miRNA display CGI


Results 1 - 20 of 56 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
24238 3' -55.6 NC_005263.2 + 673 0.67 0.632678
Target:  5'- gGCACGGua---GUGCCCGuGCUCGg-- -3'
miRNA:   3'- -UGUGCUuguagCACGGGC-CGAGCagg -5'
24238 3' -55.6 NC_005263.2 + 855 0.74 0.261541
Target:  5'- aGCGCGGACAgcguacccgUCGUGCcggCCGGCgcuUCGUUCa -3'
miRNA:   3'- -UGUGCUUGU---------AGCACG---GGCCG---AGCAGG- -5'
24238 3' -55.6 NC_005263.2 + 1932 0.66 0.687408
Target:  5'- uGCACGAGCG-CGccgGCaCCGGCgaCG-CCg -3'
miRNA:   3'- -UGUGCUUGUaGCa--CG-GGCCGa-GCaGG- -5'
24238 3' -55.6 NC_005263.2 + 2564 0.67 0.610711
Target:  5'- aACGCGAGacgAUCG-GCaaucaCGGC-CGUCCa -3'
miRNA:   3'- -UGUGCUUg--UAGCaCGg----GCCGaGCAGG- -5'
24238 3' -55.6 NC_005263.2 + 3515 0.67 0.588817
Target:  5'- cGCGCGGcaaucuucuucaGCGucUCGcGgCCGGCgUCGUCCa -3'
miRNA:   3'- -UGUGCU------------UGU--AGCaCgGGCCG-AGCAGG- -5'
24238 3' -55.6 NC_005263.2 + 4283 1.12 0.000523
Target:  5'- gACACGAACAUCGUGCCCGGCUCGUCCg -3'
miRNA:   3'- -UGUGCUUGUAGCACGGGCCGAGCAGG- -5'
24238 3' -55.6 NC_005263.2 + 4704 0.69 0.513745
Target:  5'- -gGCGAGCuUCuUG-CCGGaCUCGUCCg -3'
miRNA:   3'- ugUGCUUGuAGcACgGGCC-GAGCAGG- -5'
24238 3' -55.6 NC_005263.2 + 6115 0.72 0.360498
Target:  5'- gGCACGu-CAU-GUGCUCGGCgUCGUUCa -3'
miRNA:   3'- -UGUGCuuGUAgCACGGGCCG-AGCAGG- -5'
24238 3' -55.6 NC_005263.2 + 6543 0.67 0.588817
Target:  5'- cGCGCGAaagcucGCAUCGccGCCaCGGCgCG-CCg -3'
miRNA:   3'- -UGUGCU------UGUAGCa-CGG-GCCGaGCaGG- -5'
24238 3' -55.6 NC_005263.2 + 8286 0.71 0.404936
Target:  5'- aGCGCGAGCggCGUcGgUCGGaUCGUCCa -3'
miRNA:   3'- -UGUGCUUGuaGCA-CgGGCCgAGCAGG- -5'
24238 3' -55.6 NC_005263.2 + 9181 0.71 0.369109
Target:  5'- uGCGCG-ACGUCGaGCUCGGCgcggCGcCCg -3'
miRNA:   3'- -UGUGCuUGUAGCaCGGGCCGa---GCaGG- -5'
24238 3' -55.6 NC_005263.2 + 9460 0.67 0.643666
Target:  5'- cCACGGGCAgcggCGcGCCCGGCUg---- -3'
miRNA:   3'- uGUGCUUGUa---GCaCGGGCCGAgcagg -5'
24238 3' -55.6 NC_005263.2 + 10188 0.67 0.632678
Target:  5'- uCGCGAGCAggccgaagcgcUCGccgGCCUcgGGCUCGagUCCa -3'
miRNA:   3'- uGUGCUUGU-----------AGCa--CGGG--CCGAGC--AGG- -5'
24238 3' -55.6 NC_005263.2 + 10405 0.66 0.665599
Target:  5'- -gGCGAGCGg---GUCCGGCgcgCGUUCa -3'
miRNA:   3'- ugUGCUUGUagcaCGGGCCGa--GCAGG- -5'
24238 3' -55.6 NC_005263.2 + 11523 0.68 0.534858
Target:  5'- cGCGCGAugAaggCG-GCgCGGUUCGUCg -3'
miRNA:   3'- -UGUGCUugUa--GCaCGgGCCGAGCAGg -5'
24238 3' -55.6 NC_005263.2 + 11869 0.72 0.3437
Target:  5'- uUACGAGCAg-GUGCUCGGgCUCGcgCCg -3'
miRNA:   3'- uGUGCUUGUagCACGGGCC-GAGCa-GG- -5'
24238 3' -55.6 NC_005263.2 + 11986 0.74 0.275198
Target:  5'- gGCGCGcAGCGUCGUGUuacgggCCaGCUCGUCg -3'
miRNA:   3'- -UGUGC-UUGUAGCACG------GGcCGAGCAGg -5'
24238 3' -55.6 NC_005263.2 + 13572 0.68 0.576833
Target:  5'- gGCACGAGCggCGUGUCCaugaucuGG-UCGUCg -3'
miRNA:   3'- -UGUGCUUGuaGCACGGG-------CCgAGCAGg -5'
24238 3' -55.6 NC_005263.2 + 14370 0.66 0.687408
Target:  5'- -gACGGGCc-CGaUGCCgGGCcgcUCGUCCg -3'
miRNA:   3'- ugUGCUUGuaGC-ACGGgCCG---AGCAGG- -5'
24238 3' -55.6 NC_005263.2 + 14686 0.75 0.212381
Target:  5'- aACACGAA-GUCGgacGCCUGGC-CGUCCu -3'
miRNA:   3'- -UGUGCUUgUAGCa--CGGGCCGaGCAGG- -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.