miRNA display CGI


Results 1 - 20 of 30 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
2647 5' -56.9 NC_001491.2 + 147717 0.66 0.877598
Target:  5'- gGCaGGGUCCGgccCGCGUCAg---CC-CCu -3'
miRNA:   3'- aCG-CCCAGGC---GCGCGGUaaaaGGuGG- -5'
2647 5' -56.9 NC_001491.2 + 140707 0.69 0.750649
Target:  5'- --aGGG-CCGUGCGCCuggcgCUACCu -3'
miRNA:   3'- acgCCCaGGCGCGCGGuaaaaGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 119480 0.68 0.805787
Target:  5'- cUGCGGGUCCcugGCaaGCUGUUaUCUGCUg -3'
miRNA:   3'- -ACGCCCAGG---CGcgCGGUAAaAGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 112009 1.12 0.001446
Target:  5'- gUGCGGGUCCGCGCGCCAUUUUCCACCa -3'
miRNA:   3'- -ACGCCCAGGCGCGCGGUAAAAGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 109017 0.66 0.891341
Target:  5'- aGCaGccUCGCGCGCCGUUgacaagUCCuGCCg -3'
miRNA:   3'- aCGcCcaGGCGCGCGGUAAa-----AGG-UGG- -5'
2647 5' -56.9 NC_001491.2 + 91256 0.67 0.814485
Target:  5'- gGCGGuuGUuuGCGCcuCCAUguUUUUCACCa -3'
miRNA:   3'- aCGCC--CAggCGCGc-GGUA--AAAGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 84477 0.68 0.778798
Target:  5'- aGCGcagagCCGgGCGCCcg--UCCACCa -3'
miRNA:   3'- aCGCcca--GGCgCGCGGuaaaAGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 55014 0.7 0.647462
Target:  5'- cUGCGcucgCCGCGCGCCGaagccaagaaaUCCACCa -3'
miRNA:   3'- -ACGCcca-GGCGCGCGGUaaa--------AGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 51174 0.67 0.823021
Target:  5'- cUGCGGGUUguugCGCucggcaaaaGCGCCGg---CUACCa -3'
miRNA:   3'- -ACGCCCAG----GCG---------CGCGGUaaaaGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 48381 0.66 0.889336
Target:  5'- aGCGGcUCaaGCGCGCCcccggcgcgaccgUCCACCc -3'
miRNA:   3'- aCGCCcAGg-CGCGCGGuaaa---------AGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 43832 0.69 0.741049
Target:  5'- aGcCGGG-CCGC-CGCCAagcuugCCGCCg -3'
miRNA:   3'- aC-GCCCaGGCGcGCGGUaaaa--GGUGG- -5'
2647 5' -56.9 NC_001491.2 + 39691 0.66 0.88458
Target:  5'- aGgGGGUCaGCGUGuCCGUga-CCugCa -3'
miRNA:   3'- aCgCCCAGgCGCGC-GGUAaaaGGugG- -5'
2647 5' -56.9 NC_001491.2 + 35269 0.71 0.61197
Target:  5'- cGCGGGUcgccugcgCCGUGCGCUGgccccgggagcgCCACCu -3'
miRNA:   3'- aCGCCCA--------GGCGCGCGGUaaaa--------GGUGG- -5'
2647 5' -56.9 NC_001491.2 + 33481 0.67 0.839573
Target:  5'- -cCGGGUCUGCGCGgCCcucgggCC-CCg -3'
miRNA:   3'- acGCCCAGGCGCGC-GGuaaaa-GGuGG- -5'
2647 5' -56.9 NC_001491.2 + 32795 0.71 0.590742
Target:  5'- gGCGGcUUCGUGCGCCccgggcgUCUACCa -3'
miRNA:   3'- aCGCCcAGGCGCGCGGuaaa---AGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 32066 0.68 0.805787
Target:  5'- cUGCccgGGGUCCcCGCaGCCcgagUUUCCAUCc -3'
miRNA:   3'- -ACG---CCCAGGcGCG-CGGua--AAAGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 31666 0.66 0.88458
Target:  5'- gGCGaGGacccccucaUCCGCGCaGCCAgcg-CgGCCg -3'
miRNA:   3'- aCGC-CC---------AGGCGCG-CGGUaaaaGgUGG- -5'
2647 5' -56.9 NC_001491.2 + 27211 0.68 0.787935
Target:  5'- cGCGGuGUCCGUGCuggucggguauaGCCcg--UCCGCg -3'
miRNA:   3'- aCGCC-CAGGCGCG------------CGGuaaaAGGUGg -5'
2647 5' -56.9 NC_001491.2 + 27128 0.67 0.831386
Target:  5'- aGCGcGUCCGC-UGCC----UCCGCCg -3'
miRNA:   3'- aCGCcCAGGCGcGCGGuaaaAGGUGG- -5'
2647 5' -56.9 NC_001491.2 + 27077 0.66 0.891341
Target:  5'- aUGCGGuacaCGCGCGgCCAggccUCCGCg -3'
miRNA:   3'- -ACGCCcag-GCGCGC-GGUaaa-AGGUGg -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.