miRNA display CGI


Results 1 - 14 of 14 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
28376 5' -58.6 NC_005946.1 + 21459 0.66 0.764959
Target:  5'- gGCCGUgUCCuCAaacUG-CGAGUGGGCUuCa -3'
miRNA:   3'- -CGGCAgAGG-GU---ACgGCUCACCUGGcG- -5'
28376 5' -58.6 NC_005946.1 + 42381 0.66 0.745869
Target:  5'- uCUGUCUCCCggGaccaaCGGGacccuuUGGGCCGUc -3'
miRNA:   3'- cGGCAGAGGGuaCg----GCUC------ACCUGGCG- -5'
28376 5' -58.6 NC_005946.1 + 56389 0.66 0.73617
Target:  5'- gGCCGUCUgUgAcgGCCGAGUccaGGAgcCCGUc -3'
miRNA:   3'- -CGGCAGAgGgUa-CGGCUCA---CCU--GGCG- -5'
28376 5' -58.6 NC_005946.1 + 41848 0.66 0.726382
Target:  5'- gGCCccugGUCgCCCAugggaccccuggUGCCGAccGGACCGUu -3'
miRNA:   3'- -CGG----CAGaGGGU------------ACGGCUcaCCUGGCG- -5'
28376 5' -58.6 NC_005946.1 + 49390 0.66 0.716513
Target:  5'- cGCCGUCggaCCAagagggGUCGGGgacgaGGACCGg -3'
miRNA:   3'- -CGGCAGag-GGUa-----CGGCUCa----CCUGGCg -5'
28376 5' -58.6 NC_005946.1 + 104475 0.67 0.706573
Target:  5'- cGCCGUCUCCCAg---GAG-GGAUgCGUg -3'
miRNA:   3'- -CGGCAGAGGGUacggCUCaCCUG-GCG- -5'
28376 5' -58.6 NC_005946.1 + 80395 0.67 0.676412
Target:  5'- uGCCGUCUCCC--GCaaAGaGGACCaGCc -3'
miRNA:   3'- -CGGCAGAGGGuaCGgcUCaCCUGG-CG- -5'
28376 5' -58.6 NC_005946.1 + 60006 0.67 0.666275
Target:  5'- -gCGUCUCCCuuuuuggGCCGGccacgGGGcCCGCg -3'
miRNA:   3'- cgGCAGAGGGua-----CGGCUca---CCU-GGCG- -5'
28376 5' -58.6 NC_005946.1 + 19638 0.68 0.635732
Target:  5'- uGCCGUCUCCguccgaCAUGuCUGAGcaGACCGg -3'
miRNA:   3'- -CGGCAGAGG------GUAC-GGCUCacCUGGCg -5'
28376 5' -58.6 NC_005946.1 + 7345 0.68 0.625535
Target:  5'- cGCCGgcacCUCUCAgUG-CGAGUGcACCGCg -3'
miRNA:   3'- -CGGCa---GAGGGU-ACgGCUCACcUGGCG- -5'
28376 5' -58.6 NC_005946.1 + 24954 0.68 0.625535
Target:  5'- gGCCGcCUCCCGUGCU-AGcgGGAgCGa -3'
miRNA:   3'- -CGGCaGAGGGUACGGcUCa-CCUgGCg -5'
28376 5' -58.6 NC_005946.1 + 24541 0.7 0.525007
Target:  5'- aGCUcucaaUCUCCCucucGCCGGGacgagGGACCGCc -3'
miRNA:   3'- -CGGc----AGAGGGua--CGGCUCa----CCUGGCG- -5'
28376 5' -58.6 NC_005946.1 + 2372 0.75 0.270384
Target:  5'- gGCgaGUCUCCCAgccugGCCGAGaGGuACUGCa -3'
miRNA:   3'- -CGg-CAGAGGGUa----CGGCUCaCC-UGGCG- -5'
28376 5' -58.6 NC_005946.1 + 36616 1.12 0.000728
Target:  5'- cGCCGUCUCCCAUGCCGAGUGGACCGCc -3'
miRNA:   3'- -CGGCAGAGGGUACGGCUCACCUGGCG- -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.