miRNA display CGI


Results 1 - 20 of 24 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
11468 5' -54.8 NC_003085.1 + 19204 0.66 0.728873
Target:  5'- cGCCUggGgcGGcGggGGCuGGGCGc- -3'
miRNA:   3'- aCGGGuuCaaCCaCuuCCG-CCUGUcc -5'
11468 5' -54.8 NC_003085.1 + 21643 0.66 0.728873
Target:  5'- gGCgCAGGg-GGUGAAGGCGaaguucGGCAGc -3'
miRNA:   3'- aCGgGUUCaaCCACUUCCGC------CUGUCc -5'
11468 5' -54.8 NC_003085.1 + 7252 0.66 0.715937
Target:  5'- aGCCCGGGgacaggcucugGGUGAAGGa-GACGuGGc -3'
miRNA:   3'- aCGGGUUCaa---------CCACUUCCgcCUGU-CC- -5'
11468 5' -54.8 NC_003085.1 + 26716 0.66 0.707244
Target:  5'- cGCgCAGGgcGGUGAcGGCGcGGCGccGGu -3'
miRNA:   3'- aCGgGUUCaaCCACUuCCGC-CUGU--CC- -5'
11468 5' -54.8 NC_003085.1 + 121 0.66 0.707244
Target:  5'- gGCCCccaaugUGGggaGAGGGCgGGACGGa -3'
miRNA:   3'- aCGGGuuca--ACCa--CUUCCG-CCUGUCc -5'
11468 5' -54.8 NC_003085.1 + 25549 0.66 0.69631
Target:  5'- cUGCCCAuAGcgGGcaGAagcAGGCGGGCGcGGa -3'
miRNA:   3'- -ACGGGU-UCaaCCa-CU---UCCGCCUGU-CC- -5'
11468 5' -54.8 NC_003085.1 + 10968 0.66 0.685312
Target:  5'- gUGCCC----UGGUcAGGGCGGACGa- -3'
miRNA:   3'- -ACGGGuucaACCAcUUCCGCCUGUcc -5'
11468 5' -54.8 NC_003085.1 + 45706 0.66 0.682002
Target:  5'- gUGgCCAGG--GGUGGuuucaaggcaaaucAGGCGGACGGu -3'
miRNA:   3'- -ACgGGUUCaaCCACU--------------UCCGCCUGUCc -5'
11468 5' -54.8 NC_003085.1 + 12578 0.66 0.674262
Target:  5'- gGCCCAGGUgcugcugaUGGUGguGcCGGACAc- -3'
miRNA:   3'- aCGGGUUCA--------ACCACuuCcGCCUGUcc -5'
11468 5' -54.8 NC_003085.1 + 40423 0.67 0.663171
Target:  5'- cGCCCGugcagccgcGGUgUGGUGuggaagagccGGGCGGACuugAGGa -3'
miRNA:   3'- aCGGGU---------UCA-ACCACu---------UCCGCCUG---UCC- -5'
11468 5' -54.8 NC_003085.1 + 33419 0.67 0.652051
Target:  5'- cGUCCGA---GGUGAuGGGCaGGCAGGu -3'
miRNA:   3'- aCGGGUUcaaCCACU-UCCGcCUGUCC- -5'
11468 5' -54.8 NC_003085.1 + 5037 0.67 0.650937
Target:  5'- cGCCCGAGgaGGUGGcgcuGGauguugagaugguGCGGcGCGGGa -3'
miRNA:   3'- aCGGGUUCaaCCACU----UC-------------CGCC-UGUCC- -5'
11468 5' -54.8 NC_003085.1 + 5814 0.67 0.640911
Target:  5'- cGCCCcccGGGcUGcUGGAGGCGGAUGGc -3'
miRNA:   3'- aCGGG---UUCaACcACUUCCGCCUGUCc -5'
11468 5' -54.8 NC_003085.1 + 4086 0.67 0.640911
Target:  5'- aGCCagAAGUucugGGUGGgccGGGCGGucCAGGc -3'
miRNA:   3'- aCGGg-UUCAa---CCACU---UCCGCCu-GUCC- -5'
11468 5' -54.8 NC_003085.1 + 15066 0.67 0.640911
Target:  5'- aGCCUcguggGAGUUGGcccUGGAGGagGGACGGc -3'
miRNA:   3'- aCGGG-----UUCAACC---ACUUCCg-CCUGUCc -5'
11468 5' -54.8 NC_003085.1 + 5592 0.67 0.629764
Target:  5'- cGCCCuGGUgcggacgaugcUGaGUGAcgcgguGGUGGACGGGc -3'
miRNA:   3'- aCGGGuUCA-----------AC-CACUu-----CCGCCUGUCC- -5'
11468 5' -54.8 NC_003085.1 + 38552 0.68 0.596374
Target:  5'- aGCCCuuGcUGGUGAGcgacGCGGAgGGGu -3'
miRNA:   3'- aCGGGuuCaACCACUUc---CGCCUgUCC- -5'
11468 5' -54.8 NC_003085.1 + 20002 0.69 0.541459
Target:  5'- cGCCCGcGUUGuUGAAGcCGGGCAuGGa -3'
miRNA:   3'- aCGGGUuCAACcACUUCcGCCUGU-CC- -5'
11468 5' -54.8 NC_003085.1 + 9179 0.69 0.519944
Target:  5'- cUGCCCAGGccGGcgcagacgagguUGuAGGgGGGCGGGa -3'
miRNA:   3'- -ACGGGUUCaaCC------------ACuUCCgCCUGUCC- -5'
11468 5' -54.8 NC_003085.1 + 43756 0.69 0.498773
Target:  5'- cGCCCcGG-UGGUGGGcGCGGGCuuGGa -3'
miRNA:   3'- aCGGGuUCaACCACUUcCGCCUGu-CC- -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.