miRNA display CGI


Results 1 - 20 of 26 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
13329 5' -51.7 NC_003409.1 + 116735 0.66 0.974087
Target:  5'- -uCUAGGGGCAGCAUuacuguuuugGAGGugcauaucgGGGUCUCc -3'
miRNA:   3'- uuGAUUCCUGUCGUG----------UUUC---------UCCGGAG- -5'
13329 5' -51.7 NC_003409.1 + 89374 0.66 0.971173
Target:  5'- gGAgaGAGGACAGCuu-AAGGGGCgUg -3'
miRNA:   3'- -UUgaUUCCUGUCGuguUUCUCCGgAg -5'
13329 5' -51.7 NC_003409.1 + 131512 0.66 0.971173
Target:  5'- cACUgGAGGACAuGCACAGGaAGGaCCUg -3'
miRNA:   3'- uUGA-UUCCUGU-CGUGUUUcUCC-GGAg -5'
13329 5' -51.7 NC_003409.1 + 35371 0.66 0.971173
Target:  5'- gGACUcgguGGGGC-GCgGCGGAGAaaaGGCCUCu -3'
miRNA:   3'- -UUGAu---UCCUGuCG-UGUUUCU---CCGGAG- -5'
13329 5' -51.7 NC_003409.1 + 66776 0.66 0.964652
Target:  5'- ---gGAGGACAGCGCcucagcGAGGaCCUg -3'
miRNA:   3'- uugaUUCCUGUCGUGuuu---CUCC-GGAg -5'
13329 5' -51.7 NC_003409.1 + 95562 0.66 0.964652
Target:  5'- cGCUgGGGGGCAGCugGugacAGAGGCagcgucCUCa -3'
miRNA:   3'- uUGA-UUCCUGUCGugUu---UCUCCG------GAG- -5'
13329 5' -51.7 NC_003409.1 + 92813 0.66 0.961031
Target:  5'- gAGgUGAGGAgGGgucCACGGAGAGuGUCUCa -3'
miRNA:   3'- -UUgAUUCCUgUC---GUGUUUCUC-CGGAG- -5'
13329 5' -51.7 NC_003409.1 + 92987 0.66 0.961031
Target:  5'- gAGgUGAGGAgGGgucCACGGAGAGuGUCUCa -3'
miRNA:   3'- -UUgAUUCCUgUC---GUGUUUCUC-CGGAG- -5'
13329 5' -51.7 NC_003409.1 + 67651 0.67 0.957162
Target:  5'- -cCUGGGGAguGaCACAGAcGAGGagcCCUCg -3'
miRNA:   3'- uuGAUUCCUguC-GUGUUU-CUCC---GGAG- -5'
13329 5' -51.7 NC_003409.1 + 87626 0.67 0.953038
Target:  5'- cAACUGGGGGCAGCAgGAuucAGcuGGCUg- -3'
miRNA:   3'- -UUGAUUCCUGUCGUgUU---UCu-CCGGag -5'
13329 5' -51.7 NC_003409.1 + 59276 0.67 0.953038
Target:  5'- cGACUGGGGACucuGUACGccGAGugcggcauacauGCCUCu -3'
miRNA:   3'- -UUGAUUCCUGu--CGUGUuuCUC------------CGGAG- -5'
13329 5' -51.7 NC_003409.1 + 129079 0.67 0.944009
Target:  5'- uGACcacGGGAcCAGCuagacacuCAAGGAGGCCUg -3'
miRNA:   3'- -UUGau-UCCU-GUCGu-------GUUUCUCCGGAg -5'
13329 5' -51.7 NC_003409.1 + 96246 0.68 0.922742
Target:  5'- uGGCUAAGG-CAGCAaaaaacaAAAGAGGaCCa- -3'
miRNA:   3'- -UUGAUUCCuGUCGUg------UUUCUCC-GGag -5'
13329 5' -51.7 NC_003409.1 + 133638 0.68 0.922742
Target:  5'- -----cGGACAGaCACAGGGGGcCCUCa -3'
miRNA:   3'- uugauuCCUGUC-GUGUUUCUCcGGAG- -5'
13329 5' -51.7 NC_003409.1 + 42697 0.68 0.922742
Target:  5'- cGCUcGGuGGCAGUAguAGGGGGcCCUCg -3'
miRNA:   3'- uUGAuUC-CUGUCGUguUUCUCC-GGAG- -5'
13329 5' -51.7 NC_003409.1 + 72185 0.68 0.916749
Target:  5'- aGACcgcGGACuGCACAGAGuGGuGCCUCu -3'
miRNA:   3'- -UUGauuCCUGuCGUGUUUC-UC-CGGAG- -5'
13329 5' -51.7 NC_003409.1 + 115415 0.68 0.916749
Target:  5'- uGGCccAGGACAGacaAgGAGGAGGCCa- -3'
miRNA:   3'- -UUGauUCCUGUCg--UgUUUCUCCGGag -5'
13329 5' -51.7 NC_003409.1 + 42175 0.68 0.910487
Target:  5'- --gUGGGGGUGGCACGGAGAgcuGGUCUCg -3'
miRNA:   3'- uugAUUCCUGUCGUGUUUCU---CCGGAG- -5'
13329 5' -51.7 NC_003409.1 + 18326 0.69 0.903957
Target:  5'- gGGgUGGGGACuuGUACcGGGAGGCgCUCa -3'
miRNA:   3'- -UUgAUUCCUGu-CGUGuUUCUCCG-GAG- -5'
13329 5' -51.7 NC_003409.1 + 6403 0.69 0.903957
Target:  5'- uGCcauGGACGGC-CGAGGGuguGGCCUCg -3'
miRNA:   3'- uUGauuCCUGUCGuGUUUCU---CCGGAG- -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.