miRNA display CGI


Results 1 - 20 of 25 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
12382 3' -56.4 NC_003324.1 + 4575 0.66 0.665939
Target:  5'- aGUCGcGUCG-CCGC-CGUAGAggaugugaGCCGCAu -3'
miRNA:   3'- -CAGU-UAGCgGGCGaGCGUCU--------UGGCGU- -5'
12382 3' -56.4 NC_003324.1 + 42383 0.66 0.665939
Target:  5'- cGUCGuAUCGCgguaucCUGgUCGCGGGuCCGCAa -3'
miRNA:   3'- -CAGU-UAGCG------GGCgAGCGUCUuGGCGU- -5'
12382 3' -56.4 NC_003324.1 + 49445 0.66 0.655003
Target:  5'- uUCGagGUCGCCCGaUCGUcGAcACCGCu -3'
miRNA:   3'- cAGU--UAGCGGGCgAGCGuCU-UGGCGu -5'
12382 3' -56.4 NC_003324.1 + 3030 0.66 0.62211
Target:  5'- gGUCGAUCugcucuuggGCCUGUUCGCGGG--CGCGg -3'
miRNA:   3'- -CAGUUAG---------CGGGCGAGCGUCUugGCGU- -5'
12382 3' -56.4 NC_003324.1 + 14719 0.66 0.62211
Target:  5'- uGUUggUCGCCUGaUUGCcggaaAGGGCCGUAg -3'
miRNA:   3'- -CAGuuAGCGGGCgAGCG-----UCUUGGCGU- -5'
12382 3' -56.4 NC_003324.1 + 52480 0.67 0.600209
Target:  5'- -cCGAUCgGCUCGacCUCGUAGAcuuuGCCGCGg -3'
miRNA:   3'- caGUUAG-CGGGC--GAGCGUCU----UGGCGU- -5'
12382 3' -56.4 NC_003324.1 + 10980 0.67 0.600209
Target:  5'- cGUCGuuuauGUCgGCCUGCUCGUAGAcaACCa-- -3'
miRNA:   3'- -CAGU-----UAG-CGGGCGAGCGUCU--UGGcgu -5'
12382 3' -56.4 NC_003324.1 + 48620 0.67 0.567581
Target:  5'- gGUCGG-CGCCCGCaUC-CGGcuccGCCGCAa -3'
miRNA:   3'- -CAGUUaGCGGGCG-AGcGUCu---UGGCGU- -5'
12382 3' -56.4 NC_003324.1 + 37339 0.68 0.546075
Target:  5'- aUCAAUCGCCUGCUCuCGGcGAUUGUc -3'
miRNA:   3'- cAGUUAGCGGGCGAGcGUC-UUGGCGu -5'
12382 3' -56.4 NC_003324.1 + 8569 0.68 0.546075
Target:  5'- aUCGAuuUCGCgCGCUgGCucacugccgAGGACCGCGu -3'
miRNA:   3'- cAGUU--AGCGgGCGAgCG---------UCUUGGCGU- -5'
12382 3' -56.4 NC_003324.1 + 31154 0.68 0.535419
Target:  5'- ------gGCCUGcCUCGCGGAGCUGCc -3'
miRNA:   3'- caguuagCGGGC-GAGCGUCUUGGCGu -5'
12382 3' -56.4 NC_003324.1 + 54976 0.68 0.493597
Target:  5'- cUCAAUCuCUCGCUUGCGGGcGCCGaCAu -3'
miRNA:   3'- cAGUUAGcGGGCGAGCGUCU-UGGC-GU- -5'
12382 3' -56.4 NC_003324.1 + 7280 0.68 0.493597
Target:  5'- -aCGGUCGCUCGCUacaucaCGCAGAuccagcccaacACCGUg -3'
miRNA:   3'- caGUUAGCGGGCGA------GCGUCU-----------UGGCGu -5'
12382 3' -56.4 NC_003324.1 + 16353 0.69 0.473251
Target:  5'- cGUCGAUCGCgucguccaggacCUGCUCGCA-AACgGCAu -3'
miRNA:   3'- -CAGUUAGCG------------GGCGAGCGUcUUGgCGU- -5'
12382 3' -56.4 NC_003324.1 + 20475 0.69 0.473251
Target:  5'- cUCGAUCG-CCGCaUCGCGGAGCgGgAu -3'
miRNA:   3'- cAGUUAGCgGGCG-AGCGUCUUGgCgU- -5'
12382 3' -56.4 NC_003324.1 + 2773 0.7 0.424341
Target:  5'- uUUGAUCGCCCGauCUgGCAGGucuACCGCc -3'
miRNA:   3'- cAGUUAGCGGGC--GAgCGUCU---UGGCGu -5'
12382 3' -56.4 NC_003324.1 + 24498 0.7 0.414926
Target:  5'- uUCGcAUCGCCCGacgCGCAGugcauauCCGCAu -3'
miRNA:   3'- cAGU-UAGCGGGCga-GCGUCuu-----GGCGU- -5'
12382 3' -56.4 NC_003324.1 + 13696 0.7 0.387464
Target:  5'- -cCGAUCGCCUGCgcgucuUCGCGGAAuUUGCAg -3'
miRNA:   3'- caGUUAGCGGGCG------AGCGUCUU-GGCGU- -5'
12382 3' -56.4 NC_003324.1 + 5165 0.71 0.344434
Target:  5'- cGUCGAUCGCgCCGCUUaaGCuaucaGGCCGCGu -3'
miRNA:   3'- -CAGUUAGCG-GGCGAG--CGuc---UUGGCGU- -5'
12382 3' -56.4 NC_003324.1 + 13489 0.71 0.336251
Target:  5'- cUCAGUCGCCUGUaucUgGCcGAGCUGCAg -3'
miRNA:   3'- cAGUUAGCGGGCG---AgCGuCUUGGCGU- -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.