miRNA display CGI


Results 1 - 20 of 31 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
26765 3' -54.1 NC_005808.1 + 3870 0.66 0.734158
Target:  5'- gGCGCCGUc-GCUguagGCCGc-GCUGCCg -3'
miRNA:   3'- -CGUGGCAccUGAa---UGGCaaCGACGGg -5'
26765 3' -54.1 NC_005808.1 + 15155 0.66 0.734158
Target:  5'- uGCGCCcaGGGCgacgGCUGaUGUUGCUCc -3'
miRNA:   3'- -CGUGGcaCCUGaa--UGGCaACGACGGG- -5'
26765 3' -54.1 NC_005808.1 + 27073 0.66 0.723334
Target:  5'- gGCACCGUGca--UAUCGgc-CUGCCCa -3'
miRNA:   3'- -CGUGGCACcugaAUGGCaacGACGGG- -5'
26765 3' -54.1 NC_005808.1 + 17905 0.66 0.723334
Target:  5'- gGCACCGaUGGACa-GCCuggGCguggacgugGCCCg -3'
miRNA:   3'- -CGUGGC-ACCUGaaUGGcaaCGa--------CGGG- -5'
26765 3' -54.1 NC_005808.1 + 5474 0.66 0.720068
Target:  5'- gGCGgCGaGGugUUGCCGaUgggggguacggcgaUGCUGCCa -3'
miRNA:   3'- -CGUgGCaCCugAAUGGC-A--------------ACGACGGg -5'
26765 3' -54.1 NC_005808.1 + 36355 0.66 0.690343
Target:  5'- cGCACCGU-----UACCGgcgUGCagGCCCu -3'
miRNA:   3'- -CGUGGCAccugaAUGGCa--ACGa-CGGG- -5'
26765 3' -54.1 NC_005808.1 + 29047 0.67 0.679213
Target:  5'- uCGCCGUGGGC--ACCGagucagGCgGCCg -3'
miRNA:   3'- cGUGGCACCUGaaUGGCaa----CGaCGGg -5'
26765 3' -54.1 NC_005808.1 + 40156 0.67 0.679213
Target:  5'- aCAUCGUGGcgccgauCUUcgagGCCGgccUGCUGCCg -3'
miRNA:   3'- cGUGGCACCu------GAA----UGGCa--ACGACGGg -5'
26765 3' -54.1 NC_005808.1 + 35518 0.67 0.669155
Target:  5'- cGCGCCGUGGGuagGCCGcgGCgucaugaaguaccugGCCg -3'
miRNA:   3'- -CGUGGCACCUgaaUGGCaaCGa--------------CGGg -5'
26765 3' -54.1 NC_005808.1 + 6295 0.67 0.656824
Target:  5'- gGCGCCG-GGGCUUAucuCCGgUGCgUGCa- -3'
miRNA:   3'- -CGUGGCaCCUGAAU---GGCaACG-ACGgg -5'
26765 3' -54.1 NC_005808.1 + 22750 0.67 0.645588
Target:  5'- aGCAgaGUGGACUUGCCcaggGUgaggGCCg -3'
miRNA:   3'- -CGUggCACCUGAAUGGcaa-CGa---CGGg -5'
26765 3' -54.1 NC_005808.1 + 32519 0.67 0.634339
Target:  5'- cGCGCCcGUGcaGGCUggugaUGCCGgccaggaUGCUGCCg -3'
miRNA:   3'- -CGUGG-CAC--CUGA-----AUGGCa------ACGACGGg -5'
26765 3' -54.1 NC_005808.1 + 29933 0.67 0.634339
Target:  5'- aGUGCCGUGG-CUUGCCaGUcaggUGgUGCUUg -3'
miRNA:   3'- -CGUGGCACCuGAAUGG-CA----ACgACGGG- -5'
26765 3' -54.1 NC_005808.1 + 33824 0.67 0.634339
Target:  5'- cCAUCGUGc----GCCGcgUGCUGCCCg -3'
miRNA:   3'- cGUGGCACcugaaUGGCa-ACGACGGG- -5'
26765 3' -54.1 NC_005808.1 + 14792 0.67 0.634339
Target:  5'- cGCGCgCGaGGACgUGCUGcgGCUGCgCg -3'
miRNA:   3'- -CGUG-GCaCCUGaAUGGCaaCGACGgG- -5'
26765 3' -54.1 NC_005808.1 + 28968 0.68 0.623088
Target:  5'- cGCGCC--GGACUugcugccgcUACCGaUGCUGUCg -3'
miRNA:   3'- -CGUGGcaCCUGA---------AUGGCaACGACGGg -5'
26765 3' -54.1 NC_005808.1 + 34596 0.68 0.600621
Target:  5'- gGCGCCaaGGGCacguccgacGCCGUggugcUGCUGCCUg -3'
miRNA:   3'- -CGUGGcaCCUGaa-------UGGCA-----ACGACGGG- -5'
26765 3' -54.1 NC_005808.1 + 13941 0.68 0.589425
Target:  5'- aGCGCCGUGGACUgga------UGCCCu -3'
miRNA:   3'- -CGUGGCACCUGAauggcaacgACGGG- -5'
26765 3' -54.1 NC_005808.1 + 8686 0.68 0.578267
Target:  5'- uGCGCCGcccaGGugUgcGCCGcgcagaUUGCUGCCg -3'
miRNA:   3'- -CGUGGCa---CCugAa-UGGC------AACGACGGg -5'
26765 3' -54.1 NC_005808.1 + 19498 0.68 0.567155
Target:  5'- uCGCCGUGGGCgccGCCGUUGgC-GUCg -3'
miRNA:   3'- cGUGGCACCUGaa-UGGCAAC-GaCGGg -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.