miRNA display CGI


Results 1 - 18 of 18 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
23468 5' -55.3 NC_005259.1 + 61926 0.66 0.773385
Target:  5'- uCGGCAGCucggucucucGCGcgGGUGCCGGGG-CCAc -3'
miRNA:   3'- -GUCGUCGc---------CGCa-UUACGGCUCUaGGU- -5'
23468 5' -55.3 NC_005259.1 + 7032 0.66 0.773385
Target:  5'- gAGCgccccGGCGGgGUuuuucguUGCgCGAGAUCCu -3'
miRNA:   3'- gUCG-----UCGCCgCAuu-----ACG-GCUCUAGGu -5'
23468 5' -55.3 NC_005259.1 + 61223 0.66 0.732309
Target:  5'- aAGCGGCGGUGUGcgcaCCGAGAaCUc -3'
miRNA:   3'- gUCGUCGCCGCAUuac-GGCUCUaGGu -5'
23468 5' -55.3 NC_005259.1 + 8220 0.66 0.729155
Target:  5'- aCAGCgAGCGuGCgGUGGUGCCGAcacccugccuuaccGGUCUu -3'
miRNA:   3'- -GUCG-UCGC-CG-CAUUACGGCU--------------CUAGGu -5'
23468 5' -55.3 NC_005259.1 + 27402 0.66 0.721763
Target:  5'- uCGGCAGCGGCGgcagcucGGUGCCcgcGAGGa--- -3'
miRNA:   3'- -GUCGUCGCCGCa------UUACGG---CUCUaggu -5'
23468 5' -55.3 NC_005259.1 + 67977 0.67 0.71113
Target:  5'- -cGCAGCGGCGUGGccaccGCCGcGAgcgUCGa -3'
miRNA:   3'- guCGUCGCCGCAUUa----CGGCuCUa--GGU- -5'
23468 5' -55.3 NC_005259.1 + 24725 0.67 0.70042
Target:  5'- uCGGCGaucacgauugauGCGGUGUGggGUGCCGAGGcgcucaucgaaUCCu -3'
miRNA:   3'- -GUCGU------------CGCCGCAU--UACGGCUCU-----------AGGu -5'
23468 5' -55.3 NC_005259.1 + 16155 0.67 0.689643
Target:  5'- aGGUuGUGGUGUccacucccgugGccGCCGAGGUCCAa -3'
miRNA:   3'- gUCGuCGCCGCA-----------UuaCGGCUCUAGGU- -5'
23468 5' -55.3 NC_005259.1 + 39764 0.67 0.689643
Target:  5'- gCAGCAGCGGCagccugcugcugGUGAUcggugcGCCGAGcucaagCCGa -3'
miRNA:   3'- -GUCGUCGCCG------------CAUUA------CGGCUCua----GGU- -5'
23468 5' -55.3 NC_005259.1 + 26818 0.67 0.667938
Target:  5'- cCGGUAcCGGCgGUGGUGCCGGGGcggUCUg -3'
miRNA:   3'- -GUCGUcGCCG-CAUUACGGCUCU---AGGu -5'
23468 5' -55.3 NC_005259.1 + 63305 0.68 0.613272
Target:  5'- gAGCAGCGGgGUcagGAUGUCGuuguAGAUCg- -3'
miRNA:   3'- gUCGUCGCCgCA---UUACGGC----UCUAGgu -5'
23468 5' -55.3 NC_005259.1 + 7239 0.68 0.602349
Target:  5'- aCGGCAGCcGCGccGGUGUCGAGugcgCCAa -3'
miRNA:   3'- -GUCGUCGcCGCa-UUACGGCUCua--GGU- -5'
23468 5' -55.3 NC_005259.1 + 50435 0.69 0.580588
Target:  5'- gGGCAGCGGUGcgg-GCuCGGGGUCg- -3'
miRNA:   3'- gUCGUCGCCGCauuaCG-GCUCUAGgu -5'
23468 5' -55.3 NC_005259.1 + 44956 0.7 0.516562
Target:  5'- gGGCAguGCGGUcaucggGAUGCCGAGggCCGg -3'
miRNA:   3'- gUCGU--CGCCGca----UUACGGCUCuaGGU- -5'
23468 5' -55.3 NC_005259.1 + 28237 0.7 0.485604
Target:  5'- uCGGCGGCGGgGUG--GUCGAucacGAUCCAu -3'
miRNA:   3'- -GUCGUCGCCgCAUuaCGGCU----CUAGGU- -5'
23468 5' -55.3 NC_005259.1 + 14524 0.71 0.47548
Target:  5'- gAGCAcGCGGUGcguuucGGUGCCGAGuucGUCCGg -3'
miRNA:   3'- gUCGU-CGCCGCa-----UUACGGCUC---UAGGU- -5'
23468 5' -55.3 NC_005259.1 + 2157 0.72 0.380721
Target:  5'- uGGcCAGCGGCGUcGAgccgccgguUGCCGAGGUCa- -3'
miRNA:   3'- gUC-GUCGCCGCA-UU---------ACGGCUCUAGgu -5'
23468 5' -55.3 NC_005259.1 + 55339 0.73 0.338307
Target:  5'- gCGGCAGCGGUGgcGAUGCCGAacgCCu -3'
miRNA:   3'- -GUCGUCGCCGCa-UUACGGCUcuaGGu -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.