miRNA display CGI


Results 1 - 20 of 28 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
11986 5' -54.6 NC_003278.1 + 13237 0.66 0.656665
Target:  5'- -gGGCGGCcugcaccgucaccaCGACAACGgcaggCGAUGGg -3'
miRNA:   3'- agUCGCCGa-------------GCUGUUGCaa---GCUGCCa -5'
11986 5' -54.6 NC_003278.1 + 7827 0.66 0.651008
Target:  5'- cCGGCGGUgcgacCGuagugccgccagcACAGCGccUCGACGGUg -3'
miRNA:   3'- aGUCGCCGa----GC-------------UGUUGCa-AGCUGCCA- -5'
11986 5' -54.6 NC_003278.1 + 17694 0.66 0.648743
Target:  5'- gUCGGCGcugaugccggucacGCcguugaCGGCGACGUUCGACaGGg -3'
miRNA:   3'- -AGUCGC--------------CGa-----GCUGUUGCAAGCUG-CCa -5'
11986 5' -54.6 NC_003278.1 + 2275 0.66 0.618145
Target:  5'- gCGGCGGCUCGuACcaccgccCGUUCGGCc-- -3'
miRNA:   3'- aGUCGCCGAGC-UGuu-----GCAAGCUGcca -5'
11986 5' -54.6 NC_003278.1 + 32600 0.66 0.618145
Target:  5'- cCGGCGcGCgcgggccgCGACAGagaaugcgcCGUUCGugGGg -3'
miRNA:   3'- aGUCGC-CGa-------GCUGUU---------GCAAGCugCCa -5'
11986 5' -54.6 NC_003278.1 + 32328 0.66 0.618145
Target:  5'- gCAGCGGCaugCGGCcgagGAUGUcgcCGACGGc -3'
miRNA:   3'- aGUCGCCGa--GCUG----UUGCAa--GCUGCCa -5'
11986 5' -54.6 NC_003278.1 + 5444 0.67 0.611352
Target:  5'- gUCAGCGGCaccaUCGcCAGcCGUaccgauaccacuggCGACGGUg -3'
miRNA:   3'- -AGUCGCCG----AGCuGUU-GCAa-------------GCUGCCA- -5'
11986 5' -54.6 NC_003278.1 + 31662 0.67 0.59553
Target:  5'- gUCcGCGGgUCGGCAACG-UCGA-GGc -3'
miRNA:   3'- -AGuCGCCgAGCUGUUGCaAGCUgCCa -5'
11986 5' -54.6 NC_003278.1 + 30830 0.67 0.584266
Target:  5'- aCAGCGGCcagaGCGGCGUgaUCGGuCGGUu -3'
miRNA:   3'- aGUCGCCGagc-UGUUGCA--AGCU-GCCA- -5'
11986 5' -54.6 NC_003278.1 + 27804 0.67 0.561876
Target:  5'- cUCAGCcuGGUUCuGGuCGAC-UUCGACGGUg -3'
miRNA:   3'- -AGUCG--CCGAG-CU-GUUGcAAGCUGCCA- -5'
11986 5' -54.6 NC_003278.1 + 12282 0.68 0.539724
Target:  5'- aCGGCGGCgucauaccgGGCGGCGcuaCGACGGg -3'
miRNA:   3'- aGUCGCCGag-------CUGUUGCaa-GCUGCCa -5'
11986 5' -54.6 NC_003278.1 + 29914 0.68 0.536426
Target:  5'- aCAGCGGCUUGAacuCGUcccagucgaaggacUUGGCGGc -3'
miRNA:   3'- aGUCGCCGAGCUguuGCA--------------AGCUGCCa -5'
11986 5' -54.6 NC_003278.1 + 5389 0.68 0.533135
Target:  5'- cCAGCuucugcuggacacucGGCUCGACGGCGaaggucuggaCGGCGGa -3'
miRNA:   3'- aGUCG---------------CCGAGCUGUUGCaa--------GCUGCCa -5'
11986 5' -54.6 NC_003278.1 + 31392 0.68 0.528758
Target:  5'- gUCGGCGGCUCGcACu-CGcccagCGAUGGc -3'
miRNA:   3'- -AGUCGCCGAGC-UGuuGCaa---GCUGCCa -5'
11986 5' -54.6 NC_003278.1 + 13666 0.68 0.516793
Target:  5'- uUCGGCGGCcaggcgcucaaguUCGGUGGCGUUgCGugGGa -3'
miRNA:   3'- -AGUCGCCG-------------AGCUGUUGCAA-GCugCCa -5'
11986 5' -54.6 NC_003278.1 + 14057 0.68 0.507084
Target:  5'- cCA-CGGCcUGGCGACGaUCGACGGc -3'
miRNA:   3'- aGUcGCCGaGCUGUUGCaAGCUGCCa -5'
11986 5' -54.6 NC_003278.1 + 12875 0.68 0.504937
Target:  5'- gUCAGCGGUUCGGacuccagggcgaGGCGggCGGCGa- -3'
miRNA:   3'- -AGUCGCCGAGCUg-----------UUGCaaGCUGCca -5'
11986 5' -54.6 NC_003278.1 + 7426 0.69 0.485797
Target:  5'- cCAGCGGUagcgcUCGGCcAC-UUCGGCGGc -3'
miRNA:   3'- aGUCGCCG-----AGCUGuUGcAAGCUGCCa -5'
11986 5' -54.6 NC_003278.1 + 5754 0.69 0.485797
Target:  5'- gCAGCGGgUUGGCGGCGcggUUGGUGGUa -3'
miRNA:   3'- aGUCGCCgAGCUGUUGCa--AGCUGCCA- -5'
11986 5' -54.6 NC_003278.1 + 26982 0.69 0.454693
Target:  5'- gUUGGCGGUgagCGACAAUGauUUCGGCGaGUu -3'
miRNA:   3'- -AGUCGCCGa--GCUGUUGC--AAGCUGC-CA- -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.