miRNA display CGI


Results 1 - 20 of 20 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
23195 5' -59.3 NC_005259.1 + 63912 0.66 0.619048
Target:  5'- gCGAGuCGAGGUCGCGAUugaaCUCGUgggUCUUa -3'
miRNA:   3'- -GCUC-GCUCCGGUGCUG----GAGCA---GGAGc -5'
23195 5' -59.3 NC_005259.1 + 8367 0.66 0.614883
Target:  5'- --cGCucGGCgGCGGCCUCGgcaucggcgagagCCUCGg -3'
miRNA:   3'- gcuCGcuCCGgUGCUGGAGCa------------GGAGC- -5'
23195 5' -59.3 NC_005259.1 + 43960 0.66 0.608639
Target:  5'- uGGGCGGGGCCGCcGCCU-GaCCgagggCGg -3'
miRNA:   3'- gCUCGCUCCGGUGcUGGAgCaGGa----GC- -5'
23195 5' -59.3 NC_005259.1 + 4225 0.66 0.598248
Target:  5'- uCGAGC-AGGCCAagcaGGCCccgcccaCGUgCCUCGa -3'
miRNA:   3'- -GCUCGcUCCGGUg---CUGGa------GCA-GGAGC- -5'
23195 5' -59.3 NC_005259.1 + 42474 0.66 0.578583
Target:  5'- -cGGCGAGGCC-CGGCCcguagagccgugaccCGUCCggCGg -3'
miRNA:   3'- gcUCGCUCCGGuGCUGGa--------------GCAGGa-GC- -5'
23195 5' -59.3 NC_005259.1 + 23958 0.67 0.546826
Target:  5'- cCGAGaCG-GGCCGauUGACCUCGUaCC-CGc -3'
miRNA:   3'- -GCUC-GCuCCGGU--GCUGGAGCA-GGaGC- -5'
23195 5' -59.3 NC_005259.1 + 11304 0.67 0.516638
Target:  5'- aCGGGCguGAGGCCGaGACgggcgcgcagCUCGUCgUCGg -3'
miRNA:   3'- -GCUCG--CUCCGGUgCUG----------GAGCAGgAGC- -5'
23195 5' -59.3 NC_005259.1 + 60197 0.68 0.496889
Target:  5'- cCGAcCG-GGCCACGAUCUCGccgaUCUCGu -3'
miRNA:   3'- -GCUcGCuCCGGUGCUGGAGCa---GGAGC- -5'
23195 5' -59.3 NC_005259.1 + 18878 0.69 0.439856
Target:  5'- gCGuGgGAGGCCaaccACGAUgUCGaCCUCGg -3'
miRNA:   3'- -GCuCgCUCCGG----UGCUGgAGCaGGAGC- -5'
23195 5' -59.3 NC_005259.1 + 3830 0.69 0.439856
Target:  5'- ---aCGGGGCCACGACgaUGUcCCUCGc -3'
miRNA:   3'- gcucGCUCCGGUGCUGgaGCA-GGAGC- -5'
23195 5' -59.3 NC_005259.1 + 51436 0.7 0.369997
Target:  5'- uGGGCG-GGCCACGggGCCUCGcgCCg-- -3'
miRNA:   3'- gCUCGCuCCGGUGC--UGGAGCa-GGagc -5'
23195 5' -59.3 NC_005259.1 + 63573 0.71 0.330356
Target:  5'- aCGAGCGGGauauacgccGCCugGcuguUCUCGUCCUCc -3'
miRNA:   3'- -GCUCGCUC---------CGGugCu---GGAGCAGGAGc -5'
23195 5' -59.3 NC_005259.1 + 62896 0.71 0.315399
Target:  5'- uGAGCGAcGCCGCuuCCucgguacuacgcUCGUCCUCGg -3'
miRNA:   3'- gCUCGCUcCGGUGcuGG------------AGCAGGAGC- -5'
23195 5' -59.3 NC_005259.1 + 33360 0.71 0.308115
Target:  5'- uCGGGCGAGGUCAUGACuCUCcuaccgGUCCg-- -3'
miRNA:   3'- -GCUCGCUCCGGUGCUG-GAG------CAGGagc -5'
23195 5' -59.3 NC_005259.1 + 50328 0.73 0.254455
Target:  5'- aCGAGCuc-GUCGCGGcCCUUGUCCUCGg -3'
miRNA:   3'- -GCUCGcucCGGUGCU-GGAGCAGGAGC- -5'
23195 5' -59.3 NC_005259.1 + 67810 0.74 0.20352
Target:  5'- gCGAGCuuGaGCC-CGAUCUUGUCCUCGa -3'
miRNA:   3'- -GCUCGcuC-CGGuGCUGGAGCAGGAGC- -5'
23195 5' -59.3 NC_005259.1 + 62564 0.74 0.197939
Target:  5'- cCGGGCaGcGGCCacaucagACGACCUCGcCCUCGa -3'
miRNA:   3'- -GCUCG-CuCCGG-------UGCUGGAGCaGGAGC- -5'
23195 5' -59.3 NC_005259.1 + 46478 0.75 0.193473
Target:  5'- uGAGCGcuguGGCCACGcCCUugaucgUGUCCUCGu -3'
miRNA:   3'- gCUCGCu---CCGGUGCuGGA------GCAGGAGC- -5'
23195 5' -59.3 NC_005259.1 + 49588 0.78 0.114862
Target:  5'- gCGGGCGGGGUCAgcACCUCGaCCUCGg -3'
miRNA:   3'- -GCUCGCUCCGGUgcUGGAGCaGGAGC- -5'
23195 5' -59.3 NC_005259.1 + 62668 1.09 0.000664
Target:  5'- cCGAGCGAGGCCACGACCUCGUCCUCGa -3'
miRNA:   3'- -GCUCGCUCCGGUGCUGGAGCAGGAGC- -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.