miRNA display CGI


Results 1 - 20 of 23 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
5164 3' -56.9 NC_001798.1 + 46599 0.66 0.840823
Target:  5'- cGCGuCCCGUUCggGGCuacgaccaCGGCCAGg -3'
miRNA:   3'- uUGUcGGGCAAGuaCCGua------GCCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 68745 0.66 0.840823
Target:  5'- cGCAGgCCGgg-AUGGUAaCGGCCGAa -3'
miRNA:   3'- uUGUCgGGCaagUACCGUaGCCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 71866 0.66 0.823823
Target:  5'- ---cGCCCccucgGUUCAccUGGCcgCGGCCAc -3'
miRNA:   3'- uuguCGGG-----CAAGU--ACCGuaGCCGGUu -5'
5164 3' -56.9 NC_001798.1 + 150009 0.66 0.806096
Target:  5'- gAGCGGCCCGU----GGCcgCGGUCGc -3'
miRNA:   3'- -UUGUCGGGCAaguaCCGuaGCCGGUu -5'
5164 3' -56.9 NC_001798.1 + 116355 0.66 0.806096
Target:  5'- cGGCGGCgUGcaaCGUGGCGaCGGCCGAc -3'
miRNA:   3'- -UUGUCGgGCaa-GUACCGUaGCCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 26462 0.67 0.778298
Target:  5'- --gGGCCCGcccccgCAgauacgcugGGCGUCGGCCGc -3'
miRNA:   3'- uugUCGGGCaa----GUa--------CCGUAGCCGGUu -5'
5164 3' -56.9 NC_001798.1 + 28668 0.67 0.778298
Target:  5'- -cCGGCgCCG--CGUGGCggCGGCCGAg -3'
miRNA:   3'- uuGUCG-GGCaaGUACCGuaGCCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 73707 0.67 0.778298
Target:  5'- aAACAGgcCCCGcUCGUGGCGggcgCGGCaCAc -3'
miRNA:   3'- -UUGUC--GGGCaAGUACCGUa---GCCG-GUu -5'
5164 3' -56.9 NC_001798.1 + 74391 0.67 0.749273
Target:  5'- -cCGGCCCGggggcCGUGGCGcCGGCgGAc -3'
miRNA:   3'- uuGUCGGGCaa---GUACCGUaGCCGgUU- -5'
5164 3' -56.9 NC_001798.1 + 7826 0.68 0.728365
Target:  5'- cGCAGCUgGUUCAuacccaaUGGCuUCgGGCCAAc -3'
miRNA:   3'- uUGUCGGgCAAGU-------ACCGuAG-CCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 76163 0.68 0.709117
Target:  5'- cGACAGCCaCGacugucgguUUCAcgUGGCcUCGGCCGc -3'
miRNA:   3'- -UUGUCGG-GC---------AAGU--ACCGuAGCCGGUu -5'
5164 3' -56.9 NC_001798.1 + 144800 0.68 0.688592
Target:  5'- aAAgGGCCCGgcgcgUCGUuguuuccugGGUGUCGGCCGGa -3'
miRNA:   3'- -UUgUCGGGCa----AGUA---------CCGUAGCCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 22880 0.69 0.678251
Target:  5'- cGCGGCCCGgguUCggGUGGCAcggUgGGCCGGa -3'
miRNA:   3'- uUGUCGGGCa--AG--UACCGU---AgCCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 3542 0.69 0.672028
Target:  5'- aAGCGGCCCGccgcCAUGGCGUaccccagguggggcaCGGCCc- -3'
miRNA:   3'- -UUGUCGGGCaa--GUACCGUA---------------GCCGGuu -5'
5164 3' -56.9 NC_001798.1 + 95110 0.69 0.667871
Target:  5'- uGCGGCCCGUg-AUGGCcgCGcGCCc- -3'
miRNA:   3'- uUGUCGGGCAagUACCGuaGC-CGGuu -5'
5164 3' -56.9 NC_001798.1 + 110984 0.69 0.637631
Target:  5'- gGACGucacGCCCGUcaggcgcgcgguaugCGUGGCcgCGGCCAGg -3'
miRNA:   3'- -UUGU----CGGGCAa--------------GUACCGuaGCCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 4015 0.69 0.636586
Target:  5'- aAGCGGCCCGUggcgUCGcGGC--CGGCCAc -3'
miRNA:   3'- -UUGUCGGGCA----AGUaCCGuaGCCGGUu -5'
5164 3' -56.9 NC_001798.1 + 52332 0.69 0.636586
Target:  5'- gGGCAGcCCCGgggUCGUGGC---GGCCGAg -3'
miRNA:   3'- -UUGUC-GGGCa--AGUACCGuagCCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 109685 0.7 0.615696
Target:  5'- --gGGCgCCGUUCcUGGCGggcgcgcccUCGGCCGAg -3'
miRNA:   3'- uugUCG-GGCAAGuACCGU---------AGCCGGUU- -5'
5164 3' -56.9 NC_001798.1 + 35479 0.71 0.563831
Target:  5'- cGCGGCCCGUcugC-UGGCccgCGGCCAc -3'
miRNA:   3'- uUGUCGGGCAa--GuACCGua-GCCGGUu -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.