miRNA display CGI


Results 1 - 19 of 19 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
19328 5' -54.3 NC_004685.1 + 69467 0.66 0.837298
Target:  5'- cAAACGCGggcagucgCCUuuGAUGACGcggggcauGGUCGAa -3'
miRNA:   3'- -UUUGCGCa-------GGGugCUACUGU--------CCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 43457 0.66 0.828428
Target:  5'- cGGCGCGUCCgGCGAcaucUGGCuGGacaUCGc -3'
miRNA:   3'- uUUGCGCAGGgUGCU----ACUGuCC---AGCu -5'
19328 5' -54.3 NC_004685.1 + 62015 0.66 0.82663
Target:  5'- uGugGCGUCUCACGAUGcguccuccuuuuCAGGUguaGAa -3'
miRNA:   3'- uUugCGCAGGGUGCUACu-----------GUCCAg--CU- -5'
19328 5' -54.3 NC_004685.1 + 8449 0.66 0.800639
Target:  5'- cGACGCGUacggCGCGAaGACGGGUgCGGc -3'
miRNA:   3'- uUUGCGCAgg--GUGCUaCUGUCCA-GCU- -5'
19328 5' -54.3 NC_004685.1 + 54736 0.67 0.791016
Target:  5'- gAGGCGCacgCCACGGcggggGACAGGUUGAc -3'
miRNA:   3'- -UUUGCGcagGGUGCUa----CUGUCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 64086 0.67 0.791016
Target:  5'- --cCGCGUCCCGCag-GuCuGGUCGGg -3'
miRNA:   3'- uuuGCGCAGGGUGcuaCuGuCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 25611 0.68 0.730238
Target:  5'- gGAugGuCGUCCCGgcCGAccGCAGGUCGc -3'
miRNA:   3'- -UUugC-GCAGGGU--GCUacUGUCCAGCu -5'
19328 5' -54.3 NC_004685.1 + 35507 0.68 0.730238
Target:  5'- cGACG-GUgCCACGGaGGuCAGGUCGAc -3'
miRNA:   3'- uUUGCgCAgGGUGCUaCU-GUCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 41834 0.68 0.709087
Target:  5'- cGAGgGCGaCCCuccGCGcgGACuGGUCGAg -3'
miRNA:   3'- -UUUgCGCaGGG---UGCuaCUGuCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 3342 0.69 0.64311
Target:  5'- -cGCGUGUacgCCugGAUGACcgggcgggcgggcGGGUCGAg -3'
miRNA:   3'- uuUGCGCAg--GGugCUACUG-------------UCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 5083 0.7 0.578897
Target:  5'- gGGAgGCGaaUUCCACGGUGG-AGGUCGAu -3'
miRNA:   3'- -UUUgCGC--AGGGUGCUACUgUCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 15998 0.71 0.515115
Target:  5'- -cGCGuCGUCCCGCcGUGGCuGGUCa- -3'
miRNA:   3'- uuUGC-GCAGGGUGcUACUGuCCAGcu -5'
19328 5' -54.3 NC_004685.1 + 41575 0.71 0.515115
Target:  5'- uGGGCGCc-CCCACGGUGG-AGGUCGGc -3'
miRNA:   3'- -UUUGCGcaGGGUGCUACUgUCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 55184 0.71 0.515115
Target:  5'- cGGCGCGUCaacaCCACGGUcgccCAGGUCGGa -3'
miRNA:   3'- uUUGCGCAG----GGUGCUAcu--GUCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 58639 0.73 0.416095
Target:  5'- -cAUGCGUucggCCCGCGucGGCAGGUCGAu -3'
miRNA:   3'- uuUGCGCA----GGGUGCuaCUGUCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 10178 0.74 0.362553
Target:  5'- ---gGCGUUCCuCGAUGGcCGGGUCGAg -3'
miRNA:   3'- uuugCGCAGGGuGCUACU-GUCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 61287 0.74 0.362553
Target:  5'- cAAACGCcucGUCCCACGA---CAGGUCGGu -3'
miRNA:   3'- -UUUGCG---CAGGGUGCUacuGUCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 32250 0.77 0.250646
Target:  5'- uGAGCGCGUugCCgACGAacGGCAGGUCGAu -3'
miRNA:   3'- -UUUGCGCA--GGgUGCUa-CUGUCCAGCU- -5'
19328 5' -54.3 NC_004685.1 + 32307 1.07 0.002428
Target:  5'- gAAACGCGUCCCACGAUGACAGGUCGAu -3'
miRNA:   3'- -UUUGCGCAGGGUGCUACUGUCCAGCU- -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.