miRNA display CGI


Results 1 - 12 of 12 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
11412 3' -63.5 NC_003085.1 + 873 0.66 0.314872
Target:  5'- uCGcGC-CUUCCCGGCGgugGCGuCCGaGGGGc -3'
miRNA:   3'- -GC-CGaGGAGGGCCGU---UGU-GGC-CCCCu -5'
11412 3' -63.5 NC_003085.1 + 2825 0.67 0.278992
Target:  5'- gGGCgauucucucgcugUCC-CCCGGUGuuGCCGGGaGGAg -3'
miRNA:   3'- gCCG-------------AGGaGGGCCGUugUGGCCC-CCU- -5'
11412 3' -63.5 NC_003085.1 + 19677 0.68 0.218744
Target:  5'- aCGGCgaCCUCCUGGCGGCcCUGGaGGc- -3'
miRNA:   3'- -GCCGa-GGAGGGCCGUUGuGGCC-CCcu -5'
11412 3' -63.5 NC_003085.1 + 26554 0.66 0.314872
Target:  5'- gGGCUUCgcCCCGGCAGCcuCCGccGGAg -3'
miRNA:   3'- gCCGAGGa-GGGCCGUUGu-GGCccCCU- -5'
11412 3' -63.5 NC_003085.1 + 26873 0.66 0.322303
Target:  5'- aGGCgcaCCUgCCGGCGcCGgUGGGuGGAc -3'
miRNA:   3'- gCCGa--GGAgGGCCGUuGUgGCCC-CCU- -5'
11412 3' -63.5 NC_003085.1 + 31146 0.69 0.183152
Target:  5'- gCGGCUgcCCUUCggaCGGcCAGCGCCGGGGc- -3'
miRNA:   3'- -GCCGA--GGAGG---GCC-GUUGUGGCCCCcu -5'
11412 3' -63.5 NC_003085.1 + 31644 0.7 0.169528
Target:  5'- aGGggCCUgCCgcacaGGCGGCACCGGGGcGGg -3'
miRNA:   3'- gCCgaGGAgGG-----CCGUUGUGGCCCC-CU- -5'
11412 3' -63.5 NC_003085.1 + 39121 0.69 0.187904
Target:  5'- gCGGUgCCUCCCgggaGGCGACGuggCGGGGGc -3'
miRNA:   3'- -GCCGaGGAGGG----CCGUUGUg--GCCCCCu -5'
11412 3' -63.5 NC_003085.1 + 42863 0.69 0.183152
Target:  5'- ----aCCUCCCGGCccgGCCGGGGGc -3'
miRNA:   3'- gccgaGGAGGGCCGuugUGGCCCCCu -5'
11412 3' -63.5 NC_003085.1 + 43643 0.71 0.133957
Target:  5'- aGGCcauccgCCUCCa-GCAGC-CCGGGGGGc -3'
miRNA:   3'- gCCGa-----GGAGGgcCGUUGuGGCCCCCU- -5'
11412 3' -63.5 NC_003085.1 + 46619 1.07 0.000208
Target:  5'- uCGGCUCCUCCCGGCAACACCGGGGGAc -3'
miRNA:   3'- -GCCGAGGAGGGCCGUUGUGGCCCCCU- -5'
11412 3' -63.5 NC_003085.1 + 48244 0.71 0.133957
Target:  5'- --aCUCCUCCagcaGcGCGGCGCCGGGGuGAg -3'
miRNA:   3'- gccGAGGAGGg---C-CGUUGUGGCCCC-CU- -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.