miRNA display CGI


Results 1 - 20 of 28 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
18750 3' -56.1 NC_004683.1 + 27219 0.66 0.676902
Target:  5'- -uGGCGCGUcUCGaugccGCCGAGcgauucgaUCCUGCg -3'
miRNA:   3'- ugUCGCGCA-AGUc----CGGCUCa-------AGGACG- -5'
18750 3' -56.1 NC_004683.1 + 53202 0.66 0.676902
Target:  5'- uGCAGCGCG--CAcGCCGugagcacgacgAGUUCCUGa -3'
miRNA:   3'- -UGUCGCGCaaGUcCGGC-----------UCAAGGACg -5'
18750 3' -56.1 NC_004683.1 + 21946 0.66 0.644114
Target:  5'- gGCGGUgGCGggCGGccGCCGAGUUCaccgGCc -3'
miRNA:   3'- -UGUCG-CGCaaGUC--CGGCUCAAGga--CG- -5'
18750 3' -56.1 NC_004683.1 + 27541 0.66 0.643018
Target:  5'- cCAGCGCGcUCGcugcGGCUgccugcggugugaGGGUUCCUGg -3'
miRNA:   3'- uGUCGCGCaAGU----CCGG-------------CUCAAGGACg -5'
18750 3' -56.1 NC_004683.1 + 24166 0.67 0.637536
Target:  5'- aGCAGCGCGggCcagcccuuggccugcGGGCCGAacagCUGCu -3'
miRNA:   3'- -UGUCGCGCaaG---------------UCCGGCUcaagGACG- -5'
18750 3' -56.1 NC_004683.1 + 24640 0.67 0.633149
Target:  5'- cCGGCGCc--CAGGCCgccGAGUUcgcgcgCCUGCu -3'
miRNA:   3'- uGUCGCGcaaGUCCGG---CUCAA------GGACG- -5'
18750 3' -56.1 NC_004683.1 + 56575 0.67 0.622183
Target:  5'- uGCGGUGCGgcCGGGCaugcguCGGGa-CCUGCg -3'
miRNA:   3'- -UGUCGCGCaaGUCCG------GCUCaaGGACG- -5'
18750 3' -56.1 NC_004683.1 + 33341 0.67 0.622183
Target:  5'- gGCgAGCGCGUcgCGGGCCucuuucucggugGGGUaccgUCUGCg -3'
miRNA:   3'- -UG-UCGCGCAa-GUCCGG------------CUCAa---GGACG- -5'
18750 3' -56.1 NC_004683.1 + 7482 0.67 0.618895
Target:  5'- gGCAGCGCGcccggccgccgaaucCAGGUCGAGcgCCUcCg -3'
miRNA:   3'- -UGUCGCGCaa-------------GUCCGGCUCaaGGAcG- -5'
18750 3' -56.1 NC_004683.1 + 16000 0.67 0.611226
Target:  5'- cACAGCGUGaaugucCAGucgacGUCGAGgucgUCCUGCa -3'
miRNA:   3'- -UGUCGCGCaa----GUC-----CGGCUCa---AGGACG- -5'
18750 3' -56.1 NC_004683.1 + 52126 0.67 0.589375
Target:  5'- -gGGCGCG-UCGGGCaCG-GUUCCcaGCc -3'
miRNA:   3'- ugUCGCGCaAGUCCG-GCuCAAGGa-CG- -5'
18750 3' -56.1 NC_004683.1 + 49397 0.67 0.586108
Target:  5'- cACAGCGCGcagUCGGGgCGgucagccacgggucAGUUCCUcCa -3'
miRNA:   3'- -UGUCGCGCa--AGUCCgGC--------------UCAAGGAcG- -5'
18750 3' -56.1 NC_004683.1 + 46547 0.68 0.567667
Target:  5'- gAUGGCGCGgaucCGGGCCGGcaUCgaGCg -3'
miRNA:   3'- -UGUCGCGCaa--GUCCGGCUcaAGgaCG- -5'
18750 3' -56.1 NC_004683.1 + 56321 0.68 0.556887
Target:  5'- gUAGCGCGUUCucgauGUCGGGUUgCCaGCg -3'
miRNA:   3'- uGUCGCGCAAGuc---CGGCUCAA-GGaCG- -5'
18750 3' -56.1 NC_004683.1 + 54430 0.68 0.53233
Target:  5'- uGCAGCGCuUUCAuGGCCcgcucaaccugcgcGGGUUCCcaagUGCc -3'
miRNA:   3'- -UGUCGCGcAAGU-CCGG--------------CUCAAGG----ACG- -5'
18750 3' -56.1 NC_004683.1 + 53624 0.68 0.522825
Target:  5'- uGCGGCGCGaUCAGGCCcgccgcgaCCUGg -3'
miRNA:   3'- -UGUCGCGCaAGUCCGGcucaa---GGACg -5'
18750 3' -56.1 NC_004683.1 + 22439 0.69 0.504019
Target:  5'- gACGGCGCGUaUGGGCUgGAGgugUCgCUGUu -3'
miRNA:   3'- -UGUCGCGCAaGUCCGG-CUCa--AG-GACG- -5'
18750 3' -56.1 NC_004683.1 + 18982 0.69 0.504019
Target:  5'- gACGGUGCGcacgaacuccCGGGCCGcc-UCCUGCg -3'
miRNA:   3'- -UGUCGCGCaa--------GUCCGGCucaAGGACG- -5'
18750 3' -56.1 NC_004683.1 + 400 0.69 0.493698
Target:  5'- cGCAGCGCcugCuGGCCGAGaaccgucUCCaUGCg -3'
miRNA:   3'- -UGUCGCGcaaGuCCGGCUCa------AGG-ACG- -5'
18750 3' -56.1 NC_004683.1 + 8625 0.69 0.493698
Target:  5'- cACGGCGa--UCAGGCCGgugcGGUggccgcCCUGCa -3'
miRNA:   3'- -UGUCGCgcaAGUCCGGC----UCAa-----GGACG- -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.