miRNA display CGI


Results 1 - 20 of 38 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
20708 3' -55.8 NC_004688.1 + 68868 0.66 0.838967
Target:  5'- gGCGGCGGgGuCGCCGGuCCGG-ACGUa -3'
miRNA:   3'- -UGUCGUUgCuGUGGCC-GGUCgUGUAg -5'
20708 3' -55.8 NC_004688.1 + 77190 0.66 0.838967
Target:  5'- gAUAGaCAACGugguguuacCGCCGGCCGcGC-CGUCa -3'
miRNA:   3'- -UGUC-GUUGCu--------GUGGCCGGU-CGuGUAG- -5'
20708 3' -55.8 NC_004688.1 + 4801 0.66 0.830402
Target:  5'- cGCAGgGAaauCGCCGGCgcuaugCAGUACGUCa -3'
miRNA:   3'- -UGUCgUUgcuGUGGCCG------GUCGUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 25842 0.66 0.830402
Target:  5'- aACGGgGACGAUGCCcucuuGGCgCAGCACc-- -3'
miRNA:   3'- -UGUCgUUGCUGUGG-----CCG-GUCGUGuag -5'
20708 3' -55.8 NC_004688.1 + 8529 0.66 0.830402
Target:  5'- -gGGCGACGACACCG-CCAa-AUAUCc -3'
miRNA:   3'- ugUCGUUGCUGUGGCcGGUcgUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 82100 0.66 0.820759
Target:  5'- cACAGCGaucugauGCGugGUCGGCguGC-CAUCg -3'
miRNA:   3'- -UGUCGU-------UGCugUGGCCGguCGuGUAG- -5'
20708 3' -55.8 NC_004688.1 + 104432 0.66 0.812703
Target:  5'- uCAGCGcCGaACugCGGCCAGuCACc-- -3'
miRNA:   3'- uGUCGUuGC-UGugGCCGGUC-GUGuag -5'
20708 3' -55.8 NC_004688.1 + 82017 0.66 0.812703
Target:  5'- aGCAGUucuccuuACuCCGGCCAGCGCcUCa -3'
miRNA:   3'- -UGUCGuugc---UGuGGCCGGUCGUGuAG- -5'
20708 3' -55.8 NC_004688.1 + 91638 0.66 0.812703
Target:  5'- gGCAGCGGCGAguUCGG-CGGC-CGUUc -3'
miRNA:   3'- -UGUCGUUGCUguGGCCgGUCGuGUAG- -5'
20708 3' -55.8 NC_004688.1 + 1505 0.67 0.803586
Target:  5'- uACGGCAACGAguacgUGCgGGUUgAGUACGUCg -3'
miRNA:   3'- -UGUCGUUGCU-----GUGgCCGG-UCGUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 74650 0.67 0.784862
Target:  5'- cCGGCucgAACGcCGCCGGaCCA-CGCAUCg -3'
miRNA:   3'- uGUCG---UUGCuGUGGCC-GGUcGUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 59191 0.67 0.784862
Target:  5'- uCAGCGcCGACACCGG-CGG-ACGUUa -3'
miRNA:   3'- uGUCGUuGCUGUGGCCgGUCgUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 86949 0.67 0.782
Target:  5'- -uGGCAACGuuGCCgaguccgccggcgaGGCCGGCGauCAUCg -3'
miRNA:   3'- ugUCGUUGCugUGG--------------CCGGUCGU--GUAG- -5'
20708 3' -55.8 NC_004688.1 + 52328 0.67 0.775274
Target:  5'- aGCGGCAGCGGCGCaUGGCCAu------ -3'
miRNA:   3'- -UGUCGUUGCUGUG-GCCGGUcguguag -5'
20708 3' -55.8 NC_004688.1 + 98911 0.67 0.76555
Target:  5'- gACGGguAgGACACCGaGCgGGCGagGUCg -3'
miRNA:   3'- -UGUCguUgCUGUGGC-CGgUCGUg-UAG- -5'
20708 3' -55.8 NC_004688.1 + 516 0.67 0.76555
Target:  5'- aGCAGUGAUGGCcaagcauUCGGCCGccgcGCACAUUa -3'
miRNA:   3'- -UGUCGUUGCUGu------GGCCGGU----CGUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 107745 0.67 0.76555
Target:  5'- -gAGCGGCGGCAgCgGGCCacggAGC-CAUCu -3'
miRNA:   3'- ugUCGUUGCUGU-GgCCGG----UCGuGUAG- -5'
20708 3' -55.8 NC_004688.1 + 93169 0.67 0.76555
Target:  5'- uCGGCAACGGCGCgcuccaCGGguuCCGGCGCGg- -3'
miRNA:   3'- uGUCGUUGCUGUG------GCC---GGUCGUGUag -5'
20708 3' -55.8 NC_004688.1 + 36183 0.68 0.704895
Target:  5'- uCGGCGccgaugcCGAUAUCGGCCAGgACAUg -3'
miRNA:   3'- uGUCGUu------GCUGUGGCCGGUCgUGUAg -5'
20708 3' -55.8 NC_004688.1 + 77630 0.68 0.704895
Target:  5'- uCGGCAAgucCGcCACaCGGCCAcGCACAUa -3'
miRNA:   3'- uGUCGUU---GCuGUG-GCCGGU-CGUGUAg -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.