miRNA display CGI


Results 1 - 15 of 15 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
30415 5' -60.3 NC_006548.1 + 35246 0.66 0.355318
Target:  5'- uGCCGcccucGGC-CUUGUcuCCCCCGAAc -3'
miRNA:   3'- gCGGCu----CCGaGGACGuuGGGGGCUUu -5'
30415 5' -60.3 NC_006548.1 + 27594 0.66 0.346887
Target:  5'- gGCCGuaaccGGCgaugCCggcgaacaGCAGCCCCUGGAc -3'
miRNA:   3'- gCGGCu----CCGa---GGa-------CGUUGGGGGCUUu -5'
30415 5' -60.3 NC_006548.1 + 18301 0.66 0.346051
Target:  5'- uGUCGAGGUUCCUGaagguauCGACCCUggcUGGGAc -3'
miRNA:   3'- gCGGCUCCGAGGAC-------GUUGGGG---GCUUU- -5'
30415 5' -60.3 NC_006548.1 + 8765 0.66 0.344385
Target:  5'- aCGCCGuuggGGcGCUCCUggcuuuccaugccgGCAGCCaagaCCGAGAc -3'
miRNA:   3'- -GCGGC----UC-CGAGGA--------------CGUUGGg---GGCUUU- -5'
30415 5' -60.3 NC_006548.1 + 11987 0.66 0.3386
Target:  5'- aGCCGAGGa---UGCAGCCCaggaCGAu- -3'
miRNA:   3'- gCGGCUCCgaggACGUUGGGg---GCUuu -5'
30415 5' -60.3 NC_006548.1 + 7811 0.67 0.284654
Target:  5'- uGCCGcgagcugcgcaAGGCUCUgcGCGACCUCCGcGAg -3'
miRNA:   3'- gCGGC-----------UCCGAGGa-CGUUGGGGGCuUU- -5'
30415 5' -60.3 NC_006548.1 + 11731 0.67 0.283935
Target:  5'- gCGCCGGGGUUgCgGCGaugacaugacgauGCUCCCGAu- -3'
miRNA:   3'- -GCGGCUCCGAgGaCGU-------------UGGGGGCUuu -5'
30415 5' -60.3 NC_006548.1 + 22097 0.67 0.270542
Target:  5'- uGCCGAuGGCcuUCCUGCAggaGCUgCUGGAAc -3'
miRNA:   3'- gCGGCU-CCG--AGGACGU---UGGgGGCUUU- -5'
30415 5' -60.3 NC_006548.1 + 31069 0.67 0.2637
Target:  5'- cCGCCuGGcGCUCCgGCAACCCgUGGc- -3'
miRNA:   3'- -GCGGcUC-CGAGGaCGUUGGGgGCUuu -5'
30415 5' -60.3 NC_006548.1 + 36820 0.68 0.225566
Target:  5'- gGCgCGAGGCUCuCUGCGAgcgUCgCCGAGc -3'
miRNA:   3'- gCG-GCUCCGAG-GACGUU---GGgGGCUUu -5'
30415 5' -60.3 NC_006548.1 + 34402 0.69 0.216219
Target:  5'- uCGCUGuuGGCUCCUGguACucgggcugucgcguuCCCCGGAu -3'
miRNA:   3'- -GCGGCu-CCGAGGACguUG---------------GGGGCUUu -5'
30415 5' -60.3 NC_006548.1 + 17001 0.69 0.208314
Target:  5'- aGCCGGGcGCUCC-GgGACCgCCGAc- -3'
miRNA:   3'- gCGGCUC-CGAGGaCgUUGGgGGCUuu -5'
30415 5' -60.3 NC_006548.1 + 31017 0.7 0.167802
Target:  5'- uCGCCcAGGUUUCgGCGACCCUCGGu- -3'
miRNA:   3'- -GCGGcUCCGAGGaCGUUGGGGGCUuu -5'
30415 5' -60.3 NC_006548.1 + 26316 0.76 0.063997
Target:  5'- gGCCGGGuCUCCUGCAGCCaCuuGAAGa -3'
miRNA:   3'- gCGGCUCcGAGGACGUUGG-GggCUUU- -5'
30415 5' -60.3 NC_006548.1 + 5358 1.06 0.000271
Target:  5'- aCGCCGAGGCUCCUGCAACCCCCGAAAa -3'
miRNA:   3'- -GCGGCUCCGAGGACGUUGGGGGCUUU- -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.