miRNA display CGI


Results 1 - 20 of 55 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
25756 3' -58 NC_005337.1 + 22652 0.66 0.770272
Target:  5'- uUCGgcGCGGacgcGCGGCugCGGGagcgCUUCg -3'
miRNA:   3'- -AGCuaCGCCa---CGUCGugGUCCa---GGAG- -5'
25756 3' -58 NC_005337.1 + 29369 0.66 0.760786
Target:  5'- cUCGAcgGCGGccgucGCGGCGCUggugGGGUCCc- -3'
miRNA:   3'- -AGCUa-CGCCa----CGUCGUGG----UCCAGGag -5'
25756 3' -58 NC_005337.1 + 110474 0.66 0.797953
Target:  5'- gUCGcccGUGCGGcGCAgGUACCGGG-CCa- -3'
miRNA:   3'- -AGC---UACGCCaCGU-CGUGGUCCaGGag -5'
25756 3' -58 NC_005337.1 + 82516 0.66 0.797953
Target:  5'- aCGggGCGGccgucCAGCGCCAGGgcgggcagCCUg -3'
miRNA:   3'- aGCuaCGCCac---GUCGUGGUCCa-------GGAg -5'
25756 3' -58 NC_005337.1 + 111427 0.66 0.779635
Target:  5'- gCGccGCGGUcCAGCACgAGcgggucGUCCUCg -3'
miRNA:   3'- aGCuaCGCCAcGUCGUGgUC------CAGGAG- -5'
25756 3' -58 NC_005337.1 + 31519 0.66 0.779635
Target:  5'- -gGAUGCucacGGUGCAgGUGCCGcGGUUCUUg -3'
miRNA:   3'- agCUACG----CCACGU-CGUGGU-CCAGGAG- -5'
25756 3' -58 NC_005337.1 + 89638 0.66 0.766492
Target:  5'- cCGcUGCGGcgcacgaucaggaGCAGCGCCuucAGGUUCUCc -3'
miRNA:   3'- aGCuACGCCa------------CGUCGUGG---UCCAGGAG- -5'
25756 3' -58 NC_005337.1 + 58972 0.66 0.788865
Target:  5'- gUCGcgGCaGUucacGCAGCuguuCCGGGUgCUCa -3'
miRNA:   3'- -AGCuaCGcCA----CGUCGu---GGUCCAgGAG- -5'
25756 3' -58 NC_005337.1 + 128808 0.66 0.770272
Target:  5'- cCGA-GCGGUGCcGCACCAccguguGGUaCgUCa -3'
miRNA:   3'- aGCUaCGCCACGuCGUGGU------CCA-GgAG- -5'
25756 3' -58 NC_005337.1 + 37446 0.66 0.779635
Target:  5'- aCGccGCGGcUGC-GCACCcgcAGGUCCg- -3'
miRNA:   3'- aGCuaCGCC-ACGuCGUGG---UCCAGGag -5'
25756 3' -58 NC_005337.1 + 40874 0.66 0.788865
Target:  5'- cCGGUGCagaGG-GCGGCcguCCuGGUCCUg -3'
miRNA:   3'- aGCUACG---CCaCGUCGu--GGuCCAGGAg -5'
25756 3' -58 NC_005337.1 + 13770 0.66 0.788865
Target:  5'- cCGAacGCGGcgaGgGGCGCCAGGUCguagCUCg -3'
miRNA:   3'- aGCUa-CGCCa--CgUCGUGGUCCAG----GAG- -5'
25756 3' -58 NC_005337.1 + 74951 0.66 0.797953
Target:  5'- -gGAUGCGGUGCuggggcuccgcGGCuacgcgauagcgGCCGGGUCg-- -3'
miRNA:   3'- agCUACGCCACG-----------UCG------------UGGUCCAGgag -5'
25756 3' -58 NC_005337.1 + 24348 0.66 0.806004
Target:  5'- ----cGCGGUGCAGUGCCugcuggaGGaGUUCUCc -3'
miRNA:   3'- agcuaCGCCACGUCGUGG-------UC-CAGGAG- -5'
25756 3' -58 NC_005337.1 + 33728 0.67 0.701784
Target:  5'- -gGAUGCGGUcgcGCAGCACCccGUagacaucccccaCCUCc -3'
miRNA:   3'- agCUACGCCA---CGUCGUGGucCA------------GGAG- -5'
25756 3' -58 NC_005337.1 + 93752 0.67 0.701784
Target:  5'- cCGcgGCGGcUGCAugccGCACCucGUCUUCg -3'
miRNA:   3'- aGCuaCGCC-ACGU----CGUGGucCAGGAG- -5'
25756 3' -58 NC_005337.1 + 40549 0.67 0.731675
Target:  5'- gCGcgGUGGUGCGGUucuCgAGGaugUCCUCc -3'
miRNA:   3'- aGCuaCGCCACGUCGu--GgUCC---AGGAG- -5'
25756 3' -58 NC_005337.1 + 27215 0.67 0.721786
Target:  5'- cUGgcGCGccGCcGcCGCCAGGUCCUCg -3'
miRNA:   3'- aGCuaCGCcaCGuC-GUGGUCCAGGAG- -5'
25756 3' -58 NC_005337.1 + 6584 0.67 0.701784
Target:  5'- cCGGUcGCGGccacCGGCGCCAGGUCg-- -3'
miRNA:   3'- aGCUA-CGCCac--GUCGUGGUCCAGgag -5'
25756 3' -58 NC_005337.1 + 38469 0.67 0.701784
Target:  5'- uUC-AUGCGGUGC-GCGCCGGGcgcgcgCgUCg -3'
miRNA:   3'- -AGcUACGCCACGuCGUGGUCCa-----GgAG- -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.