miRNA display CGI


Results 1 - 20 of 26 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
23440 3' -54.2 NC_005259.1 + 5015 0.66 0.82911
Target:  5'- uGGUCGAgAUCGauccGGCcCCACACGaCAGc -3'
miRNA:   3'- gUCAGCUgUAGC----CUGuGGUGUGC-GUU- -5'
23440 3' -54.2 NC_005259.1 + 40486 0.69 0.654447
Target:  5'- gCGGUUGACGUUGGACACCccgaACAU-CGAg -3'
miRNA:   3'- -GUCAGCUGUAGCCUGUGG----UGUGcGUU- -5'
23440 3' -54.2 NC_005259.1 + 11297 0.68 0.697012
Target:  5'- aCGGUCGACGggCGuGAgGCCgagacggGCGCGCAGc -3'
miRNA:   3'- -GUCAGCUGUa-GC-CUgUGG-------UGUGCGUU- -5'
23440 3' -54.2 NC_005259.1 + 36030 0.68 0.708873
Target:  5'- aGGUCGACAUgaucagcgaGGcCACC-CGCGCGAg -3'
miRNA:   3'- gUCAGCUGUAg--------CCuGUGGuGUGCGUU- -5'
23440 3' -54.2 NC_005259.1 + 51362 0.68 0.708873
Target:  5'- cCGGU-GGCAcCGGcACACCGCGCGUg- -3'
miRNA:   3'- -GUCAgCUGUaGCC-UGUGGUGUGCGuu -5'
23440 3' -54.2 NC_005259.1 + 54356 0.68 0.708873
Target:  5'- gGGUCgGGCAaCGGAUugCGCuCGCGAu -3'
miRNA:   3'- gUCAG-CUGUaGCCUGugGUGuGCGUU- -5'
23440 3' -54.2 NC_005259.1 + 8655 0.68 0.719577
Target:  5'- aGGcUGugGUCGGGCugC-CACGCGGg -3'
miRNA:   3'- gUCaGCugUAGCCUGugGuGUGCGUU- -5'
23440 3' -54.2 NC_005259.1 + 56637 0.67 0.740715
Target:  5'- aUAGUUGuucucgaaaGCAUCgaGGGCACCGCGCGUc- -3'
miRNA:   3'- -GUCAGC---------UGUAG--CCUGUGGUGUGCGuu -5'
23440 3' -54.2 NC_005259.1 + 6253 0.67 0.740715
Target:  5'- gGGUCGAUAUCccGCACCGC-CGCc- -3'
miRNA:   3'- gUCAGCUGUAGccUGUGGUGuGCGuu -5'
23440 3' -54.2 NC_005259.1 + 51658 0.69 0.643457
Target:  5'- gGGUUGccgcgcgggcGCGUCGGGCACgGgCGCGCGAu -3'
miRNA:   3'- gUCAGC----------UGUAGCCUGUGgU-GUGCGUU- -5'
23440 3' -54.2 NC_005259.1 + 18179 0.69 0.643457
Target:  5'- gCAGUCGAgGUCGaccccGACAUCGCACcCAAg -3'
miRNA:   3'- -GUCAGCUgUAGC-----CUGUGGUGUGcGUU- -5'
23440 3' -54.2 NC_005259.1 + 10716 0.7 0.599493
Target:  5'- gUAGUUGGCccgcaugauGUCGGugauCACCGCGCGCu- -3'
miRNA:   3'- -GUCAGCUG---------UAGCCu---GUGGUGUGCGuu -5'
23440 3' -54.2 NC_005259.1 + 16455 0.74 0.377435
Target:  5'- -cGUCGGCAUCGGuACcCCGC-CGCAGa -3'
miRNA:   3'- guCAGCUGUAGCC-UGuGGUGuGCGUU- -5'
23440 3' -54.2 NC_005259.1 + 42601 0.73 0.436662
Target:  5'- gCAGUCGACAUCGG-CGgucaugagcccgaugUCGCGCGUAGg -3'
miRNA:   3'- -GUCAGCUGUAGCCuGU---------------GGUGUGCGUU- -5'
23440 3' -54.2 NC_005259.1 + 45903 0.72 0.442485
Target:  5'- uCGGUCGg---CGGGCACCGCugGUAGa -3'
miRNA:   3'- -GUCAGCuguaGCCUGUGGUGugCGUU- -5'
23440 3' -54.2 NC_005259.1 + 49296 0.72 0.442485
Target:  5'- gUAGUCGACAucgUCGGGgucCAUCAgGCGCGAg -3'
miRNA:   3'- -GUCAGCUGU---AGCCU---GUGGUgUGCGUU- -5'
23440 3' -54.2 NC_005259.1 + 56804 0.72 0.462205
Target:  5'- aCAGaUCGGgGUCGGugGCCACccauuGCGCGc -3'
miRNA:   3'- -GUC-AGCUgUAGCCugUGGUG-----UGCGUu -5'
23440 3' -54.2 NC_005259.1 + 5650 0.72 0.482379
Target:  5'- -cGagGACggCGGGCGCUACACGCGc -3'
miRNA:   3'- guCagCUGuaGCCUGUGGUGUGCGUu -5'
23440 3' -54.2 NC_005259.1 + 33858 0.71 0.543076
Target:  5'- uGGUCGACucaagcaucugcUCGGugAgCACACGCGGg -3'
miRNA:   3'- gUCAGCUGu-----------AGCCugUgGUGUGCGUU- -5'
23440 3' -54.2 NC_005259.1 + 24553 0.71 0.545218
Target:  5'- cCAGaUCGGCGggguguacucgUGGGCACCGCACGUg- -3'
miRNA:   3'- -GUC-AGCUGUa----------GCCUGUGGUGUGCGuu -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.