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Jump to: Multiple Alignment Motif Tree Motif Matching
Input file: 10 motifs loaded
Settings: Metric=PCC, Alignment=SWU, Gap-open=1000, Gap-extend=1000, -nooverlapalign
Multiple Alignment=IR, Tree=UPGMA, Matching against: TRANSFAC
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Multiple Alignment
(Consensus sequence representations shown, but multiple alignment was carried out on the matrices)
| Motif1: | -ACTGGTTT---- |
| Motif2: | ----TCTTAA--- |
| Motif3: | ---TGCNTTCC-- |
| Motif4: | ---TGCNTTCC-- |
| Motif5: | -----ATTCCAAT |
| Motif6: | CTCANATTT---- |
| Motif7: | ----CATTTTA-- |
| Motif8: | ------TTTTCAK |
| Motif9: | -ACTGCTTT---- |
| Motif10: | --GCTCTT----- |
| Familial Profile: (click for matrix) |  |
Motif Tree
| Tree (drawn by Phylip) Click here for Newick-format tree (viewable with MEGA) | Input Motif | Best match in TRANSFAC |
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Motif Similarity Matches
| Motif1 |  |  |
| Name | E value | |||
| Grainyhead-Elf-1-NTF-1_M00951 | 1.3179e-10 | AAACCRG- |  | |
| CP2-LBP-1c-LSF_M00947 | 9.7004e-06 | -CTGGNTNNNNCYNG |  | |
| core-binding_M00722 | 1.6206e-05 | WNACCAC- |  | |
| CP2_M00072 | 3.5040e-04 | -CTGGKTNGNG |  | |
| Gfi1b_M01058 | 4.0470e-04 | WGCMGTGATTT |  |
| Motif9 |  |  |
| Name | E value | |||
| PEND_M01015 | 2.8948e-06 | ACTTCTT- |  | |
| Grainyhead-Elf-1-NTF-1_M00951 | 2.0116e-05 | AAACCRG- | | |
| Barbie_M00238 | 1.9948e-04 | CMNNCNSCTTTNNN |  | |
| Gfi1b_M01058 | 3.2376e-04 | WGCMGTGATTT | | |
| HNF6_M00639 | 4.5520e-04 | NAAATCAATAN |  |
| Motif3 |  |  |
| Name | E value | |||
| AbaA_M00027 | 4.0089e-06 | NNNNNNGGAATGNRRNNN |  | |
| c-Rel_M00053 | 1.3569e-05 | GGAAWNYCC |  | |
| CHOP-C-EBPalpha_M00249 | 1.4425e-04 | GGSNATTGCAYN |  | |
| TEF-1_M00704 | 1.9260e-04 | --CATYY- |  | |
| SD_M01102 | 6.6275e-04 | NGRAAT--- |  |
| Motif4 |  |  |
| Name | E value | |||
| AbaA_M00027 | 4.0089e-06 | NNNNNNGGAATGNRRNNN | | |
| c-Rel_M00053 | 1.3569e-05 | GGAAWNYCC | | |
| CHOP-C-EBPalpha_M00249 | 1.4425e-04 | GGSNATTGCAYN | | |
| TEF-1_M00704 | 1.9260e-04 | --CATYY- | | |
| SD_M01102 | 6.6275e-04 | NGRAAT--- | |
| Motif5 |  |  |
| Name | E value | |||
| MADS-A_M00408 | 9.7171e-05 | NWNNAAAAATGGAAA |  | |
| Opaque-2_M00010 | 1.6532e-04 | YATCTACGTGGAATG |  | |
| Oct-1_M00342 | 5.5962e-04 | NATTTGCAT |  | |
| MADS-B_M00404 | 6.8950e-04 | TTTSCATTTTTRGN |  | |
| SD_M01102 | 7.6028e-04 | --NGRAAT | |
| Motif2 |  |  |
| Name | E value | |||
| Evi-1_M00080 | 7.1064e-05 | TTATCTTATC |  | |
| Evi-1_M00082 | 1.0909e-04 | NTATCTTATC |  | |
| Ftz_M00020 | 1.1200e-04 | -CTTAATTGNNN |  | |
| GATA-2_M00349 | 1.3937e-04 | TNTTATCTS |  | |
| GATA-3_M00350 | 1.9811e-04 | TNTTATCTY |  |
| Motif10 |  |  |
| Name | E value | |||
| Nrf-2_M00108 | 1.9949e-04 | -SNCTTCCGG |  | |
| Hmx3_M00433 | 3.4768e-04 | CACGCACTT |  | |
| dTCF_M00362 | 5.3056e-04 | AAGATCAAAG |  | |
| Elf-1_M00746 | 5.5477e-04 | AYTTCCTCTTN |  | |
| Pax-1_M00326 | 5.9485e-04 | ATATCTAGAGCGGAACG |  |
| Motif6 |  |  |
| Name | E value | |||
| FOXJ2_M00423 | 4.9277e-05 | NMAAATATTATKR |  | |
| Pit-1_M00802 | 7.1506e-05 | NNNNNATAWNNATGAAK |  | |
| SRF_M00152 | 1.6880e-04 | TGCCCATATATGGNNNT |  | |
| SRF_M00922 | 9.0356e-04 | NNKNKCCWTATWTG |  | |
| GATA-2_M00349 | 1.0044e-03 | -TNTTATCTS | |
| Motif7 |  |  |
| Name | E value | |||
| Zen_M00710 | 5.7666e-06 | KTWAATG |  | |
| MADS-B_M00404 | 1.5714e-05 | TTTSCATTTTTRGN | | |
| Abd-B_M01094 | 3.5199e-05 | --TTTTAT |  | |
| MADS-A_M00408 | 3.8591e-05 | NWNNAAAAATGGAAA | | |
| MATalpha2_M00031 | 5.8199e-05 | NWNNACAYG |  |
| Motif8 |  |  |
| Name | E value | |||
| STE12_M00664 | 6.2435e-06 | GTTTCA- |  | |
| GT-1_M00635 | 3.5811e-05 | TWTNNA- |  | |
| FOXP3_M00992 | 5.6296e-05 | NTMTGNNANAACNNNW |  | |
| BPC1_M01126 | 1.7068e-04 | NTTTC-- |  | |
| Alx-4_M00619 | 1.7718e-04 | GATTATTCTCAG |  |