miRNA display CGI


Results 1 - 20 of 43 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
19117 3' -54.8 NC_004684.1 + 1871 1.08 0.001523
Target:  5'- cACACCGAACUUCCAGGAGGCAUCGCAu -3'
miRNA:   3'- -UGUGGCUUGAAGGUCCUCCGUAGCGU- -5'
19117 3' -54.8 NC_004684.1 + 3955 0.66 0.776064
Target:  5'- cGCACCGGACgaccccggCCAGGucauccuGGCcgGUgGCAg -3'
miRNA:   3'- -UGUGGCUUGaa------GGUCCu------CCG--UAgCGU- -5'
19117 3' -54.8 NC_004684.1 + 4117 0.69 0.583054
Target:  5'- uACGCCcGGCggcuccaggUCCAGGAGcGCAUCGg- -3'
miRNA:   3'- -UGUGGcUUGa--------AGGUCCUC-CGUAGCgu -5'
19117 3' -54.8 NC_004684.1 + 7956 0.66 0.785982
Target:  5'- cACACCGGugggcaagGCcgCCAGGcGGCcgUGCGc -3'
miRNA:   3'- -UGUGGCU--------UGaaGGUCCuCCGuaGCGU- -5'
19117 3' -54.8 NC_004684.1 + 9064 0.68 0.659686
Target:  5'- cCACCGGGCgcgCCAuGAcccGGCGUCGCc -3'
miRNA:   3'- uGUGGCUUGaa-GGUcCU---CCGUAGCGu -5'
19117 3' -54.8 NC_004684.1 + 10027 0.66 0.755795
Target:  5'- cGCGCCGA----CCGGGAGcGCAucaUCGCc -3'
miRNA:   3'- -UGUGGCUugaaGGUCCUC-CGU---AGCGu -5'
19117 3' -54.8 NC_004684.1 + 10678 0.67 0.735025
Target:  5'- cACACCGAACgccucaacggUCGGGAcgcgguGGC-UCGCAa -3'
miRNA:   3'- -UGUGGCUUGaa--------GGUCCU------CCGuAGCGU- -5'
19117 3' -54.8 NC_004684.1 + 11473 0.66 0.776064
Target:  5'- uCACCGAggACggCCGGGuguucGGGCAcaUCGCc -3'
miRNA:   3'- uGUGGCU--UGaaGGUCC-----UCCGU--AGCGu -5'
19117 3' -54.8 NC_004684.1 + 13865 0.66 0.745467
Target:  5'- cGCGCCGAcCUggccaUUCAGGAgGGUGUCGaCAc -3'
miRNA:   3'- -UGUGGCUuGA-----AGGUCCU-CCGUAGC-GU- -5'
19117 3' -54.8 NC_004684.1 + 15814 0.71 0.467482
Target:  5'- cACGCCGAGCgacCCGGuGGcgcgcGGCAUCGCc -3'
miRNA:   3'- -UGUGGCUUGaa-GGUC-CU-----CCGUAGCGu -5'
19117 3' -54.8 NC_004684.1 + 19549 0.74 0.347941
Target:  5'- uGCGCCGGGCggugCCAGGucuccgggccuGGCGUCGUg -3'
miRNA:   3'- -UGUGGCUUGaa--GGUCCu----------CCGUAGCGu -5'
19117 3' -54.8 NC_004684.1 + 24287 0.66 0.776064
Target:  5'- uCACCGAGCUgCCGGaAGGCGagGUc -3'
miRNA:   3'- uGUGGCUUGAaGGUCcUCCGUagCGu -5'
19117 3' -54.8 NC_004684.1 + 24676 0.66 0.770041
Target:  5'- gGCGgUGAGgUUCCAGGccugccgaccauuccAGGCGUCaGCGa -3'
miRNA:   3'- -UGUgGCUUgAAGGUCC---------------UCCGUAG-CGU- -5'
19117 3' -54.8 NC_004684.1 + 26858 0.7 0.508344
Target:  5'- aGCACC-AGCgagCAGGAGGCggCGCAg -3'
miRNA:   3'- -UGUGGcUUGaagGUCCUCCGuaGCGU- -5'
19117 3' -54.8 NC_004684.1 + 27845 0.67 0.735025
Target:  5'- gGCACCGAGCgcgcugugcaCgCAGGAGuGCcgGUCGCu -3'
miRNA:   3'- -UGUGGCUUGaa--------G-GUCCUC-CG--UAGCGu -5'
19117 3' -54.8 NC_004684.1 + 28674 0.67 0.713844
Target:  5'- -gGuuGAACgugUCCAGGAGGaUGUUGCu -3'
miRNA:   3'- ugUggCUUGa--AGGUCCUCC-GUAGCGu -5'
19117 3' -54.8 NC_004684.1 + 30063 0.66 0.776064
Target:  5'- uGCGgCGGGCuUUCCAGGuAGGCAaUgGCc -3'
miRNA:   3'- -UGUgGCUUG-AAGGUCC-UCCGU-AgCGu -5'
19117 3' -54.8 NC_004684.1 + 30630 0.68 0.63777
Target:  5'- gGCACCGGGCgcggcCCuGGcGGCGUCaGCGc -3'
miRNA:   3'- -UGUGGCUUGaa---GGuCCuCCGUAG-CGU- -5'
19117 3' -54.8 NC_004684.1 + 30702 0.66 0.765998
Target:  5'- cACGCCGGuggGCacgCCAacgaugcuGGcGGGCAUCGCAu -3'
miRNA:   3'- -UGUGGCU---UGaa-GGU--------CC-UCCGUAGCGU- -5'
19117 3' -54.8 NC_004684.1 + 31090 0.66 0.745467
Target:  5'- cCGCCGAggGCUggCAGGAcGCcgCGCAg -3'
miRNA:   3'- uGUGGCU--UGAagGUCCUcCGuaGCGU- -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.