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
19624 5' -51.9 NC_004686.1 + 38857 0.66 0.888295
Target:  5'- uGGGAaugCCCCGuGCAgcCGcagUGCCUGCa -3'
miRNA:   3'- -CUCUa--GGGGUuUGU--GCua-ACGGACGg -5'
19624 5' -51.9 NC_004686.1 + 15294 0.66 0.888295
Target:  5'- uGGAUCCCCAccaucggagacGACAgGGcuUUGCaggaccCUGCCc -3'
miRNA:   3'- cUCUAGGGGU-----------UUGUgCU--AACG------GACGG- -5'
19624 5' -51.9 NC_004686.1 + 25344 0.66 0.87027
Target:  5'- cGAGAUCCggGAGCgGCGAUgaUGCCguggguguggacguUGCCg -3'
miRNA:   3'- -CUCUAGGggUUUG-UGCUA--ACGG--------------ACGG- -5'
19624 5' -51.9 NC_004686.1 + 52666 0.66 0.864506
Target:  5'- -cGG-CCCUGAACGCGGcguUUGUCgGCCa -3'
miRNA:   3'- cuCUaGGGGUUUGUGCU---AACGGaCGG- -5'
19624 5' -51.9 NC_004686.1 + 2624 0.67 0.847358
Target:  5'- gGGGAUUCUCAggUacugguugaGCGGUUcGCgCUGCCg -3'
miRNA:   3'- -CUCUAGGGGUuuG---------UGCUAA-CG-GACGG- -5'
19624 5' -51.9 NC_004686.1 + 21553 0.67 0.847358
Target:  5'- uGGAUgCC---ACGCcGUUGCCUGCCc -3'
miRNA:   3'- cUCUAgGGguuUGUGcUAACGGACGG- -5'
19624 5' -51.9 NC_004686.1 + 6145 0.67 0.838421
Target:  5'- -uGGUCCCac-ACACGGUUGCacuccCUGCa -3'
miRNA:   3'- cuCUAGGGguuUGUGCUAACG-----GACGg -5'
19624 5' -51.9 NC_004686.1 + 19736 0.67 0.838421
Target:  5'- cGAGGagUCUCCGAAgACGuUUGCCaccauggGCCu -3'
miRNA:   3'- -CUCU--AGGGGUUUgUGCuAACGGa------CGG- -5'
19624 5' -51.9 NC_004686.1 + 32248 0.68 0.790516
Target:  5'- -cGAcUCCCCGAGCcCGAUgccauUGUCgGCCg -3'
miRNA:   3'- cuCU-AGGGGUUUGuGCUA-----ACGGaCGG- -5'
19624 5' -51.9 NC_004686.1 + 41752 0.68 0.780367
Target:  5'- --cGUCCUCAAGCAUGGUgugcGCCaUGUCg -3'
miRNA:   3'- cucUAGGGGUUUGUGCUAa---CGG-ACGG- -5'
19624 5' -51.9 NC_004686.1 + 16408 0.68 0.748995
Target:  5'- -cGGUCCCaCAAGC-CGAUaGCCccGCCc -3'
miRNA:   3'- cuCUAGGG-GUUUGuGCUAaCGGa-CGG- -5'
19624 5' -51.9 NC_004686.1 + 39373 0.7 0.682084
Target:  5'- gGAGAUCCUgGAggaagcgGCGCGGaUGCUgGCCg -3'
miRNA:   3'- -CUCUAGGGgUU-------UGUGCUaACGGaCGG- -5'
19624 5' -51.9 NC_004686.1 + 51034 0.7 0.671987
Target:  5'- uGGAUCCagGAGCACGAcaGCCUagagGCCg -3'
miRNA:   3'- cUCUAGGggUUUGUGCUaaCGGA----CGG- -5'
19624 5' -51.9 NC_004686.1 + 13437 0.7 0.634755
Target:  5'- aGGGAaucgcUCCCCGAuggggaaggaugcgGCGCGGauggUGCCgUGCCg -3'
miRNA:   3'- -CUCU-----AGGGGUU--------------UGUGCUa---ACGG-ACGG- -5'
19624 5' -51.9 NC_004686.1 + 130 0.71 0.615539
Target:  5'- cGGGUCCaCCGGuCGCGggUGCCgaaccGCCa -3'
miRNA:   3'- cUCUAGG-GGUUuGUGCuaACGGa----CGG- -5'
19624 5' -51.9 NC_004686.1 + 45776 0.71 0.592991
Target:  5'- -uGGUCCCCGcgGAUAUcg--GCCUGCCa -3'
miRNA:   3'- cuCUAGGGGU--UUGUGcuaaCGGACGG- -5'
19624 5' -51.9 NC_004686.1 + 24700 0.73 0.483695
Target:  5'- -uGAUCCCCGucguCACGAUccUGC-UGCCa -3'
miRNA:   3'- cuCUAGGGGUuu--GUGCUA--ACGgACGG- -5'
19624 5' -51.9 NC_004686.1 + 12801 1.13 0.00114
Target:  5'- uGAGAUCCCCAAACACGAUUGCCUGCCg -3'
miRNA:   3'- -CUCUAGGGGUUUGUGCUAACGGACGG- -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.