miRNA display CGI


Results 1 - 20 of 55 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
11602 5' -54.5 NC_003085.1 + 48933 0.69 0.511219
Target:  5'- ---cCAaUCUCCGCGaGGGCAGCGCg -3'
miRNA:   3'- acuuGUcGGAGGCGUaUCCGUUGCGa -5'
11602 5' -54.5 NC_003085.1 + 48608 0.67 0.611016
Target:  5'- cGGAguGCCUUCG----GGCAGCGCg -3'
miRNA:   3'- aCUUguCGGAGGCguauCCGUUGCGa -5'
11602 5' -54.5 NC_003085.1 + 48394 0.75 0.234671
Target:  5'- cGAGCAGCg-CCGCAUugucugccucGGCGGCGCUg -3'
miRNA:   3'- aCUUGUCGgaGGCGUAu---------CCGUUGCGA- -5'
11602 5' -54.5 NC_003085.1 + 47890 0.67 0.611016
Target:  5'- cGuAC-GCCgcgCCGCAcugcAGGCGACGCg -3'
miRNA:   3'- aCuUGuCGGa--GGCGUa---UCCGUUGCGa -5'
11602 5' -54.5 NC_003085.1 + 46430 0.7 0.458695
Target:  5'- -cGACAGCCUUCGCGUgcaccgucuGGGCGucguccguGCGCc -3'
miRNA:   3'- acUUGUCGGAGGCGUA---------UCCGU--------UGCGa -5'
11602 5' -54.5 NC_003085.1 + 46200 0.67 0.5986
Target:  5'- -cAACGGCCUCCggucguguuguggGCAUAGGCGAaggGUUc -3'
miRNA:   3'- acUUGUCGGAGG-------------CGUAUCCGUUg--CGA- -5'
11602 5' -54.5 NC_003085.1 + 45882 0.66 0.689982
Target:  5'- --cGCcGCCUCgGCAgcgAGGC-GCGCUu -3'
miRNA:   3'- acuUGuCGGAGgCGUa--UCCGuUGCGA- -5'
11602 5' -54.5 NC_003085.1 + 44341 0.73 0.304967
Target:  5'- cGGGCguAGCCUUCGCccgcGGCGACGCg -3'
miRNA:   3'- aCUUG--UCGGAGGCGuau-CCGUUGCGa -5'
11602 5' -54.5 NC_003085.1 + 43529 0.69 0.489885
Target:  5'- gGAACGGCg-CCGa--AGGCGGCGCg -3'
miRNA:   3'- aCUUGUCGgaGGCguaUCCGUUGCGa -5'
11602 5' -54.5 NC_003085.1 + 43121 0.76 0.183527
Target:  5'- gGAACAGCCUUgGCGUAGaGC-GCGCc -3'
miRNA:   3'- aCUUGUCGGAGgCGUAUC-CGuUGCGa -5'
11602 5' -54.5 NC_003085.1 + 42711 0.67 0.630245
Target:  5'- uUGAGCGGCggcacCUCagGCGUGGGCGucggggcgaugcggGCGCg -3'
miRNA:   3'- -ACUUGUCG-----GAGg-CGUAUCCGU--------------UGCGa -5'
11602 5' -54.5 NC_003085.1 + 42217 0.72 0.345768
Target:  5'- aGAGCcuguccccgGGCUgUCCGUAgGGGCAGCGCUg -3'
miRNA:   3'- aCUUG---------UCGG-AGGCGUaUCCGUUGCGA- -5'
11602 5' -54.5 NC_003085.1 + 39259 0.67 0.633641
Target:  5'- -uGGCGGCCUcCCGCGggugagcAGGUcGCGCa -3'
miRNA:   3'- acUUGUCGGA-GGCGUa------UCCGuUGCGa -5'
11602 5' -54.5 NC_003085.1 + 39112 0.67 0.599727
Target:  5'- gGAGCGuccgcgguGCCUCC-CGggAGGCGACGUg -3'
miRNA:   3'- aCUUGU--------CGGAGGcGUa-UCCGUUGCGa -5'
11602 5' -54.5 NC_003085.1 + 39080 1.07 0.001118
Target:  5'- gUGAACAGCCUCCGCAUAGGCAACGCUc -3'
miRNA:   3'- -ACUUGUCGGAGGCGUAUCCGUUGCGA- -5'
11602 5' -54.5 NC_003085.1 + 39030 0.68 0.554958
Target:  5'- -cGACGGCa--UGCGUGGGCgAGCGCUg -3'
miRNA:   3'- acUUGUCGgagGCGUAUCCG-UUGCGA- -5'
11602 5' -54.5 NC_003085.1 + 37674 0.66 0.65626
Target:  5'- gGGGCAGCCgacaCGCccggAGcGCGGCGCc -3'
miRNA:   3'- aCUUGUCGGag--GCGua--UC-CGUUGCGa -5'
11602 5' -54.5 NC_003085.1 + 35719 0.66 0.678784
Target:  5'- -cAACGGCCUCC-CGUuGGGCGGCuucGCg -3'
miRNA:   3'- acUUGUCGGAGGcGUA-UCCGUUG---CGa -5'
11602 5' -54.5 NC_003085.1 + 31158 0.69 0.489885
Target:  5'- cGGACGGCCagCGCcgGGGCGugcacCGCc -3'
miRNA:   3'- aCUUGUCGGagGCGuaUCCGUu----GCGa -5'
11602 5' -54.5 NC_003085.1 + 31107 0.71 0.418824
Target:  5'- cGAcuccACGGCCUgcaCCGCcccguaAGGCAGCGCg -3'
miRNA:   3'- aCU----UGUCGGA---GGCGua----UCCGUUGCGa -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.