miRNA display CGI


Results 1 - 15 of 15 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
26772 3' -55.2 NC_005808.1 + 34524 0.66 0.62813
Target:  5'- uACGUGCGCGccuuGGGCggugaaCUGAugGUCGa -3'
miRNA:   3'- uUGCACGCGCu---UCCG------GGCUugUAGUc -5'
26772 3' -55.2 NC_005808.1 + 29516 0.66 0.605504
Target:  5'- uGCGcGCGUGGAGGC-CGAGCGcCAa -3'
miRNA:   3'- uUGCaCGCGCUUCCGgGCUUGUaGUc -5'
26772 3' -55.2 NC_005808.1 + 11419 0.67 0.549525
Target:  5'- gAACGUGCGC---GGCCCGuGCuUCAc -3'
miRNA:   3'- -UUGCACGCGcuuCCGGGCuUGuAGUc -5'
26772 3' -55.2 NC_005808.1 + 32812 0.67 0.538503
Target:  5'- cGGCGUGCGCGAccuGGCCgcgugGAACgAUCuGg -3'
miRNA:   3'- -UUGCACGCGCUu--CCGGg----CUUG-UAGuC- -5'
26772 3' -55.2 NC_005808.1 + 20429 0.68 0.516695
Target:  5'- gAugGUGCGCGAAuucGGCaaGGACAagugCAGc -3'
miRNA:   3'- -UugCACGCGCUU---CCGggCUUGUa---GUC- -5'
26772 3' -55.2 NC_005808.1 + 40343 0.68 0.502711
Target:  5'- cGugGUGCGCGucgaacugccggccAAGGCCCG-GCGUUu- -3'
miRNA:   3'- -UugCACGCGC--------------UUCCGGGCuUGUAGuc -5'
26772 3' -55.2 NC_005808.1 + 26552 0.69 0.46387
Target:  5'- cACGUGCGCGAAcuGGCCUacAACuggCAGg -3'
miRNA:   3'- uUGCACGCGCUU--CCGGGc-UUGua-GUC- -5'
26772 3' -55.2 NC_005808.1 + 10195 0.69 0.443539
Target:  5'- cACGUcaaGCGCacGccGGCCCGAugGUCGGc -3'
miRNA:   3'- uUGCA---CGCG--CuuCCGGGCUugUAGUC- -5'
26772 3' -55.2 NC_005808.1 + 14858 0.7 0.385719
Target:  5'- cAGCGaguUGCGCGAGGGCCU---CAUCAa -3'
miRNA:   3'- -UUGC---ACGCGCUUCCGGGcuuGUAGUc -5'
26772 3' -55.2 NC_005808.1 + 35431 0.7 0.367583
Target:  5'- gGGCGUcaGCGCGucGGGCCUGGGCuUCAa -3'
miRNA:   3'- -UUGCA--CGCGCu-UCCGGGCUUGuAGUc -5'
26772 3' -55.2 NC_005808.1 + 34637 0.71 0.358737
Target:  5'- cACGaUGCGCGccGAGGCCaCGGGCAagcugUCGGa -3'
miRNA:   3'- uUGC-ACGCGC--UUCCGG-GCUUGU-----AGUC- -5'
26772 3' -55.2 NC_005808.1 + 31446 0.73 0.250802
Target:  5'- cAACGUGCGCaGgcGGCCC-AGCAgCAGg -3'
miRNA:   3'- -UUGCACGCG-CuuCCGGGcUUGUaGUC- -5'
26772 3' -55.2 NC_005808.1 + 32970 0.73 0.250802
Target:  5'- cAACGUGUaccGCGAcuugaAGGCCCuGAACGUCGa -3'
miRNA:   3'- -UUGCACG---CGCU-----UCCGGG-CUUGUAGUc -5'
26772 3' -55.2 NC_005808.1 + 24916 0.73 0.250802
Target:  5'- gAACGUGCGCGAcuuGGGCUgGAugAuguccUCGGg -3'
miRNA:   3'- -UUGCACGCGCU---UCCGGgCUugU-----AGUC- -5'
26772 3' -55.2 NC_005808.1 + 31053 1.07 0.000885
Target:  5'- cAACGUGCGCGAAGGCCCGAACAUCAGg -3'
miRNA:   3'- -UUGCACGCGCUUCCGGGCUUGUAGUC- -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.