Results 1 - 20 of 22 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 | |||||||
23927 | 5' | -56.3 | NC_005262.1 | + | 23406 | 0.66 | 0.717734 |
Target: 5'- aGGCGGCgaugCGGcggGCAgcaugagccGCGUCaUCGAg -3' miRNA: 3'- gCCGUCGa---GCCuuaCGU---------CGCAG-AGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 39582 | 0.66 | 0.717734 |
Target: 5'- uCGGCGuGC-CGGc--GCAGCGUCgCGGc -3' miRNA: 3'- -GCCGU-CGaGCCuuaCGUCGCAGaGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 14723 | 0.66 | 0.717734 |
Target: 5'- aCGGCcuGCUCGGGcagcgauugAaGCAGCccgCUCGAa -3' miRNA: 3'- -GCCGu-CGAGCCU---------UaCGUCGca-GAGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 33905 | 0.66 | 0.717734 |
Target: 5'- cCGGCGGCccgaUCGGua-GCGGCGgugccgagCUCGc -3' miRNA: 3'- -GCCGUCG----AGCCuuaCGUCGCa-------GAGCu -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 12553 | 0.66 | 0.66432 |
Target: 5'- gCGGCAGgUCGcg--GCGGCG-CUCGu -3' miRNA: 3'- -GCCGUCgAGCcuuaCGUCGCaGAGCu -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 30065 | 0.67 | 0.642677 |
Target: 5'- uCGGCgAGCuUCGccuu-CAGCGUCUCGAu -3' miRNA: 3'- -GCCG-UCG-AGCcuuacGUCGCAGAGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 59885 | 0.67 | 0.642677 |
Target: 5'- gGGguGCUgaacaCGGGAUGCAGC---UCGAu -3' miRNA: 3'- gCCguCGA-----GCCUUACGUCGcagAGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 56098 | 0.67 | 0.642677 |
Target: 5'- -uGCAGCUCGaGGAgGCGGCGcagcUCUCa- -3' miRNA: 3'- gcCGUCGAGC-CUUaCGUCGC----AGAGcu -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 48503 | 0.67 | 0.639426 |
Target: 5'- aCGGCAGCcgcaGGuAAcagcgcgcucgaccUGCAaucGCGUCUCGAu -3' miRNA: 3'- -GCCGUCGag--CC-UU--------------ACGU---CGCAGAGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 59314 | 0.67 | 0.639426 |
Target: 5'- aCGGCGGCUCGGGcaugacgacggcugAUGCGaacGCGaUCaUCGc -3' miRNA: 3'- -GCCGUCGAGCCU--------------UACGU---CGC-AG-AGCu -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 33951 | 0.67 | 0.620997 |
Target: 5'- gCGGCaAGCgauccCGGAAcGCGGCGUCg--- -3' miRNA: 3'- -GCCG-UCGa----GCCUUaCGUCGCAGagcu -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 36861 | 0.68 | 0.567114 |
Target: 5'- aCGGCGGUUCaGAAUGCAGUGa----- -3' miRNA: 3'- -GCCGUCGAGcCUUACGUCGCagagcu -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 30180 | 0.68 | 0.544807 |
Target: 5'- cCGGCGGCuuuuccugcgacgUCGGGGcgacUGCGGUGgcCUCGAu -3' miRNA: 3'- -GCCGUCG-------------AGCCUU----ACGUCGCa-GAGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 11919 | 0.69 | 0.535332 |
Target: 5'- gCGGCgucGGCUCGGucGUGCucGCGUCguucgCGGc -3' miRNA: 3'- -GCCG---UCGAGCCu-UACGu-CGCAGa----GCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 7545 | 0.69 | 0.524874 |
Target: 5'- uCGGCGcGCUCGacGAcauccuucccGUGCAGCGUCaCGGa -3' miRNA: 3'- -GCCGU-CGAGC--CU----------UACGUCGCAGaGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 41132 | 0.69 | 0.492978 |
Target: 5'- aCGGCGcGCUCGGAcgacacguucaccGUGCAGCGcgcgCagGAg -3' miRNA: 3'- -GCCGU-CGAGCCU-------------UACGUCGCa---GagCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 1430 | 0.7 | 0.434927 |
Target: 5'- gCGGCcGCuUCGucGAGcGCAGCGUUUCGAa -3' miRNA: 3'- -GCCGuCG-AGC--CUUaCGUCGCAGAGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 13516 | 0.71 | 0.41616 |
Target: 5'- gCGGCGGCaugagauaCGGAagcguGUGCAGCGgcaUCGAg -3' miRNA: 3'- -GCCGUCGa-------GCCU-----UACGUCGCag-AGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 8389 | 0.71 | 0.41616 |
Target: 5'- cCGGC-GCUCGaGcugcucGAUGCGGCG-CUCGAu -3' miRNA: 3'- -GCCGuCGAGC-C------UUACGUCGCaGAGCU- -5' |
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23927 | 5' | -56.3 | NC_005262.1 | + | 45895 | 0.72 | 0.338177 |
Target: 5'- uCGGCGGCUCGccGAAaucggGCGGUG-CUCGAu -3' miRNA: 3'- -GCCGUCGAGC--CUUa----CGUCGCaGAGCU- -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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