miRNA display CGI


Results 1 - 20 of 46 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
28372 3' -64.4 NC_005946.1 + 3282 0.66 0.428493
Target:  5'- gCCAUCggCAGuGAGGCUGgCGGCuCCCg -3'
miRNA:   3'- gGGUAGg-GUCcCUCCGGCgGUCG-GGG- -5'
28372 3' -64.4 NC_005946.1 + 4529 0.67 0.383724
Target:  5'- cCCCAUCaCCcugaguucguugagGGGGAgaaacagguuaaaGGCCGC-GGCCCUc -3'
miRNA:   3'- -GGGUAG-GG--------------UCCCU-------------CCGGCGgUCGGGG- -5'
28372 3' -64.4 NC_005946.1 + 7750 0.68 0.371068
Target:  5'- uCCCAUCCUGGGGucGUaaaCGGaCCCCg -3'
miRNA:   3'- -GGGUAGGGUCCCucCGgcgGUC-GGGG- -5'
28372 3' -64.4 NC_005946.1 + 9853 0.68 0.340695
Target:  5'- uCCCAcaCCCugggguagugGGGGAGGCUccuCCuGCCCCc -3'
miRNA:   3'- -GGGUa-GGG----------UCCCUCCGGc--GGuCGGGG- -5'
28372 3' -64.4 NC_005946.1 + 11093 0.68 0.333388
Target:  5'- gCC-UCUUuuuGGccGCCGCCAGCCCCa -3'
miRNA:   3'- gGGuAGGGuc-CCucCGGCGGUCGGGG- -5'
28372 3' -64.4 NC_005946.1 + 11274 0.66 0.453773
Target:  5'- uCCCGUCaggauguCUAGGGAcuccucgaaGGCCGCCcuGCUCa -3'
miRNA:   3'- -GGGUAG-------GGUCCCU---------CCGGCGGu-CGGGg -5'
28372 3' -64.4 NC_005946.1 + 12636 0.68 0.333388
Target:  5'- aCCAUCUgAGGGcagacgaccugaGGGacaGCCuGCCCCa -3'
miRNA:   3'- gGGUAGGgUCCC------------UCCgg-CGGuCGGGG- -5'
28372 3' -64.4 NC_005946.1 + 13797 0.7 0.24888
Target:  5'- aCCCAUCUCAGGcugguGAGGCUugagauGUCGGCCUUc -3'
miRNA:   3'- -GGGUAGGGUCC-----CUCCGG------CGGUCGGGG- -5'
28372 3' -64.4 NC_005946.1 + 15919 0.67 0.403237
Target:  5'- gCgGUCguggCCAuGGAGGCCGCCGaUCCCa -3'
miRNA:   3'- gGgUAG----GGUcCCUCCGGCGGUcGGGG- -5'
28372 3' -64.4 NC_005946.1 + 16204 0.7 0.24888
Target:  5'- aCCGUCcgCCAuGGAGGCCGCCgaGGCagCCa -3'
miRNA:   3'- gGGUAG--GGUcCCUCCGGCGG--UCGg-GG- -5'
28372 3' -64.4 NC_005946.1 + 20888 0.7 0.272828
Target:  5'- cCUCAgacgCCCuGGaGcAGGCCGCCgcgguGGCCCUg -3'
miRNA:   3'- -GGGUa---GGGuCC-C-UCCGGCGG-----UCGGGG- -5'
28372 3' -64.4 NC_005946.1 + 21825 0.67 0.411551
Target:  5'- gCCG--CCAGGGuGGCCGUCAaugGCgCCa -3'
miRNA:   3'- gGGUagGGUCCCuCCGGCGGU---CGgGG- -5'
28372 3' -64.4 NC_005946.1 + 23067 0.7 0.266063
Target:  5'- aCCCGgaggaCCCGGaggucccGGAGGuCCGCgAGaCCCCa -3'
miRNA:   3'- -GGGUa----GGGUC-------CCUCC-GGCGgUC-GGGG- -5'
28372 3' -64.4 NC_005946.1 + 23170 0.72 0.20621
Target:  5'- --uGUCCCAGGGAcccuGGCCGCUccggacGCCUCa -3'
miRNA:   3'- gggUAGGGUCCCU----CCGGCGGu-----CGGGG- -5'
28372 3' -64.4 NC_005946.1 + 26418 0.68 0.363304
Target:  5'- cCCUGUCCUcGGGAgccgguuucaGGCUGCUccuGGCCCa -3'
miRNA:   3'- -GGGUAGGGuCCCU----------CCGGCGG---UCGGGg -5'
28372 3' -64.4 NC_005946.1 + 28663 0.85 0.022157
Target:  5'- aCCAggCCAGGGGGGCCGUCAGCCUg -3'
miRNA:   3'- gGGUagGGUCCCUCCGGCGGUCGGGg -5'
28372 3' -64.4 NC_005946.1 + 28883 0.72 0.200864
Target:  5'- aCCGUCCCguGGGGAGaGUuugcagaCGuCCAGUCCCg -3'
miRNA:   3'- gGGUAGGG--UCCCUC-CG-------GC-GGUCGGGG- -5'
28372 3' -64.4 NC_005946.1 + 34370 0.66 0.44584
Target:  5'- gCCCAcggUUCGGGGAGa-CGCCuGCCCUu -3'
miRNA:   3'- -GGGUa--GGGUCCCUCcgGCGGuCGGGG- -5'
28372 3' -64.4 NC_005946.1 + 34877 0.77 0.088626
Target:  5'- aCCgAUCCCAGGGAcaGGUCccugGCCAGCCUg -3'
miRNA:   3'- -GGgUAGGGUCCCU--CCGG----CGGUCGGGg -5'
28372 3' -64.4 NC_005946.1 + 35317 1.11 0.000268
Target:  5'- uCCCAUCCCAGGGAGGCCGCCAGCCCCc -3'
miRNA:   3'- -GGGUAGGGUCCCUCCGGCGGUCGGGG- -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.