miRNA display CGI


Results 1 - 20 of 21 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
27677 3' -56.5 NC_005882.1 + 27159 0.66 0.577703
Target:  5'- gCGGgccagcaGCAUCCcgcccuGGGCGAgcagccgCAgcgGGCCGAu -3'
miRNA:   3'- gGCC-------UGUAGG------UCCGCUa------GUa--CCGGCU- -5'
27677 3' -56.5 NC_005882.1 + 21929 0.67 0.492669
Target:  5'- gCCGGuauuCGUCCGGGCGcUCcgGGaaGu -3'
miRNA:   3'- -GGCCu---GUAGGUCCGCuAGuaCCggCu -5'
27677 3' -56.5 NC_005882.1 + 33173 0.67 0.492669
Target:  5'- aUCGaGCAUgCCGGGCGcu--UGGCCGAc -3'
miRNA:   3'- -GGCcUGUA-GGUCCGCuaguACCGGCU- -5'
27677 3' -56.5 NC_005882.1 + 11726 0.67 0.489545
Target:  5'- gCCGGACAgCUAucucgaaaccgacuGGCGG-CAUGGaCCGGa -3'
miRNA:   3'- -GGCCUGUaGGU--------------CCGCUaGUACC-GGCU- -5'
27677 3' -56.5 NC_005882.1 + 30441 0.67 0.483326
Target:  5'- uCCGuGACGggCGGGCGAUCGgcaucggaguagaugGcGCCGAg -3'
miRNA:   3'- -GGC-CUGUagGUCCGCUAGUa--------------C-CGGCU- -5'
27677 3' -56.5 NC_005882.1 + 714 0.67 0.472023
Target:  5'- -aGGuCGcCCAGGCacuGAUCGagcUGGCCGAc -3'
miRNA:   3'- ggCCuGUaGGUCCG---CUAGU---ACCGGCU- -5'
27677 3' -56.5 NC_005882.1 + 30594 0.67 0.472023
Target:  5'- -aGGGCAagcugaccuaCCAgGGCGG-CAUGGCCGGa -3'
miRNA:   3'- ggCCUGUa---------GGU-CCGCUaGUACCGGCU- -5'
27677 3' -56.5 NC_005882.1 + 3750 0.68 0.451824
Target:  5'- cCCGGACGUCCuGGUugcgcucgGAcagcuugaccuUCAgcuccggcUGGCCGAu -3'
miRNA:   3'- -GGCCUGUAGGuCCG--------CU-----------AGU--------ACCGGCU- -5'
27677 3' -56.5 NC_005882.1 + 28346 0.68 0.433081
Target:  5'- cCUGGGCcaaCCAGGCGcaguccgcgaugcgCGUGGCCGu -3'
miRNA:   3'- -GGCCUGua-GGUCCGCua------------GUACCGGCu -5'
27677 3' -56.5 NC_005882.1 + 21155 0.69 0.385105
Target:  5'- gCCGGuCAaCCugcucGGCGucauccugGUCAUGGCCGGc -3'
miRNA:   3'- -GGCCuGUaGGu----CCGC--------UAGUACCGGCU- -5'
27677 3' -56.5 NC_005882.1 + 24836 0.7 0.350019
Target:  5'- gCGGGCGcCCA-GCGAUCAgccGCCGAg -3'
miRNA:   3'- gGCCUGUaGGUcCGCUAGUac-CGGCU- -5'
27677 3' -56.5 NC_005882.1 + 15642 0.7 0.350019
Target:  5'- cCCGGACGUCCGcGCGAcc--GGCCa- -3'
miRNA:   3'- -GGCCUGUAGGUcCGCUaguaCCGGcu -5'
27677 3' -56.5 NC_005882.1 + 25587 0.7 0.350019
Target:  5'- cCUGGACcugaucgauuGUCCggccgAGGCGGUCGuacUGGCCGc -3'
miRNA:   3'- -GGCCUG----------UAGG-----UCCGCUAGU---ACCGGCu -5'
27677 3' -56.5 NC_005882.1 + 3800 0.7 0.328463
Target:  5'- aCCaGGACGUCCGGGaaGUCGugcagcgaugcgaaaUGGUCGAg -3'
miRNA:   3'- -GG-CCUGUAGGUCCgcUAGU---------------ACCGGCU- -5'
27677 3' -56.5 NC_005882.1 + 2213 0.7 0.30945
Target:  5'- aCGGACGcacgccccgaaaUCCAGGCGAUCGUcacgcaGGCg-- -3'
miRNA:   3'- gGCCUGU------------AGGUCCGCUAGUA------CCGgcu -5'
27677 3' -56.5 NC_005882.1 + 5320 0.71 0.294256
Target:  5'- gUCGGug--CCGGGCG-UCAUGGUCGGc -3'
miRNA:   3'- -GGCCuguaGGUCCGCuAGUACCGGCU- -5'
27677 3' -56.5 NC_005882.1 + 3678 0.71 0.286879
Target:  5'- aCCGGAgguauuCGUCCAGGCGcg---GGCCGu -3'
miRNA:   3'- -GGCCU------GUAGGUCCGCuaguaCCGGCu -5'
27677 3' -56.5 NC_005882.1 + 25528 0.72 0.25883
Target:  5'- gCCGGACAaucgaucaggUCCAGGCGAagCAagcGGCCc- -3'
miRNA:   3'- -GGCCUGU----------AGGUCCGCUa-GUa--CCGGcu -5'
27677 3' -56.5 NC_005882.1 + 23560 0.73 0.221004
Target:  5'- -gGGGCAaCCGcacGGCGG-CAUGGCCGAc -3'
miRNA:   3'- ggCCUGUaGGU---CCGCUaGUACCGGCU- -5'
27677 3' -56.5 NC_005882.1 + 31156 0.74 0.192652
Target:  5'- aCCGGAUuucaucgcccgugAUCCagAGGCcauuacggccgaGAUCGUGGCCGAc -3'
miRNA:   3'- -GGCCUG-------------UAGG--UCCG------------CUAGUACCGGCU- -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.