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
23673 3' -55.3 NC_005261.1 + 4881 0.66 0.936611
Target:  5'- cGGcCgcCUCAgCCGCGGC--CGCCUCGg -3'
miRNA:   3'- -CCaGa-GAGUaGGUGUCGcaGCGGAGC- -5'
23673 3' -55.3 NC_005261.1 + 12790 0.68 0.85343
Target:  5'- cGUCggcgagCUCGUCguCGGCGUCGCUg-- -3'
miRNA:   3'- cCAGa-----GAGUAGguGUCGCAGCGGagc -5'
23673 3' -55.3 NC_005261.1 + 13849 0.74 0.505525
Target:  5'- cGUCUcCUCGUCgC-CGGCGUCGCCggCGg -3'
miRNA:   3'- cCAGA-GAGUAG-GuGUCGCAGCGGa-GC- -5'
23673 3' -55.3 NC_005261.1 + 28301 0.71 0.687424
Target:  5'- cGUCUCcuUCGUUCGCGGCGcccgCGCuCUCGc -3'
miRNA:   3'- cCAGAG--AGUAGGUGUCGCa---GCG-GAGC- -5'
23673 3' -55.3 NC_005261.1 + 30022 0.67 0.876023
Target:  5'- cGGUgCUCUCggCUGCAGCGg-GCCgCGg -3'
miRNA:   3'- -CCA-GAGAGuaGGUGUCGCagCGGaGC- -5'
23673 3' -55.3 NC_005261.1 + 32578 0.66 0.915207
Target:  5'- -cUCUcCUCGUCCGCGuccuccGCGUCcuCCUCGu -3'
miRNA:   3'- ccAGA-GAGUAGGUGU------CGCAGc-GGAGC- -5'
23673 3' -55.3 NC_005261.1 + 34138 1.12 0.002081
Target:  5'- cGGUCUCUCAUCCACAGCGUCGCCUCGg -3'
miRNA:   3'- -CCAGAGAGUAGGUGUCGCAGCGGAGC- -5'
23673 3' -55.3 NC_005261.1 + 41002 0.66 0.920918
Target:  5'- gGGUCccCUCGUCCAgGGCcgcgaagacgagGUCGUCgUCGu -3'
miRNA:   3'- -CCAGa-GAGUAGGUgUCG------------CAGCGG-AGC- -5'
23673 3' -55.3 NC_005261.1 + 41098 0.66 0.926389
Target:  5'- aGUCgaccgCgUCGUCCGCGGCGggcccgagCGCUUCc -3'
miRNA:   3'- cCAGa----G-AGUAGGUGUCGCa-------GCGGAGc -5'
23673 3' -55.3 NC_005261.1 + 49971 0.67 0.876023
Target:  5'- cGUCg-UCAUCCcCGGCGcCGCCgUCGu -3'
miRNA:   3'- cCAGagAGUAGGuGUCGCaGCGG-AGC- -5'
23673 3' -55.3 NC_005261.1 + 50477 0.76 0.43081
Target:  5'- aGGacgCUCgCGUCCGCGGCGgcccccagCGCCUCGc -3'
miRNA:   3'- -CCa--GAGaGUAGGUGUCGCa-------GCGGAGC- -5'
23673 3' -55.3 NC_005261.1 + 67981 0.66 0.936611
Target:  5'- aGUUcgCUUA-CCGCAGCGUCGUCgCGc -3'
miRNA:   3'- cCAGa-GAGUaGGUGUCGCAGCGGaGC- -5'
23673 3' -55.3 NC_005261.1 + 68353 0.66 0.909258
Target:  5'- uGGcCgagugCUUcguGUCgCuCGGCGUCGCCUCGg -3'
miRNA:   3'- -CCaGa----GAG---UAG-GuGUCGCAGCGGAGC- -5'
23673 3' -55.3 NC_005261.1 + 80455 0.75 0.486284
Target:  5'- cGG-CUCUCGUCgCGCAGCaucucGUCcGCCUCGc -3'
miRNA:   3'- -CCaGAGAGUAG-GUGUCG-----CAG-CGGAGC- -5'
23673 3' -55.3 NC_005261.1 + 83609 0.67 0.903073
Target:  5'- --gCUCUCcgCCGCGGCGUgGUCcagCGc -3'
miRNA:   3'- ccaGAGAGuaGGUGUCGCAgCGGa--GC- -5'
23673 3' -55.3 NC_005261.1 + 91120 0.67 0.883125
Target:  5'- cGUCUCgcgCG-CCGCGGcCGagGCCUCa -3'
miRNA:   3'- cCAGAGa--GUaGGUGUC-GCagCGGAGc -5'
23673 3' -55.3 NC_005261.1 + 93928 0.67 0.890003
Target:  5'- cGGgCUUgcgcCGUCCGCgGGCGcCGCCUCc -3'
miRNA:   3'- -CCaGAGa---GUAGGUG-UCGCaGCGGAGc -5'
23673 3' -55.3 NC_005261.1 + 99615 0.67 0.868703
Target:  5'- -----gUCGUCCACAGCGcCGCCa-- -3'
miRNA:   3'- ccagagAGUAGGUGUCGCaGCGGagc -5'
23673 3' -55.3 NC_005261.1 + 100901 0.67 0.876023
Target:  5'- cGGcCUCgccgcgCAccgCCGCgAGCGUCGCCUg- -3'
miRNA:   3'- -CCaGAGa-----GUa--GGUG-UCGCAGCGGAgc -5'
23673 3' -55.3 NC_005261.1 + 104484 0.7 0.747038
Target:  5'- -cUCcagCUCGUCCACGGCGUCGUg--- -3'
miRNA:   3'- ccAGa--GAGUAGGUGUCGCAGCGgagc -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.