miRNA display CGI


Results 1 - 20 of 32 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
19461 5' -55.8 NC_004685.1 + 41808 0.66 0.76496
Target:  5'- cGC-CCAC-CGCCAcgacGGGCGAGGUg--- -3'
miRNA:   3'- -CGaGGUGcGUGGU----CCCGCUCUAguuc -5'
19461 5' -55.8 NC_004685.1 + 9970 0.66 0.76496
Target:  5'- gGCUggCCgACGaCGCCGuGGGCGAGAUg--- -3'
miRNA:   3'- -CGA--GG-UGC-GUGGU-CCCGCUCUAguuc -5'
19461 5' -55.8 NC_004685.1 + 46374 0.66 0.763959
Target:  5'- aGCguugggCCACGCgguucucggcgugGCCGcGGGCGuGAUCGc- -3'
miRNA:   3'- -CGa-----GGUGCG-------------UGGU-CCCGCuCUAGUuc -5'
19461 5' -55.8 NC_004685.1 + 55156 0.66 0.754899
Target:  5'- aGUUUCACaaCGCCgAGGGCGAGGUgaucgaCGAGa -3'
miRNA:   3'- -CGAGGUGc-GUGG-UCCCGCUCUA------GUUC- -5'
19461 5' -55.8 NC_004685.1 + 11476 0.66 0.754899
Target:  5'- cGCUCgAuuCGCGCCAGccuccGGCGAGugGUCAc- -3'
miRNA:   3'- -CGAGgU--GCGUGGUC-----CCGCUC--UAGUuc -5'
19461 5' -55.8 NC_004685.1 + 51980 0.66 0.753886
Target:  5'- ---aCGCGCcaACCAGGGCGGucacccuGAUCAGu -3'
miRNA:   3'- cgagGUGCG--UGGUCCCGCU-------CUAGUUc -5'
19461 5' -55.8 NC_004685.1 + 52044 0.66 0.744717
Target:  5'- gGCcagCCACGcCACCucgGGGGUGAGcgCGu- -3'
miRNA:   3'- -CGa--GGUGC-GUGG---UCCCGCUCuaGUuc -5'
19461 5' -55.8 NC_004685.1 + 10180 0.66 0.744717
Target:  5'- cGUUCCuCGaugGCCGGGuCGAGGUCAAc -3'
miRNA:   3'- -CGAGGuGCg--UGGUCCcGCUCUAGUUc -5'
19461 5' -55.8 NC_004685.1 + 24945 0.66 0.744717
Target:  5'- uGCcCCGCuuGCGCC-GGGCGAacAUCAGGa -3'
miRNA:   3'- -CGaGGUG--CGUGGuCCCGCUc-UAGUUC- -5'
19461 5' -55.8 NC_004685.1 + 41230 0.66 0.733391
Target:  5'- aGUUCCugGacgacauCGCCAGcGGCGcGAUCAu- -3'
miRNA:   3'- -CGAGGugC-------GUGGUC-CCGCuCUAGUuc -5'
19461 5' -55.8 NC_004685.1 + 51431 0.67 0.713556
Target:  5'- uGCUCgAUGCgGCCGGuGGCGAugaggugacGAUCAGc -3'
miRNA:   3'- -CGAGgUGCG-UGGUC-CCGCU---------CUAGUUc -5'
19461 5' -55.8 NC_004685.1 + 28489 0.67 0.713556
Target:  5'- uCUCCGCGaCACCAGG-CaGAGcAUCAGc -3'
miRNA:   3'- cGAGGUGC-GUGGUCCcG-CUC-UAGUUc -5'
19461 5' -55.8 NC_004685.1 + 33065 0.67 0.703
Target:  5'- uGCUCgAucUGCuGCCAcGGCGGGAUCAGa -3'
miRNA:   3'- -CGAGgU--GCG-UGGUcCCGCUCUAGUUc -5'
19461 5' -55.8 NC_004685.1 + 57134 0.67 0.703
Target:  5'- gGCUgCuCGcCGCC-GGGCG-GGUCAAGg -3'
miRNA:   3'- -CGAgGuGC-GUGGuCCCGCuCUAGUUC- -5'
19461 5' -55.8 NC_004685.1 + 4321 0.67 0.692378
Target:  5'- aGCUggccgaaCGCGuCGCCGGGuGCGAGAaggcgcUCAAGc -3'
miRNA:   3'- -CGAg------GUGC-GUGGUCC-CGCUCU------AGUUC- -5'
19461 5' -55.8 NC_004685.1 + 34656 0.67 0.681699
Target:  5'- aGCUCUggcaGCGCGCC--GGCGAGuucggCGAGg -3'
miRNA:   3'- -CGAGG----UGCGUGGucCCGCUCua---GUUC- -5'
19461 5' -55.8 NC_004685.1 + 27960 0.67 0.67527
Target:  5'- aGCUUCgACGUgggGCCgAGGGCGAcccuccgcgcggacuGGUCGAGg -3'
miRNA:   3'- -CGAGG-UGCG---UGG-UCCCGCU---------------CUAGUUC- -5'
19461 5' -55.8 NC_004685.1 + 18909 0.67 0.660216
Target:  5'- gGCcgaCGCGCGCCGcgacggcgcGGGCGAGAUgcuggcggcCAAGg -3'
miRNA:   3'- -CGag-GUGCGUGGU---------CCCGCUCUA---------GUUC- -5'
19461 5' -55.8 NC_004685.1 + 31168 0.67 0.660216
Target:  5'- cGCcgCCGCGCcgguCCuGGGCGcGAUgAAGg -3'
miRNA:   3'- -CGa-GGUGCGu---GGuCCCGCuCUAgUUC- -5'
19461 5' -55.8 NC_004685.1 + 13222 0.68 0.638631
Target:  5'- cCUCCGCGuCGCCcGGGCGcGcAUCAu- -3'
miRNA:   3'- cGAGGUGC-GUGGuCCCGCuC-UAGUuc -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.