miRNA display CGI


Results 1 - 20 of 60 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
28037 3' -62.1 NC_005887.1 + 41949 0.67 0.245197
Target:  5'- -gCCCGGCGuGCUcGCGUgGUgcgUGCGCg -3'
miRNA:   3'- aaGGGCCGU-CGGcCGCAgCA---ACGCGg -5'
28037 3' -62.1 NC_005887.1 + 41610 0.68 0.227117
Target:  5'- -gUgCGGCGGCCGGCGcggccCGUgaggaucugcUGCGUCu -3'
miRNA:   3'- aaGgGCCGUCGGCCGCa----GCA----------ACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 41193 0.66 0.321777
Target:  5'- -gCCUGGCuGCauccgaccCGcGCGUCGUcGUGCCc -3'
miRNA:   3'- aaGGGCCGuCG--------GC-CGCAGCAaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 40167 0.66 0.284923
Target:  5'- -gCCCGaucaccGCGGCCGGCGUCag-GCcgaaguccauGCCg -3'
miRNA:   3'- aaGGGC------CGUCGGCCGCAGcaaCG----------CGG- -5'
28037 3' -62.1 NC_005887.1 + 39438 0.71 0.137261
Target:  5'- -gCuuGGCGG-CGGCGUCGUUcGCGgCg -3'
miRNA:   3'- aaGggCCGUCgGCCGCAGCAA-CGCgG- -5'
28037 3' -62.1 NC_005887.1 + 38466 0.67 0.271143
Target:  5'- -aUCCGGCA--UGGCGUCGUaugccgggcUGcCGCCg -3'
miRNA:   3'- aaGGGCCGUcgGCCGCAGCA---------AC-GCGG- -5'
28037 3' -62.1 NC_005887.1 + 37928 0.67 0.251484
Target:  5'- -cCCCaGCAGgCGcGCGUUGUUGaaucaGCCc -3'
miRNA:   3'- aaGGGcCGUCgGC-CGCAGCAACg----CGG- -5'
28037 3' -62.1 NC_005887.1 + 37888 0.7 0.170261
Target:  5'- cUUCgCGGCAGCCGG-GUCGaacUGCGagaCg -3'
miRNA:   3'- -AAGgGCCGUCGGCCgCAGCa--ACGCg--G- -5'
28037 3' -62.1 NC_005887.1 + 37757 0.66 0.321777
Target:  5'- -gCCCGcccaacuuGCCGuCGUCGUUGCGCg -3'
miRNA:   3'- aaGGGCcgu-----CGGCcGCAGCAACGCGg -5'
28037 3' -62.1 NC_005887.1 + 37276 0.76 0.061171
Target:  5'- uUUCUCGGgAGUCGGUgcaGUCGUcGCGCCa -3'
miRNA:   3'- -AAGGGCCgUCGGCCG---CAGCAaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 36553 0.67 0.271143
Target:  5'- aUUCCGGCA---GGCGuUCG-UGCGCCu -3'
miRNA:   3'- aAGGGCCGUcggCCGC-AGCaACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 36431 0.66 0.277965
Target:  5'- cUUCCGcGCGGCCGGCuUC-UUGC-CCu -3'
miRNA:   3'- aAGGGC-CGUCGGCCGcAGcAACGcGG- -5'
28037 3' -62.1 NC_005887.1 + 35194 0.66 0.321777
Target:  5'- uUUCCaaCGGCGG--GGCGauUCGUUGCGCa -3'
miRNA:   3'- -AAGG--GCCGUCggCCGC--AGCAACGCGg -5'
28037 3' -62.1 NC_005887.1 + 33095 0.66 0.277965
Target:  5'- aUCCaGGUAGUCGGgGUCGcccggcUUGCGUUc -3'
miRNA:   3'- aAGGgCCGUCGGCCgCAGC------AACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 32864 0.67 0.245197
Target:  5'- aUgCCGGgguCGGCCGG-GUCGUUcGuCGCCa -3'
miRNA:   3'- aAgGGCC---GUCGGCCgCAGCAA-C-GCGG- -5'
28037 3' -62.1 NC_005887.1 + 32771 0.69 0.189297
Target:  5'- -gCCauGCAGCCGGC-UCG-UGCGCa -3'
miRNA:   3'- aaGGgcCGUCGGCCGcAGCaACGCGg -5'
28037 3' -62.1 NC_005887.1 + 32727 0.67 0.270468
Target:  5'- -aCCCacggcggGGUAGCgCGGCGcucgCGUgcGCGCCg -3'
miRNA:   3'- aaGGG-------CCGUCG-GCCGCa---GCAa-CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 32424 0.68 0.227117
Target:  5'- --gCCGGCggcgauguGGCCGGCGgcgaucagGUUGCGCa -3'
miRNA:   3'- aagGGCCG--------UCGGCCGCag------CAACGCGg -5'
28037 3' -62.1 NC_005887.1 + 31138 0.67 0.267114
Target:  5'- -gCCgGGCAgGCCGuGCGcauacgccugcaccaUCGUgucGCGCCa -3'
miRNA:   3'- aaGGgCCGU-CGGC-CGC---------------AGCAa--CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 29447 0.67 0.251484
Target:  5'- --aCCGGCGuGCUGGC-UCGccGUGCCg -3'
miRNA:   3'- aagGGCCGU-CGGCCGcAGCaaCGCGG- -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.