miRNA display CGI


Results 1 - 20 of 35 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
19253 3' -56.5 NC_004684.1 + 63049 0.66 0.743329
Target:  5'- gGGGAC-CGCCUaaCGGUugGUGGCGg-- -3'
miRNA:   3'- -CCUUGaGCGGA--GCCAcgCACCGCaug -5'
19253 3' -56.5 NC_004684.1 + 44134 0.66 0.743329
Target:  5'- aGGAACUCGUgcagUUGcGUG-GUGGCGUcGCg -3'
miRNA:   3'- -CCUUGAGCGg---AGC-CACgCACCGCA-UG- -5'
19253 3' -56.5 NC_004684.1 + 61587 0.66 0.743329
Target:  5'- uGGGA--CGCCUCGGUGguCGaGGCGUc- -3'
miRNA:   3'- -CCUUgaGCGGAGCCAC--GCaCCGCAug -5'
19253 3' -56.5 NC_004684.1 + 43735 0.66 0.741295
Target:  5'- uGGAcauaGCgcagCGCCUCGGcugacgguaccgGCGUGGUcaggccggGUACg -3'
miRNA:   3'- -CCU----UGa---GCGGAGCCa-----------CGCACCG--------CAUG- -5'
19253 3' -56.5 NC_004684.1 + 67048 0.66 0.726942
Target:  5'- cGAGCUgcugcgcacgcuucgCGCCguaccCGGUGCG-GGCGUugGCc -3'
miRNA:   3'- cCUUGA---------------GCGGa----GCCACGCaCCGCA--UG- -5'
19253 3' -56.5 NC_004684.1 + 54773 0.66 0.720735
Target:  5'- ---cCUCGCCggugcccgcaaGGUGCGcGGCGUGg -3'
miRNA:   3'- ccuuGAGCGGag---------CCACGCaCCGCAUg -5'
19253 3' -56.5 NC_004684.1 + 30958 0.66 0.701944
Target:  5'- uGGACUCGCUgUGGaacgGCGUGGUcgGCa -3'
miRNA:   3'- cCUUGAGCGGaGCCa---CGCACCGcaUG- -5'
19253 3' -56.5 NC_004684.1 + 44300 0.66 0.701944
Target:  5'- cGGAcuGCUCgGCCUUGGUGaugaaGGCGUc- -3'
miRNA:   3'- -CCU--UGAG-CGGAGCCACgca--CCGCAug -5'
19253 3' -56.5 NC_004684.1 + 13545 0.67 0.680823
Target:  5'- aGGAGCUgCGCCUggCGGccaucggcuacUGCGUcgaGGCGgGCa -3'
miRNA:   3'- -CCUUGA-GCGGA--GCC-----------ACGCA---CCGCaUG- -5'
19253 3' -56.5 NC_004684.1 + 65653 0.67 0.670192
Target:  5'- cGGAC-CGcCCUCGGUG-GUGGUGa-- -3'
miRNA:   3'- cCUUGaGC-GGAGCCACgCACCGCaug -5'
19253 3' -56.5 NC_004684.1 + 8495 0.67 0.670192
Target:  5'- gGGGACggCGagaCGGUGCcgugcugggauuGUGGCGUGCu -3'
miRNA:   3'- -CCUUGa-GCggaGCCACG------------CACCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 9336 0.67 0.659526
Target:  5'- gGGGACgaggagGCCUcCGGUGCGUcccGGCGc-- -3'
miRNA:   3'- -CCUUGag----CGGA-GCCACGCA---CCGCaug -5'
19253 3' -56.5 NC_004684.1 + 39605 0.67 0.659526
Target:  5'- cGAAC-CGCCgcgcaccgUCGG-GCGgGGUGUACa -3'
miRNA:   3'- cCUUGaGCGG--------AGCCaCGCaCCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 60125 0.67 0.659526
Target:  5'- uGGu-CUCGCCUggCGGccUGCucgGUGGCGUAg -3'
miRNA:   3'- -CCuuGAGCGGA--GCC--ACG---CACCGCAUg -5'
19253 3' -56.5 NC_004684.1 + 25546 0.67 0.648837
Target:  5'- cGGuGCUCaagaGCCUCGGcGCGgUGGaagGUGCg -3'
miRNA:   3'- -CCuUGAG----CGGAGCCaCGC-ACCg--CAUG- -5'
19253 3' -56.5 NC_004684.1 + 24500 0.67 0.648837
Target:  5'- aGGuGGCg-GUCUCGGUGCcagaggccgGGCGUGCg -3'
miRNA:   3'- -CC-UUGagCGGAGCCACGca-------CCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 43252 0.67 0.648837
Target:  5'- cGGAGCggugCGCagCGGguacggcugcUGCGUcGGCGUGCc -3'
miRNA:   3'- -CCUUGa---GCGgaGCC----------ACGCA-CCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 52647 0.67 0.634921
Target:  5'- aGGAAC-CGCgacggucccgcaucCUCGGaccauUGCGUGGCcccGUACa -3'
miRNA:   3'- -CCUUGaGCG--------------GAGCC-----ACGCACCG---CAUG- -5'
19253 3' -56.5 NC_004684.1 + 32422 0.68 0.616719
Target:  5'- -cAGCggCaCCUCGG-GCGUGGCGaUGCa -3'
miRNA:   3'- ccUUGa-GcGGAGCCaCGCACCGC-AUG- -5'
19253 3' -56.5 NC_004684.1 + 63509 0.68 0.604959
Target:  5'- aGGAugUCugaccagGCCUUGGcacUGCGcagcGGCGUGCc -3'
miRNA:   3'- -CCUugAG-------CGGAGCC---ACGCa---CCGCAUG- -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.