miRNA display CGI


Results 1 - 20 of 45 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
19169 3' -56 NC_004684.1 + 57894 0.66 0.735566
Target:  5'- aGCUCguacgggaguGACCGGGU-ACGGCUgCGCUuGCc -3'
miRNA:   3'- -CGAG----------CUGGCUCGuUGUCGA-GCGA-CGu -5'
19169 3' -56 NC_004684.1 + 38810 0.66 0.735566
Target:  5'- --cCGACCG-GCAgGCAGC-CGCcGCAc -3'
miRNA:   3'- cgaGCUGGCuCGU-UGUCGaGCGaCGU- -5'
19169 3' -56 NC_004684.1 + 34258 0.66 0.735566
Target:  5'- uGCUCGacagcgcaauGCCGAGCAccuuggcCAGCgcgagCGcCUGCGu -3'
miRNA:   3'- -CGAGC----------UGGCUCGUu------GUCGa----GC-GACGU- -5'
19169 3' -56 NC_004684.1 + 61104 0.66 0.725117
Target:  5'- cGgUCGACgCG-GCuACAGUUCGCcGCGc -3'
miRNA:   3'- -CgAGCUG-GCuCGuUGUCGAGCGaCGU- -5'
19169 3' -56 NC_004684.1 + 24220 0.66 0.714577
Target:  5'- -aUCGcGCCGAGCGACcucggcggucuGCUCGgUGCc -3'
miRNA:   3'- cgAGC-UGGCUCGUUGu----------CGAGCgACGu -5'
19169 3' -56 NC_004684.1 + 48087 0.66 0.714577
Target:  5'- gGCgUCGGCCGGGCA--AGCacgaugUCGCccUGCAu -3'
miRNA:   3'- -CG-AGCUGGCUCGUugUCG------AGCG--ACGU- -5'
19169 3' -56 NC_004684.1 + 12819 0.66 0.703958
Target:  5'- --gCGcCCGAGgaCGGCGGCUCuGCUGCc -3'
miRNA:   3'- cgaGCuGGCUC--GUUGUCGAG-CGACGu -5'
19169 3' -56 NC_004684.1 + 43965 0.66 0.703958
Target:  5'- ---aGGCCGAGCAuCAGCcgugCGCggGCGu -3'
miRNA:   3'- cgagCUGGCUCGUuGUCGa---GCGa-CGU- -5'
19169 3' -56 NC_004684.1 + 6404 0.66 0.703958
Target:  5'- -gUUGGCCGAGguguACAGCUCgGCgGCGg -3'
miRNA:   3'- cgAGCUGGCUCgu--UGUCGAG-CGaCGU- -5'
19169 3' -56 NC_004684.1 + 46590 0.66 0.693271
Target:  5'- cGCUCGACgGcGGCGACGGCg-GCgGUu -3'
miRNA:   3'- -CGAGCUGgC-UCGUUGUCGagCGaCGu -5'
19169 3' -56 NC_004684.1 + 23956 0.66 0.693271
Target:  5'- cGC-CuGCCGAGCcuguacaacccgGACGGCUCGCU-CAa -3'
miRNA:   3'- -CGaGcUGGCUCG------------UUGUCGAGCGAcGU- -5'
19169 3' -56 NC_004684.1 + 18997 0.66 0.693271
Target:  5'- uCUCGGCC-AGCucgcGCAGgUCGCUGg- -3'
miRNA:   3'- cGAGCUGGcUCGu---UGUCgAGCGACgu -5'
19169 3' -56 NC_004684.1 + 26351 0.66 0.682525
Target:  5'- cGCUCGGCCauuccgucGGGCAACGGCaccggcaacgUCgGCgGCGa -3'
miRNA:   3'- -CGAGCUGG--------CUCGUUGUCG----------AG-CGaCGU- -5'
19169 3' -56 NC_004684.1 + 18197 0.66 0.682525
Target:  5'- gGC-CGACCGAGCA--GGC-CGCcGCc -3'
miRNA:   3'- -CGaGCUGGCUCGUugUCGaGCGaCGu -5'
19169 3' -56 NC_004684.1 + 27292 0.66 0.682525
Target:  5'- cGCUaCGGCCacGAGau-CGGC-CGCUGCGg -3'
miRNA:   3'- -CGA-GCUGG--CUCguuGUCGaGCGACGU- -5'
19169 3' -56 NC_004684.1 + 46288 0.67 0.671733
Target:  5'- cGCggCGGCCGAGCGcguuGCGGCgcuugGCgUGCGc -3'
miRNA:   3'- -CGa-GCUGGCUCGU----UGUCGag---CG-ACGU- -5'
19169 3' -56 NC_004684.1 + 49893 0.67 0.671733
Target:  5'- cGCUCGcgaGCUGcGUAAuCAGCUC-CUGCAc -3'
miRNA:   3'- -CGAGC---UGGCuCGUU-GUCGAGcGACGU- -5'
19169 3' -56 NC_004684.1 + 41069 0.67 0.660905
Target:  5'- aGCUgGACCGAG-GACAaCUCGgUGUAc -3'
miRNA:   3'- -CGAgCUGGCUCgUUGUcGAGCgACGU- -5'
19169 3' -56 NC_004684.1 + 54986 0.67 0.65005
Target:  5'- cGC-CGACCacAGCgGACGGCUC-CUGCGg -3'
miRNA:   3'- -CGaGCUGGc-UCG-UUGUCGAGcGACGU- -5'
19169 3' -56 NC_004684.1 + 57853 0.67 0.65005
Target:  5'- gGCUCcaACCGGcGCAcCAGCUCGCgGUc -3'
miRNA:   3'- -CGAGc-UGGCU-CGUuGUCGAGCGaCGu -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.