miRNA display CGI


Results 1 - 20 of 95 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
24957 3' -65.4 NC_005284.1 + 1114 0.76 0.053367
Target:  5'- aGCCGCUgauuggcaacccggGCGacGGCGCGUCGCCauCGUGCu -3'
miRNA:   3'- -CGGCGG--------------CGCa-CCGCGCAGCGG--GCGCG- -5'
24957 3' -65.4 NC_005284.1 + 4674 0.73 0.087039
Target:  5'- -aCGCCGCGU-GCGCGaUCGC-CGCGUu -3'
miRNA:   3'- cgGCGGCGCAcCGCGC-AGCGgGCGCG- -5'
24957 3' -65.4 NC_005284.1 + 5397 0.7 0.154239
Target:  5'- gGCUGCuugccCGUGcGGCGCGccaGCUCGCGCu -3'
miRNA:   3'- -CGGCG-----GCGCaCCGCGCag-CGGGCGCG- -5'
24957 3' -65.4 NC_005284.1 + 5508 0.67 0.246334
Target:  5'- aGCgGCCGUGaaGCGCGcuucgucacgUCGCCuccugauCGCGCg -3'
miRNA:   3'- -CGgCGGCGCacCGCGC----------AGCGG-------GCGCG- -5'
24957 3' -65.4 NC_005284.1 + 6002 0.66 0.271545
Target:  5'- uGCCGCCuGCaucucgGCGUCGUUCGCGUa -3'
miRNA:   3'- -CGGCGG-CGcaccg-CGCAGCGGGCGCG- -5'
24957 3' -65.4 NC_005284.1 + 6360 0.67 0.252902
Target:  5'- uGCaCGCgGCGauUGGCGCGUC-UUCGCaGCc -3'
miRNA:   3'- -CG-GCGgCGC--ACCGCGCAGcGGGCG-CG- -5'
24957 3' -65.4 NC_005284.1 + 6467 0.68 0.213495
Target:  5'- cGCCGCCGCcuuccGGauaGCGcUCGaacaCCGCGUu -3'
miRNA:   3'- -CGGCGGCGca---CCg--CGC-AGCg---GGCGCG- -5'
24957 3' -65.4 NC_005284.1 + 6984 0.71 0.116187
Target:  5'- cGCgCGCCGCcaaGCGC-UCGCCCGuCGCc -3'
miRNA:   3'- -CG-GCGGCGcacCGCGcAGCGGGC-GCG- -5'
24957 3' -65.4 NC_005284.1 + 7730 0.66 0.26521
Target:  5'- uGCCGCCGCc-GGCgGCGUaacucCCCGauCGCa -3'
miRNA:   3'- -CGGCGGCGcaCCG-CGCAgc---GGGC--GCG- -5'
24957 3' -65.4 NC_005284.1 + 8108 0.67 0.224184
Target:  5'- cGCgGUCGCGgcGGCGU-UCGgcCCCGUGCa -3'
miRNA:   3'- -CGgCGGCGCa-CCGCGcAGC--GGGCGCG- -5'
24957 3' -65.4 NC_005284.1 + 8187 0.69 0.162274
Target:  5'- cCCGCCGCucgGGacguucgGCGUUGCCCacuGCGCc -3'
miRNA:   3'- cGGCGGCGca-CCg------CGCAGCGGG---CGCG- -5'
24957 3' -65.4 NC_005284.1 + 8690 0.7 0.139244
Target:  5'- cGCCGCaaGCGUGcaggucacgguGCGCG-CGCUCGaCGCg -3'
miRNA:   3'- -CGGCGg-CGCAC-----------CGCGCaGCGGGC-GCG- -5'
24957 3' -65.4 NC_005284.1 + 9105 0.69 0.17948
Target:  5'- cGCgGUCGUGaaGGCGUGUuccaauuuccacCGCCuCGCGCa -3'
miRNA:   3'- -CGgCGGCGCa-CCGCGCA------------GCGG-GCGCG- -5'
24957 3' -65.4 NC_005284.1 + 9132 0.66 0.291277
Target:  5'- aGuuGCCGgGUGuCGCGgaugCuaUCGCGCg -3'
miRNA:   3'- -CggCGGCgCACcGCGCa---GcgGGCGCG- -5'
24957 3' -65.4 NC_005284.1 + 9223 0.67 0.224184
Target:  5'- aGCCGagugCGCG-GGCGaCG-CGCCaCGCGg -3'
miRNA:   3'- -CGGCg---GCGCaCCGC-GCaGCGG-GCGCg -5'
24957 3' -65.4 NC_005284.1 + 9601 0.66 0.271545
Target:  5'- cGCUGCCGCGgcGGCGaa--GCUucagaaCGCGCa -3'
miRNA:   3'- -CGGCGGCGCa-CCGCgcagCGG------GCGCG- -5'
24957 3' -65.4 NC_005284.1 + 9903 0.7 0.154239
Target:  5'- aGCgCGCCGaa----GCGUCGCUCGCGCu -3'
miRNA:   3'- -CG-GCGGCgcaccgCGCAGCGGGCGCG- -5'
24957 3' -65.4 NC_005284.1 + 10127 0.69 0.170683
Target:  5'- -gCGCgGCGacGGCGCagacggCGCUCGCGCg -3'
miRNA:   3'- cgGCGgCGCa-CCGCGca----GCGGGCGCG- -5'
24957 3' -65.4 NC_005284.1 + 10204 0.66 0.284577
Target:  5'- -gCGCCGUcUGcGC-CGUCGC-CGCGCu -3'
miRNA:   3'- cgGCGGCGcAC-CGcGCAGCGgGCGCG- -5'
24957 3' -65.4 NC_005284.1 + 10521 0.66 0.258382
Target:  5'- cGCCGcCCGCGUcgccaaauuccGauaugccgacuGCGCGUcaucggcCGCCCGCGa -3'
miRNA:   3'- -CGGC-GGCGCA-----------C-----------CGCGCA-------GCGGGCGCg -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.