miRNA display CGI


Results 1 - 20 of 39 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
22966 3' -51.8 NC_005137.2 + 2476 0.74 0.674028
Target:  5'- cGCGCUAUUuaUGCGcCGCGUGCgGCa-- -3'
miRNA:   3'- -UGCGAUAA--ACGUuGCGCACGaCGcag -5'
22966 3' -51.8 NC_005137.2 + 3253 0.71 0.815399
Target:  5'- aACGCcGUUUGCAACGUGU-UUGUGUg -3'
miRNA:   3'- -UGCGaUAAACGUUGCGCAcGACGCAg -5'
22966 3' -51.8 NC_005137.2 + 7177 0.67 0.949373
Target:  5'- cGCGCgcgUUGCAgcgcauuucgaaccgGCGCGUGC--CGUCu -3'
miRNA:   3'- -UGCGauaAACGU---------------UGCGCACGacGCAG- -5'
22966 3' -51.8 NC_005137.2 + 11195 0.71 0.815399
Target:  5'- aGCGCU-UUUGCAAUGCGUucGCggucGCGUa -3'
miRNA:   3'- -UGCGAuAAACGUUGCGCA--CGa---CGCAg -5'
22966 3' -51.8 NC_005137.2 + 17315 0.68 0.927367
Target:  5'- cGCGCUG--UGCGACGU--GC-GCGUCg -3'
miRNA:   3'- -UGCGAUaaACGUUGCGcaCGaCGCAG- -5'
22966 3' -51.8 NC_005137.2 + 17921 0.76 0.556049
Target:  5'- --aCUAUUUGCGGCGCGUGCa-CGUCg -3'
miRNA:   3'- ugcGAUAAACGUUGCGCACGacGCAG- -5'
22966 3' -51.8 NC_005137.2 + 23658 0.81 0.315464
Target:  5'- uACGaCUAcgUGCAACGCGUGCuuagcaaagcgUGCGUCa -3'
miRNA:   3'- -UGC-GAUaaACGUUGCGCACG-----------ACGCAG- -5'
22966 3' -51.8 NC_005137.2 + 25670 0.66 0.963674
Target:  5'- cGCGCg--UUGCAACgaGCGUGacgGCGcCa -3'
miRNA:   3'- -UGCGauaAACGUUG--CGCACga-CGCaG- -5'
22966 3' -51.8 NC_005137.2 + 26518 0.68 0.915673
Target:  5'- gGCGCUGgcUGCGuuuUGCGUGCcgguaGCGUa -3'
miRNA:   3'- -UGCGAUaaACGUu--GCGCACGa----CGCAg -5'
22966 3' -51.8 NC_005137.2 + 26795 0.66 0.975684
Target:  5'- cGCGC----UGCGACGCGcacGCUuguacgaGCGUCa -3'
miRNA:   3'- -UGCGauaaACGUUGCGCa--CGA-------CGCAG- -5'
22966 3' -51.8 NC_005137.2 + 31356 0.69 0.90943
Target:  5'- cCGCUGguacaaggGCGACGCGggccgGUUGCGcCg -3'
miRNA:   3'- uGCGAUaaa-----CGUUGCGCa----CGACGCaG- -5'
22966 3' -51.8 NC_005137.2 + 32639 0.66 0.975948
Target:  5'- aAUGUUGgguuaacaaaUUGCuGGCGCGaUGCUGCGUUu -3'
miRNA:   3'- -UGCGAUa---------AACG-UUGCGC-ACGACGCAG- -5'
22966 3' -51.8 NC_005137.2 + 33777 0.68 0.915673
Target:  5'- uGCGCg----GCGGCGuUGUGCUGUGcCa -3'
miRNA:   3'- -UGCGauaaaCGUUGC-GCACGACGCaG- -5'
22966 3' -51.8 NC_005137.2 + 38306 0.68 0.916283
Target:  5'- aGCGCUGaccaauuuaaaaaaUGCAAUGCcaGUGUUGCGUUa -3'
miRNA:   3'- -UGCGAUaa------------ACGUUGCG--CACGACGCAG- -5'
22966 3' -51.8 NC_005137.2 + 38652 0.69 0.889141
Target:  5'- gACGCUGg--GCAgGCGCGcGUUGCGg- -3'
miRNA:   3'- -UGCGAUaaaCGU-UGCGCaCGACGCag -5'
22966 3' -51.8 NC_005137.2 + 39962 0.66 0.975948
Target:  5'- gGCGUUuggUUGC-ACGCGUGUUGgccgccauUGUCa -3'
miRNA:   3'- -UGCGAua-AACGuUGCGCACGAC--------GCAG- -5'
22966 3' -51.8 NC_005137.2 + 42222 0.71 0.796761
Target:  5'- cACGCuUGUUuuaaaaUGU-ACGCGUGCUGCGg- -3'
miRNA:   3'- -UGCG-AUAA------ACGuUGCGCACGACGCag -5'
22966 3' -51.8 NC_005137.2 + 45608 0.68 0.921653
Target:  5'- aACGCgu------GCGCGUGCUGCGcCg -3'
miRNA:   3'- -UGCGauaaacguUGCGCACGACGCaG- -5'
22966 3' -51.8 NC_005137.2 + 53914 0.66 0.963674
Target:  5'- gAUGCUAauUUUGCccuguACGUa-GCUGCGUCu -3'
miRNA:   3'- -UGCGAU--AAACGu----UGCGcaCGACGCAG- -5'
22966 3' -51.8 NC_005137.2 + 55573 0.67 0.947581
Target:  5'- gACGCgg---GCGGCGcCGUGC-GCGUg -3'
miRNA:   3'- -UGCGauaaaCGUUGC-GCACGaCGCAg -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.