miRNA display CGI


Results 1 - 16 of 16 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
23331 3' -50.2 NC_005259.1 + 30002 0.66 0.962847
Target:  5'- gUGGUCAccACGaCAaggugaccaccgcCGGGGCGGUGg -3'
miRNA:   3'- -ACCAGU--UGCaGUaaaa---------GCUCCGCCAC- -5'
23331 3' -50.2 NC_005259.1 + 65111 0.67 0.947217
Target:  5'- cGGUCAguGCGUCAccgUCGGcgcaccGGCGGc- -3'
miRNA:   3'- aCCAGU--UGCAGUaaaAGCU------CCGCCac -5'
23331 3' -50.2 NC_005259.1 + 68831 0.67 0.931746
Target:  5'- cGGUCAAagcaGUCGg---UGAGGUGGg- -3'
miRNA:   3'- aCCAGUUg---CAGUaaaaGCUCCGCCac -5'
23331 3' -50.2 NC_005259.1 + 9471 0.67 0.931746
Target:  5'- cGGUC-ACGUCAgugUUgucgcgcaUCGAGGCGa-- -3'
miRNA:   3'- aCCAGuUGCAGUa--AA--------AGCUCCGCcac -5'
23331 3' -50.2 NC_005259.1 + 1539 0.67 0.931746
Target:  5'- cGGcaucaUCGGgGcCGcgUUCGGGGCGGUGa -3'
miRNA:   3'- aCC-----AGUUgCaGUaaAAGCUCCGCCAC- -5'
23331 3' -50.2 NC_005259.1 + 5271 0.68 0.920003
Target:  5'- cGGUCAGuguccCGUCGUUgacaUCGAGucacCGGUGg -3'
miRNA:   3'- aCCAGUU-----GCAGUAAa---AGCUCc---GCCAC- -5'
23331 3' -50.2 NC_005259.1 + 41105 0.68 0.913702
Target:  5'- cGGUCGGCGgUAUga-CGAugucGGCGGUGc -3'
miRNA:   3'- aCCAGUUGCaGUAaaaGCU----CCGCCAC- -5'
23331 3' -50.2 NC_005259.1 + 9189 0.68 0.907116
Target:  5'- aUGGUCGAgGUCGUcauaCGGGGcCGGa- -3'
miRNA:   3'- -ACCAGUUgCAGUAaaa-GCUCC-GCCac -5'
23331 3' -50.2 NC_005259.1 + 54951 0.68 0.900248
Target:  5'- uUGGUCGacGCGUCAUcgUCGucaAGGCGcucGUGc -3'
miRNA:   3'- -ACCAGU--UGCAGUAaaAGC---UCCGC---CAC- -5'
23331 3' -50.2 NC_005259.1 + 9019 0.69 0.875631
Target:  5'- gGGUCAGaCGuacgcggugcucgaUCAUgugCGGGGCGGUa -3'
miRNA:   3'- aCCAGUU-GC--------------AGUAaaaGCUCCGCCAc -5'
23331 3' -50.2 NC_005259.1 + 29582 0.71 0.797896
Target:  5'- aGGUCGAUaagGUCAUUgcCGAGGCaauugcauccGGUGg -3'
miRNA:   3'- aCCAGUUG---CAGUAAaaGCUCCG----------CCAC- -5'
23331 3' -50.2 NC_005259.1 + 58777 0.71 0.777853
Target:  5'- cGGgcgCuguGCGcCGg--UCGAGGCGGUGa -3'
miRNA:   3'- aCCa--Gu--UGCaGUaaaAGCUCCGCCAC- -5'
23331 3' -50.2 NC_005259.1 + 58922 0.71 0.757183
Target:  5'- cGGUCuuguCGUCGg---CGGGcGCGGUGg -3'
miRNA:   3'- aCCAGuu--GCAGUaaaaGCUC-CGCCAC- -5'
23331 3' -50.2 NC_005259.1 + 42396 0.72 0.735983
Target:  5'- cGGUCcaugaguCGUCGUacUCGAuGGCGGUGc -3'
miRNA:   3'- aCCAGuu-----GCAGUAaaAGCU-CCGCCAC- -5'
23331 3' -50.2 NC_005259.1 + 17341 0.79 0.350258
Target:  5'- cGGUCAACGUCGccgUCGAGGuCGGc- -3'
miRNA:   3'- aCCAGUUGCAGUaaaAGCUCC-GCCac -5'
23331 3' -50.2 NC_005259.1 + 6387 1.09 0.004727
Target:  5'- aUGGUCAACGUCAUUUUCGAGGCGGUGc -3'
miRNA:   3'- -ACCAGUUGCAGUAAAAGCUCCGCCAC- -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.