miRNA display CGI


Results 1 - 16 of 16 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
23225 3' -55.7 NC_005259.1 + 26441 0.66 0.790048
Target:  5'- gCCgaGCg-GgcGGGCCGGUgggcCGAUGUGg -3'
miRNA:   3'- -GGgaCGagCuaCUCGGCCA----GCUACAC- -5'
23225 3' -55.7 NC_005259.1 + 54569 0.66 0.780412
Target:  5'- gCgaGCUCaGUGAGCUuGUCGcgGUGg -3'
miRNA:   3'- gGgaCGAGcUACUCGGcCAGCuaCAC- -5'
23225 3' -55.7 NC_005259.1 + 40983 0.66 0.778467
Target:  5'- gCCCUugcgugagGCUCGGgcuuuauggaucGGGCCGGUCcacaGUGUGg -3'
miRNA:   3'- -GGGA--------CGAGCUa-----------CUCGGCCAGc---UACAC- -5'
23225 3' -55.7 NC_005259.1 + 39113 0.66 0.764696
Target:  5'- -gCUGCaaucgcgucacgacaUCGGUGAGCUGccCGAUGUGa -3'
miRNA:   3'- ggGACG---------------AGCUACUCGGCcaGCUACAC- -5'
23225 3' -55.7 NC_005259.1 + 67837 0.66 0.750672
Target:  5'- aCCggcaGCcCGGUGAGCgGGUCGAccaaucgGUGc -3'
miRNA:   3'- gGGa---CGaGCUACUCGgCCAGCUa------CAC- -5'
23225 3' -55.7 NC_005259.1 + 65516 0.67 0.730254
Target:  5'- aCCU-CUCGGUGAGCCaa-CGGUGUa -3'
miRNA:   3'- gGGAcGAGCUACUCGGccaGCUACAc -5'
23225 3' -55.7 NC_005259.1 + 66634 0.67 0.687322
Target:  5'- uCCCUggccaccGCUCGGauUGcuGCCGGUCGGcgGUGc -3'
miRNA:   3'- -GGGA-------CGAGCU--ACu-CGGCCAGCUa-CAC- -5'
23225 3' -55.7 NC_005259.1 + 27212 0.68 0.667098
Target:  5'- aCCgcgaGCUCGGUGAGCgGGcCGAa--- -3'
miRNA:   3'- gGGa---CGAGCUACUCGgCCaGCUacac -5'
23225 3' -55.7 NC_005259.1 + 58771 0.68 0.656403
Target:  5'- aCgCUGCgggCGcuGUGcGCCGGUCGAggcgGUGa -3'
miRNA:   3'- -GgGACGa--GC--UACuCGGCCAGCUa---CAC- -5'
23225 3' -55.7 NC_005259.1 + 29117 0.7 0.549777
Target:  5'- aCCCUGCU-GGUGAGCgCGG-CGGUa-- -3'
miRNA:   3'- -GGGACGAgCUACUCG-GCCaGCUAcac -5'
23225 3' -55.7 NC_005259.1 + 41068 0.7 0.52895
Target:  5'- gCCCacgGCUCGAUGucacgcAGCCGGUCGu---- -3'
miRNA:   3'- -GGGa--CGAGCUAC------UCGGCCAGCuacac -5'
23225 3' -55.7 NC_005259.1 + 45028 0.7 0.508421
Target:  5'- gCCCUGCUUcAUGAGCUGcUCGcgGUa -3'
miRNA:   3'- -GGGACGAGcUACUCGGCcAGCuaCAc -5'
23225 3' -55.7 NC_005259.1 + 68420 0.7 0.508421
Target:  5'- aCCUUGacgcCUCGcgcGGGCCGGUUGAUGUa -3'
miRNA:   3'- -GGGAC----GAGCua-CUCGGCCAGCUACAc -5'
23225 3' -55.7 NC_005259.1 + 24143 0.71 0.45869
Target:  5'- gCCCUGCUCGccGAGuuGcG-CGAUGUc -3'
miRNA:   3'- -GGGACGAGCuaCUCggC-CaGCUACAc -5'
23225 3' -55.7 NC_005259.1 + 61509 0.72 0.402631
Target:  5'- ---cGCUCGGUGuGCCGGUCGAc--- -3'
miRNA:   3'- gggaCGAGCUACuCGGCCAGCUacac -5'
23225 3' -55.7 NC_005259.1 + 50486 1.11 0.000918
Target:  5'- aCCCUGCUCGAUGAGCCGGUCGAUGUGg -3'
miRNA:   3'- -GGGACGAGCUACUCGGCCAGCUACAC- -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.