miRNA display CGI


Results 1 - 20 of 28 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
11850 3' -51 NC_003266.2 + 17803 0.66 0.840582
Target:  5'- cCGUcCCGACGcGGAGGAGAcgcugcugacgcACaCGGACg -3'
miRNA:   3'- -GCGcGGCUGUuCCUUUUCU------------UG-GUCUG- -5'
11850 3' -51 NC_003266.2 + 3361 0.66 0.840582
Target:  5'- aGUGUuuUGGgGAGGGAGAGGACCugcauaagGGGCa -3'
miRNA:   3'- gCGCG--GCUgUUCCUUUUCUUGG--------UCUG- -5'
11850 3' -51 NC_003266.2 + 22466 0.66 0.831136
Target:  5'- gCGCGCUa--AAGGAGAAccccGACCGGGCc -3'
miRNA:   3'- -GCGCGGcugUUCCUUUUc---UUGGUCUG- -5'
11850 3' -51 NC_003266.2 + 11122 0.66 0.821452
Target:  5'- gGUGCUgaggGACGAGGAuuucGAGgCGGACg -3'
miRNA:   3'- gCGCGG----CUGUUCCUuuu-CUUgGUCUG- -5'
11850 3' -51 NC_003266.2 + 31088 0.66 0.821452
Target:  5'- uGCuGCUGGCGAaugcGGAGuuGGGCgAGACg -3'
miRNA:   3'- gCG-CGGCUGUU----CCUUuuCUUGgUCUG- -5'
11850 3' -51 NC_003266.2 + 595 0.66 0.815533
Target:  5'- uGC-CCGAUGAGGAAAuuaucaucgcuuccgGGAGCgAGAUu -3'
miRNA:   3'- gCGcGGCUGUUCCUUU---------------UCUUGgUCUG- -5'
11850 3' -51 NC_003266.2 + 5069 0.66 0.811543
Target:  5'- uGgGgCGACugcGGGAGuAGGgcGCCAGACg -3'
miRNA:   3'- gCgCgGCUGu--UCCUUuUCU--UGGUCUG- -5'
11850 3' -51 NC_003266.2 + 17074 0.67 0.791098
Target:  5'- gCGCGCCcgcGGCAGGGucAGAGGcgcgcgGCCGcGGCg -3'
miRNA:   3'- -GCGCGG---CUGUUCCu-UUUCU------UGGU-CUG- -5'
11850 3' -51 NC_003266.2 + 23991 0.67 0.769902
Target:  5'- uCGgGCCGcaaacgcucuGCAAGGAGAAGGAggAGAUc -3'
miRNA:   3'- -GCgCGGC----------UGUUCCUUUUCUUggUCUG- -5'
11850 3' -51 NC_003266.2 + 25968 0.67 0.769902
Target:  5'- gGCGgCGGCAGGuGGAcuGAGGAUCGcGGCg -3'
miRNA:   3'- gCGCgGCUGUUC-CUU--UUCUUGGU-CUG- -5'
11850 3' -51 NC_003266.2 + 25453 0.68 0.741402
Target:  5'- cCGC-CCGugGAGGAuuuggaggaagacugGGAGAGCaguCAGGCa -3'
miRNA:   3'- -GCGcGGCugUUCCU---------------UUUCUUG---GUCUG- -5'
11850 3' -51 NC_003266.2 + 33141 0.68 0.736936
Target:  5'- uCGgGUCGGuCAAGGAGAuGAAacccuCCGGGCa -3'
miRNA:   3'- -GCgCGGCU-GUUCCUUUuCUU-----GGUCUG- -5'
11850 3' -51 NC_003266.2 + 9221 0.68 0.72569
Target:  5'- gGUGgUGGCGGGGGAGGGGGCCu-GCg -3'
miRNA:   3'- gCGCgGCUGUUCCUUUUCUUGGucUG- -5'
11850 3' -51 NC_003266.2 + 20347 0.68 0.702894
Target:  5'- gGUGCCGuCGAGGuaggggauGGAGCCcgaguAGACg -3'
miRNA:   3'- gCGCGGCuGUUCCuuu-----UCUUGG-----UCUG- -5'
11850 3' -51 NC_003266.2 + 6296 0.68 0.702894
Target:  5'- gGgGCUGGCAGGucaGAAucGuGCCAGACg -3'
miRNA:   3'- gCgCGGCUGUUC---CUUuuCuUGGUCUG- -5'
11850 3' -51 NC_003266.2 + 7048 0.69 0.678624
Target:  5'- cCGUGCCGACcAGGAcggguucccccuuGAAGAguACUGGAa -3'
miRNA:   3'- -GCGCGGCUGuUCCU-------------UUUCU--UGGUCUg -5'
11850 3' -51 NC_003266.2 + 9839 0.7 0.597951
Target:  5'- aCGCGCuCGGCGAGGAuggccuGCUGGAUc -3'
miRNA:   3'- -GCGCG-GCUGUUCCUuuucu-UGGUCUG- -5'
11850 3' -51 NC_003266.2 + 16046 0.7 0.597951
Target:  5'- aGCGCaaauuCAAGGAAGAGAugcuCCAGGu -3'
miRNA:   3'- gCGCGgcu--GUUCCUUUUCUu---GGUCUg -5'
11850 3' -51 NC_003266.2 + 7808 0.7 0.574694
Target:  5'- uGCgaGCCGAUggGGA--AGAACUGGAUc -3'
miRNA:   3'- gCG--CGGCUGuuCCUuuUCUUGGUCUG- -5'
11850 3' -51 NC_003266.2 + 8782 0.71 0.507606
Target:  5'- gCGCGCCGGCcgcggagaccuucagGAGGAGGAGAucgagcaguucaugACCgAGAUu -3'
miRNA:   3'- -GCGCGGCUG---------------UUCCUUUUCU--------------UGG-UCUG- -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.