miRNA display CGI


Results 1 - 16 of 16 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
11188 3' -38.7 NC_002816.1 + 48254 0.66 1
Target:  5'- aGGCcgauUUCAuuccGAAAUUcUGGCGAg -3'
miRNA:   3'- aCCGaaauAAGUu---CUUUAAaAUCGCU- -5'
11188 3' -38.7 NC_002816.1 + 10410 0.66 1
Target:  5'- cUGGUguugUUGUUCAAcauGAgcAGUggUAGCGAu -3'
miRNA:   3'- -ACCGa---AAUAAGUU---CU--UUAaaAUCGCU- -5'
11188 3' -38.7 NC_002816.1 + 121091 0.66 1
Target:  5'- cGGCUgggUGUgggCGAGAAGUUagacgUGGUGc -3'
miRNA:   3'- aCCGAa--AUAa--GUUCUUUAAa----AUCGCu -5'
11188 3' -38.7 NC_002816.1 + 64769 0.67 1
Target:  5'- gGGCgcg--UCGAGAAAU--UGGUGGg -3'
miRNA:   3'- aCCGaaauaAGUUCUUUAaaAUCGCU- -5'
11188 3' -38.7 NC_002816.1 + 50828 0.67 1
Target:  5'- -uGCUUUuuUUCcAGAAAUUUUAGCu- -3'
miRNA:   3'- acCGAAAu-AAGuUCUUUAAAAUCGcu -5'
11188 3' -38.7 NC_002816.1 + 55300 0.67 1
Target:  5'- uUGGUgauuacggUgGAGAAGUUUUGGUGGa -3'
miRNA:   3'- -ACCGaaaua---AgUUCUUUAAAAUCGCU- -5'
11188 3' -38.7 NC_002816.1 + 54790 0.68 1
Target:  5'- cGGUg--GUUCAAGGGAgacuuugAGCGGu -3'
miRNA:   3'- aCCGaaaUAAGUUCUUUaaaa---UCGCU- -5'
11188 3' -38.7 NC_002816.1 + 66379 0.68 1
Target:  5'- gGGUgUUAUUCAGGGAGUacggggaggaggagUUUgaGGCGAu -3'
miRNA:   3'- aCCGaAAUAAGUUCUUUA--------------AAA--UCGCU- -5'
11188 3' -38.7 NC_002816.1 + 97767 0.68 1
Target:  5'- gUGGUggagaUUGUUCAAGAAAUUgucAGUGc -3'
miRNA:   3'- -ACCGa----AAUAAGUUCUUUAAaa-UCGCu -5'
11188 3' -38.7 NC_002816.1 + 98484 0.68 1
Target:  5'- gGGUUUUAUUUuaguGGGAUg--GGCGAu -3'
miRNA:   3'- aCCGAAAUAAGuu--CUUUAaaaUCGCU- -5'
11188 3' -38.7 NC_002816.1 + 53884 0.68 1
Target:  5'- aGGUUacgGUUCAAGAAGUUgUAGaUGAu -3'
miRNA:   3'- aCCGAaa-UAAGUUCUUUAAaAUC-GCU- -5'
11188 3' -38.7 NC_002816.1 + 48438 0.7 1
Target:  5'- cUGGUUUUGUgcc-GAGAUUcUGGCGAg -3'
miRNA:   3'- -ACCGAAAUAaguuCUUUAAaAUCGCU- -5'
11188 3' -38.7 NC_002816.1 + 37463 0.73 0.999999
Target:  5'- gUGGCUUgcauacgCGGGGAGUacuaugugUUUAGCGAa -3'
miRNA:   3'- -ACCGAAauaa---GUUCUUUA--------AAAUCGCU- -5'
11188 3' -38.7 NC_002816.1 + 12086 0.8 0.993831
Target:  5'- cUGGCUUUGcgCc-GAGAUUUUAGCGAa -3'
miRNA:   3'- -ACCGAAAUaaGuuCUUUAAAAUCGCU- -5'
11188 3' -38.7 NC_002816.1 + 48624 0.87 0.888095
Target:  5'- cUGGCUUUAUUCAAaAAAUUUaAGCGAa -3'
miRNA:   3'- -ACCGAAAUAAGUUcUUUAAAaUCGCU- -5'
11188 3' -38.7 NC_002816.1 + 11901 1.13 0.079513
Target:  5'- cUGGCUUUAUUCAAGAAAUUUUAGCGAa -3'
miRNA:   3'- -ACCGAAAUAAGUUCUUUAAAAUCGCU- -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.