miRNA display CGI


Results 1 - 20 of 29 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
11555 3' -55.6 NC_003085.1 + 48975 0.66 0.666645
Target:  5'- gCGCGAGgcGGCGcgGCUGGcGGGCcaaUGCu -3'
miRNA:   3'- aGUGCUU--CCGUaaCGGCCuCCCG---AUG- -5'
11555 3' -55.6 NC_003085.1 + 41867 0.66 0.666645
Target:  5'- gCGCGA--GCcugUGCUGGGGGGCg-- -3'
miRNA:   3'- aGUGCUucCGua-ACGGCCUCCCGaug -5'
11555 3' -55.6 NC_003085.1 + 43413 0.66 0.666645
Target:  5'- cCGCGAAgGGCGgggagGUacgagaGGAGGGCgACa -3'
miRNA:   3'- aGUGCUU-CCGUaa---CGg-----CCUCCCGaUG- -5'
11555 3' -55.6 NC_003085.1 + 21153 0.66 0.6555
Target:  5'- ---gGAAGGUGgacugGUacgUGGAGGGCUACa -3'
miRNA:   3'- agugCUUCCGUaa---CG---GCCUCCCGAUG- -5'
11555 3' -55.6 NC_003085.1 + 46702 0.66 0.6555
Target:  5'- aCACGucugcccGGCAgccggGCgaGGAGGGCUGa -3'
miRNA:   3'- aGUGCuu-----CCGUaa---CGg-CCUCCCGAUg -5'
11555 3' -55.6 NC_003085.1 + 21601 0.66 0.6555
Target:  5'- gUCACGcAGGGCGUcagcGCCGcGAcgacGGGCUcCa -3'
miRNA:   3'- -AGUGC-UUCCGUAa---CGGC-CU----CCCGAuG- -5'
11555 3' -55.6 NC_003085.1 + 18575 0.66 0.633156
Target:  5'- uUCGCGAAucauGCug-GCCGccuugaggacGGGGGCUGCg -3'
miRNA:   3'- -AGUGCUUc---CGuaaCGGC----------CUCCCGAUG- -5'
11555 3' -55.6 NC_003085.1 + 24394 0.66 0.617507
Target:  5'- cCugGAcgGGGCcgUGCCGGuggacccgacgguGGGCaccUACg -3'
miRNA:   3'- aGugCU--UCCGuaACGGCCu------------CCCG---AUG- -5'
11555 3' -55.6 NC_003085.1 + 11612 0.66 0.610807
Target:  5'- gCGCGAAGGgGcugUGCa--GGGGCUGCu -3'
miRNA:   3'- aGUGCUUCCgUa--ACGgccUCCCGAUG- -5'
11555 3' -55.6 NC_003085.1 + 15124 0.67 0.588534
Target:  5'- cCACG-AGGCuuugGCCcu-GGGCUGCg -3'
miRNA:   3'- aGUGCuUCCGuaa-CGGccuCCCGAUG- -5'
11555 3' -55.6 NC_003085.1 + 40402 0.67 0.588534
Target:  5'- cCACuGAGGCAcgcgccagcccUUGCCGGcgagguagAGGGCgACg -3'
miRNA:   3'- aGUGcUUCCGU-----------AACGGCC--------UCCCGaUG- -5'
11555 3' -55.6 NC_003085.1 + 23036 0.67 0.57745
Target:  5'- uUCGCGAgcaguGGGCGaagcugccGCCGGAGGuGCa-- -3'
miRNA:   3'- -AGUGCU-----UCCGUaa------CGGCCUCC-CGaug -5'
11555 3' -55.6 NC_003085.1 + 22909 0.67 0.576343
Target:  5'- -gGCGGAGGC--UGCCGGGGcgaagcccuccgaGGCcGCg -3'
miRNA:   3'- agUGCUUCCGuaACGGCCUC-------------CCGaUG- -5'
11555 3' -55.6 NC_003085.1 + 38849 0.67 0.566412
Target:  5'- -gACGAGGGCGagcGCaaucaCGGAGGGCa-- -3'
miRNA:   3'- agUGCUUCCGUaa-CG-----GCCUCCCGaug -5'
11555 3' -55.6 NC_003085.1 + 45905 0.68 0.53366
Target:  5'- cCGCGAcuGGCug-GCCGaGAGGgacGCUGCa -3'
miRNA:   3'- aGUGCUu-CCGuaaCGGC-CUCC---CGAUG- -5'
11555 3' -55.6 NC_003085.1 + 40239 0.68 0.512202
Target:  5'- aUCAUGAgauGGGCucagggGuuGGAGGGUUGa -3'
miRNA:   3'- -AGUGCU---UCCGuaa---CggCCUCCCGAUg -5'
11555 3' -55.6 NC_003085.1 + 45118 0.69 0.467362
Target:  5'- gCGCGGcguAGGCAUUGCCGucgucgucgacgaaGAGGuGCaGCg -3'
miRNA:   3'- aGUGCU---UCCGUAACGGC--------------CUCC-CGaUG- -5'
11555 3' -55.6 NC_003085.1 + 1802 0.69 0.440264
Target:  5'- -gACGAuGGCGUcuacugacucUGCCuGGAGGGCaucgGCa -3'
miRNA:   3'- agUGCUuCCGUA----------ACGG-CCUCCCGa---UG- -5'
11555 3' -55.6 NC_003085.1 + 48796 0.71 0.374427
Target:  5'- cUCACGGacAGGCGagaggUGCUGGuGGGCg-- -3'
miRNA:   3'- -AGUGCU--UCCGUa----ACGGCCuCCCGaug -5'
11555 3' -55.6 NC_003085.1 + 5158 0.71 0.329211
Target:  5'- aCGCGAAGGCAgcgGCCauccuggcgcggaaGGcAGGGCgGCg -3'
miRNA:   3'- aGUGCUUCCGUaa-CGG--------------CC-UCCCGaUG- -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.