miRNA display CGI


Results 1 - 20 of 96 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
18104 3' -58.3 NC_004680.1 + 2768 0.69 0.424592
Target:  5'- -cCGCCACCACCgcauaGCGGACcugauCCGccacGGCu -3'
miRNA:   3'- guGCGGUGGUGG-----CGCUUGu----GGCa---CCG- -5'
18104 3' -58.3 NC_004680.1 + 2867 0.67 0.536553
Target:  5'- -uCGCCGCCGCCGguggugguguaccaGAACcCUGaUGGCa -3'
miRNA:   3'- guGCGGUGGUGGCg-------------CUUGuGGC-ACCG- -5'
18104 3' -58.3 NC_004680.1 + 3063 0.68 0.491854
Target:  5'- cUACGCCucgaucuuugagGCCgcGCCGgGAGCGuuGUGGg -3'
miRNA:   3'- -GUGCGG------------UGG--UGGCgCUUGUggCACCg -5'
18104 3' -58.3 NC_004680.1 + 4300 0.69 0.405504
Target:  5'- gCGCGuCCGCCGcggucugcgauguCCGCGAACGCCuucaccUGGUc -3'
miRNA:   3'- -GUGC-GGUGGU-------------GGCGCUUGUGGc-----ACCG- -5'
18104 3' -58.3 NC_004680.1 + 6030 0.67 0.557343
Target:  5'- gCACGCCAuCCAcacgggaagacugcuCCgguGUGAGCGCUGcGGCg -3'
miRNA:   3'- -GUGCGGU-GGU---------------GG---CGCUUGUGGCaCCG- -5'
18104 3' -58.3 NC_004680.1 + 6124 0.7 0.35487
Target:  5'- aCGCGCCcauugacgACCugCGCccGCACCcgaGUGGCc -3'
miRNA:   3'- -GUGCGG--------UGGugGCGcuUGUGG---CACCG- -5'
18104 3' -58.3 NC_004680.1 + 6262 0.67 0.532427
Target:  5'- gCACGUCACCuuACgGUGA-CGCCG-GGUu -3'
miRNA:   3'- -GUGCGGUGG--UGgCGCUuGUGGCaCCG- -5'
18104 3' -58.3 NC_004680.1 + 7198 0.67 0.553165
Target:  5'- cCACGCCACCAacacaCGaUGGAUACUc-GGCg -3'
miRNA:   3'- -GUGCGGUGGUg----GC-GCUUGUGGcaCCG- -5'
18104 3' -58.3 NC_004680.1 + 7681 0.69 0.397491
Target:  5'- gGCgGCCugCAggcgguguucauCCGCGAcaACCGUGGUg -3'
miRNA:   3'- gUG-CGGugGU------------GGCGCUugUGGCACCG- -5'
18104 3' -58.3 NC_004680.1 + 7784 0.66 0.605914
Target:  5'- uCGCGgCACCACgGUugucgcggauGAACACCGccugcaGGCc -3'
miRNA:   3'- -GUGCgGUGGUGgCG----------CUUGUGGCa-----CCG- -5'
18104 3' -58.3 NC_004680.1 + 9302 0.66 0.584696
Target:  5'- gCACG-CGCCACCGCGc-CAUUGaccGGCg -3'
miRNA:   3'- -GUGCgGUGGUGGCGCuuGUGGCa--CCG- -5'
18104 3' -58.3 NC_004680.1 + 9878 0.66 0.605914
Target:  5'- -cCGCUuucacgGCCGCCGCGAcagGCAUCaucGGCg -3'
miRNA:   3'- guGCGG------UGGUGGCGCU---UGUGGca-CCG- -5'
18104 3' -58.3 NC_004680.1 + 10878 0.66 0.615493
Target:  5'- uGCGCCcuucucaGCCGauGCGGgaaGCGUCGUGGCg -3'
miRNA:   3'- gUGCGG-------UGGUggCGCU---UGUGGCACCG- -5'
18104 3' -58.3 NC_004680.1 + 11248 0.7 0.363132
Target:  5'- gACGUUGCCGCCGgGGAUuCC-UGGCa -3'
miRNA:   3'- gUGCGGUGGUGGCgCUUGuGGcACCG- -5'
18104 3' -58.3 NC_004680.1 + 11778 0.7 0.380052
Target:  5'- aCACGCCcuGCgCGCCaaGGACacccaucaaACCGUGGCc -3'
miRNA:   3'- -GUGCGG--UG-GUGGcgCUUG---------UGGCACCG- -5'
18104 3' -58.3 NC_004680.1 + 12219 0.67 0.542763
Target:  5'- aGCGUU-CC-CCGCGAGCGguuCCgGUGGCg -3'
miRNA:   3'- gUGCGGuGGuGGCGCUUGU---GG-CACCG- -5'
18104 3' -58.3 NC_004680.1 + 12309 0.71 0.300078
Target:  5'- cCACGCCACCggaACCGCucgcgggGAACGCUGccgcggacggGGCg -3'
miRNA:   3'- -GUGCGGUGG---UGGCG-------CUUGUGGCa---------CCG- -5'
18104 3' -58.3 NC_004680.1 + 12440 0.66 0.584696
Target:  5'- uGC-CCACCACCgGUGGugGCgGcGGCc -3'
miRNA:   3'- gUGcGGUGGUGG-CGCUugUGgCaCCG- -5'
18104 3' -58.3 NC_004680.1 + 12520 0.73 0.229058
Target:  5'- -cCGCCACCACCggugGUGGGCAgCGgGGCu -3'
miRNA:   3'- guGCGGUGGUGG----CGCUUGUgGCaCCG- -5'
18104 3' -58.3 NC_004680.1 + 12572 0.67 0.542763
Target:  5'- -uCGUCgGCCACCgGUGAACAggcuUUGUGGCg -3'
miRNA:   3'- guGCGG-UGGUGG-CGCUUGU----GGCACCG- -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.