miRNA display CGI


Results 1 - 20 of 29 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
10975 3' -58.6 NC_002794.1 + 41303 0.78 0.256355
Target:  5'- cGCGGGCcgcgugGGGUCUCCGAGGUCuCCGAg- -3'
miRNA:   3'- -UGCCCG------UCUAGGGGCUCUAG-GGCUag -5'
10975 3' -58.6 NC_002794.1 + 48487 0.74 0.439758
Target:  5'- cCGGGCAGcgCCCaCGAcacguucaGcgCCCGAUCg -3'
miRNA:   3'- uGCCCGUCuaGGG-GCU--------CuaGGGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 150450 0.74 0.448519
Target:  5'- gGCGGGUgcGGAUCCCgGAaGGcUCCCGGUUc -3'
miRNA:   3'- -UGCCCG--UCUAGGGgCU-CU-AGGGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 153054 0.73 0.484488
Target:  5'- uCGGGCGGAcggUCCCCGAGcga-CGGUCg -3'
miRNA:   3'- uGCCCGUCU---AGGGGCUCuaggGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 49945 0.7 0.628804
Target:  5'- gACGGGCAGGcgCUCCc-GGUCgCCGGUCg -3'
miRNA:   3'- -UGCCCGUCUa-GGGGcuCUAG-GGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 82191 0.7 0.638677
Target:  5'- cCGGGCg---CCCCGAGcgCCCGGc- -3'
miRNA:   3'- uGCCCGucuaGGGGCUCuaGGGCUag -5'
10975 3' -58.6 NC_002794.1 + 40651 0.7 0.648546
Target:  5'- aGCGGGCAGcgacguaCUCG-GAUUCCGGUCg -3'
miRNA:   3'- -UGCCCGUCuag----GGGCuCUAGGGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 145327 0.69 0.687822
Target:  5'- gGCGGGCGGcgCucgggCCCGAGcgggCCCGAg- -3'
miRNA:   3'- -UGCCCGUCuaG-----GGGCUCua--GGGCUag -5'
10975 3' -58.6 NC_002794.1 + 72831 0.69 0.697553
Target:  5'- gACGgacGGCAGAcCaCCCGAGAUCCgCGGcUCu -3'
miRNA:   3'- -UGC---CCGUCUaG-GGGCUCUAGG-GCU-AG- -5'
10975 3' -58.6 NC_002794.1 + 15862 0.69 0.716854
Target:  5'- aACGGcaccCGGGUCCCgGAGAcgcaacUCUCGAUCu -3'
miRNA:   3'- -UGCCc---GUCUAGGGgCUCU------AGGGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 182353 0.69 0.716854
Target:  5'- gGCGGGCGGGUgaCCGGGcgcacggcccCCCGGUCc -3'
miRNA:   3'- -UGCCCGUCUAggGGCUCua--------GGGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 14919 0.68 0.745279
Target:  5'- aGCGGGCucgcGGUCCCgaCGuGcUCUCGAUCg -3'
miRNA:   3'- -UGCCCGu---CUAGGG--GCuCuAGGGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 117910 0.68 0.772875
Target:  5'- aGCuGGUGGAUCgucuugaacguCCCGAGGUCCaGGUCg -3'
miRNA:   3'- -UGcCCGUCUAG-----------GGGCUCUAGGgCUAG- -5'
10975 3' -58.6 NC_002794.1 + 116088 0.68 0.78185
Target:  5'- gGCGcGGCGGucGUCgCCGGGGUCgaGGUCg -3'
miRNA:   3'- -UGC-CCGUC--UAGgGGCUCUAGggCUAG- -5'
10975 3' -58.6 NC_002794.1 + 55322 0.67 0.790701
Target:  5'- cGCGGGCGGcu-UCCGAGGaCCCGGggUCg -3'
miRNA:   3'- -UGCCCGUCuagGGGCUCUaGGGCU--AG- -5'
10975 3' -58.6 NC_002794.1 + 100548 0.67 0.799418
Target:  5'- aGCGGGCGGccuUCCCCGuGG--CCGAg- -3'
miRNA:   3'- -UGCCCGUCu--AGGGGCuCUagGGCUag -5'
10975 3' -58.6 NC_002794.1 + 137904 0.67 0.807995
Target:  5'- gACGGuacaCAGGUCCCCGuGGcguUCgCGGUCg -3'
miRNA:   3'- -UGCCc---GUCUAGGGGCuCU---AGgGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 146707 0.67 0.807995
Target:  5'- uGCGGGagcuGGuggCCCUGcuGGAUCUCGAUCu -3'
miRNA:   3'- -UGCCCg---UCua-GGGGC--UCUAGGGCUAG- -5'
10975 3' -58.6 NC_002794.1 + 8955 0.67 0.816424
Target:  5'- gGCGGGCAcaaccucuuaccGAUCUaCGAGGUCCCu--- -3'
miRNA:   3'- -UGCCCGU------------CUAGGgGCUCUAGGGcuag -5'
10975 3' -58.6 NC_002794.1 + 145542 0.67 0.816424
Target:  5'- uCGGGCg---CCCCGAGcggCCCGAc- -3'
miRNA:   3'- uGCCCGucuaGGGGCUCua-GGGCUag -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.