miRNA display CGI


Results 1 - 20 of 67 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
26551 3' -55.8 NC_005357.1 + 37297 0.66 0.615672
Target:  5'- cUGCGCGGcacguugcaguucaaCGGCGccaGCcGCACCGGa -3'
miRNA:   3'- -ACGCGUCa--------------GUCGCuaaCGuCGUGGCC- -5'
26551 3' -55.8 NC_005357.1 + 10091 0.66 0.603332
Target:  5'- aGCGaccuGGgCGGCGGUUGUcgGGaCGCCGGc -3'
miRNA:   3'- aCGCg---UCaGUCGCUAACG--UC-GUGGCC- -5'
26551 3' -55.8 NC_005357.1 + 25797 0.66 0.603332
Target:  5'- cGCGCGGcgcgcUCGGUaucGUUGaucuGCACCGGg -3'
miRNA:   3'- aCGCGUC-----AGUCGc--UAACgu--CGUGGCC- -5'
26551 3' -55.8 NC_005357.1 + 18822 0.66 0.603332
Target:  5'- gGCGCAGgaagCuGCGAauuUUGCgcGGCauguagaagGCCGGg -3'
miRNA:   3'- aCGCGUCa---GuCGCU---AACG--UCG---------UGGCC- -5'
26551 3' -55.8 NC_005357.1 + 17542 0.66 0.603332
Target:  5'- cGCGUugacuugauuGGUCAGaauGAUguCGGCGCCGGu -3'
miRNA:   3'- aCGCG----------UCAGUCg--CUAacGUCGUGGCC- -5'
26551 3' -55.8 NC_005357.1 + 8656 0.66 0.592141
Target:  5'- cGCGCcGUacucgcugugugCAGCGGcUGCuGCGCCGc -3'
miRNA:   3'- aCGCGuCA------------GUCGCUaACGuCGUGGCc -5'
26551 3' -55.8 NC_005357.1 + 27720 0.66 0.592141
Target:  5'- gGCGCAGggcauggaGGCGcaacUGCAG-GCCGGg -3'
miRNA:   3'- aCGCGUCag------UCGCua--ACGUCgUGGCC- -5'
26551 3' -55.8 NC_005357.1 + 18367 0.66 0.592141
Target:  5'- uUGC-CGG-CGGCGAgguuggccUUGCcgauGGCGCCGGu -3'
miRNA:   3'- -ACGcGUCaGUCGCU--------AACG----UCGUGGCC- -5'
26551 3' -55.8 NC_005357.1 + 307 0.66 0.580986
Target:  5'- cGCGCucuuccGUcCAGgGcgUGCcGUACCGGg -3'
miRNA:   3'- aCGCGu-----CA-GUCgCuaACGuCGUGGCC- -5'
26551 3' -55.8 NC_005357.1 + 11250 0.66 0.569874
Target:  5'- aGCGU----GGCGAUgaggguuugcgcUGCGGCGCUGGg -3'
miRNA:   3'- aCGCGucagUCGCUA------------ACGUCGUGGCC- -5'
26551 3' -55.8 NC_005357.1 + 6176 0.67 0.564338
Target:  5'- aGCGCAGgccggucuugccgCAGCGuUUGCaggugacGGCGCgCGGc -3'
miRNA:   3'- aCGCGUCa------------GUCGCuAACG-------UCGUG-GCC- -5'
26551 3' -55.8 NC_005357.1 + 13904 0.67 0.558816
Target:  5'- gGCGUcggGGUUguuccaguucagGGCGAUgucgcGCAGCGCCGu -3'
miRNA:   3'- aCGCG---UCAG------------UCGCUAa----CGUCGUGGCc -5'
26551 3' -55.8 NC_005357.1 + 8969 0.67 0.558816
Target:  5'- cGCGaUAGcCAGCGug-GCcGUGCCGGa -3'
miRNA:   3'- aCGC-GUCaGUCGCuaaCGuCGUGGCC- -5'
26551 3' -55.8 NC_005357.1 + 18716 0.67 0.547818
Target:  5'- aGCGCA-UCGGUacg-GCGGCACgGGa -3'
miRNA:   3'- aCGCGUcAGUCGcuaaCGUCGUGgCC- -5'
26551 3' -55.8 NC_005357.1 + 31280 0.67 0.547818
Target:  5'- gUGCGCAGgCGGCcca-GCAGCagGCCGa -3'
miRNA:   3'- -ACGCGUCaGUCGcuaaCGUCG--UGGCc -5'
26551 3' -55.8 NC_005357.1 + 10898 0.67 0.535801
Target:  5'- gGCGCuGUuuccacggcaacaCAGCGAggcccaGCAGCacGCCGGc -3'
miRNA:   3'- aCGCGuCA-------------GUCGCUaa----CGUCG--UGGCC- -5'
26551 3' -55.8 NC_005357.1 + 28576 0.67 0.526038
Target:  5'- cGCGCAcGUCGGCcaccgGCAGCGuggugUCGGu -3'
miRNA:   3'- aCGCGU-CAGUCGcuaa-CGUCGU-----GGCC- -5'
26551 3' -55.8 NC_005357.1 + 21664 0.67 0.526038
Target:  5'- cGCGCgaugAGUCgAGCGcggcGCAGCGCCu- -3'
miRNA:   3'- aCGCG----UCAG-UCGCuaa-CGUCGUGGcc -5'
26551 3' -55.8 NC_005357.1 + 38560 0.67 0.526038
Target:  5'- aGCGCGGccuaCAGCGA---CGGCGCCuGGu -3'
miRNA:   3'- aCGCGUCa---GUCGCUaacGUCGUGG-CC- -5'
26551 3' -55.8 NC_005357.1 + 24304 0.67 0.51527
Target:  5'- gGCGgugaGGUCGGCGA--GCAGC-CgCGGg -3'
miRNA:   3'- aCGCg---UCAGUCGCUaaCGUCGuG-GCC- -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.