miRNA display CGI


Results 1 - 17 of 17 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
32096 3' -59.6 NC_007016.1 + 121066 0.66 0.753453
Target:  5'- aUAGGAgGUuuGgccucggCGCG-GCCccugGGCCCc -3'
miRNA:   3'- -GUCCUgUAggCa------GCGCaCGGa---CCGGG- -5'
32096 3' -59.6 NC_007016.1 + 104487 0.66 0.743976
Target:  5'- -cGGACAcCCGgCGUGUuugaaGCCUGGaCCg -3'
miRNA:   3'- guCCUGUaGGCaGCGCA-----CGGACCgGG- -5'
32096 3' -59.6 NC_007016.1 + 129941 0.66 0.743976
Target:  5'- cCGGGGCGagggucucCCG-CGCG-GCCcccgGGCCCc -3'
miRNA:   3'- -GUCCUGUa-------GGCaGCGCaCGGa---CCGGG- -5'
32096 3' -59.6 NC_007016.1 + 17807 0.67 0.695354
Target:  5'- cCAGGGagcuGUaCCGUgGCGUGCCguuGUCCa -3'
miRNA:   3'- -GUCCUg---UA-GGCAgCGCACGGac-CGGG- -5'
32096 3' -59.6 NC_007016.1 + 17096 0.67 0.685442
Target:  5'- gGGGAgAUCCG-CGCGUcCCUGuguGCCg -3'
miRNA:   3'- gUCCUgUAGGCaGCGCAcGGAC---CGGg -5'
32096 3' -59.6 NC_007016.1 + 54622 0.67 0.675488
Target:  5'- -uGGuCAUugUCGUCGCGUGCacgcgcuUGGCCUu -3'
miRNA:   3'- guCCuGUA--GGCAGCGCACGg------ACCGGG- -5'
32096 3' -59.6 NC_007016.1 + 99724 0.68 0.595288
Target:  5'- -cGGAUAUCgcauCGUCGUGUGCgCgccuacguggGGCCCc -3'
miRNA:   3'- guCCUGUAG----GCAGCGCACG-Ga---------CCGGG- -5'
32096 3' -59.6 NC_007016.1 + 96877 0.69 0.565445
Target:  5'- -uGGAUAgUCCacagcUCGCGaGCCUGGCCUu -3'
miRNA:   3'- guCCUGU-AGGc----AGCGCaCGGACCGGG- -5'
32096 3' -59.6 NC_007016.1 + 12768 0.69 0.555579
Target:  5'- -cGGACAg--GUCGCGUGCCaGGCg- -3'
miRNA:   3'- guCCUGUaggCAGCGCACGGaCCGgg -5'
32096 3' -59.6 NC_007016.1 + 14938 0.69 0.555579
Target:  5'- -uGGcCGUCCGUUagGaCGcGCCUGGCCUg -3'
miRNA:   3'- guCCuGUAGGCAG--C-GCaCGGACCGGG- -5'
32096 3' -59.6 NC_007016.1 + 130531 0.69 0.555579
Target:  5'- cCGGGGCccUCgGUCGCGccccgggGCC-GGCCCc -3'
miRNA:   3'- -GUCCUGu-AGgCAGCGCa------CGGaCCGGG- -5'
32096 3' -59.6 NC_007016.1 + 130340 0.7 0.507117
Target:  5'- gGGGGCGUCgGggCGCGgcgccGCCgGGCUCg -3'
miRNA:   3'- gUCCUGUAGgCa-GCGCa----CGGaCCGGG- -5'
32096 3' -59.6 NC_007016.1 + 125033 0.7 0.488231
Target:  5'- aAGGGCAUCCacagaUGCGUGC--GGCCCu -3'
miRNA:   3'- gUCCUGUAGGca---GCGCACGgaCCGGG- -5'
32096 3' -59.6 NC_007016.1 + 130193 0.73 0.359014
Target:  5'- gCGGGGCggCCGgggGCGgcgGCCgcgGGCCCg -3'
miRNA:   3'- -GUCCUGuaGGCag-CGCa--CGGa--CCGGG- -5'
32096 3' -59.6 NC_007016.1 + 124563 0.73 0.32158
Target:  5'- cCAGG-CGuUCCGUCGCGUccuGCCUGGUg- -3'
miRNA:   3'- -GUCCuGU-AGGCAGCGCA---CGGACCGgg -5'
32096 3' -59.6 NC_007016.1 + 104592 0.78 0.165248
Target:  5'- gAGGAgcccCAUgCCGcCGCGcGCCUGGCCCa -3'
miRNA:   3'- gUCCU----GUA-GGCaGCGCaCGGACCGGG- -5'
32096 3' -59.6 NC_007016.1 + 48517 1.1 0.001036
Target:  5'- cCAGGACAUCCGUCGCGUGCCUGGCCCc -3'
miRNA:   3'- -GUCCUGUAGGCAGCGCACGGACCGGG- -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.