miRNA display CGI


Results 1 - 20 of 86 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
16405 3' -55.6 NC_004084.1 + 58019 0.73 0.380125
Target:  5'- aUCGACGACGucugcgacAUCGGC-GGCGAC-GUCc -3'
miRNA:   3'- -AGCUGCUGC--------UAGCUGcCCGCUGaCAG- -5'
16405 3' -55.6 NC_004084.1 + 56914 0.67 0.694358
Target:  5'- aUCGGCuuCGAgcUCGA-GGGCGAC-GUCu -3'
miRNA:   3'- -AGCUGcuGCU--AGCUgCCCGCUGaCAG- -5'
16405 3' -55.6 NC_004084.1 + 56444 0.68 0.640813
Target:  5'- gCGaACGACGAucUCGACGGcGCG-CUcUCg -3'
miRNA:   3'- aGC-UGCUGCU--AGCUGCC-CGCuGAcAG- -5'
16405 3' -55.6 NC_004084.1 + 55968 0.68 0.619274
Target:  5'- aCGACGGCGA-CG-CGGaGgGGCUGaUCg -3'
miRNA:   3'- aGCUGCUGCUaGCuGCC-CgCUGAC-AG- -5'
16405 3' -55.6 NC_004084.1 + 55900 0.71 0.483131
Target:  5'- gCGACGACGAUCcgccggagGAgUGGGCcGACUGg- -3'
miRNA:   3'- aGCUGCUGCUAG--------CU-GCCCG-CUGACag -5'
16405 3' -55.6 NC_004084.1 + 55255 0.69 0.565761
Target:  5'- gUCGACGACGucuacgGUCGGCG-GCGugUagaucGUCa -3'
miRNA:   3'- -AGCUGCUGC------UAGCUGCcCGCugA-----CAG- -5'
16405 3' -55.6 NC_004084.1 + 54063 0.68 0.619274
Target:  5'- aCGcGCGACGAggaGACGGGCGAg---- -3'
miRNA:   3'- aGC-UGCUGCUag-CUGCCCGCUgacag -5'
16405 3' -55.6 NC_004084.1 + 53500 0.71 0.483131
Target:  5'- gUCGACGGCGAagucgUCGuGCGGuaGACUG-Cg -3'
miRNA:   3'- -AGCUGCUGCU-----AGC-UGCCcgCUGACaG- -5'
16405 3' -55.6 NC_004084.1 + 53261 0.78 0.166378
Target:  5'- aCGGCGACGAgaUCGGgcCGGGCGAC-GUCc -3'
miRNA:   3'- aGCUGCUGCU--AGCU--GCCCGCUGaCAG- -5'
16405 3' -55.6 NC_004084.1 + 51426 0.66 0.75356
Target:  5'- uUCGAgGGCGAcacgcugaucuacgUUGGCGagggccgcGGCGGCUGUa -3'
miRNA:   3'- -AGCUgCUGCU--------------AGCUGC--------CCGCUGACAg -5'
16405 3' -55.6 NC_004084.1 + 50265 0.66 0.77647
Target:  5'- gUUGGCGGCGAgguccUCGACGucugccgaccaGGCGuCgGUCa -3'
miRNA:   3'- -AGCUGCUGCU-----AGCUGC-----------CCGCuGaCAG- -5'
16405 3' -55.6 NC_004084.1 + 49333 0.69 0.597777
Target:  5'- cUCGAuauCGGCGAUCGuguCGaGGUGAUcGUCg -3'
miRNA:   3'- -AGCU---GCUGCUAGCu--GC-CCGCUGaCAG- -5'
16405 3' -55.6 NC_004084.1 + 49245 0.66 0.756586
Target:  5'- gCGAUGACugaagaGAUCGACGuccacgucacGGCGACggcgaaGUCg -3'
miRNA:   3'- aGCUGCUG------CUAGCUGC----------CCGCUGa-----CAG- -5'
16405 3' -55.6 NC_004084.1 + 49079 0.69 0.587066
Target:  5'- aCGuGCGACGGUCGGgagaggucuCGcGUGACUGUCu -3'
miRNA:   3'- aGC-UGCUGCUAGCU---------GCcCGCUGACAG- -5'
16405 3' -55.6 NC_004084.1 + 48714 0.67 0.691173
Target:  5'- aUCGGCGucggccaacucaccGCGGUcucCGGCGGGCcaccCUGUCa -3'
miRNA:   3'- -AGCUGC--------------UGCUA---GCUGCCCGcu--GACAG- -5'
16405 3' -55.6 NC_004084.1 + 48364 0.66 0.766594
Target:  5'- aCGACGuACGAUCGACc-GUGAUagGUCa -3'
miRNA:   3'- aGCUGC-UGCUAGCUGccCGCUGa-CAG- -5'
16405 3' -55.6 NC_004084.1 + 46393 0.74 0.307502
Target:  5'- gUCGAauCGACGAUCGGCGacGGCGAagUUGUUg -3'
miRNA:   3'- -AGCU--GCUGCUAGCUGC--CCGCU--GACAG- -5'
16405 3' -55.6 NC_004084.1 + 45988 0.66 0.746457
Target:  5'- gUCGACG-CGAUCaugGACGGcGagaaGACgGUCa -3'
miRNA:   3'- -AGCUGCuGCUAG---CUGCC-Cg---CUGaCAG- -5'
16405 3' -55.6 NC_004084.1 + 42552 0.67 0.694358
Target:  5'- aUCGAcuguccaccCGACGAUgGAUGGGgCGAgCUGcCa -3'
miRNA:   3'- -AGCU---------GCUGCUAgCUGCCC-GCU-GACaG- -5'
16405 3' -55.6 NC_004084.1 + 42334 0.7 0.513519
Target:  5'- -gGACGA-GAUCGACGaGGCGGCg--- -3'
miRNA:   3'- agCUGCUgCUAGCUGC-CCGCUGacag -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.