miRNA display CGI


Results 1 - 20 of 25 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
23366 5' -56 NC_005259.1 + 67215 0.66 0.769709
Target:  5'- gUCGGCGGGGUCGAUgccgaccacggcgguGUaGGGGuuGAg -3'
miRNA:   3'- uGGCCGCUCCAGCUG---------------UAgCUCCuuCU- -5'
23366 5' -56 NC_005259.1 + 34558 0.66 0.755803
Target:  5'- uGCCGuCGGGGcCGACggCGAGGuucucGGAc -3'
miRNA:   3'- -UGGCcGCUCCaGCUGuaGCUCCu----UCU- -5'
23366 5' -56 NC_005259.1 + 36383 0.66 0.735537
Target:  5'- -gCGGCGAGGUUGGCcagcgCGAGcGAcuuGAg -3'
miRNA:   3'- ugGCCGCUCCAGCUGua---GCUC-CUu--CU- -5'
23366 5' -56 NC_005259.1 + 41307 0.66 0.735537
Target:  5'- uCCGugagcGCGAGGUCGACcUCGAaaaGGgcGGu -3'
miRNA:   3'- uGGC-----CGCUCCAGCUGuAGCU---CCuuCU- -5'
23366 5' -56 NC_005259.1 + 44245 0.66 0.734512
Target:  5'- cGCCGcccgcgcGCGAGaagucggCGACAUCGAGGccGAa -3'
miRNA:   3'- -UGGC-------CGCUCca-----GCUGUAGCUCCuuCU- -5'
23366 5' -56 NC_005259.1 + 19681 0.66 0.725251
Target:  5'- cCCGGUcAGGUCGGgAUCGAGcAGGc -3'
miRNA:   3'- uGGCCGcUCCAGCUgUAGCUCcUUCu -5'
23366 5' -56 NC_005259.1 + 14820 0.67 0.704426
Target:  5'- gACCGGUGAGGUgaucaagaaaCG-CAUCGuGGAc-- -3'
miRNA:   3'- -UGGCCGCUCCA----------GCuGUAGCuCCUucu -5'
23366 5' -56 NC_005259.1 + 63857 0.67 0.704426
Target:  5'- uACCGGCGAGGUggcCGGCuggccuugCGuGGGcguGGAu -3'
miRNA:   3'- -UGGCCGCUCCA---GCUGua------GCuCCU---UCU- -5'
23366 5' -56 NC_005259.1 + 25417 0.67 0.693909
Target:  5'- aACCGG-GAcGG-CGAgGUCGAGGAAu- -3'
miRNA:   3'- -UGGCCgCU-CCaGCUgUAGCUCCUUcu -5'
23366 5' -56 NC_005259.1 + 17351 0.67 0.683335
Target:  5'- cGCCGuCGAGGUCGGCggcucggcgcugGUCGuGGucGAc -3'
miRNA:   3'- -UGGCcGCUCCAGCUG------------UAGCuCCuuCU- -5'
23366 5' -56 NC_005259.1 + 67913 0.68 0.651375
Target:  5'- cUCGGCGAGGUCaagcGCGUaggucgCGAGGAuGAu -3'
miRNA:   3'- uGGCCGCUCCAGc---UGUA------GCUCCUuCU- -5'
23366 5' -56 NC_005259.1 + 28511 0.68 0.651375
Target:  5'- --aGGCGGGaUCGACccgcCGAGGAAGGa -3'
miRNA:   3'- uggCCGCUCcAGCUGua--GCUCCUUCU- -5'
23366 5' -56 NC_005259.1 + 51877 0.68 0.640675
Target:  5'- uACC-GCGAGGUgGugAUgaaCGAGGGAGu -3'
miRNA:   3'- -UGGcCGCUCCAgCugUA---GCUCCUUCu -5'
23366 5' -56 NC_005259.1 + 10342 0.68 0.629968
Target:  5'- gGCuCGGCGgcagcGGGcUCGACAUCGGgcucGGAAGu -3'
miRNA:   3'- -UG-GCCGC-----UCC-AGCUGUAGCU----CCUUCu -5'
23366 5' -56 NC_005259.1 + 49826 0.69 0.594695
Target:  5'- uACCaGCGAGGUCGGCuaagucauccgcaccCGAGGAu-- -3'
miRNA:   3'- -UGGcCGCUCCAGCUGua-------------GCUCCUucu -5'
23366 5' -56 NC_005259.1 + 47177 0.69 0.587245
Target:  5'- -gCGGCGaAGGUCGGCggugccGUCGGcGAAGAa -3'
miRNA:   3'- ugGCCGC-UCCAGCUG------UAGCUcCUUCU- -5'
23366 5' -56 NC_005259.1 + 8443 0.69 0.555546
Target:  5'- uGCCGGUGGucucGGU-GugGUCGAGGuAGAg -3'
miRNA:   3'- -UGGCCGCU----CCAgCugUAGCUCCuUCU- -5'
23366 5' -56 NC_005259.1 + 24422 0.7 0.545085
Target:  5'- cUCGGCGAGGaagCGACAgCGGGcAAGAu -3'
miRNA:   3'- uGGCCGCUCCa--GCUGUaGCUCcUUCU- -5'
23366 5' -56 NC_005259.1 + 61035 0.7 0.514115
Target:  5'- -gCGGCGAGGUCGAC--CGAcGGgcGGc -3'
miRNA:   3'- ugGCCGCUCCAGCUGuaGCU-CCuuCU- -5'
23366 5' -56 NC_005259.1 + 31077 0.71 0.464217
Target:  5'- gUCGGCGAGGUuccCGagcGCGUCGGGGAu-- -3'
miRNA:   3'- uGGCCGCUCCA---GC---UGUAGCUCCUucu -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.