miRNA display CGI


Results 1 - 20 of 32 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
18418 3' -51.6 NC_004681.1 + 33023 0.66 0.914546
Target:  5'- -aCCUCGGGAcaugGCAUCGcCCCcGUCAAc -3'
miRNA:   3'- caGGAGUUCU----UGUAGUuGGGuCGGUU- -5'
18418 3' -51.6 NC_004681.1 + 45393 0.66 0.914546
Target:  5'- cGUCCUU--GGACA-CAACCCAuucGCCGGu -3'
miRNA:   3'- -CAGGAGuuCUUGUaGUUGGGU---CGGUU- -5'
18418 3' -51.6 NC_004681.1 + 16298 0.66 0.907942
Target:  5'- cUCCcCGAGGGCAUCc-CCgCGGCCGGa -3'
miRNA:   3'- cAGGaGUUCUUGUAGuuGG-GUCGGUU- -5'
18418 3' -51.6 NC_004681.1 + 47644 0.66 0.907942
Target:  5'- cUCCUCAccgcaauccGGGCAgCGcACCCAGCCAu -3'
miRNA:   3'- cAGGAGUu--------CUUGUaGU-UGGGUCGGUu -5'
18418 3' -51.6 NC_004681.1 + 55910 0.66 0.907942
Target:  5'- -gCCUUGAGGuCAUCGACCgucagCAGCCGc -3'
miRNA:   3'- caGGAGUUCUuGUAGUUGG-----GUCGGUu -5'
18418 3' -51.6 NC_004681.1 + 39289 0.67 0.886422
Target:  5'- cGUCCUCGAcgucgagggcGAGCAUCuccgcGGCCCGgauGCCGGu -3'
miRNA:   3'- -CAGGAGUU----------CUUGUAG-----UUGGGU---CGGUU- -5'
18418 3' -51.6 NC_004681.1 + 50180 0.67 0.886422
Target:  5'- cGUCCUUGuaguccuGGACGUCGACCCgcaggcAGUCGAu -3'
miRNA:   3'- -CAGGAGUu------CUUGUAGUUGGG------UCGGUU- -5'
18418 3' -51.6 NC_004681.1 + 72108 0.67 0.886422
Target:  5'- aGUCUUCAugu-CA-CAGCCCAGCCu- -3'
miRNA:   3'- -CAGGAGUucuuGUaGUUGGGUCGGuu -5'
18418 3' -51.6 NC_004681.1 + 67239 0.67 0.870697
Target:  5'- aGUCgUCAAGAACAagcUGGCCCcGCCGc -3'
miRNA:   3'- -CAGgAGUUCUUGUa--GUUGGGuCGGUu -5'
18418 3' -51.6 NC_004681.1 + 60162 0.67 0.86244
Target:  5'- cGUCCUCGAuGGCcacgGUCAGCCgGuGCCAGg -3'
miRNA:   3'- -CAGGAGUUcUUG----UAGUUGGgU-CGGUU- -5'
18418 3' -51.6 NC_004681.1 + 51204 0.67 0.86244
Target:  5'- cUCUcCAAGAACGcCAcCCCGGCCGu -3'
miRNA:   3'- cAGGaGUUCUUGUaGUuGGGUCGGUu -5'
18418 3' -51.6 NC_004681.1 + 8595 0.67 0.853929
Target:  5'- cGUCCgcgAAGGcgccCAUCAGCUCAGCCGc -3'
miRNA:   3'- -CAGGag-UUCUu---GUAGUUGGGUCGGUu -5'
18418 3' -51.6 NC_004681.1 + 23835 0.67 0.853929
Target:  5'- aGUCaggCAAGAu--UCAGCCCAGCUGGa -3'
miRNA:   3'- -CAGga-GUUCUuguAGUUGGGUCGGUU- -5'
18418 3' -51.6 NC_004681.1 + 51891 0.68 0.845173
Target:  5'- -cUCUCGAGAuCAUCGGCCgCAGCa-- -3'
miRNA:   3'- caGGAGUUCUuGUAGUUGG-GUCGguu -5'
18418 3' -51.6 NC_004681.1 + 18440 0.68 0.836181
Target:  5'- uGUCCagAAGGGCAUggaggucgcCAACCgGGCCAu -3'
miRNA:   3'- -CAGGagUUCUUGUA---------GUUGGgUCGGUu -5'
18418 3' -51.6 NC_004681.1 + 30508 0.68 0.817528
Target:  5'- cGUCCUgGAGAugAUCcACggccgguaCCAGCCGGg -3'
miRNA:   3'- -CAGGAgUUCUugUAGuUG--------GGUCGGUU- -5'
18418 3' -51.6 NC_004681.1 + 7618 0.68 0.807888
Target:  5'- aGUCagUCAGGAACGUCGcgcgcACCCAGgcCCAGg -3'
miRNA:   3'- -CAGg-AGUUCUUGUAGU-----UGGGUC--GGUU- -5'
18418 3' -51.6 NC_004681.1 + 442 0.69 0.788036
Target:  5'- -gCCUCcgcuGGGCGUcCAACCUGGCCGAg -3'
miRNA:   3'- caGGAGuu--CUUGUA-GUUGGGUCGGUU- -5'
18418 3' -51.6 NC_004681.1 + 24136 0.7 0.724764
Target:  5'- uUCCUCAAGAucGCGUCGgACgCC-GCCAAg -3'
miRNA:   3'- cAGGAGUUCU--UGUAGU-UG-GGuCGGUU- -5'
18418 3' -51.6 NC_004681.1 + 35438 0.71 0.646695
Target:  5'- aGUCCUcCGAGGGCuuuAUCAACCUcauaAGCCAc -3'
miRNA:   3'- -CAGGA-GUUCUUG---UAGUUGGG----UCGGUu -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.