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
29192 3' -55.7 NC_006150.1 + 52663 0.66 0.963516
Target:  5'- uCCaGUGCCaUCGUCaGCAgugUGCGGCAUg -3'
miRNA:   3'- -GGaCGCGG-AGCAGaCGU---GCGUUGUGu -5'
29192 3' -55.7 NC_006150.1 + 1787 0.66 0.956522
Target:  5'- gCUgGUGCCUCugggGagUGCACGCA-CACAa -3'
miRNA:   3'- gGA-CGCGGAG----CagACGUGCGUuGUGU- -5'
29192 3' -55.7 NC_006150.1 + 171220 0.66 0.952704
Target:  5'- gUCUGCGCgggUGUCUGUgGCGCGGCGg- -3'
miRNA:   3'- -GGACGCGga-GCAGACG-UGCGUUGUgu -5'
29192 3' -55.7 NC_006150.1 + 181390 0.66 0.950308
Target:  5'- cCCUGCccgcucGCCUCcuaaggcguuauaagGUCUGCguguugGCGCcGCACAu -3'
miRNA:   3'- -GGACG------CGGAG---------------CAGACG------UGCGuUGUGU- -5'
29192 3' -55.7 NC_006150.1 + 41386 0.66 0.948666
Target:  5'- aCCgucCGCC-CGUgUGCGCGUAGCGa- -3'
miRNA:   3'- -GGac-GCGGaGCAgACGUGCGUUGUgu -5'
29192 3' -55.7 NC_006150.1 + 195017 0.66 0.948666
Target:  5'- uUUGCGCCgauaCaUCUGCAUGUugucaAACACAg -3'
miRNA:   3'- gGACGCGGa---GcAGACGUGCG-----UUGUGU- -5'
29192 3' -55.7 NC_006150.1 + 126064 0.66 0.944406
Target:  5'- gUCUGCGCCUucaCGUCcucugGUACGCA-CAa- -3'
miRNA:   3'- -GGACGCGGA---GCAGa----CGUGCGUuGUgu -5'
29192 3' -55.7 NC_006150.1 + 108989 0.67 0.939922
Target:  5'- --gGCGCCgguuggCGUagUUGCACGCGuccguGCGCAg -3'
miRNA:   3'- ggaCGCGGa-----GCA--GACGUGCGU-----UGUGU- -5'
29192 3' -55.7 NC_006150.1 + 1944 0.67 0.939922
Target:  5'- aUCU-CGCCcCGUCUGgACaCAACACAu -3'
miRNA:   3'- -GGAcGCGGaGCAGACgUGcGUUGUGU- -5'
29192 3' -55.7 NC_006150.1 + 172873 0.67 0.930271
Target:  5'- gCUGcCGUCaUCGaaaccgCUGUGCGCAGCACu -3'
miRNA:   3'- gGAC-GCGG-AGCa-----GACGUGCGUUGUGu -5'
29192 3' -55.7 NC_006150.1 + 63693 0.68 0.90823
Target:  5'- gCUGCGCgC-CGUgUuCGCGCAAUACAg -3'
miRNA:   3'- gGACGCG-GaGCAgAcGUGCGUUGUGU- -5'
29192 3' -55.7 NC_006150.1 + 56285 0.68 0.90823
Target:  5'- gCUGgGCa-CGUCUGCGCGCugaACGg -3'
miRNA:   3'- gGACgCGgaGCAGACGUGCGuugUGU- -5'
29192 3' -55.7 NC_006150.1 + 125576 0.69 0.866301
Target:  5'- aCCUGCGUCUgGUCUGgAacgaggagcguuuuCGCGAUugGg -3'
miRNA:   3'- -GGACGCGGAgCAGACgU--------------GCGUUGugU- -5'
29192 3' -55.7 NC_006150.1 + 183893 0.69 0.861127
Target:  5'- aCUGCGCCUCcacCUGCGC-CGGC-CAa -3'
miRNA:   3'- gGACGCGGAGca-GACGUGcGUUGuGU- -5'
29192 3' -55.7 NC_006150.1 + 114270 0.7 0.837881
Target:  5'- uCCguaGUGUUUUGUCgGCGCGCGGCAUg -3'
miRNA:   3'- -GGa--CGCGGAGCAGaCGUGCGUUGUGu -5'
29192 3' -55.7 NC_006150.1 + 121007 0.7 0.813026
Target:  5'- gCUGCGCCgccaacuguuuUUGUCUGCGCuguuGCuGCGCGg -3'
miRNA:   3'- gGACGCGG-----------AGCAGACGUG----CGuUGUGU- -5'
29192 3' -55.7 NC_006150.1 + 40843 0.7 0.804417
Target:  5'- cCCUGUGUCUgGaUCUGCAUcacggGCAAUGCAu -3'
miRNA:   3'- -GGACGCGGAgC-AGACGUG-----CGUUGUGU- -5'
29192 3' -55.7 NC_006150.1 + 157333 0.7 0.804417
Target:  5'- aCUGaGCCUggggUGUCUGCACGUGcCACAa -3'
miRNA:   3'- gGACgCGGA----GCAGACGUGCGUuGUGU- -5'
29192 3' -55.7 NC_006150.1 + 74263 0.71 0.777726
Target:  5'- -aUGCGUgUCGcaaaugCUGCugGCGGCGCGc -3'
miRNA:   3'- ggACGCGgAGCa-----GACGugCGUUGUGU- -5'
29192 3' -55.7 NC_006150.1 + 68250 0.71 0.749914
Target:  5'- gUUGcCGCCUaggaUGUCUGCuacguggaugGCGCAGCACAc -3'
miRNA:   3'- gGAC-GCGGA----GCAGACG----------UGCGUUGUGU- -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.