miRNA display CGI


Results 1 - 20 of 34 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
23282 3' -60.4 NC_005259.1 + 3126 0.71 0.253973
Target:  5'- gCACCGuGGG-CAGCGGacgGCAccGCCCGu -3'
miRNA:   3'- -GUGGC-CCCaGUCGCCga-UGUu-CGGGC- -5'
23282 3' -60.4 NC_005259.1 + 9826 0.66 0.508065
Target:  5'- cCGCCGGGu---GCGGC-GCuGGCCCa -3'
miRNA:   3'- -GUGGCCCcaguCGCCGaUGuUCGGGc -5'
23282 3' -60.4 NC_005259.1 + 10339 0.72 0.208014
Target:  5'- --aCGGGcUCGGCGGCaGCGGGCUCGa -3'
miRNA:   3'- gugGCCCcAGUCGCCGaUGUUCGGGC- -5'
23282 3' -60.4 NC_005259.1 + 13209 0.68 0.404499
Target:  5'- aCAgCGGGGcCAGCGGU---GGGCCuCGa -3'
miRNA:   3'- -GUgGCCCCaGUCGCCGaugUUCGG-GC- -5'
23282 3' -60.4 NC_005259.1 + 13629 0.69 0.330341
Target:  5'- uCugCGGGccgcucaacGUCGaCGGCUACGcGCCCGg -3'
miRNA:   3'- -GugGCCC---------CAGUcGCCGAUGUuCGGGC- -5'
23282 3' -60.4 NC_005259.1 + 15574 0.67 0.4728
Target:  5'- cCACCcucGGGGcCAGCGcgacgggccgcaugaGCUACGgcAGCCCc -3'
miRNA:   3'- -GUGG---CCCCaGUCGC---------------CGAUGU--UCGGGc -5'
23282 3' -60.4 NC_005259.1 + 25202 1.07 0.000584
Target:  5'- cCACCGGGGUCAGCGGCUACAAGCCCGc -3'
miRNA:   3'- -GUGGCCCCAGUCGCCGAUGUUCGGGC- -5'
23282 3' -60.4 NC_005259.1 + 27388 0.67 0.468957
Target:  5'- gACCGGcGGcggugucggCAGCGGCgGC-AGCUCGg -3'
miRNA:   3'- gUGGCC-CCa--------GUCGCCGaUGuUCGGGC- -5'
23282 3' -60.4 NC_005259.1 + 27477 0.72 0.224345
Target:  5'- gGCCGGGGUCGGUguGGCcACc-GCCCc -3'
miRNA:   3'- gUGGCCCCAGUCG--CCGaUGuuCGGGc -5'
23282 3' -60.4 NC_005259.1 + 28018 0.68 0.370266
Target:  5'- uCGCCGGGGUU-GCGcGCguugGCcAGCCaCGg -3'
miRNA:   3'- -GUGGCCCCAGuCGC-CGa---UGuUCGG-GC- -5'
23282 3' -60.4 NC_005259.1 + 28964 0.66 0.518061
Target:  5'- uCGCCGaGGUCGGUgccgaGGCcGCGAgcGCCCGc -3'
miRNA:   3'- -GUGGCcCCAGUCG-----CCGaUGUU--CGGGC- -5'
23282 3' -60.4 NC_005259.1 + 31933 0.72 0.208014
Target:  5'- gCACuCGGGGUCgaGGCGGUUACcucggguGCCUGa -3'
miRNA:   3'- -GUG-GCCCCAG--UCGCCGAUGuu-----CGGGC- -5'
23282 3' -60.4 NC_005259.1 + 33052 0.66 0.482476
Target:  5'- uGCCGGGGUCGcucGCGuGCUucugguauccGCuggccaccuguagguAGGCCCGc -3'
miRNA:   3'- gUGGCCCCAGU---CGC-CGA----------UG---------------UUCGGGC- -5'
23282 3' -60.4 NC_005259.1 + 41089 0.67 0.449988
Target:  5'- aGCCGGucguagucggcGGUCGGCGGUaugACGAugucggcgguGCCCGc -3'
miRNA:   3'- gUGGCC-----------CCAGUCGCCGa--UGUU----------CGGGC- -5'
23282 3' -60.4 NC_005259.1 + 42058 0.71 0.273248
Target:  5'- -cUCGGGGUgGGCGGCUAgGuaucgcAGCaCCGa -3'
miRNA:   3'- guGGCCCCAgUCGCCGAUgU------UCG-GGC- -5'
23282 3' -60.4 NC_005259.1 + 43063 0.72 0.218784
Target:  5'- --aCGGGGUCGGUgaGGaacGCGAGCCCGu -3'
miRNA:   3'- gugGCCCCAGUCG--CCga-UGUUCGGGC- -5'
23282 3' -60.4 NC_005259.1 + 44802 0.66 0.477626
Target:  5'- uCGCCGGuggccuggcccuuGGUCAGCaGCUccACGAGaUCCGa -3'
miRNA:   3'- -GUGGCC-------------CCAGUCGcCGA--UGUUC-GGGC- -5'
23282 3' -60.4 NC_005259.1 + 45183 0.66 0.502108
Target:  5'- gCGCCGaGGUCAgcGCGGUgaugACGggcgaguucgcguugAGCCCGa -3'
miRNA:   3'- -GUGGCcCCAGU--CGCCGa---UGU---------------UCGGGC- -5'
23282 3' -60.4 NC_005259.1 + 45848 0.68 0.378636
Target:  5'- cCACCGGGGcCGGUGGgaccggGCAuGCCgGg -3'
miRNA:   3'- -GUGGCCCCaGUCGCCga----UGUuCGGgC- -5'
23282 3' -60.4 NC_005259.1 + 46292 0.67 0.422348
Target:  5'- aCAgCGGGGcCGccGUGGCUGCGuuguucgcGGCCCc -3'
miRNA:   3'- -GUgGCCCCaGU--CGCCGAUGU--------UCGGGc -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.