
miRNA:   3'- -UGaUGACGGGAG-Ga----GAUgCGUCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 37195 0.66 0.648817
Target:  5'- aGCUGCgGCCCUugCCgccacCGCcGCCGCc -3'
miRNA:   3'- -UGAUGaCGGGA--GGagau-GCGuCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 52244 0.66 0.659558
Target:  5'- cACUACcGCCCggccCCUCUcaGgGgGGCCGg -3'
miRNA:   3'- -UGAUGaCGGGa---GGAGA--UgCgUCGGCg -5'
23204 3' -57.5 NC_005259.1 + 63413 0.67 0.552572
Target:  5'- ---gUUGCCCUUgCUCaUGCcgaGCAGCCGCu -3'
miRNA:   3'- ugauGACGGGAG-GAG-AUG---CGUCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 47574 0.67 0.584388
Target:  5'- cGCUGCUGuCCCUCg---GCGguGuuGCc -3'
miRNA:   3'- -UGAUGAC-GGGAGgagaUGCguCggCG- -5'
23204 3' -57.5 NC_005259.1 + 39635 0.67 0.583321
Target:  5'- --cGCUGCCCgguuuguUCCgucCUACGguGUCGUc -3'
miRNA:   3'- ugaUGACGGG-------AGGa--GAUGCguCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 63702 0.67 0.582254
Target:  5'- uGCgcCUGCCCagCggggaucggggcCUGCGCAGCCGg -3'
miRNA:   3'- -UGauGACGGGagGa-----------GAUGCGUCGGCg -5'
23204 3' -57.5 NC_005259.1 + 45332 0.67 0.563127
Target:  5'- aACUGCgugGCCUgcgCCgcCUGgGCcGCCGCg -3'
miRNA:   3'- -UGAUGa--CGGGa--GGa-GAUgCGuCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 8352 0.67 0.563127
Target:  5'- cGCUGCUGCCgguaUCgCUCgGCGgCGGCCucgGCa -3'
miRNA:   3'- -UGAUGACGGg---AG-GAGaUGC-GUCGG---CG- -5'
23204 3' -57.5 NC_005259.1 + 48524 0.67 0.563127
Target:  5'- cGC-ACUGCCgaCUUCUCgGCGCuGUCGCc -3'
miRNA:   3'- -UGaUGACGG--GAGGAGaUGCGuCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 62917 0.68 0.521296
Target:  5'- uACUAC-GCUCgUCCUCgguuUGCGGCuCGCg -3'
miRNA:   3'- -UGAUGaCGGG-AGGAGau--GCGUCG-GCG- -5'
23204 3' -57.5 NC_005259.1 + 17396 0.69 0.470827
Target:  5'- cACUGCcGCCCagCUacagagguUCUACGaGGCCGCa -3'
miRNA:   3'- -UGAUGaCGGGa-GG--------AGAUGCgUCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 17554 0.69 0.449414
Target:  5'- uCUACuucaccgUGCCCgacgagaUCCUCccgACGCuGCCGCg -3'
miRNA:   3'- uGAUG-------ACGGG-------AGGAGa--UGCGuCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 56999 0.69 0.432301
Target:  5'- --aGCUGCCCgugcgagcaCCUCaGCGCGGCUcgGCg -3'
miRNA:   3'- ugaUGACGGGa--------GGAGaUGCGUCGG--CG- -5'
23204 3' -57.5 NC_005259.1 + 29914 0.7 0.378134
Target:  5'- --gGCUGCCCgagaCCaUCgacGCGUGGCCGCc -3'
miRNA:   3'- ugaUGACGGGa---GG-AGa--UGCGUCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 22829 0.7 0.42296
Target:  5'- gACUGCgucgugcugGCCCggCCcaccCGCAGCCGCa -3'
miRNA:   3'- -UGAUGa--------CGGGa-GGagauGCGUCGGCG- -5'
23204 3' -57.5 NC_005259.1 + 46371 0.72 0.320961
Target:  5'- gGC-ACcGCCCggccCCaUCUcACGCAGCCGCg -3'
miRNA:   3'- -UGaUGaCGGGa---GG-AGA-UGCGUCGGCG- -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.