miRNA display CGI


Results 1 - 20 of 68 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
23255 3' -61.3 NC_005259.1 + 737 0.66 0.504808
Target:  5'- aCCGGCGGUGccuacgccGCCGGugccuaccgcguccACcGCGCCGAg -3'
miRNA:   3'- -GGCUGCCGCuc------CGGCC--------------UGaCGUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 3298 0.66 0.527352
Target:  5'- gCCGGucccuCGGCGAGcGCUGcgucGACgugaGCGCCGGg -3'
miRNA:   3'- -GGCU-----GCCGCUC-CGGC----CUGa---CGUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 4257 0.68 0.372676
Target:  5'- cUCGACuGCGAGGacaaCGGgcgGCUGCGCUGc -3'
miRNA:   3'- -GGCUGcCGCUCCg---GCC---UGACGUGGCu -5'
23255 3' -61.3 NC_005259.1 + 4783 0.81 0.052916
Target:  5'- uCCGcaACGGCGAGGCCaGGuACUGC-CCGAg -3'
miRNA:   3'- -GGC--UGCCGCUCCGG-CC-UGACGuGGCU- -5'
23255 3' -61.3 NC_005259.1 + 5068 0.69 0.348736
Target:  5'- aUCGugGGCcgggucgacGGGCCGGugU-CACCGGc -3'
miRNA:   3'- -GGCugCCGc--------UCCGGCCugAcGUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 7181 0.69 0.333395
Target:  5'- aCCGGCGaGUGcccGGCCugcGGAC-GCACCGGg -3'
miRNA:   3'- -GGCUGC-CGCu--CCGG---CCUGaCGUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 7334 0.68 0.406291
Target:  5'- gCCGAguaCGuCGAGGCCGGACagacguucgUGCugUGGc -3'
miRNA:   3'- -GGCU---GCcGCUCCGGCCUG---------ACGugGCU- -5'
23255 3' -61.3 NC_005259.1 + 7427 0.66 0.517502
Target:  5'- gUCGGCGGUGcccGcGCCGcauGGCaGCGCCGAg -3'
miRNA:   3'- -GGCUGCCGCu--C-CGGC---CUGaCGUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 7830 0.77 0.093076
Target:  5'- cCCGGCGGCGgucaccccuuacGGGaCGGACcGCGCCGAc -3'
miRNA:   3'- -GGCUGCCGC------------UCCgGCCUGaCGUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 8330 0.78 0.083668
Target:  5'- gCCGACGGCGAucaGCCGGucacGCUGCuGCCGGu -3'
miRNA:   3'- -GGCUGCCGCUc--CGGCC----UGACG-UGGCU- -5'
23255 3' -61.3 NC_005259.1 + 8803 0.68 0.372676
Target:  5'- uUGGCGaggaucuucucGCGccGGGCCGGugaguugacgcGCUGCGCCGAc -3'
miRNA:   3'- gGCUGC-----------CGC--UCCGGCC-----------UGACGUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 10998 0.68 0.414987
Target:  5'- cUCGcaACGGCaccGcGCCGGAC-GCGCCGAg -3'
miRNA:   3'- -GGC--UGCCGcu-C-CGGCCUGaCGUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 11300 0.68 0.372676
Target:  5'- gUCGACGGgcgUGAGGCCGaGACggGCGCg-- -3'
miRNA:   3'- -GGCUGCC---GCUCCGGC-CUGa-CGUGgcu -5'
23255 3' -61.3 NC_005259.1 + 11775 0.66 0.488415
Target:  5'- cUCGACGGCGAGGgagucccacacaUCGGGC-GCgACCc- -3'
miRNA:   3'- -GGCUGCCGCUCC------------GGCCUGaCG-UGGcu -5'
23255 3' -61.3 NC_005259.1 + 13335 0.66 0.517502
Target:  5'- aCCcACGGCGGGaCCGccccGCcGCACCGAu -3'
miRNA:   3'- -GGcUGCCGCUCcGGCc---UGaCGUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 13454 0.66 0.498029
Target:  5'- aCCGuCGGCGcGGcGCUGGugcucaccgcGCUGC-CCGAc -3'
miRNA:   3'- -GGCuGCCGC-UC-CGGCC----------UGACGuGGCU- -5'
23255 3' -61.3 NC_005259.1 + 14650 0.66 0.498029
Target:  5'- aCGAUGGCGuGGGCucagcccgacuCGGGCcgcgUGCACuCGAu -3'
miRNA:   3'- gGCUGCCGC-UCCG-----------GCCUG----ACGUG-GCU- -5'
23255 3' -61.3 NC_005259.1 + 16585 0.7 0.310607
Target:  5'- gCCGAgGacaucgcccGCGAGGCCaucGGACUGUucaacggGCCGAg -3'
miRNA:   3'- -GGCUgC---------CGCUCCGG---CCUGACG-------UGGCU- -5'
23255 3' -61.3 NC_005259.1 + 16835 0.66 0.527352
Target:  5'- uCCGACacaaGGCGGguGGCCauGACUGaUACCGGc -3'
miRNA:   3'- -GGCUG----CCGCU--CCGGc-CUGAC-GUGGCU- -5'
23255 3' -61.3 NC_005259.1 + 17763 0.68 0.39771
Target:  5'- gCCGcCGcGCGccGGGCCGaGC-GCACCGAg -3'
miRNA:   3'- -GGCuGC-CGC--UCCGGCcUGaCGUGGCU- -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.