miRNA display CGI


Results 1 - 20 of 35 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
26605 3' -52.1 NC_005357.1 + 36749 1.08 0.001398
Target:  5'- gACAAGGCCGGCAAGCAGCUAAUCAUGc -3'
miRNA:   3'- -UGUUCCGGCCGUUCGUCGAUUAGUAC- -5'
26605 3' -52.1 NC_005357.1 + 29259 0.66 0.786318
Target:  5'- cAUAAGGCCGGCcGGUgucgGGgUGGaCGUGg -3'
miRNA:   3'- -UGUUCCGGCCGuUCG----UCgAUUaGUAC- -5'
26605 3' -52.1 NC_005357.1 + 10936 0.66 0.786318
Target:  5'- uGCAGGGCCu-CGGGCAGUUGcgCGg- -3'
miRNA:   3'- -UGUUCCGGccGUUCGUCGAUuaGUac -5'
26605 3' -52.1 NC_005357.1 + 39846 0.66 0.775728
Target:  5'- aACAGGG-CGGCAAGCGcgcgcacgcGCUGGgcCGUGu -3'
miRNA:   3'- -UGUUCCgGCCGUUCGU---------CGAUUa-GUAC- -5'
26605 3' -52.1 NC_005357.1 + 9328 0.66 0.76497
Target:  5'- cACGucGGCgCGGCGGGCGGCgg--CAUc -3'
miRNA:   3'- -UGUu-CCG-GCCGUUCGUCGauuaGUAc -5'
26605 3' -52.1 NC_005357.1 + 22489 0.66 0.754057
Target:  5'- -aGGGGCgGGCug--GGCUGGUCAUGc -3'
miRNA:   3'- ugUUCCGgCCGuucgUCGAUUAGUAC- -5'
26605 3' -52.1 NC_005357.1 + 35175 0.66 0.740776
Target:  5'- cACAAGGCCGGCGAcauCGGCccgcgccaGUGg -3'
miRNA:   3'- -UGUUCCGGCCGUUc--GUCGauuag---UAC- -5'
26605 3' -52.1 NC_005357.1 + 31104 0.67 0.709134
Target:  5'- uGC-AGGCCGGCGAGUGGUg---CGa- -3'
miRNA:   3'- -UGuUCCGGCCGUUCGUCGauuaGUac -5'
26605 3' -52.1 NC_005357.1 + 611 0.68 0.651152
Target:  5'- --cGGGUCGGCcAGCAGCgc--CGUGg -3'
miRNA:   3'- uguUCCGGCCGuUCGUCGauuaGUAC- -5'
26605 3' -52.1 NC_005357.1 + 13308 0.68 0.639444
Target:  5'- cCGGGGCCGGCGuuguaGGCGGCguaggcuuUCGg- -3'
miRNA:   3'- uGUUCCGGCCGU-----UCGUCGauu-----AGUac -5'
26605 3' -52.1 NC_005357.1 + 24309 0.8 0.140107
Target:  5'- -uGAGGUCGGCGAGCAGCcgcgGGUCAg- -3'
miRNA:   3'- ugUUCCGGCCGUUCGUCGa---UUAGUac -5'
26605 3' -52.1 NC_005357.1 + 27697 0.72 0.415994
Target:  5'- uACAGGccgcgcGCCGGC-AGCGGCUcgccgccGGUCAUGg -3'
miRNA:   3'- -UGUUC------CGGCCGuUCGUCGA-------UUAGUAC- -5'
26605 3' -52.1 NC_005357.1 + 2592 0.69 0.581028
Target:  5'- uGCAAGGCCaGCAGGuUGGCgagGUCGUa -3'
miRNA:   3'- -UGUUCCGGcCGUUC-GUCGau-UAGUAc -5'
26605 3' -52.1 NC_005357.1 + 24220 0.68 0.616019
Target:  5'- -aAAGuCCGGCGAGCGGCcGAUCu-- -3'
miRNA:   3'- ugUUCcGGCCGUUCGUCGaUUAGuac -5'
26605 3' -52.1 NC_005357.1 + 17475 0.68 0.626558
Target:  5'- cCAGGGCCuGCAcgaacAGCGGCgagaacuUGGUCGUGu -3'
miRNA:   3'- uGUUCCGGcCGU-----UCGUCG-------AUUAGUAC- -5'
26605 3' -52.1 NC_005357.1 + 4700 0.68 0.62773
Target:  5'- gGCGAgaauGGCCGGCAAGUuguuGGCUgcuucGAUgAUGa -3'
miRNA:   3'- -UGUU----CCGGCCGUUCG----UCGA-----UUAgUAC- -5'
26605 3' -52.1 NC_005357.1 + 1038 0.68 0.639444
Target:  5'- cCAcGGCCGGCG-GCAGCauGUCGc- -3'
miRNA:   3'- uGUuCCGGCCGUuCGUCGauUAGUac -5'
26605 3' -52.1 NC_005357.1 + 4877 0.66 0.76497
Target:  5'- ----cGCCGGCGAGCcacGC-AAUCAUGc -3'
miRNA:   3'- uguucCGGCCGUUCGu--CGaUUAGUAC- -5'
26605 3' -52.1 NC_005357.1 + 24163 0.73 0.341778
Target:  5'- ---cGGCCGGCAAGUucucGGCgcaGGUCGUGa -3'
miRNA:   3'- uguuCCGGCCGUUCG----UCGa--UUAGUAC- -5'
26605 3' -52.1 NC_005357.1 + 31912 0.73 0.341778
Target:  5'- aGCGuGGCCGGCGgucAGCAGUUcGUCAa- -3'
miRNA:   3'- -UGUuCCGGCCGU---UCGUCGAuUAGUac -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.