miRNA display CGI


Results 1 - 20 of 25 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
22109 3' -56.2 NC_004927.1 + 72392 0.66 0.788001
Target:  5'- gGCGACCCgGACUcc-GCUCGugGugaagACCCu -3'
miRNA:   3'- -UGUUGGG-CUGAcuuCGGGCugC-----UGGG- -5'
22109 3' -56.2 NC_004927.1 + 69356 0.66 0.788001
Target:  5'- gACAGCCCGA----AGCCgGuuuCGACCg -3'
miRNA:   3'- -UGUUGGGCUgacuUCGGgCu--GCUGGg -5'
22109 3' -56.2 NC_004927.1 + 66310 0.66 0.768762
Target:  5'- cGCAcuccGCCgGAUUaaGAAGCCCGGCG-CUa -3'
miRNA:   3'- -UGU----UGGgCUGA--CUUCGGGCUGCuGGg -5'
22109 3' -56.2 NC_004927.1 + 33167 0.66 0.758941
Target:  5'- gGCGGgUUGGCgGucGGCCCGGCGuaGCCCu -3'
miRNA:   3'- -UGUUgGGCUGaCu-UCGGGCUGC--UGGG- -5'
22109 3' -56.2 NC_004927.1 + 46915 0.66 0.758941
Target:  5'- gACAACCCGcgUGAcGCCUuuGACGACg- -3'
miRNA:   3'- -UGUUGGGCugACUuCGGG--CUGCUGgg -5'
22109 3' -56.2 NC_004927.1 + 21212 0.66 0.749001
Target:  5'- aGCGuCCaCGAUgagGGAcuGCCCGuaggACGACCCg -3'
miRNA:   3'- -UGUuGG-GCUGa--CUU--CGGGC----UGCUGGG- -5'
22109 3' -56.2 NC_004927.1 + 67429 0.67 0.7288
Target:  5'- aACGACCCGuGC-GAAGgaCGACGACUa -3'
miRNA:   3'- -UGUUGGGC-UGaCUUCggGCUGCUGGg -5'
22109 3' -56.2 NC_004927.1 + 56087 0.67 0.724714
Target:  5'- cGCGACCCGAUuaUGAAggucgucGUUCGAgggaagcagguucaCGACCCg -3'
miRNA:   3'- -UGUUGGGCUG--ACUU-------CGGGCU--------------GCUGGG- -5'
22109 3' -56.2 NC_004927.1 + 69194 0.67 0.71856
Target:  5'- -gAACCCGGCcc--GCCCGAaGACCg -3'
miRNA:   3'- ugUUGGGCUGacuuCGGGCUgCUGGg -5'
22109 3' -56.2 NC_004927.1 + 17496 0.67 0.70824
Target:  5'- aACAGCCCGAacacggcaguCUGAGGgUCGcuACGACUg -3'
miRNA:   3'- -UGUUGGGCU----------GACUUCgGGC--UGCUGGg -5'
22109 3' -56.2 NC_004927.1 + 64298 0.68 0.676907
Target:  5'- aGCGGCCCGACUacuaucucGGAGUggacuacgaCGGCGAgCCg -3'
miRNA:   3'- -UGUUGGGCUGA--------CUUCGg--------GCUGCUgGG- -5'
22109 3' -56.2 NC_004927.1 + 35788 0.68 0.676907
Target:  5'- aGCcGCCCGACcGAGcuacGUCCGugGaggacGCCCa -3'
miRNA:   3'- -UGuUGGGCUGaCUU----CGGGCugC-----UGGG- -5'
22109 3' -56.2 NC_004927.1 + 50813 0.68 0.655804
Target:  5'- aACggUgCGAUUGAAGUCaucaACGGCCCg -3'
miRNA:   3'- -UGuuGgGCUGACUUCGGgc--UGCUGGG- -5'
22109 3' -56.2 NC_004927.1 + 45911 0.69 0.624021
Target:  5'- gACGACCUGcucgUGGAGUuuGACGACUa -3'
miRNA:   3'- -UGUUGGGCug--ACUUCGggCUGCUGGg -5'
22109 3' -56.2 NC_004927.1 + 305 0.69 0.613428
Target:  5'- gACGGCCCGcGC-GggGCaggggcaggggCCGAcCGGCCCg -3'
miRNA:   3'- -UGUUGGGC-UGaCuuCG-----------GGCU-GCUGGG- -5'
22109 3' -56.2 NC_004927.1 + 75822 0.69 0.613428
Target:  5'- gACGGCCCGcGC-GggGCaggggcaggggCCGAcCGGCCCg -3'
miRNA:   3'- -UGUUGGGC-UGaCuuCG-----------GGCU-GCUGGG- -5'
22109 3' -56.2 NC_004927.1 + 15074 0.69 0.61237
Target:  5'- --cGCCCGugUucggagcGAAGCCCGccGCGACUg -3'
miRNA:   3'- uguUGGGCugA-------CUUCGGGC--UGCUGGg -5'
22109 3' -56.2 NC_004927.1 + 21273 0.69 0.592296
Target:  5'- --cAUCCGACUcGucGCCgGGCGACCg -3'
miRNA:   3'- uguUGGGCUGA-CuuCGGgCUGCUGGg -5'
22109 3' -56.2 NC_004927.1 + 56461 0.69 0.570242
Target:  5'- aACAGCUCGACagccggaUGAAGCCCGGugggugguuccuUGACUUg -3'
miRNA:   3'- -UGUUGGGCUG-------ACUUCGGGCU------------GCUGGG- -5'
22109 3' -56.2 NC_004927.1 + 56153 0.7 0.56085
Target:  5'- gACcACuuGGC-GGcuCCCGACGACCCu -3'
miRNA:   3'- -UGuUGggCUGaCUucGGGCUGCUGGG- -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.