miRNA display CGI


Results 1 - 18 of 18 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
23546 3' -34.1 NC_005260.1 + 106898 0.66 1
Target:  5'- cCGGCUUAuugcACAA---GUCUUGAAAAc -3'
miRNA:   3'- uGUUGAAU----UGUUuaaUAGAACUUUUc -5'
23546 3' -34.1 NC_005260.1 + 22011 0.66 1
Target:  5'- aGCAACUacaAGCAAGUUAUCagUGGc--- -3'
miRNA:   3'- -UGUUGAa--UUGUUUAAUAGa-ACUuuuc -5'
23546 3' -34.1 NC_005260.1 + 70244 0.67 1
Target:  5'- aACAGCguggAACGAAcUGUCUUGccGGGu -3'
miRNA:   3'- -UGUUGaa--UUGUUUaAUAGAACuuUUC- -5'
23546 3' -34.1 NC_005260.1 + 60948 0.68 1
Target:  5'- aACAACUUAAagcg-UAUCUgaaaGAAAAGc -3'
miRNA:   3'- -UGUUGAAUUguuuaAUAGAa---CUUUUC- -5'
23546 3' -34.1 NC_005260.1 + 72300 0.68 1
Target:  5'- uACAGCUUGACAAAagcgcguggUAUUgaaGGAGAGu -3'
miRNA:   3'- -UGUUGAAUUGUUUa--------AUAGaa-CUUUUC- -5'
23546 3' -34.1 NC_005260.1 + 41947 0.7 1
Target:  5'- gACAGCUUGGCAGAUgaccaaacacggCaUGAAGGGu -3'
miRNA:   3'- -UGUUGAAUUGUUUAaua---------GaACUUUUC- -5'
23546 3' -34.1 NC_005260.1 + 22876 0.7 1
Target:  5'- cGCAAUgggAACAAAgUAUCagGAAAAGa -3'
miRNA:   3'- -UGUUGaa-UUGUUUaAUAGaaCUUUUC- -5'
23546 3' -34.1 NC_005260.1 + 187674 0.7 1
Target:  5'- -aAGCUUGAUgucaAAGUgucuaGUCUUGAGAAGa -3'
miRNA:   3'- ugUUGAAUUG----UUUAa----UAGAACUUUUC- -5'
23546 3' -34.1 NC_005260.1 + 186385 0.7 1
Target:  5'- gAUAAUUUGuUAAGUUGUCUUGcAAAGu -3'
miRNA:   3'- -UGUUGAAUuGUUUAAUAGAACuUUUC- -5'
23546 3' -34.1 NC_005260.1 + 9732 0.7 1
Target:  5'- aACAACUUGaugGCAGAUUugcagAUCaaGAAAGGg -3'
miRNA:   3'- -UGUUGAAU---UGUUUAA-----UAGaaCUUUUC- -5'
23546 3' -34.1 NC_005260.1 + 31754 0.71 1
Target:  5'- uACAAaaaAGCAGAUacGUCUUGGAAAGa -3'
miRNA:   3'- -UGUUgaaUUGUUUAa-UAGAACUUUUC- -5'
23546 3' -34.1 NC_005260.1 + 32964 0.75 1
Target:  5'- aACAGCUcGGCGGAUUGUCauuccUUGAGGAu -3'
miRNA:   3'- -UGUUGAaUUGUUUAAUAG-----AACUUUUc -5'
23546 3' -34.1 NC_005260.1 + 119597 0.66 1
Target:  5'- gACAGCUUGACGcuuGAUUGU--UGAAcAGc -3'
miRNA:   3'- -UGUUGAAUUGU---UUAAUAgaACUUuUC- -5'
23546 3' -34.1 NC_005260.1 + 51707 0.68 1
Target:  5'- uGCAGugUGGCAGAUUGUauuugUGGAAAGa -3'
miRNA:   3'- -UGUUgaAUUGUUUAAUAga---ACUUUUC- -5'
23546 3' -34.1 NC_005260.1 + 69923 0.69 1
Target:  5'- cCAACUguucgccauguguuaUAACAAaaGUUGUCUUGAAu-- -3'
miRNA:   3'- uGUUGA---------------AUUGUU--UAAUAGAACUUuuc -5'
23546 3' -34.1 NC_005260.1 + 169151 0.71 1
Target:  5'- gGCGACUUcGCAGAUUAUCg------- -3'
miRNA:   3'- -UGUUGAAuUGUUUAAUAGaacuuuuc -5'
23546 3' -34.1 NC_005260.1 + 77066 0.73 1
Target:  5'- aGCAACaagAGCAAAU-GUCUUGAAGu- -3'
miRNA:   3'- -UGUUGaa-UUGUUUAaUAGAACUUUuc -5'
23546 3' -34.1 NC_005260.1 + 186135 1.13 0.433787
Target:  5'- gACAACUUAACAAAUUAUCUUGAAAAGu -3'
miRNA:   3'- -UGUUGAAUUGUUUAAUAGAACUUUUC- -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.