miRNA display CGI


Results 1 - 20 of 40 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
24103 3' -57.3 NC_005262.1 + 22837 0.66 0.606653
Target:  5'- cGCGGCGaAGGCGCUCGuCGGcuaucucgccAGCGu-- -3'
miRNA:   3'- uUGCUGC-UCCGCGAGC-GCU----------UCGUcua -5'
24103 3' -57.3 NC_005262.1 + 24395 0.66 0.606653
Target:  5'- -cCGGCGGcGCGCacgucCGCGAAGguGAUg -3'
miRNA:   3'- uuGCUGCUcCGCGa----GCGCUUCguCUA- -5'
24103 3' -57.3 NC_005262.1 + 7764 0.66 0.606653
Target:  5'- uGCGGCG-GGCcCUUGCGGuuGCGGAUc -3'
miRNA:   3'- uUGCUGCuCCGcGAGCGCUu-CGUCUA- -5'
24103 3' -57.3 NC_005262.1 + 1743 0.66 0.595748
Target:  5'- uGCGA-GGGGCGCgggauucgagcUCGCGAucgauGCAGGUc -3'
miRNA:   3'- uUGCUgCUCCGCG-----------AGCGCUu----CGUCUA- -5'
24103 3' -57.3 NC_005262.1 + 12593 0.66 0.595748
Target:  5'- -cCGGCGAGGCG-UCGCGGaugAGCGc-- -3'
miRNA:   3'- uuGCUGCUCCGCgAGCGCU---UCGUcua -5'
24103 3' -57.3 NC_005262.1 + 57474 0.66 0.595748
Target:  5'- aAGCGGCG-GGCGC-CGacgaGAGGCGGc- -3'
miRNA:   3'- -UUGCUGCuCCGCGaGCg---CUUCGUCua -5'
24103 3' -57.3 NC_005262.1 + 35836 0.66 0.584874
Target:  5'- gAGCGGCGucGGCGC-CGCGAccgccCAGAUg -3'
miRNA:   3'- -UUGCUGCu-CCGCGaGCGCUuc---GUCUA- -5'
24103 3' -57.3 NC_005262.1 + 27562 0.66 0.584874
Target:  5'- -cCGGCGAGGaCGC-CGCGcAGCGcGAg -3'
miRNA:   3'- uuGCUGCUCC-GCGaGCGCuUCGU-CUa -5'
24103 3' -57.3 NC_005262.1 + 16500 0.66 0.574039
Target:  5'- --gGGCGAGGCGCUgggcgcugCGCuGggGCuGAc -3'
miRNA:   3'- uugCUGCUCCGCGA--------GCG-CuuCGuCUa -5'
24103 3' -57.3 NC_005262.1 + 20582 0.67 0.552518
Target:  5'- -cCGGCGAGcaGCGCgcggCGCGccGCAGGg -3'
miRNA:   3'- uuGCUGCUC--CGCGa---GCGCuuCGUCUa -5'
24103 3' -57.3 NC_005262.1 + 15719 0.67 0.541848
Target:  5'- -uCGGCGccGGGCgGCUCGuCGcGGCAGGUg -3'
miRNA:   3'- uuGCUGC--UCCG-CGAGC-GCuUCGUCUA- -5'
24103 3' -57.3 NC_005262.1 + 46986 0.67 0.541848
Target:  5'- uGugGGCGaAGGCaugGCgCGCGAcGCAGAUg -3'
miRNA:   3'- -UugCUGC-UCCG---CGaGCGCUuCGUCUA- -5'
24103 3' -57.3 NC_005262.1 + 57284 0.67 0.531247
Target:  5'- uGACGGCGAggucGGCGCgcugaUCGUcGAGCGGGUu -3'
miRNA:   3'- -UUGCUGCU----CCGCG-----AGCGcUUCGUCUA- -5'
24103 3' -57.3 NC_005262.1 + 17257 0.67 0.528081
Target:  5'- gAGCGGCGGccGGCGC-CGCGcugggcugcugcgcGGGCAGGg -3'
miRNA:   3'- -UUGCUGCU--CCGCGaGCGC--------------UUCGUCUa -5'
24103 3' -57.3 NC_005262.1 + 58336 0.67 0.520721
Target:  5'- gAACGGCGAGGUucGC-CGCGAGGUc--- -3'
miRNA:   3'- -UUGCUGCUCCG--CGaGCGCUUCGucua -5'
24103 3' -57.3 NC_005262.1 + 45388 0.67 0.520721
Target:  5'- cGCGcucauUGAGGCGCUCG-GAAGCcGGUg -3'
miRNA:   3'- uUGCu----GCUCCGCGAGCgCUUCGuCUA- -5'
24103 3' -57.3 NC_005262.1 + 36463 0.67 0.520721
Target:  5'- -cUGGCGcauGGGCGCgCGCGAGGCuGGc -3'
miRNA:   3'- uuGCUGC---UCCGCGaGCGCUUCGuCUa -5'
24103 3' -57.3 NC_005262.1 + 57498 0.67 0.520721
Target:  5'- -cCGACGAGGCGCcgaaguucagcgUCGCGccGGGCAu-- -3'
miRNA:   3'- uuGCUGCUCCGCG------------AGCGC--UUCGUcua -5'
24103 3' -57.3 NC_005262.1 + 45627 0.67 0.510279
Target:  5'- ----uUGGGGCGCUCGCGcgaucAGGCGGGc -3'
miRNA:   3'- uugcuGCUCCGCGAGCGC-----UUCGUCUa -5'
24103 3' -57.3 NC_005262.1 + 61130 0.67 0.510279
Target:  5'- gGACGguguACGAcGCGCUgGCGcAGCAGAUc -3'
miRNA:   3'- -UUGC----UGCUcCGCGAgCGCuUCGUCUA- -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.