miRNA display CGI


Results 1 - 20 of 27 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
21891 3' -52.8 NC_004902.1 + 36626 0.66 0.745747
Target:  5'- nACAGUcugaaccgGCUGCuGGCGGCAcuGCCcUUGCAa -3'
miRNA:   3'- -UGUCG--------CGAUG-UUGUCGU--CGGuAACGU- -5'
21891 3' -52.8 NC_004902.1 + 34041 0.66 0.739097
Target:  5'- gGCAGCGCcugACAugucgaugcucaaggACAGCaagacAGCCAagGCGg -3'
miRNA:   3'- -UGUCGCGa--UGU---------------UGUCG-----UCGGUaaCGU- -5'
21891 3' -52.8 NC_004902.1 + 8218 0.66 0.723416
Target:  5'- cACuGuCGCUGCcaucACGGCAGCUaauccgucuGUUGCAa -3'
miRNA:   3'- -UGuC-GCGAUGu---UGUCGUCGG---------UAACGU- -5'
21891 3' -52.8 NC_004902.1 + 4404 0.66 0.723416
Target:  5'- gACAGUGCUGCccgaAGCAGCuacuacAGCCA--GCu -3'
miRNA:   3'- -UGUCGCGAUG----UUGUCG------UCGGUaaCGu -5'
21891 3' -52.8 NC_004902.1 + 38373 0.66 0.723416
Target:  5'- gGCAGcCGUguucucauuUACAACAGCAGCa--UGCc -3'
miRNA:   3'- -UGUC-GCG---------AUGUUGUCGUCGguaACGu -5'
21891 3' -52.8 NC_004902.1 + 12257 0.66 0.700676
Target:  5'- -gGGCGaUUGCAguGCAGauaCAGUCAUUGCAg -3'
miRNA:   3'- ugUCGC-GAUGU--UGUC---GUCGGUAACGU- -5'
21891 3' -52.8 NC_004902.1 + 40477 0.67 0.689187
Target:  5'- cGCAGCGC-GCGA-AGCAGCaaggGCAg -3'
miRNA:   3'- -UGUCGCGaUGUUgUCGUCGguaaCGU- -5'
21891 3' -52.8 NC_004902.1 + 21311 0.67 0.689187
Target:  5'- gGCGGCGCaGCAGaCAGCAGaCAccGCu -3'
miRNA:   3'- -UGUCGCGaUGUU-GUCGUCgGUaaCGu -5'
21891 3' -52.8 NC_004902.1 + 39272 0.67 0.689187
Target:  5'- gGCAGCaGCaGCAcguGCAGCAGCaaa-GCAg -3'
miRNA:   3'- -UGUCG-CGaUGU---UGUCGUCGguaaCGU- -5'
21891 3' -52.8 NC_004902.1 + 8637 0.67 0.689187
Target:  5'- -uGGUGCUGCGuCGGCAGCUuccuaacgGCGa -3'
miRNA:   3'- ugUCGCGAUGUuGUCGUCGGuaa-----CGU- -5'
21891 3' -52.8 NC_004902.1 + 17595 0.67 0.677637
Target:  5'- aGCAcGUGCUACAGCAguGCAGCag--GUAa -3'
miRNA:   3'- -UGU-CGCGAUGUUGU--CGUCGguaaCGU- -5'
21891 3' -52.8 NC_004902.1 + 41770 0.67 0.677637
Target:  5'- uCGGCGUUAUcACGGCAGCa---GCAa -3'
miRNA:   3'- uGUCGCGAUGuUGUCGUCGguaaCGU- -5'
21891 3' -52.8 NC_004902.1 + 43643 0.67 0.642744
Target:  5'- aGCAGCaGCUcuuGCGGCAGCAGCUu----- -3'
miRNA:   3'- -UGUCG-CGA---UGUUGUCGUCGGuaacgu -5'
21891 3' -52.8 NC_004902.1 + 35741 0.67 0.642744
Target:  5'- -aGGCGCcACAGCGGUGGCaguaUGCAc -3'
miRNA:   3'- ugUCGCGaUGUUGUCGUCGgua-ACGU- -5'
21891 3' -52.8 NC_004902.1 + 7048 0.68 0.596121
Target:  5'- gGCGGCGUUGCAAUA-CAGCCcuagUGUu -3'
miRNA:   3'- -UGUCGCGAUGUUGUcGUCGGua--ACGu -5'
21891 3' -52.8 NC_004902.1 + 36663 0.69 0.531899
Target:  5'- gGCGGCGUggcaguagcuacugGCGACGGC-GCCAcgGCAc -3'
miRNA:   3'- -UGUCGCGa-------------UGUUGUCGuCGGUaaCGU- -5'
21891 3' -52.8 NC_004902.1 + 44255 0.69 0.516206
Target:  5'- gACAGUGCU--GACAG-AGCgGUUGCAa -3'
miRNA:   3'- -UGUCGCGAugUUGUCgUCGgUAACGU- -5'
21891 3' -52.8 NC_004902.1 + 30432 0.69 0.516206
Target:  5'- -aAGCGUgGCAugcaGGCAGCCggUGCAg -3'
miRNA:   3'- ugUCGCGaUGUug--UCGUCGGuaACGU- -5'
21891 3' -52.8 NC_004902.1 + 19029 0.7 0.505112
Target:  5'- uGCAGcCGCUuuaccguCGACGGCAGCC--UGUAc -3'
miRNA:   3'- -UGUC-GCGAu------GUUGUCGUCGGuaACGU- -5'
21891 3' -52.8 NC_004902.1 + 6745 0.7 0.494122
Target:  5'- uGCAGCG----GGCAGCAGUUGUUGCAu -3'
miRNA:   3'- -UGUCGCgaugUUGUCGUCGGUAACGU- -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.