miRNA display CGI


Results 1 - 20 of 21 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
22409 3' -53 NC_005056.1 + 19130 0.66 0.704901
Target:  5'- uACGGGUAGcagUGCCGuuGUCA-CCCg -3'
miRNA:   3'- -UGUCCGUUaa-AUGGUggCGGUaGGGg -5'
22409 3' -53 NC_005056.1 + 7686 0.66 0.681923
Target:  5'- uACGGGCGGga-GCUGCCGCCugaAUCgCUu -3'
miRNA:   3'- -UGUCCGUUaaaUGGUGGCGG---UAGgGG- -5'
22409 3' -53 NC_005056.1 + 17206 0.66 0.681923
Target:  5'- -gAGGUcuaccGGUgcGCUGCCGuUCAUCCCCg -3'
miRNA:   3'- ugUCCG-----UUAaaUGGUGGC-GGUAGGGG- -5'
22409 3' -53 NC_005056.1 + 17970 0.66 0.681923
Target:  5'- gGCGGcCAGUgaaaUAUCACUGCCAcaUCCgCCa -3'
miRNA:   3'- -UGUCcGUUAa---AUGGUGGCGGU--AGG-GG- -5'
22409 3' -53 NC_005056.1 + 6519 0.66 0.669188
Target:  5'- uGCAGcGCGGcUUguccuggauacgcGCCACCGCCcagcgcauAUCCCg -3'
miRNA:   3'- -UGUC-CGUUaAA-------------UGGUGGCGG--------UAGGGg -5'
22409 3' -53 NC_005056.1 + 10635 0.66 0.658732
Target:  5'- cACGGGCGGUgaugcugGCCugUGCCG-CCg- -3'
miRNA:   3'- -UGUCCGUUAaa-----UGGugGCGGUaGGgg -5'
22409 3' -53 NC_005056.1 + 10690 0.66 0.658732
Target:  5'- cACAGGCcagc-AUCACCGCCcgugcagCCUCa -3'
miRNA:   3'- -UGUCCGuuaaaUGGUGGCGGua-----GGGG- -5'
22409 3' -53 NC_005056.1 + 30660 0.66 0.647088
Target:  5'- cCAGGCAAUUaugucaagGCCuCCGUCAccacuauuUCCUCg -3'
miRNA:   3'- uGUCCGUUAAa-------UGGuGGCGGU--------AGGGG- -5'
22409 3' -53 NC_005056.1 + 208 0.66 0.647088
Target:  5'- uGCGGGCGGcuuuUUUACaCcCCGUCAUCacaCCCu -3'
miRNA:   3'- -UGUCCGUU----AAAUG-GuGGCGGUAG---GGG- -5'
22409 3' -53 NC_005056.1 + 11060 0.66 0.647088
Target:  5'- cACGGucacGCGGUcgGCCACCGgCCugacGUCCUCa -3'
miRNA:   3'- -UGUC----CGUUAaaUGGUGGC-GG----UAGGGG- -5'
22409 3' -53 NC_005056.1 + 9741 0.67 0.600479
Target:  5'- cGCAgacGGCGGgggUUAUCACCGgaauaaAUCCCCg -3'
miRNA:   3'- -UGU---CCGUUa--AAUGGUGGCgg----UAGGGG- -5'
22409 3' -53 NC_005056.1 + 1219 0.68 0.565799
Target:  5'- --cGGCAAaaaaaAUgACCGCCAgcgCCCCg -3'
miRNA:   3'- uguCCGUUaaa--UGgUGGCGGUa--GGGG- -5'
22409 3' -53 NC_005056.1 + 10078 0.69 0.487376
Target:  5'- --cGGUug--UGCCGCCGCUGUCgCCg -3'
miRNA:   3'- uguCCGuuaaAUGGUGGCGGUAGgGG- -5'
22409 3' -53 NC_005056.1 + 15747 0.7 0.465892
Target:  5'- gGCAGGCAAUUcGC--CCGCCuGUCCUg -3'
miRNA:   3'- -UGUCCGUUAAaUGguGGCGG-UAGGGg -5'
22409 3' -53 NC_005056.1 + 5495 0.7 0.424469
Target:  5'- cCGGGUAAac-ACCGCCGCa--CCCCg -3'
miRNA:   3'- uGUCCGUUaaaUGGUGGCGguaGGGG- -5'
22409 3' -53 NC_005056.1 + 18663 0.71 0.394886
Target:  5'- cACcGGCcaucgUUcCCGCCGCCGcaaUCCCCa -3'
miRNA:   3'- -UGuCCGuua--AAuGGUGGCGGU---AGGGG- -5'
22409 3' -53 NC_005056.1 + 26105 0.71 0.366669
Target:  5'- uCGGGUAAUaaccaACCACCGCCAgccaUUCCUg -3'
miRNA:   3'- uGUCCGUUAaa---UGGUGGCGGU----AGGGG- -5'
22409 3' -53 NC_005056.1 + 21593 0.73 0.282988
Target:  5'- uGCGGGauuuuUUUACCACUgGCCGUCaCCCc -3'
miRNA:   3'- -UGUCCguu--AAAUGGUGG-CGGUAG-GGG- -5'
22409 3' -53 NC_005056.1 + 26813 0.73 0.275506
Target:  5'- gGCAGGCAuauucUGCCAUUGCCcgCCUg -3'
miRNA:   3'- -UGUCCGUuaa--AUGGUGGCGGuaGGGg -5'
22409 3' -53 NC_005056.1 + 28901 0.74 0.268183
Target:  5'- --uGGCAAccaUUGCC-CCGCCAgacaUCCCCg -3'
miRNA:   3'- uguCCGUUa--AAUGGuGGCGGU----AGGGG- -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.