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
29269 3' -55.2 NC_006150.1 + 109142 0.66 0.978662
Target:  5'- --aGGcAUCCACCuguUCCGcgGcCGAGGa -3'
miRNA:   3'- ccaCC-UAGGUGG---AGGCuaCuGCUCCg -5'
29269 3' -55.2 NC_006150.1 + 113632 0.66 0.978662
Target:  5'- uGGUGGcGUCCgACagUCgGAcggagaugcggcUGGCGAGGCc -3'
miRNA:   3'- -CCACC-UAGG-UGg-AGgCU------------ACUGCUCCG- -5'
29269 3' -55.2 NC_006150.1 + 44148 0.66 0.977306
Target:  5'- gGGUGGAguaUCCAUgaaCUCgGuuggccaauagcuguGUGACGAGGa -3'
miRNA:   3'- -CCACCU---AGGUG---GAGgC---------------UACUGCUCCg -5'
29269 3' -55.2 NC_006150.1 + 183514 0.66 0.976368
Target:  5'- --cGGAUUCugCgugggcUCCGGUG-CGGGGUg -3'
miRNA:   3'- ccaCCUAGGugG------AGGCUACuGCUCCG- -5'
29269 3' -55.2 NC_006150.1 + 111461 0.66 0.976368
Target:  5'- uGGUGGAcgaUGCCgCCGAgGACGAuGGUu -3'
miRNA:   3'- -CCACCUag-GUGGaGGCUaCUGCU-CCG- -5'
29269 3' -55.2 NC_006150.1 + 88387 0.66 0.973897
Target:  5'- --aGGAUCCAgC-CCGcgG-CGGGGUg -3'
miRNA:   3'- ccaCCUAGGUgGaGGCuaCuGCUCCG- -5'
29269 3' -55.2 NC_006150.1 + 219786 0.66 0.973897
Target:  5'- gGGUGGA---ACgUCCGA-GGCGGGcGCg -3'
miRNA:   3'- -CCACCUaggUGgAGGCUaCUGCUC-CG- -5'
29269 3' -55.2 NC_006150.1 + 118977 0.67 0.958696
Target:  5'- uGGUGGAgaacgCCACgCUCUGucGAC-AGGCc -3'
miRNA:   3'- -CCACCUa----GGUG-GAGGCuaCUGcUCCG- -5'
29269 3' -55.2 NC_006150.1 + 87465 0.67 0.95119
Target:  5'- aGGUcuGaGAUCauaACCUuucCCGAUGACGuAGGUg -3'
miRNA:   3'- -CCA--C-CUAGg--UGGA---GGCUACUGC-UCCG- -5'
29269 3' -55.2 NC_006150.1 + 103694 0.67 0.947116
Target:  5'- ---cGAUCCAgUgcaaaaacaCGAUGACGAGGCa -3'
miRNA:   3'- ccacCUAGGUgGag-------GCUACUGCUCCG- -5'
29269 3' -55.2 NC_006150.1 + 12960 0.68 0.933575
Target:  5'- aGGUGGAaCUuuCCUCgGgcGugGGGGUg -3'
miRNA:   3'- -CCACCUaGGu-GGAGgCuaCugCUCCG- -5'
29269 3' -55.2 NC_006150.1 + 116261 0.68 0.933575
Target:  5'- -uUGGGUCCGCCacgcagCCGgcGugGAuaGGCc -3'
miRNA:   3'- ccACCUAGGUGGa-----GGCuaCugCU--CCG- -5'
29269 3' -55.2 NC_006150.1 + 72105 0.68 0.923435
Target:  5'- gGGaGGAUCCuga--CGAUGACGAGGa -3'
miRNA:   3'- -CCaCCUAGGuggagGCUACUGCUCCg -5'
29269 3' -55.2 NC_006150.1 + 149265 0.69 0.918029
Target:  5'- aGG-GGcuUCCACCUCgGGUcguaGGCGAcGGCg -3'
miRNA:   3'- -CCaCCu-AGGUGGAGgCUA----CUGCU-CCG- -5'
29269 3' -55.2 NC_006150.1 + 61801 0.69 0.906551
Target:  5'- -uUGGAUCacuUCUUCGAUGAgGGGGUu -3'
miRNA:   3'- ccACCUAGgu-GGAGGCUACUgCUCCG- -5'
29269 3' -55.2 NC_006150.1 + 118811 0.69 0.900481
Target:  5'- aGUGGAUgaggCCACgCUCC-AUGGCGucGGCg -3'
miRNA:   3'- cCACCUA----GGUG-GAGGcUACUGCu-CCG- -5'
29269 3' -55.2 NC_006150.1 + 201633 0.69 0.894194
Target:  5'- --gGGAUCgGCCUCCGAUcGCccaGGGGUu -3'
miRNA:   3'- ccaCCUAGgUGGAGGCUAcUG---CUCCG- -5'
29269 3' -55.2 NC_006150.1 + 48007 0.7 0.874062
Target:  5'- --gGGGUCCucGCCUCCaGAagcUGAggcCGAGGCa -3'
miRNA:   3'- ccaCCUAGG--UGGAGG-CU---ACU---GCUCCG- -5'
29269 3' -55.2 NC_006150.1 + 47406 0.7 0.874062
Target:  5'- aGGUaGGAUCCACUUC-GAgauCGAGGUc -3'
miRNA:   3'- -CCA-CCUAGGUGGAGgCUacuGCUCCG- -5'
29269 3' -55.2 NC_006150.1 + 174269 0.71 0.819431
Target:  5'- cGGUGaggaaagcacacaGGUCCACCUCCauaucaaucauGGUGuguccCGAGGCa -3'
miRNA:   3'- -CCAC-------------CUAGGUGGAGG-----------CUACu----GCUCCG- -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.