miRNA display CGI


Results 1 - 20 of 47 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
23456 5' -50.7 NC_005259.1 + 21036 0.66 0.965327
Target:  5'- ---gAUGACCGGCGcgcguucaAGGUCGCCGc-- -3'
miRNA:   3'- ccagUGCUGGCUGU--------UCUAGCGGUuac -5'
23456 5' -50.7 NC_005259.1 + 19688 0.66 0.965327
Target:  5'- aGGUCGgGAUCGAgCAGGcUCGCaCGuUGg -3'
miRNA:   3'- -CCAGUgCUGGCU-GUUCuAGCG-GUuAC- -5'
23456 5' -50.7 NC_005259.1 + 13830 0.66 0.965327
Target:  5'- cGUgAUGACCGACGGGcacAUUGCCc--- -3'
miRNA:   3'- cCAgUGCUGGCUGUUC---UAGCGGuuac -5'
23456 5' -50.7 NC_005259.1 + 2733 0.66 0.961689
Target:  5'- --aCACcACCGAugcCGAGGUCGCCGucGUGc -3'
miRNA:   3'- ccaGUGcUGGCU---GUUCUAGCGGU--UAC- -5'
23456 5' -50.7 NC_005259.1 + 3073 0.66 0.961689
Target:  5'- gGGcCGaGGCCGACAAGAgagccgCGCagCGAUGa -3'
miRNA:   3'- -CCaGUgCUGGCUGUUCUa-----GCG--GUUAC- -5'
23456 5' -50.7 NC_005259.1 + 17341 0.66 0.957795
Target:  5'- cGGUCaACGucGCCGuCGAGGUCGgCGGc- -3'
miRNA:   3'- -CCAG-UGC--UGGCuGUUCUAGCgGUUac -5'
23456 5' -50.7 NC_005259.1 + 27996 0.66 0.957795
Target:  5'- uGGU-GCGgguGCCGggGCGGGGUCGCCGGg- -3'
miRNA:   3'- -CCAgUGC---UGGC--UGUUCUAGCGGUUac -5'
23456 5' -50.7 NC_005259.1 + 15253 0.66 0.953639
Target:  5'- -aUCugGACCGcuaccuCAaucAGGUCGCCGAc- -3'
miRNA:   3'- ccAGugCUGGCu-----GU---UCUAGCGGUUac -5'
23456 5' -50.7 NC_005259.1 + 9682 0.66 0.953639
Target:  5'- --gCGCuGCCGGuCGAGGUCGCCGc-- -3'
miRNA:   3'- ccaGUGcUGGCU-GUUCUAGCGGUuac -5'
23456 5' -50.7 NC_005259.1 + 30003 0.66 0.949215
Target:  5'- uGGUCACca-CGACAAGGUgaccacCGCCGGg- -3'
miRNA:   3'- -CCAGUGcugGCUGUUCUA------GCGGUUac -5'
23456 5' -50.7 NC_005259.1 + 16721 0.66 0.949215
Target:  5'- aGGUCGCGcucugccucGCCacgcuCAAGAUCGCCc--- -3'
miRNA:   3'- -CCAGUGC---------UGGcu---GUUCUAGCGGuuac -5'
23456 5' -50.7 NC_005259.1 + 41299 0.67 0.944519
Target:  5'- cGUCACGAuCCGugagcGCGAGGUCGaCCu--- -3'
miRNA:   3'- cCAGUGCU-GGC-----UGUUCUAGC-GGuuac -5'
23456 5' -50.7 NC_005259.1 + 57680 0.67 0.939548
Target:  5'- cGGcCAauCGACCGugGccAGGUUGCCGGg- -3'
miRNA:   3'- -CCaGU--GCUGGCugU--UCUAGCGGUUac -5'
23456 5' -50.7 NC_005259.1 + 49731 0.67 0.934299
Target:  5'- ---gGCGGgCGGCGAGAgcugcUCGUCAGUGa -3'
miRNA:   3'- ccagUGCUgGCUGUUCU-----AGCGGUUAC- -5'
23456 5' -50.7 NC_005259.1 + 55180 0.67 0.934299
Target:  5'- cGGUCACGACCGuuGCGAuGAUgcacaCGaCCAGc- -3'
miRNA:   3'- -CCAGUGCUGGC--UGUU-CUA-----GC-GGUUac -5'
23456 5' -50.7 NC_005259.1 + 46531 0.67 0.928771
Target:  5'- cGGUCGgGgaucGCCGAgAucuGGUCGCCGAc- -3'
miRNA:   3'- -CCAGUgC----UGGCUgUu--CUAGCGGUUac -5'
23456 5' -50.7 NC_005259.1 + 36423 0.67 0.922962
Target:  5'- gGGUCAUGGuCUGcGCAGcGUCGCCGAg- -3'
miRNA:   3'- -CCAGUGCU-GGC-UGUUcUAGCGGUUac -5'
23456 5' -50.7 NC_005259.1 + 9716 0.68 0.90386
Target:  5'- cGUCcucgGGCCGGuCGAGcUCGCCGAUGu -3'
miRNA:   3'- cCAGug--CUGGCU-GUUCuAGCGGUUAC- -5'
23456 5' -50.7 NC_005259.1 + 67829 0.68 0.90386
Target:  5'- uGUCcuCGACCGGCAgcccggugagcGGGUCGaCCAAUc -3'
miRNA:   3'- cCAGu-GCUGGCUGU-----------UCUAGC-GGUUAc -5'
23456 5' -50.7 NC_005259.1 + 57954 0.68 0.90386
Target:  5'- aGGcCAUGGCCcccaugguCGAGGUCGCCGGg- -3'
miRNA:   3'- -CCaGUGCUGGcu------GUUCUAGCGGUUac -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.