miRNA display CGI


Results 1 - 20 of 27 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
31830 3' -55.2 NC_006938.1 + 48201 0.66 0.778037
Target:  5'- aGCgaGUCCUCGuu-CCGAGUGacguCGGCa -3'
miRNA:   3'- aCGggCAGGAGUuguGGCUCAU----GCUG- -5'
31830 3' -55.2 NC_006938.1 + 23577 0.66 0.757974
Target:  5'- aGCUgGUCCUCGcgGCuggcuUCGAGcucgGCGACg -3'
miRNA:   3'- aCGGgCAGGAGU--UGu----GGCUCa---UGCUG- -5'
31830 3' -55.2 NC_006938.1 + 18570 0.66 0.747747
Target:  5'- aUGCUCGUgCaCuuCGCCGAGauaUGCGGCa -3'
miRNA:   3'- -ACGGGCAgGaGuuGUGGCUC---AUGCUG- -5'
31830 3' -55.2 NC_006938.1 + 42380 0.66 0.741556
Target:  5'- cGCCUGucaagccgcacugcuUCCUCGGCGUCGAGUucuucgccgacGCGGCc -3'
miRNA:   3'- aCGGGC---------------AGGAGUUGUGGCUCA-----------UGCUG- -5'
31830 3' -55.2 NC_006938.1 + 18606 0.67 0.726961
Target:  5'- gGCgCGUCCgaggCGGCgcagaaguACCGAG-ACGACc -3'
miRNA:   3'- aCGgGCAGGa---GUUG--------UGGCUCaUGCUG- -5'
31830 3' -55.2 NC_006938.1 + 48880 0.67 0.726961
Target:  5'- uUGCCuCGUCCUgCuccACGuuGAGU-CGACc -3'
miRNA:   3'- -ACGG-GCAGGA-Gu--UGUggCUCAuGCUG- -5'
31830 3' -55.2 NC_006938.1 + 24459 0.67 0.721704
Target:  5'- gGCCCGUggcaccgCCUCugggacgaagacuGCACgGAGgaggACGACg -3'
miRNA:   3'- aCGGGCA-------GGAGu------------UGUGgCUCa---UGCUG- -5'
31830 3' -55.2 NC_006938.1 + 59004 0.67 0.716424
Target:  5'- cUGCCUcaaUCCUCGugGCCGA---CGACg -3'
miRNA:   3'- -ACGGGc--AGGAGUugUGGCUcauGCUG- -5'
31830 3' -55.2 NC_006938.1 + 11276 0.67 0.705805
Target:  5'- gUGCCacaGgCCUCGGCGUCGAGgaggaugGCGGCg -3'
miRNA:   3'- -ACGGg--CaGGAGUUGUGGCUCa------UGCUG- -5'
31830 3' -55.2 NC_006938.1 + 33051 0.67 0.684366
Target:  5'- aGCuCCGUCCguggCGACcuguacagggugGCCGAGUgguAUGGCu -3'
miRNA:   3'- aCG-GGCAGGa---GUUG------------UGGCUCA---UGCUG- -5'
31830 3' -55.2 NC_006938.1 + 55910 0.67 0.673568
Target:  5'- gUGCCCGgacaccguggCCUCugcuACAUCGuGUuCGACg -3'
miRNA:   3'- -ACGGGCa---------GGAGu---UGUGGCuCAuGCUG- -5'
31830 3' -55.2 NC_006938.1 + 39268 0.67 0.673568
Target:  5'- gGUCCGUCC--AACGCCGcg-ACGACc -3'
miRNA:   3'- aCGGGCAGGagUUGUGGCucaUGCUG- -5'
31830 3' -55.2 NC_006938.1 + 2036 0.68 0.656216
Target:  5'- gGCCCGUCUUCuuggcuauguaguuGCGCUGGGUcACG-Ca -3'
miRNA:   3'- aCGGGCAGGAGu-------------UGUGGCUCA-UGCuG- -5'
31830 3' -55.2 NC_006938.1 + 48787 0.68 0.651868
Target:  5'- cGCCaaaGUCCUUGACGaucgcaaugUCGAGUGUGACg -3'
miRNA:   3'- aCGGg--CAGGAGUUGU---------GGCUCAUGCUG- -5'
31830 3' -55.2 NC_006938.1 + 32978 0.68 0.651868
Target:  5'- cGcCCCGUUCUCcgUgggaugguggGCCGAGaGCGACg -3'
miRNA:   3'- aC-GGGCAGGAGuuG----------UGGCUCaUGCUG- -5'
31830 3' -55.2 NC_006938.1 + 2622 0.68 0.651868
Target:  5'- cGUaCCaGaUCCUCGGgAUCGAGUGCGGCc -3'
miRNA:   3'- aCG-GG-C-AGGAGUUgUGGCUCAUGCUG- -5'
31830 3' -55.2 NC_006938.1 + 50030 0.68 0.640986
Target:  5'- cUGCCUGg--UCAACugCGAGgGCGGCc -3'
miRNA:   3'- -ACGGGCaggAGUUGugGCUCaUGCUG- -5'
31830 3' -55.2 NC_006938.1 + 47789 0.7 0.512321
Target:  5'- aGCCaauguucaaGUCgUCGGCuuCGAGUACGGCu -3'
miRNA:   3'- aCGGg--------CAGgAGUUGugGCUCAUGCUG- -5'
31830 3' -55.2 NC_006938.1 + 63112 0.7 0.501998
Target:  5'- cGUCUGUgC-CGAgGCCGAGUAUGGCc -3'
miRNA:   3'- aCGGGCAgGaGUUgUGGCUCAUGCUG- -5'
31830 3' -55.2 NC_006938.1 + 27344 0.71 0.491766
Target:  5'- cGCUgGUCCgCGAgACCGAGUACa-- -3'
miRNA:   3'- aCGGgCAGGaGUUgUGGCUCAUGcug -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.