Results for the job "PrJvFT Tue Jul 27 21:21:06 2004":

Parameters:
  PWM threshold: 80 %
  Homology threshold: 50 %
  Flank length: 15 bp


Plain files:
  Raw TFBSs data
  List of CONREAL aligned TFBSs
  CONREAL alignment

Graphical representation of aligned TFBSs.

Bars represent number of aligned hits found within 20 bp window calculated in coordinates of the longer sequence.
Each black line represents an aligned TFBS.

CONREAL:



CONREAL alignment:

Aligned TFBSs are shown in uppercase.
No attempts were made to align regions not covered by TFBSs (lowercase).

                  10        20        30        40        50        60
OCA3(humangccagtaccatgctgtttttgctactatcactccgtagTATAATTTGaagtaaagtaata
              |||      |  || |       |           ||||| ||    |  || |||
Tyrp1(mouse)atgggtaaatatattattatatattattag--------AATAATATGtcaaactgtcata
                  10        20        30                40        50  

                  70        80                                        
OCA3(humantgattcctccagttttgttatt--------------------------------------
            |    |  | ||||| ||                                        
Tyrp1(mouse)aaacctataaaattttgctacaatatttcctatgcagcaacccaagtatacttttgagac
                60        70        80        90       100       110  

                                                                      
OCA3(human------------------------------------------------------------
                                                                      
Tyrp1(mouse)agtgttggggcaggggggaatctagtcactgaagcctacttatacagaaacggtcattca
               120       130       140       150       160       170  

                                                                 90   
OCA3(human-------------------------------------------------TTTGCTTagGA
                                                           | ||  | | |
Tyrp1(mouse)tgagattcaaattgcctagagatacagaaacaaaactaaatttgtctccTGTGTATggAA
               180       190       200       210       220       230  

              100       110       120       130       140       150   
OCA3(humanTAACTTTGCctcttcaaggtttggtgttccaTATAAATTttagGATTTTCTTTCTgtttc
          ||| ||| |                       | |||| |   | ||||| ||       
Tyrp1(mouse)TAAGTTTCCaa--------------------CAGAAATGtcctGGTTTTCCTTTAagcat
               240                           250       260       270  

              160       170       180       190       200       210   
OCA3(humantgtgaagaatgtctttggtattttgataggaattgcattgaatctgtagattgctttagg
              | ||||||| |                                             
Tyrp1(mouse)ctgaaggaatgtccta--------------------------------------------
               280                                                    

              220       230       240       250       260       270   
OCA3(humantaatacggactttttaacaatcttgattctcccaatccatgaacatataatatttttcca
                                                                      
Tyrp1(mouse)------------------------------------------------------------
                                                                      

              280       290       300       310       320       330   
OCA3(humanttatttggtgtcttcttcaatttctttcatcaatgttttgtagttatcattatagagacc
                                                                      
Tyrp1(mouse)------------------------------------------------------------
                                                                      

              340       350       360       370       380       390   
OCA3(humantttcattcattggttaattcctaggtatttaattttatgtgtggctattgtaaatgggat
                                                                      
Tyrp1(mouse)------------------------------------------------------------
                                                                      

              400       410       420       430       440       450   
OCA3(humantacttttttatttctttttcacatttttcactgttggtatatggaaactttgctgatttt
                                                                      
Tyrp1(mouse)------------------------------------------------------------
                                                                      

              460       470       480       490       500       510   
OCA3(humanggtatgctgattttgtatcctgcaactttactgaatttgtttgtcagctctaatagtttt
                                                                      
Tyrp1(mouse)------------------------------------------------------------
                                                                      

              520       530       540       550       560       570   
OCA3(humanttagaggagtctttaggttttattcaaatataagatcttaTCATCAGCAAACAAGGataa
                                                    || |||| |||   ||| 
Tyrp1(mouse)----------------------------------------GTATGAGCACACATTAatag
                                                 290       300       3

              580                                                     
OCA3(humantttgacttcttcat----------------------------------------------
           ||   |   | |                                               
Tyrp1(mouse)gttatatgtgtaactggctaaaatttgaggggaaaaaaaaagacacgaatgacttcaggg
          10       320       330       340       350       360       3

                                                                      
OCA3(human------------------------------------------------------------
                                                                      
Tyrp1(mouse)tttcaggcatcttatatcaagcactgtttaatacaaccccagttctaacagatgatgtgg
          70       380       390       400       410       420       4

                                                                      
OCA3(human------------------------------------------------------------
                                                                      
Tyrp1(mouse)ctggcatccatatgtcagtcaaagcagaagaacatactcttattctttcctgccttaatt
          30       440       450       460       470       480       4

                                              590       600       610 
OCA3(human------------------------------------TTCCAATTTGGATGCTCTTTATAC
                                              | |  |||||| |  | | |||| 
Tyrp1(mouse)atagatatatccctagttgtctttttggttgttaaaTACACATTTGGTTATTTTATATAA
          90       500       510       520       530       540       5

                620       630       640       650       660           
OCA3(humancttctcttgcctggttgctctagcaaggtaatatgttgaataacagttgaa---------
           || | |   ||  | |||          |        || |    |             
Tyrp1(mouse)tttttgtatacttctagcttagcatcaaaagaccagccaacattgatcatgaatgctgac
          50       560       570       580       590       600       6

                                                                      
OCA3(human------------------------------------------------------------
                                                                      
Tyrp1(mouse)aagctttgtagagtaatcatgtattccaaactcaggcttacatttgaatgttggctacat
          10       620       630       640       650       660       6

                                                                      
OCA3(human------------------------------------------------------------
                                                                      
Tyrp1(mouse)atgtatgagttttcaacttccaggagaaaacgtctctttaaaagagaacaaccaaaagct
          70       680       690       700       710       720       7

                                                                      
OCA3(human------------------------------------------------------------
                                                                      
Tyrp1(mouse)aacagaaaatacaagtgtgacattggccttagttcgaccaagaaagcaattcatcttgtt
          30       740       750       760       770       780       7

                                 670       680       690       700    
OCA3(human------------------TAACAGAATAAAAAAAAATCTCTGCAAAGTAAACAAATCtca
                              | | |  |||| |||||| || ||| | || ||||     
Tyrp1(mouse)tcttcctttgtggtatacAGATAAAGAAAAATAAAATCACTACAACGAAAGCAAAATctc
          90       800       810       820       830       840       8

             710       720        730       740       750       760   
OCA3(humanctagtttatctgactt-GTATTCCAAATTAGtgcttcTGGCCTTTTCTTAAAACTTTAAG
           |          | |   | |||||||| ||||  |||| ||||||||||| ||||||| 
Tyrp1(mouse)ttcagcgtctctaatacATCTTCCAAATCAGtgtgtcTGACCTTTTCTTAAGACTTTAAC
          50       860       870       880       890       900       9

              770       780       790       800       810       820   
OCA3(humanCATCACAAGGAAATCAGTTGGAAGGGAATCATGTGCTGATcaagtCCTTAAAGGGCAGAA
          ||||||||||||| |||| || ||||| ||||||||||   |     ||||||||||| |
Tyrp1(mouse)CATCACAAGGAAACCAGTGGGGAGGGAGTCATGTGCTGCCtagt-AGTTAAAGGGCAGGA
          10       920       930       940       950        960       

              830       840       850       860       870       880   
OCA3(humanATATTCACTGaagtgaaaaggattagtaaagggtggaaaaaaagaccagccccccgccta
            ||||||||  |||| ||||  |     || |  | || | ||  |   ||||  ||  
Tyrp1(mouse)GAATTCACTGgtgtgagaagggattagtgagagctggaagagaggaccagcccctcccag
          970       980       990      1000      1010      1020      1

              890       900       910       920       930       940   
OCA3(humangtttgggtgagcagatttgggattaattatcaggcagcaatccacatgcacttaacagtt
            |  ||      | || ||  ||| |     |     ||||     |  |     |   
Tyrp1(mouse)tgtgaggaatctggcttgggatttactgtctggcagaaaatctcttcgggcaattaacag
          030      1040      1050      1060      1070      1080      1

              950       960       970       980       990      1000   
OCA3(humanctgacgtgagaggacaagaaacacaagcaaatataaaacattcaattctaagagaagttc
          ||| | | || ||| ||| |        |                               
Tyrp1(mouse)ctggcatcaggggaaaagcagacatccaa-------------------------------
          090      1100      1110                                     

             1010      1020      1030      1040      1050      1060   
OCA3(humanatcagagacatccttcaggattGTGAGCTGGATTTTCCTCTAcgtgCTTCAGTCTTCTCT
                                     || | | |            |            
Tyrp1(mouse)----------------------CAACACTAGCTCTGAAGGAG----ATCAGCAGAGAAAC
                                1120      1130          1140      1150

             1070      1080      1090      1100      1110      
OCA3(humanACACAAAGAGCTGCAAACcaggtctttgttttgcactcttatttcaagcaga-
             | | |   |                                         
Tyrp1(mouse)CTTCCAGGGATTCATGGT----------------------------------A
                1160

CONREAL aligned hits:

Matrix Identity Seq1 from Seq1 to Seq2 from Seq2 to Strand Score1 Score2 Rel.Score1 Rel.Score2 Factor
M00395 0.54 39 47 31 39 1 3.968 3.701 0.82 0.80 HOXA3
M00396 0.54 40 46 32 38 1 5.086 3.666 0.88 0.81 En-1
M00148 0.54 83 89 222 228 2 6.093 4.466 0.88 0.81 SRY
M00471* 0.53 92 99 231 238 1 6.330 6.220 0.81 0.81 Pro only
M00750* 0.51 96 102 235 241 2 6.801 6.728 0.89 0.88 Pro only
M00499* 0.55 125 132 244 251 2 4.069 7.901 0.82 0.98 Pro only
M00496* 0.55 125 132 244 251 2 4.929 7.188 0.84 0.94 Pro only
M00750* 0.57 126 132 245 251 1 5.715 4.676 0.84 0.80 Pro only
M00302 0.50 137 148 256 267 2 7.317 11.081 0.82 0.94 NF-AT
M00159 0.51 554 566 289 301 2 7.717 6.603 0.88 0.85 C/EBP
M00724* 0.54 556 566 291 301 2 9.334 8.606 0.89 0.87 Pro only
M00791* 0.51 556 568 291 303 1 10.701 9.997 0.91 0.89 Pro only
M00809* 0.51 557 569 292 304 2 8.450 8.093 0.82 0.81 Pro only
M00624* 0.57 559 565 294 300 1 9.188 8.507 1.00 0.97 Pro only
M00690* 0.61 588 595 525 532 1 5.268 5.070 0.83 0.82 Pro only
M00162 0.59 590 603 527 540 1 8.564 6.528 0.87 0.81 Oct-1
M00395 0.59 590 598 527 535 1 4.224 3.631 0.83 0.80 HOXA3
M00395 0.59 590 598 527 535 2 4.715 4.030 0.86 0.82 HOXA3
M00252 0.56 597 611 534 548 2 11.075 7.018 0.91 0.83 TATA
M00081 0.53 663 677 807 821 1 9.030 10.485 0.82 0.86 Evi-1
M00130 0.57 669 680 813 824 2 7.367 8.462 0.82 0.85 FOXD3
M00130 0.62 671 682 815 826 2 8.119 7.587 0.84 0.83 FOXD3
M00250 0.54 671 694 815 838 1 12.030 10.163 0.86 0.83 Gfi-1
M00148 0.62 672 678 816 822 1 5.137 4.412 0.84 0.81 SRY
M00148 0.62 673 679 817 823 1 5.137 5.137 0.84 0.84 SRY
M00486* 0.64 675 683 819 827 1 4.173 4.488 0.81 0.82 Pro only
M00462* 0.65 676 685 820 829 2 5.303 5.343 0.84 0.84 Pro only
M00476* 0.50 688 701 832 845 2 14.029 10.695 0.90 0.83 Pro only
M00474* 0.50 688 701 832 845 2 16.304 9.683 0.95 0.81 Pro only
M00473* 0.50 690 699 834 843 1 12.212 6.074 0.98 0.82 Pro only
M00750* 0.65 721 727 866 872 2 6.216 5.715 0.86 0.84 Pro only
M00500* 0.63 721 728 866 873 1 4.700 5.976 0.83 0.88 Pro only
M00499* 0.63 721 728 866 873 1 6.548 6.657 0.92 0.93 Pro only
M00496* 0.63 721 728 866 873 1 5.650 4.918 0.87 0.84 Pro only
M00497* 0.63 721 728 866 873 1 5.988 5.207 0.90 0.87 Pro only
M00141 0.67 722 730 867 875 2 6.429 8.526 0.81 0.88 Lyf-1
M00770* 0.69 723 734 868 879 2 6.590 5.818 0.85 0.82 Pro only
M00486* 0.69 725 733 870 878 1 4.435 4.332 0.82 0.82 Pro only
M00690* 0.68 725 732 870 877 1 9.602 7.504 0.99 0.91 Pro only
M00727* 0.84 741 748 886 893 1 7.545 8.290 0.85 0.88 Pro only
M00734* 0.85 742 750 887 895 2 6.850 7.036 0.84 0.85 Pro only
M00109 0.86 744 757 889 902 2 7.970 8.921 0.85 0.88 C/EBPbeta
M00160 0.86 744 755 889 900 2 7.479 7.295 0.82 0.82 SRY
M00415 0.85 744 752 889 897 1 5.231 5.231 0.81 0.81 AREB6
M00278 0.85 744 752 889 897 2 5.351 5.351 0.80 0.80 Lmo2 complex
M00789* 0.84 745 751 890 896 2 4.687 4.687 0.81 0.81 Pro only
M00500* 0.84 745 752 890 897 1 6.314 6.314 0.89 0.89 Pro only
M00498* 0.84 745 752 890 897 1 6.961 6.961 0.93 0.93 Pro only
M00499* 0.84 745 752 890 897 1 8.104 8.104 0.99 0.99 Pro only
M00493* 0.84 745 752 890 897 1 6.177 6.177 0.88 0.88 Pro only
M00496* 0.84 745 752 890 897 1 6.091 6.091 0.89 0.89 Pro only
M00494* 0.84 745 752 890 897 1 5.002 5.002 0.82 0.82 Pro only
M00770* 0.86 746 757 891 902 2 6.513 6.825 0.85 0.86 Pro only
M00747* 0.84 746 752 891 897 1 5.565 5.565 0.80 0.80 Pro only
M00148 0.84 747 753 892 898 2 5.765 5.765 0.87 0.87 SRY
M00486* 0.90 755 763 900 908 2 6.252 7.092 0.90 0.93 Pro only
M00744* 0.90 757 766 902 911 2 7.227 6.815 0.82 0.80 Pro only
M00805* 0.89 757 762 902 907 2 5.774 5.774 0.83 0.83 Pro only
M00076 0.88 761 770 906 915 2 5.539 6.283 0.85 0.88 GATA-2
M00075 0.88 761 770 906 915 2 6.077 6.784 0.88 0.91 GATA-1
M00396 0.89 763 769 908 914 2 4.504 5.558 0.85 0.91 En-1
M00704* 0.89 764 769 909 914 2 5.285 5.285 0.83 0.83 Pro only
M00801* 0.89 764 769 909 914 1 5.359 5.359 0.84 0.84 Pro only
M00123 0.88 764 775 909 920 1 7.064 7.064 0.81 0.81 c-Myc/Max
M00751* 0.86 765 770 910 915 2 6.346 6.346 0.83 0.83 Pro only
M00271 0.86 765 770 910 915 2 5.827 5.827 0.84 0.84 AML-1a
M00624* 0.86 765 771 910 916 1 5.420 5.420 0.85 0.85 Pro only
M00087 0.86 767 778 912 923 1 6.229 6.390 0.81 0.81 Ik-2
M00302 0.86 768 779 913 924 1 7.620 7.870 0.83 0.84 NF-AT
M00805* 0.86 768 773 913 918 1 5.430 5.430 0.81 0.81 Pro only
M00727* 0.84 769 776 914 921 2 5.922 5.922 0.80 0.80 Pro only
M00771* 0.86 770 781 915 926 2 8.333 7.420 0.83 0.80 Pro only
M00148 0.84 770 776 915 921 1 4.755 4.755 0.82 0.82 SRY
M00500* 0.87 771 778 916 923 2 9.367 8.458 1.00 0.96 Pro only
M00498* 0.87 771 778 916 923 2 8.955 7.526 1.00 0.95 Pro only
M00499* 0.87 771 778 916 923 2 7.639 5.985 0.97 0.90 Pro only
M00486* 0.87 771 779 916 924 1 4.563 6.285 0.82 0.90 Pro only
M00493* 0.87 771 778 916 923 2 7.896 6.361 0.96 0.89 Pro only
M00496* 0.87 771 778 916 923 2 7.943 6.889 0.97 0.93 Pro only
M00494* 0.87 771 778 916 923 2 7.052 5.865 0.91 0.86 Pro only
M00497* 0.87 771 778 916 923 2 5.988 6.071 0.90 0.91 Pro only
M00655* 0.86 771 777 916 922 2 7.483 5.359 0.90 0.81 Pro only
M00750* 0.86 772 778 917 923 1 8.480 5.537 0.95 0.83 Pro only
M00183 0.88 776 785 921 930 2 6.039 5.511 0.83 0.81 c-Myb
M00665* 0.82 776 789 921 934 1 8.911 13.684 0.82 0.93 Pro only
M00468* 0.86 778 784 923 929 1 6.440 8.537 0.89 1.00 Pro only
M00141 0.85 780 788 925 933 1 6.656 6.796 0.82 0.83 Lyf-1
M00500* 0.74 786 793 931 938 2 4.082 4.209 0.81 0.81 Pro only
M00174 0.71 786 796 931 941 2 6.625 9.591 0.81 0.90 AP-1
M00497* 0.71 787 794 932 939 2 7.669 3.869 0.98 0.81 Pro only
M00236 0.67 788 803 933 948 1 7.982 9.714 0.82 0.85 Arnt
M00122 0.68 789 802 934 947 1 8.682 7.783 0.88 0.86 USF
M00122 0.68 789 802 934 947 2 8.682 7.783 0.88 0.86 USF
M00001 0.67 790 801 935 946 1 9.407 9.407 0.88 0.88 MyoD
M00277 0.67 790 801 935 946 1 7.140 8.341 0.82 0.85 Lmo2 complex
M00123 0.67 790 801 935 946 2 10.629 11.491 0.90 0.92 c-Myc/Max
M00796* 0.67 790 801 935 946 2 7.566 9.533 0.82 0.87 Pro only
M00220 0.66 791 801 936 946 2 8.627 8.739 0.82 0.82 SREBP-1
M00184 0.65 791 800 936 945 2 6.266 7.009 0.80 0.83 MyoD
M00322* 0.65 791 800 936 945 1 7.202 8.774 0.84 0.89 Pro only
M00240 0.65 792 798 937 943 1 6.785 6.785 0.85 0.85 Nkx2-5
M00799* 0.68 793 799 938 944 1 6.474 6.474 0.84 0.84 Pro only
M00726* 0.67 793 798 938 943 1 6.970 6.970 0.94 0.94 Pro only
M00726* 0.67 793 798 938 943 2 4.701 4.701 0.82 0.82 Pro only
M00175 0.65 794 803 939 948 2 7.086 6.625 0.84 0.82 AP-4
M00624* 0.65 794 800 939 945 2 7.330 7.330 0.93 0.93 Pro only
M00751* 0.64 795 800 940 945 1 6.346 6.346 0.83 0.83 Pro only
M00271 0.64 795 800 940 945 1 5.213 5.213 0.82 0.82 AML-1a
M00511* 0.59 809 822 953 966 1 8.347 8.441 0.81 0.81 Pro only
M00486* 0.62 810 818 954 962 1 5.243 4.577 0.85 0.83 Pro only
M00671* 0.63 811 818 955 962 2 7.354 7.354 0.86 0.86 Pro only
M00805* 0.61 811 816 955 960 1 5.774 5.774 0.83 0.83 Pro only
M00497* 0.71 816 823 960 967 2 3.997 4.138 0.81 0.82 Pro only
M00494* 0.74 824 831 968 975 1 4.560 4.802 0.81 0.82 Pro only
M00747* 0.76 827 833 971 977 1 6.834 6.834 0.85 0.85 Pro only
M00468* 0.76 827 833 971 977 2 5.168 5.168 0.83 0.83 Pro only
M00624* 0.51 1026 1032 1183 1189 2 7.238 5.295 0.92 0.85 Pro only
M00657* 0.55 1030 1043 1187 1200 2 9.612 8.747 0.84 0.82 Pro only
M00734* 0.54 1032 1040 1189 1197 2 5.868 6.386 0.81 0.83 Pro only
M00302 0.60 1034 1045 1191 1202 2 12.143 9.082 0.97 0.87 NF-AT
M00500* 0.58 1035 1042 1192 1199 1 7.374 5.476 0.93 0.86 Pro only
M00499* 0.58 1035 1042 1192 1199 1 6.908 3.849 0.94 0.81 Pro only
M00496* 0.58 1035 1042 1192 1199 1 6.930 4.452 0.93 0.82 Pro only
M00494* 0.58 1035 1042 1192 1199 1 6.810 5.373 0.90 0.84 Pro only
M00750* 0.57 1035 1041 1192 1198 2 9.445 5.599 0.99 0.84 Pro only
M00792* 0.72 1050 1058 1207 1215 2 5.988 5.493 0.86 0.84 Pro only
M00761* 0.70 1054 1063 1211 1220 2 7.308 5.485 0.87 0.81 Pro only
M00500* 0.68 1055 1062 1212 1219 1 6.909 6.909 0.91 0.91 Pro only
M00498* 0.68 1055 1062 1212 1219 1 5.233 5.233 0.87 0.87 Pro only
M00499* 0.68 1055 1062 1212 1219 1 7.387 7.387 0.96 0.96 Pro only
M00496* 0.68 1055 1062 1212 1219 1 4.798 4.798 0.84 0.84 Pro only
M00497* 0.68 1055 1062 1212 1219 1 5.477 5.477 0.88 0.88 Pro only
M00724* 0.66 1062 1072 1219 1229 2 6.062 5.637 0.81 0.80 Pro only
M00486* 0.69 1065 1073 1222 1230 1 5.926 4.233 0.88 0.81 Pro only
M00805* 0.67 1066 1071 1223 1228 1 8.171 6.098 0.93 0.84 Pro only
M00734* 0.69 1067 1075 1224 1232 1 5.713 5.857 0.81 0.81 Pro only
M00148 0.70 1068 1074 1225 1231 1 5.052 5.052 0.84 0.84 SRY
M00624* 0.70 1075 1081 1232 1238 1 5.144 5.295 0.84 0.85 Pro only