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
19383 5' -58.6 NC_004685.1 + 5465 0.66 0.63724
Target:  5'- cGGCgCGGGUcauccGGCgcgguucGugGCCGACAu -3'
miRNA:   3'- -CCGgGCCCAcaa--CCGa------CugUGGCUGU- -5'
19383 5' -58.6 NC_004685.1 + 13687 0.66 0.626682
Target:  5'- uGGCCgCGGGUGc-GGC--GCACCuGCAa -3'
miRNA:   3'- -CCGG-GCCCACaaCCGacUGUGGcUGU- -5'
19383 5' -58.6 NC_004685.1 + 14697 0.66 0.626682
Target:  5'- uGCCCGaGGagGgcaaGCUGcACGCCGACAc -3'
miRNA:   3'- cCGGGC-CCa-Caac-CGAC-UGUGGCUGU- -5'
19383 5' -58.6 NC_004685.1 + 46340 0.66 0.616129
Target:  5'- -uCUCGGG-GUUGGCcaccCGCCGACAu -3'
miRNA:   3'- ccGGGCCCaCAACCGacu-GUGGCUGU- -5'
19383 5' -58.6 NC_004685.1 + 6698 0.66 0.595068
Target:  5'- aGCCCGaGGUGggcGGCacccUGACGgUGACGu -3'
miRNA:   3'- cCGGGC-CCACaa-CCG----ACUGUgGCUGU- -5'
19383 5' -58.6 NC_004685.1 + 40778 0.66 0.584577
Target:  5'- cGGCCCGGGUcgaaGUccUGGUUccGGCgGCCGGuCAg -3'
miRNA:   3'- -CCGGGCCCA----CA--ACCGA--CUG-UGGCU-GU- -5'
19383 5' -58.6 NC_004685.1 + 11714 0.67 0.563712
Target:  5'- -aCCCGGcUGUgcGCUGACACCGcGCAc -3'
miRNA:   3'- ccGGGCCcACAacCGACUGUGGC-UGU- -5'
19383 5' -58.6 NC_004685.1 + 37142 0.67 0.563712
Target:  5'- uGCuCCGGcGUGgccgGGCcGACGCCGGgAa -3'
miRNA:   3'- cCG-GGCC-CACaa--CCGaCUGUGGCUgU- -5'
19383 5' -58.6 NC_004685.1 + 59324 0.67 0.550255
Target:  5'- cGUCgCGGGUGUUgcccuucuucagcaGGCUGAgCACuCGGCGc -3'
miRNA:   3'- cCGG-GCCCACAA--------------CCGACU-GUG-GCUGU- -5'
19383 5' -58.6 NC_004685.1 + 4002 0.67 0.54305
Target:  5'- cGGCCCGGuGUaGUcgacgGGCUGGCcuucGCgCGGCu -3'
miRNA:   3'- -CCGGGCC-CA-CAa----CCGACUG----UG-GCUGu -5'
19383 5' -58.6 NC_004685.1 + 20109 0.67 0.54305
Target:  5'- cGCgCGGGUGcUGGC-GAUGCgCGGCGa -3'
miRNA:   3'- cCGgGCCCACaACCGaCUGUG-GCUGU- -5'
19383 5' -58.6 NC_004685.1 + 28053 0.67 0.54305
Target:  5'- aGGCgCGGGccaaGGCUGAggcugagguCGCCGACGc -3'
miRNA:   3'- -CCGgGCCCacaaCCGACU---------GUGGCUGU- -5'
19383 5' -58.6 NC_004685.1 + 33774 0.67 0.522644
Target:  5'- cGUCgCGGGUGUcGGC-GACAgCGACc -3'
miRNA:   3'- cCGG-GCCCACAaCCGaCUGUgGCUGu -5'
19383 5' -58.6 NC_004685.1 + 3700 0.68 0.493603
Target:  5'- cGGCgCGGGUGUaucgcgccgaguacgGGCUGGCGCa-GCGc -3'
miRNA:   3'- -CCGgGCCCACAa--------------CCGACUGUGgcUGU- -5'
19383 5' -58.6 NC_004685.1 + 24920 0.68 0.492614
Target:  5'- aGGCCCGcgcGGUGUcGGCgucGGguCCGACc -3'
miRNA:   3'- -CCGGGC---CCACAaCCGa--CUguGGCUGu -5'
19383 5' -58.6 NC_004685.1 + 31441 0.68 0.492614
Target:  5'- uGGCCuCGccgauGGUGccggGGCcgagGACGCCGACGa -3'
miRNA:   3'- -CCGG-GC-----CCACaa--CCGa---CUGUGGCUGU- -5'
19383 5' -58.6 NC_004685.1 + 44738 0.68 0.473042
Target:  5'- cGGCaCCGGcGUGcccUGGUgggucggacccGACGCCGACAc -3'
miRNA:   3'- -CCG-GGCC-CACa--ACCGa----------CUGUGGCUGU- -5'
19383 5' -58.6 NC_004685.1 + 31075 0.68 0.463403
Target:  5'- cGGCgacaUGGGUGcgGcGCUcGACGCCGACu -3'
miRNA:   3'- -CCGg---GCCCACaaC-CGA-CUGUGGCUGu -5'
19383 5' -58.6 NC_004685.1 + 62750 0.68 0.463403
Target:  5'- cGGCUCGGGggccacgGUgGGCUGagGCACCuGCGu -3'
miRNA:   3'- -CCGGGCCCa------CAaCCGAC--UGUGGcUGU- -5'
19383 5' -58.6 NC_004685.1 + 40745 0.69 0.44257
Target:  5'- gGGCCgGGGUGgaugggauucgGGCUGaACACCa--- -3'
miRNA:   3'- -CCGGgCCCACaa---------CCGAC-UGUGGcugu -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.