miRNA display CGI


Results 1 - 20 of 50 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
30542 3' -54.2 NC_006548.1 + 610 0.66 0.622592
Target:  5'- aUGCCCA--GGCc--CUG-GCAGaGCCg -3'
miRNA:   3'- gACGGGUuaCCGuuuGACuCGUC-CGG- -5'
30542 3' -54.2 NC_006548.1 + 1106 0.71 0.341417
Target:  5'- -cGCCCAAUucGCGAGC-GAGCcuGGCCg -3'
miRNA:   3'- gaCGGGUUAc-CGUUUGaCUCGu-CCGG- -5'
30542 3' -54.2 NC_006548.1 + 1478 0.68 0.50934
Target:  5'- -gGCCCAGgaacUGGaCGAACUGguucAGCAguuccuGGCCg -3'
miRNA:   3'- gaCGGGUU----ACC-GUUUGAC----UCGU------CCGG- -5'
30542 3' -54.2 NC_006548.1 + 2330 0.66 0.645674
Target:  5'- gUGCCgAaggcAUGGCAGcacACuUGAGCgAGGCg -3'
miRNA:   3'- gACGGgU----UACCGUU---UG-ACUCG-UCCGg -5'
30542 3' -54.2 NC_006548.1 + 3677 0.66 0.634134
Target:  5'- -aGCgCCGAggcGGUGAACUGGcGCuGGCUg -3'
miRNA:   3'- gaCG-GGUUa--CCGUUUGACU-CGuCCGG- -5'
30542 3' -54.2 NC_006548.1 + 4457 0.66 0.6572
Target:  5'- aUGUugCCGAUGGCcAGCggguaGAGCuGGCUc -3'
miRNA:   3'- gACG--GGUUACCGuUUGa----CUCGuCCGG- -5'
30542 3' -54.2 NC_006548.1 + 7403 0.68 0.50934
Target:  5'- aUGCCCAGUucGCGGACgGAGUGGgaGCCu -3'
miRNA:   3'- gACGGGUUAc-CGUUUGaCUCGUC--CGG- -5'
30542 3' -54.2 NC_006548.1 + 7468 0.67 0.558427
Target:  5'- cCUGCCUgcagagcuuggucgcGAccaGGCAcccGACUGGGUggGGGCCg -3'
miRNA:   3'- -GACGGG---------------UUa--CCGU---UUGACUCG--UCCGG- -5'
30542 3' -54.2 NC_006548.1 + 7593 0.68 0.498429
Target:  5'- aCUGCgUGAaGGCuucgccaaguuGGCcGAGCAGGCCg -3'
miRNA:   3'- -GACGgGUUaCCGu----------UUGaCUCGUCCGG- -5'
30542 3' -54.2 NC_006548.1 + 12334 0.69 0.455901
Target:  5'- -gGCCCuGUGcGCcGACgggcGAGCGGGCa -3'
miRNA:   3'- gaCGGGuUAC-CGuUUGa---CUCGUCCGg -5'
30542 3' -54.2 NC_006548.1 + 13670 0.66 0.622592
Target:  5'- uCU-CCUAccGGCuGGACgccaucGAGCAGGCCg -3'
miRNA:   3'- -GAcGGGUuaCCG-UUUGa-----CUCGUCCGG- -5'
30542 3' -54.2 NC_006548.1 + 13736 0.66 0.646827
Target:  5'- cCUGCUCGAUGGCGuccagccgguaggagAGCUGuucaugguucgccaGGCGuGCCu -3'
miRNA:   3'- -GACGGGUUACCGU---------------UUGAC--------------UCGUcCGG- -5'
30542 3' -54.2 NC_006548.1 + 14264 0.71 0.336267
Target:  5'- cCUGgCCGAUGGCcggaugacccuggacGAGCUGAucgcggaccuGCAGGCg -3'
miRNA:   3'- -GACgGGUUACCG---------------UUUGACU----------CGUCCGg -5'
30542 3' -54.2 NC_006548.1 + 14662 0.66 0.645674
Target:  5'- -cGCgCCAGgcgcuGCucGCUGAGCAgaaGGCCa -3'
miRNA:   3'- gaCG-GGUUac---CGuuUGACUCGU---CCGG- -5'
30542 3' -54.2 NC_006548.1 + 14706 0.66 0.622592
Target:  5'- aUGCCCAGcaagGGCGGAgUGAcCgAGGCg -3'
miRNA:   3'- gACGGGUUa---CCGUUUgACUcG-UCCGg -5'
30542 3' -54.2 NC_006548.1 + 15160 0.71 0.350126
Target:  5'- -cGgCCAuUGGCGAACUccagGAcGUAGGCCg -3'
miRNA:   3'- gaCgGGUuACCGUUUGA----CU-CGUCCGG- -5'
30542 3' -54.2 NC_006548.1 + 15230 0.69 0.425323
Target:  5'- uUGCCUAuccgGGCAucacCUGGGguGGCg -3'
miRNA:   3'- gACGGGUua--CCGUuu--GACUCguCCGg -5'
30542 3' -54.2 NC_006548.1 + 15605 0.74 0.217298
Target:  5'- -aGCCCGAgGGCGgccGACUGuucGCAGGCg -3'
miRNA:   3'- gaCGGGUUaCCGU---UUGACu--CGUCCGg -5'
30542 3' -54.2 NC_006548.1 + 15968 0.74 0.22962
Target:  5'- -gGUCCuccAUGGCGccgcgGAUUGGGUAGGCCa -3'
miRNA:   3'- gaCGGGu--UACCGU-----UUGACUCGUCCGG- -5'
30542 3' -54.2 NC_006548.1 + 16312 0.66 0.6572
Target:  5'- -cGCCacuGGUGGCGAuCUcccggccaaGGGCGGGCUu -3'
miRNA:   3'- gaCGGg--UUACCGUUuGA---------CUCGUCCGG- -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.