miRNA display CGI


Results 1 - 20 of 49 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
24402 5' -57.6 NC_005264.1 + 112305 1.08 0.002222
Target:  5'- uCGACAGGCCUCUUGGCAGCGCAGAGAc -3'
miRNA:   3'- -GCUGUCCGGAGAACCGUCGCGUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 24300 0.82 0.134551
Target:  5'- aCGGC-GGCCUCUgUGGCuacGCGCAGAGAg -3'
miRNA:   3'- -GCUGuCCGGAGA-ACCGu--CGCGUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 73784 0.8 0.182371
Target:  5'- gGGUAGGCCUCUUGGaagauGGCGCAGGGGu -3'
miRNA:   3'- gCUGUCCGGAGAACCg----UCGCGUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 2499 0.76 0.307766
Target:  5'- uCGGCGGGCCUCgcgcgacuuCAGCGCGGGGGg -3'
miRNA:   3'- -GCUGUCCGGAGaacc-----GUCGCGUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 121526 0.76 0.307766
Target:  5'- uCGGCGGGCCUCgcgcgacuuCAGCGCGGGGGg -3'
miRNA:   3'- -GCUGUCCGGAGaacc-----GUCGCGUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 27164 0.72 0.502662
Target:  5'- cCGuGCAGGCCgUCUUcacGGCGGCGCAuAGGa -3'
miRNA:   3'- -GC-UGUCCGG-AGAA---CCGUCGCGUcUCU- -5'
24402 5' -57.6 NC_005264.1 + 158520 0.71 0.541661
Target:  5'- gGGCAGGCCUgCgcugUGGUGGaCGcCAGGGAc -3'
miRNA:   3'- gCUGUCCGGA-Ga---ACCGUC-GC-GUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 39493 0.71 0.541661
Target:  5'- gGGCAGGCCUgCgcugUGGUGGaCGcCAGGGAc -3'
miRNA:   3'- gCUGUCCGGA-Ga---ACCGUC-GC-GUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 69782 0.71 0.571557
Target:  5'- gGGCggAGGCCgCaUGGCAGCGCAGcAGc -3'
miRNA:   3'- gCUG--UCCGGaGaACCGUCGCGUC-UCu -5'
24402 5' -57.6 NC_005264.1 + 129497 0.71 0.571557
Target:  5'- gCGGCGGcGCagggUUUGGCGGCGcCGGAGGc -3'
miRNA:   3'- -GCUGUC-CGga--GAACCGUCGC-GUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 77267 0.7 0.608932
Target:  5'- cCGAUAcGGCCUUgggccuggaacgaaUUGGguGCGCGGcAGAu -3'
miRNA:   3'- -GCUGU-CCGGAG--------------AACCguCGCGUC-UCU- -5'
24402 5' -57.6 NC_005264.1 + 94605 0.7 0.622138
Target:  5'- -cGCGGGCauggCUUGGCGGUGCGGcguGGAc -3'
miRNA:   3'- gcUGUCCGga--GAACCGUCGCGUC---UCU- -5'
24402 5' -57.6 NC_005264.1 + 72747 0.7 0.622138
Target:  5'- uCGGCGGGCCUgUccgcugggaucUGGUuucuGGCGCAGAa- -3'
miRNA:   3'- -GCUGUCCGGAgA-----------ACCG----UCGCGUCUcu -5'
24402 5' -57.6 NC_005264.1 + 41095 0.7 0.622138
Target:  5'- aGACuaGGGCCUCgagGGCGGCGCc---- -3'
miRNA:   3'- gCUG--UCCGGAGaa-CCGUCGCGucucu -5'
24402 5' -57.6 NC_005264.1 + 73751 0.7 0.632306
Target:  5'- gCGAauaAGGCCUUaucGCuGGCGCAGAGAa -3'
miRNA:   3'- -GCUg--UCCGGAGaacCG-UCGCGUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 48069 0.7 0.642473
Target:  5'- gGACAucGGCCga---GCGGCGCAGGGAc -3'
miRNA:   3'- gCUGU--CCGGagaacCGUCGCGUCUCU- -5'
24402 5' -57.6 NC_005264.1 + 98519 0.69 0.672895
Target:  5'- aCGGgGGGCCucagUCUUGGCAGCgGCAa--- -3'
miRNA:   3'- -GCUgUCCGG----AGAACCGUCG-CGUcucu -5'
24402 5' -57.6 NC_005264.1 + 135575 0.69 0.672895
Target:  5'- gGGCcaacaGGGCCUCUuccUGGCuacuagagAGCGCAGAa- -3'
miRNA:   3'- gCUG-----UCCGGAGA---ACCG--------UCGCGUCUcu -5'
24402 5' -57.6 NC_005264.1 + 131986 0.68 0.712956
Target:  5'- aCGACAGGCC----GGUGGCGguGGGc -3'
miRNA:   3'- -GCUGUCCGGagaaCCGUCGCguCUCu -5'
24402 5' -57.6 NC_005264.1 + 48410 0.68 0.72184
Target:  5'- gCGAC-GGCCgagagCUUugugauagacgucGuGCAGCGCAGGGAc -3'
miRNA:   3'- -GCUGuCCGGa----GAA-------------C-CGUCGCGUCUCU- -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.