Multiple sequence alignment - TraesCS6B01G357000

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6B01G357000 chr6B 100.000 3041 0 0 1 3041 625381634 625378594 0.000000e+00 5616.0
1 TraesCS6B01G357000 chr6B 94.444 36 2 0 2725 2760 216462831 216462866 4.240000e-04 56.5
2 TraesCS6B01G357000 chr6D 96.974 1553 45 1 919 2471 414794193 414792643 0.000000e+00 2606.0
3 TraesCS6B01G357000 chr6D 94.669 694 26 3 1 684 414795226 414794534 0.000000e+00 1066.0
4 TraesCS6B01G357000 chr6D 94.277 332 15 1 513 840 414794529 414794198 3.500000e-139 505.0
5 TraesCS6B01G357000 chr6D 95.142 247 11 1 2796 3041 414792242 414791996 3.680000e-104 388.0
6 TraesCS6B01G357000 chr6D 87.248 149 9 4 2646 2793 414792414 414792275 8.730000e-36 161.0
7 TraesCS6B01G357000 chr6D 97.222 36 1 0 2725 2760 122690247 122690282 9.100000e-06 62.1
8 TraesCS6B01G357000 chr6A 96.137 1553 51 4 919 2471 559865111 559863568 0.000000e+00 2527.0
9 TraesCS6B01G357000 chr6A 91.402 849 50 7 1 840 559865950 559865116 0.000000e+00 1142.0
10 TraesCS6B01G357000 chr6A 93.187 455 16 5 2588 3041 559863440 559863000 0.000000e+00 654.0
11 TraesCS6B01G357000 chr5A 87.313 134 12 5 2512 2644 330196050 330196179 6.790000e-32 148.0
12 TraesCS6B01G357000 chr5A 88.636 88 6 4 836 921 321667478 321667563 1.490000e-18 104.0
13 TraesCS6B01G357000 chr2B 81.481 162 27 3 2498 2658 176412997 176413156 2.460000e-26 130.0
14 TraesCS6B01G357000 chr4D 92.941 85 6 0 841 925 215459632 215459548 1.140000e-24 124.0
15 TraesCS6B01G357000 chr4B 92.941 85 6 0 841 925 237038975 237038891 1.140000e-24 124.0
16 TraesCS6B01G357000 chr4B 92.941 85 6 0 841 925 237272803 237272719 1.140000e-24 124.0
17 TraesCS6B01G357000 chr4B 88.636 44 5 0 2617 2660 96274811 96274854 2.000000e-03 54.7
18 TraesCS6B01G357000 chr7A 93.671 79 3 1 845 923 350571793 350571869 1.920000e-22 117.0
19 TraesCS6B01G357000 chr7A 93.421 76 3 1 845 920 350571866 350571793 8.910000e-21 111.0
20 TraesCS6B01G357000 chr7A 80.282 142 21 7 2512 2649 103158715 103158853 1.930000e-17 100.0
21 TraesCS6B01G357000 chr2D 92.405 79 5 1 845 923 451974403 451974326 8.910000e-21 111.0
22 TraesCS6B01G357000 chr2D 89.412 85 8 1 839 923 58894933 58895016 4.150000e-19 106.0
23 TraesCS6B01G357000 chr7D 80.986 142 20 7 2512 2649 101091294 101091432 4.150000e-19 106.0
24 TraesCS6B01G357000 chr1A 90.361 83 5 2 838 920 225509489 225509568 4.150000e-19 106.0
25 TraesCS6B01G357000 chr1A 78.571 154 28 5 2502 2653 380312093 380311943 2.500000e-16 97.1
26 TraesCS6B01G357000 chr7B 80.435 138 20 7 2515 2649 57612867 57613000 6.940000e-17 99.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G357000 chr6B 625378594 625381634 3040 True 5616.0 5616 100.000000 1 3041 1 chr6B.!!$R1 3040
1 TraesCS6B01G357000 chr6D 414791996 414795226 3230 True 945.2 2606 93.662000 1 3041 5 chr6D.!!$R1 3040
2 TraesCS6B01G357000 chr6A 559863000 559865950 2950 True 1441.0 2527 93.575333 1 3041 3 chr6A.!!$R1 3040

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
865 1061 0.109723 CTCCCTCCGTCCCAAAACAA 59.890 55.0 0.0 0.0 0.00 2.83 F
867 1063 0.179001 CCCTCCGTCCCAAAACAAGT 60.179 55.0 0.0 0.0 0.00 3.16 F
1449 1645 0.246635 TGGTAGAACCAGCTCGAAGC 59.753 55.0 0.0 0.0 44.79 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1892 2088 0.321919 GAAAGGGTACGGGGTGGTTC 60.322 60.000 0.00 0.00 0.00 3.62 R
1958 2154 0.693092 TCTAAGCATACCCGCCCCTT 60.693 55.000 0.00 0.00 0.00 3.95 R
2284 2480 1.406539 ACAACAAAGAACAGCAGCTGG 59.593 47.619 26.38 9.78 35.51 4.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
109 110 4.003648 AGCTCCTTGTTTCTTTATCCGTG 58.996 43.478 0.00 0.00 0.00 4.94
263 268 6.346518 GCAATTGTGTGGTAATGTTGCTAAAC 60.347 38.462 7.40 0.00 37.91 2.01
313 318 2.707257 GGGGAGGGTCGATTTGGTTATA 59.293 50.000 0.00 0.00 0.00 0.98
314 319 3.329814 GGGGAGGGTCGATTTGGTTATAT 59.670 47.826 0.00 0.00 0.00 0.86
348 359 2.862541 TGCCTACAAGTTGATGTGCTT 58.137 42.857 10.54 0.00 34.75 3.91
532 543 2.482296 CTTCAGGGCTTGGCTTTGCG 62.482 60.000 0.00 0.00 0.00 4.85
538 549 0.523335 GGCTTGGCTTTGCGTATTCG 60.523 55.000 0.00 0.00 40.37 3.34
579 770 3.883669 ACTTTCTCCTGATGATCTTGGC 58.116 45.455 0.00 0.00 0.00 4.52
596 787 2.758130 TGGCAGTGTATGATCCCAGTA 58.242 47.619 0.00 0.00 0.00 2.74
605 796 2.642171 TGATCCCAGTACCCAGAACT 57.358 50.000 0.00 0.00 0.00 3.01
614 805 6.011981 TCCCAGTACCCAGAACTTAATGAAAT 60.012 38.462 0.00 0.00 0.00 2.17
619 810 5.086621 ACCCAGAACTTAATGAAATTGGCT 58.913 37.500 0.00 0.00 36.99 4.75
648 843 4.516698 AGCCAGTCTACTTGATTGTGTTTG 59.483 41.667 0.00 0.00 31.41 2.93
658 853 4.227512 TGATTGTGTTTGATGCTGTCAC 57.772 40.909 0.00 0.00 36.32 3.67
686 881 2.412605 CTGCCCTGCTGCTTATTCC 58.587 57.895 0.00 0.00 0.00 3.01
759 955 8.868522 TTCTCCTTCATATGACTTTGATTGTT 57.131 30.769 4.48 0.00 0.00 2.83
840 1036 3.007831 GCTGATCTCTCCCCTCCTTTATG 59.992 52.174 0.00 0.00 0.00 1.90
842 1038 4.635473 TGATCTCTCCCCTCCTTTATGTT 58.365 43.478 0.00 0.00 0.00 2.71
843 1039 5.039645 TGATCTCTCCCCTCCTTTATGTTT 58.960 41.667 0.00 0.00 0.00 2.83
844 1040 5.492524 TGATCTCTCCCCTCCTTTATGTTTT 59.507 40.000 0.00 0.00 0.00 2.43
845 1041 6.676632 TGATCTCTCCCCTCCTTTATGTTTTA 59.323 38.462 0.00 0.00 0.00 1.52
846 1042 6.309389 TCTCTCCCCTCCTTTATGTTTTAC 57.691 41.667 0.00 0.00 0.00 2.01
847 1043 6.030082 TCTCTCCCCTCCTTTATGTTTTACT 58.970 40.000 0.00 0.00 0.00 2.24
848 1044 6.156429 TCTCTCCCCTCCTTTATGTTTTACTC 59.844 42.308 0.00 0.00 0.00 2.59
849 1045 5.191124 TCTCCCCTCCTTTATGTTTTACTCC 59.809 44.000 0.00 0.00 0.00 3.85
850 1046 4.228895 TCCCCTCCTTTATGTTTTACTCCC 59.771 45.833 0.00 0.00 0.00 4.30
851 1047 4.229812 CCCCTCCTTTATGTTTTACTCCCT 59.770 45.833 0.00 0.00 0.00 4.20
852 1048 5.437946 CCCTCCTTTATGTTTTACTCCCTC 58.562 45.833 0.00 0.00 0.00 4.30
853 1049 5.437946 CCTCCTTTATGTTTTACTCCCTCC 58.562 45.833 0.00 0.00 0.00 4.30
854 1050 5.093849 TCCTTTATGTTTTACTCCCTCCG 57.906 43.478 0.00 0.00 0.00 4.63
855 1051 4.533311 TCCTTTATGTTTTACTCCCTCCGT 59.467 41.667 0.00 0.00 0.00 4.69
856 1052 4.874396 CCTTTATGTTTTACTCCCTCCGTC 59.126 45.833 0.00 0.00 0.00 4.79
857 1053 4.476628 TTATGTTTTACTCCCTCCGTCC 57.523 45.455 0.00 0.00 0.00 4.79
858 1054 0.978907 TGTTTTACTCCCTCCGTCCC 59.021 55.000 0.00 0.00 0.00 4.46
859 1055 0.978907 GTTTTACTCCCTCCGTCCCA 59.021 55.000 0.00 0.00 0.00 4.37
860 1056 1.348696 GTTTTACTCCCTCCGTCCCAA 59.651 52.381 0.00 0.00 0.00 4.12
861 1057 1.732117 TTTACTCCCTCCGTCCCAAA 58.268 50.000 0.00 0.00 0.00 3.28
862 1058 1.732117 TTACTCCCTCCGTCCCAAAA 58.268 50.000 0.00 0.00 0.00 2.44
863 1059 0.978907 TACTCCCTCCGTCCCAAAAC 59.021 55.000 0.00 0.00 0.00 2.43
864 1060 1.057851 ACTCCCTCCGTCCCAAAACA 61.058 55.000 0.00 0.00 0.00 2.83
865 1061 0.109723 CTCCCTCCGTCCCAAAACAA 59.890 55.000 0.00 0.00 0.00 2.83
866 1062 0.109723 TCCCTCCGTCCCAAAACAAG 59.890 55.000 0.00 0.00 0.00 3.16
867 1063 0.179001 CCCTCCGTCCCAAAACAAGT 60.179 55.000 0.00 0.00 0.00 3.16
868 1064 0.951558 CCTCCGTCCCAAAACAAGTG 59.048 55.000 0.00 0.00 0.00 3.16
869 1065 1.675552 CTCCGTCCCAAAACAAGTGT 58.324 50.000 0.00 0.00 0.00 3.55
870 1066 1.602377 CTCCGTCCCAAAACAAGTGTC 59.398 52.381 0.00 0.00 0.00 3.67
871 1067 1.210967 TCCGTCCCAAAACAAGTGTCT 59.789 47.619 0.00 0.00 0.00 3.41
872 1068 1.602377 CCGTCCCAAAACAAGTGTCTC 59.398 52.381 0.00 0.00 0.00 3.36
873 1069 2.285083 CGTCCCAAAACAAGTGTCTCA 58.715 47.619 0.00 0.00 0.00 3.27
874 1070 2.680841 CGTCCCAAAACAAGTGTCTCAA 59.319 45.455 0.00 0.00 0.00 3.02
875 1071 3.486875 CGTCCCAAAACAAGTGTCTCAAC 60.487 47.826 0.00 0.00 0.00 3.18
876 1072 3.694566 GTCCCAAAACAAGTGTCTCAACT 59.305 43.478 0.00 0.00 0.00 3.16
877 1073 4.157840 GTCCCAAAACAAGTGTCTCAACTT 59.842 41.667 0.00 0.00 41.08 2.66
878 1074 4.770010 TCCCAAAACAAGTGTCTCAACTTT 59.230 37.500 0.00 0.00 38.34 2.66
879 1075 5.245075 TCCCAAAACAAGTGTCTCAACTTTT 59.755 36.000 0.00 0.00 38.34 2.27
880 1076 6.434652 TCCCAAAACAAGTGTCTCAACTTTTA 59.565 34.615 0.00 0.00 38.34 1.52
881 1077 6.751888 CCCAAAACAAGTGTCTCAACTTTTAG 59.248 38.462 0.00 0.00 38.34 1.85
882 1078 7.312899 CCAAAACAAGTGTCTCAACTTTTAGT 58.687 34.615 0.00 0.00 38.34 2.24
883 1079 8.455682 CCAAAACAAGTGTCTCAACTTTTAGTA 58.544 33.333 0.00 0.00 38.34 1.82
884 1080 9.274065 CAAAACAAGTGTCTCAACTTTTAGTAC 57.726 33.333 0.00 0.00 38.34 2.73
885 1081 8.556213 AAACAAGTGTCTCAACTTTTAGTACA 57.444 30.769 0.00 0.00 38.34 2.90
886 1082 8.556213 AACAAGTGTCTCAACTTTTAGTACAA 57.444 30.769 0.00 0.00 38.34 2.41
887 1083 8.556213 ACAAGTGTCTCAACTTTTAGTACAAA 57.444 30.769 0.00 0.00 38.34 2.83
888 1084 8.665685 ACAAGTGTCTCAACTTTTAGTACAAAG 58.334 33.333 0.00 0.00 38.34 2.77
889 1085 8.665685 CAAGTGTCTCAACTTTTAGTACAAAGT 58.334 33.333 5.69 5.69 46.85 2.66
899 1095 8.788325 ACTTTTAGTACAAAGTTGAGACACTT 57.212 30.769 5.69 0.00 43.17 3.16
900 1096 9.880157 ACTTTTAGTACAAAGTTGAGACACTTA 57.120 29.630 5.69 0.00 43.17 2.24
906 1102 8.621286 AGTACAAAGTTGAGACACTTATTTTGG 58.379 33.333 0.00 0.00 35.87 3.28
907 1103 6.805713 ACAAAGTTGAGACACTTATTTTGGG 58.194 36.000 0.00 0.00 35.87 4.12
908 1104 6.605594 ACAAAGTTGAGACACTTATTTTGGGA 59.394 34.615 0.00 0.00 35.87 4.37
909 1105 6.635030 AAGTTGAGACACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
910 1106 5.690865 AGTTGAGACACTTATTTTGGGACA 58.309 37.500 0.00 0.00 0.00 4.02
911 1107 5.765182 AGTTGAGACACTTATTTTGGGACAG 59.235 40.000 0.00 0.00 42.39 3.51
912 1108 5.560722 TGAGACACTTATTTTGGGACAGA 57.439 39.130 0.00 0.00 42.39 3.41
913 1109 5.551233 TGAGACACTTATTTTGGGACAGAG 58.449 41.667 0.00 0.00 42.39 3.35
914 1110 5.071788 TGAGACACTTATTTTGGGACAGAGT 59.928 40.000 0.00 0.00 42.39 3.24
915 1111 5.308825 AGACACTTATTTTGGGACAGAGTG 58.691 41.667 0.00 0.00 42.39 3.51
916 1112 5.071788 AGACACTTATTTTGGGACAGAGTGA 59.928 40.000 7.50 0.00 42.39 3.41
917 1113 5.308825 ACACTTATTTTGGGACAGAGTGAG 58.691 41.667 7.50 0.00 42.39 3.51
926 1122 5.515797 TGGGACAGAGTGAGTATTAATCG 57.484 43.478 0.00 0.00 0.00 3.34
956 1152 8.649841 TGTTTATCGTAAGTTACACTGTTATGC 58.350 33.333 13.33 0.00 39.48 3.14
1120 1316 1.580845 CCGGAAGAAAGCACTGCCAG 61.581 60.000 0.00 0.00 35.38 4.85
1416 1612 1.876799 CCATTGTGTCGTGGCAAAGTA 59.123 47.619 0.00 0.00 0.00 2.24
1449 1645 0.246635 TGGTAGAACCAGCTCGAAGC 59.753 55.000 0.00 0.00 44.79 3.86
1578 1774 1.153349 GGAAGTGGATCCTGCCGTC 60.153 63.158 14.23 8.43 36.50 4.79
1626 1822 0.528470 AAAGAGAGAGGGAAGACGCG 59.472 55.000 3.53 3.53 0.00 6.01
1734 1930 2.761094 AAGACAGCGACGACGACGAC 62.761 60.000 22.94 13.66 42.66 4.34
1821 2017 1.157870 AGCGACACCGAACACAAAGG 61.158 55.000 0.00 0.00 38.22 3.11
1849 2045 2.050350 CCAAGTGGCATGCCTGGAG 61.050 63.158 35.53 22.25 32.50 3.86
1862 2058 1.445095 CTGGAGATGCCGAGGAAGG 59.555 63.158 0.00 0.00 40.66 3.46
1902 2098 3.068064 GCCAATGGAACCACCCCG 61.068 66.667 2.05 0.00 38.00 5.73
1916 2112 0.769386 ACCCCGTACCCTTTCACCTT 60.769 55.000 0.00 0.00 0.00 3.50
2052 2248 1.212935 TCTAATTGAGAAGGCAGGGGC 59.787 52.381 0.00 0.00 40.13 5.80
2053 2249 1.213926 CTAATTGAGAAGGCAGGGGCT 59.786 52.381 0.00 0.00 41.24 5.19
2284 2480 6.405538 TCCAATTGTTTCTGGCCAATTATTC 58.594 36.000 7.01 0.00 38.79 1.75
2318 2514 1.887242 GTTGTGTGCGTGGCTCTGA 60.887 57.895 0.00 0.00 0.00 3.27
2330 2526 3.742327 CGTGGCTCTGATGTGTTGGATAT 60.742 47.826 0.00 0.00 0.00 1.63
2363 2559 3.120199 AGCGTATTTCACTTGTGACATGC 60.120 43.478 11.35 9.40 0.00 4.06
2383 2579 6.041523 ACATGCTGTTGGGTTTTAAATACAGT 59.958 34.615 0.00 0.00 36.33 3.55
2471 2667 4.333372 TGCACTCACATAATACAGCACATG 59.667 41.667 0.00 0.00 0.00 3.21
2472 2668 4.571984 GCACTCACATAATACAGCACATGA 59.428 41.667 0.00 0.00 0.00 3.07
2473 2669 5.277202 GCACTCACATAATACAGCACATGAG 60.277 44.000 0.00 0.00 38.60 2.90
2474 2670 6.044682 CACTCACATAATACAGCACATGAGA 58.955 40.000 0.00 0.00 36.63 3.27
2475 2671 6.536224 CACTCACATAATACAGCACATGAGAA 59.464 38.462 0.00 0.00 36.63 2.87
2493 2758 8.258007 ACATGAGAACGACCAAGAATATCTAAA 58.742 33.333 0.00 0.00 0.00 1.85
2496 2761 9.667107 TGAGAACGACCAAGAATATCTAAAAAT 57.333 29.630 0.00 0.00 0.00 1.82
2528 2819 4.212214 GCGTTGGATTTTTAAACATGGCAA 59.788 37.500 0.00 0.00 0.00 4.52
2532 2823 7.307632 CGTTGGATTTTTAAACATGGCAAATCA 60.308 33.333 0.00 0.00 36.13 2.57
2534 2825 8.455903 TGGATTTTTAAACATGGCAAATCAAA 57.544 26.923 0.00 0.00 36.13 2.69
2537 2828 5.914085 TTTAAACATGGCAAATCAAACGG 57.086 34.783 0.00 0.00 0.00 4.44
2574 2866 0.751277 TATTGTTGCGGGGATGGCAG 60.751 55.000 0.00 0.00 42.12 4.85
2575 2867 2.786512 ATTGTTGCGGGGATGGCAGT 62.787 55.000 0.00 0.00 42.12 4.40
2630 2923 3.947910 ACTGAACATGGCAAGGATTTG 57.052 42.857 0.00 0.00 37.36 2.32
2632 2925 3.256631 ACTGAACATGGCAAGGATTTGTC 59.743 43.478 0.00 0.00 39.38 3.18
2644 2937 4.978083 AGGATTTGTCATGCTTGCTAAG 57.022 40.909 0.00 0.00 0.00 2.18
2793 3086 4.916041 TGCCAGCTATATTATGGAAGCT 57.084 40.909 5.06 0.00 45.94 3.74
2794 3087 6.373005 TTGCCAGCTATATTATGGAAGCTA 57.627 37.500 5.06 0.00 43.26 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 1.619654 TGGAACAACCAGGAGCATTG 58.380 50.000 0.00 0.00 44.64 2.82
90 91 5.240121 GGTACACGGATAAAGAAACAAGGA 58.760 41.667 0.00 0.00 0.00 3.36
109 110 3.370209 GGGATCCAAGTACAGTTGGGTAC 60.370 52.174 15.23 9.05 46.24 3.34
314 319 9.853555 CAACTTGTAGGCAAATAATCATGTTTA 57.146 29.630 0.00 0.00 33.73 2.01
325 330 3.828451 AGCACATCAACTTGTAGGCAAAT 59.172 39.130 0.00 0.00 33.73 2.32
348 359 7.998383 AGATTGCCAATATACATACAACCAAGA 59.002 33.333 0.00 0.00 0.00 3.02
532 543 8.992835 TCTACCCTAGAAAGAAAAACGAATAC 57.007 34.615 0.00 0.00 0.00 1.89
538 549 9.339850 AGAAAGTTCTACCCTAGAAAGAAAAAC 57.660 33.333 0.00 0.00 45.56 2.43
579 770 3.038280 TGGGTACTGGGATCATACACTG 58.962 50.000 0.00 0.00 0.00 3.66
596 787 5.086621 AGCCAATTTCATTAAGTTCTGGGT 58.913 37.500 0.00 0.00 0.00 4.51
605 796 5.835113 GCTACAGGAGCCAATTTCATTAA 57.165 39.130 0.00 0.00 46.41 1.40
684 879 1.003112 CCCCGAATGGTTCAACGGA 60.003 57.895 0.00 0.00 46.94 4.69
686 881 1.922135 CTGCCCCGAATGGTTCAACG 61.922 60.000 0.00 0.00 0.00 4.10
840 1036 0.978907 TGGGACGGAGGGAGTAAAAC 59.021 55.000 0.00 0.00 0.00 2.43
842 1038 1.732117 TTTGGGACGGAGGGAGTAAA 58.268 50.000 0.00 0.00 0.00 2.01
843 1039 1.348696 GTTTTGGGACGGAGGGAGTAA 59.651 52.381 0.00 0.00 0.00 2.24
844 1040 0.978907 GTTTTGGGACGGAGGGAGTA 59.021 55.000 0.00 0.00 0.00 2.59
845 1041 1.057851 TGTTTTGGGACGGAGGGAGT 61.058 55.000 0.00 0.00 0.00 3.85
846 1042 0.109723 TTGTTTTGGGACGGAGGGAG 59.890 55.000 0.00 0.00 0.00 4.30
847 1043 0.109723 CTTGTTTTGGGACGGAGGGA 59.890 55.000 0.00 0.00 0.00 4.20
848 1044 0.179001 ACTTGTTTTGGGACGGAGGG 60.179 55.000 0.00 0.00 0.00 4.30
849 1045 0.951558 CACTTGTTTTGGGACGGAGG 59.048 55.000 0.00 0.00 0.00 4.30
850 1046 1.602377 GACACTTGTTTTGGGACGGAG 59.398 52.381 0.00 0.00 0.00 4.63
851 1047 1.210967 AGACACTTGTTTTGGGACGGA 59.789 47.619 0.00 0.00 0.00 4.69
852 1048 1.602377 GAGACACTTGTTTTGGGACGG 59.398 52.381 0.00 0.00 0.00 4.79
853 1049 2.285083 TGAGACACTTGTTTTGGGACG 58.715 47.619 0.00 0.00 0.00 4.79
854 1050 3.694566 AGTTGAGACACTTGTTTTGGGAC 59.305 43.478 0.00 0.00 0.00 4.46
855 1051 3.963129 AGTTGAGACACTTGTTTTGGGA 58.037 40.909 0.00 0.00 0.00 4.37
856 1052 4.718940 AAGTTGAGACACTTGTTTTGGG 57.281 40.909 0.00 0.00 35.57 4.12
857 1053 7.312899 ACTAAAAGTTGAGACACTTGTTTTGG 58.687 34.615 0.00 0.00 37.07 3.28
858 1054 9.274065 GTACTAAAAGTTGAGACACTTGTTTTG 57.726 33.333 0.00 0.00 37.07 2.44
859 1055 9.005777 TGTACTAAAAGTTGAGACACTTGTTTT 57.994 29.630 0.00 0.00 37.07 2.43
860 1056 8.556213 TGTACTAAAAGTTGAGACACTTGTTT 57.444 30.769 0.00 0.00 37.07 2.83
861 1057 8.556213 TTGTACTAAAAGTTGAGACACTTGTT 57.444 30.769 0.00 0.00 37.07 2.83
862 1058 8.556213 TTTGTACTAAAAGTTGAGACACTTGT 57.444 30.769 0.00 0.00 37.07 3.16
863 1059 8.665685 ACTTTGTACTAAAAGTTGAGACACTTG 58.334 33.333 5.69 0.00 45.84 3.16
864 1060 8.788325 ACTTTGTACTAAAAGTTGAGACACTT 57.212 30.769 5.69 0.00 45.84 3.16
880 1076 8.621286 CCAAAATAAGTGTCTCAACTTTGTACT 58.379 33.333 0.00 0.00 40.77 2.73
881 1077 7.860872 CCCAAAATAAGTGTCTCAACTTTGTAC 59.139 37.037 0.00 0.00 40.77 2.90
882 1078 7.776030 TCCCAAAATAAGTGTCTCAACTTTGTA 59.224 33.333 0.00 0.00 40.77 2.41
883 1079 6.605594 TCCCAAAATAAGTGTCTCAACTTTGT 59.394 34.615 0.00 0.00 40.77 2.83
884 1080 6.918022 GTCCCAAAATAAGTGTCTCAACTTTG 59.082 38.462 0.00 0.00 40.77 2.77
885 1081 6.605594 TGTCCCAAAATAAGTGTCTCAACTTT 59.394 34.615 0.00 0.00 40.77 2.66
886 1082 6.126409 TGTCCCAAAATAAGTGTCTCAACTT 58.874 36.000 0.00 0.00 42.89 2.66
887 1083 5.690865 TGTCCCAAAATAAGTGTCTCAACT 58.309 37.500 0.00 0.00 0.00 3.16
888 1084 5.763204 TCTGTCCCAAAATAAGTGTCTCAAC 59.237 40.000 0.00 0.00 0.00 3.18
889 1085 5.935945 TCTGTCCCAAAATAAGTGTCTCAA 58.064 37.500 0.00 0.00 0.00 3.02
890 1086 5.071788 ACTCTGTCCCAAAATAAGTGTCTCA 59.928 40.000 0.00 0.00 0.00 3.27
891 1087 5.409826 CACTCTGTCCCAAAATAAGTGTCTC 59.590 44.000 0.00 0.00 0.00 3.36
892 1088 5.071788 TCACTCTGTCCCAAAATAAGTGTCT 59.928 40.000 0.00 0.00 35.37 3.41
893 1089 5.305585 TCACTCTGTCCCAAAATAAGTGTC 58.694 41.667 0.00 0.00 35.37 3.67
894 1090 5.163195 ACTCACTCTGTCCCAAAATAAGTGT 60.163 40.000 0.00 0.00 35.37 3.55
895 1091 5.308825 ACTCACTCTGTCCCAAAATAAGTG 58.691 41.667 0.00 0.00 35.20 3.16
896 1092 5.568620 ACTCACTCTGTCCCAAAATAAGT 57.431 39.130 0.00 0.00 0.00 2.24
897 1093 9.667107 TTAATACTCACTCTGTCCCAAAATAAG 57.333 33.333 0.00 0.00 0.00 1.73
899 1095 9.832445 GATTAATACTCACTCTGTCCCAAAATA 57.168 33.333 0.00 0.00 0.00 1.40
900 1096 7.495934 CGATTAATACTCACTCTGTCCCAAAAT 59.504 37.037 0.00 0.00 0.00 1.82
901 1097 6.816640 CGATTAATACTCACTCTGTCCCAAAA 59.183 38.462 0.00 0.00 0.00 2.44
902 1098 6.070995 ACGATTAATACTCACTCTGTCCCAAA 60.071 38.462 0.00 0.00 0.00 3.28
903 1099 5.421056 ACGATTAATACTCACTCTGTCCCAA 59.579 40.000 0.00 0.00 0.00 4.12
904 1100 4.954202 ACGATTAATACTCACTCTGTCCCA 59.046 41.667 0.00 0.00 0.00 4.37
905 1101 5.507650 GGACGATTAATACTCACTCTGTCCC 60.508 48.000 0.00 0.00 36.92 4.46
906 1102 5.299782 AGGACGATTAATACTCACTCTGTCC 59.700 44.000 0.00 0.00 41.83 4.02
907 1103 6.183360 ACAGGACGATTAATACTCACTCTGTC 60.183 42.308 0.00 0.00 0.00 3.51
908 1104 5.652891 ACAGGACGATTAATACTCACTCTGT 59.347 40.000 0.00 0.00 0.00 3.41
909 1105 6.137794 ACAGGACGATTAATACTCACTCTG 57.862 41.667 0.00 0.00 0.00 3.35
910 1106 6.777213 AACAGGACGATTAATACTCACTCT 57.223 37.500 0.00 0.00 0.00 3.24
911 1107 9.182933 GATAAACAGGACGATTAATACTCACTC 57.817 37.037 0.00 0.00 0.00 3.51
912 1108 7.861372 CGATAAACAGGACGATTAATACTCACT 59.139 37.037 0.00 0.00 0.00 3.41
913 1109 7.646922 ACGATAAACAGGACGATTAATACTCAC 59.353 37.037 0.00 0.00 0.00 3.51
914 1110 7.709947 ACGATAAACAGGACGATTAATACTCA 58.290 34.615 0.00 0.00 0.00 3.41
915 1111 9.669353 TTACGATAAACAGGACGATTAATACTC 57.331 33.333 0.00 0.00 0.00 2.59
916 1112 9.674824 CTTACGATAAACAGGACGATTAATACT 57.325 33.333 0.00 0.00 0.00 2.12
917 1113 9.455847 ACTTACGATAAACAGGACGATTAATAC 57.544 33.333 0.00 0.00 0.00 1.89
956 1152 1.134699 ACCATCACTACATGAGCACCG 60.135 52.381 0.00 0.00 41.91 4.94
1120 1316 1.085091 CAGTCCATCTTCTGCACAGC 58.915 55.000 0.00 0.00 0.00 4.40
1374 1570 0.179100 ATGCGAGGTCAATGGACTCG 60.179 55.000 18.16 18.16 43.77 4.18
1416 1612 1.064825 CTACCACAGTCCACCCCTTT 58.935 55.000 0.00 0.00 0.00 3.11
1449 1645 5.932303 TGTTCTCCTTTTTCCGTTCAGATAG 59.068 40.000 0.00 0.00 0.00 2.08
1578 1774 1.135257 AGCGATCTCCACTTCTGTTCG 60.135 52.381 0.00 0.00 0.00 3.95
1626 1822 0.671781 ATGAAGTGACCGTGCTGAGC 60.672 55.000 0.00 0.00 0.00 4.26
1734 1930 4.402528 TCCCGGTCATTGCCACGG 62.403 66.667 0.00 0.00 45.57 4.94
1821 2017 1.376553 GCCACTTGGACTCTGGAGC 60.377 63.158 0.00 0.00 37.39 4.70
1849 2045 1.230324 GCATAACCTTCCTCGGCATC 58.770 55.000 0.00 0.00 0.00 3.91
1878 2074 4.114997 GTTCCATTGGCGCCACCG 62.115 66.667 32.95 23.04 43.94 4.94
1884 2080 3.068064 GGGGTGGTTCCATTGGCG 61.068 66.667 0.00 0.00 38.11 5.69
1890 2086 2.929477 GGGTACGGGGTGGTTCCA 60.929 66.667 0.00 0.00 38.11 3.53
1892 2088 0.321919 GAAAGGGTACGGGGTGGTTC 60.322 60.000 0.00 0.00 0.00 3.62
1893 2089 1.061324 TGAAAGGGTACGGGGTGGTT 61.061 55.000 0.00 0.00 0.00 3.67
1902 2098 1.004394 CCCTCCAAGGTGAAAGGGTAC 59.996 57.143 3.06 0.00 43.04 3.34
1955 2151 4.581093 GCATACCCGCCCCTTCCC 62.581 72.222 0.00 0.00 0.00 3.97
1958 2154 0.693092 TCTAAGCATACCCGCCCCTT 60.693 55.000 0.00 0.00 0.00 3.95
1962 2158 1.618837 TCTGATCTAAGCATACCCGCC 59.381 52.381 0.00 0.00 0.00 6.13
2284 2480 1.406539 ACAACAAAGAACAGCAGCTGG 59.593 47.619 26.38 9.78 35.51 4.85
2318 2514 4.217334 TGAACAACGCAATATCCAACACAT 59.783 37.500 0.00 0.00 0.00 3.21
2330 2526 2.288186 TGAAATACGCTGAACAACGCAA 59.712 40.909 0.00 0.00 0.00 4.85
2363 2559 8.287503 GTGAGTACTGTATTTAAAACCCAACAG 58.712 37.037 0.00 12.55 40.08 3.16
2383 2579 2.656646 CCGGCAGTGCAGTGAGTA 59.343 61.111 25.76 0.00 0.00 2.59
2451 2647 6.225981 TCTCATGTGCTGTATTATGTGAGT 57.774 37.500 0.00 0.00 34.84 3.41
2493 2758 5.722021 AAATCCAACGCCAGACTTTATTT 57.278 34.783 0.00 0.00 0.00 1.40
2496 2761 6.636562 TTAAAAATCCAACGCCAGACTTTA 57.363 33.333 0.00 0.00 0.00 1.85
2500 2791 4.612943 TGTTTAAAAATCCAACGCCAGAC 58.387 39.130 0.00 0.00 0.00 3.51
2509 2800 8.348507 GTTTGATTTGCCATGTTTAAAAATCCA 58.651 29.630 0.00 0.00 36.74 3.41
2561 2853 1.532794 AAAAACTGCCATCCCCGCA 60.533 52.632 0.00 0.00 34.41 5.69
2562 2854 3.376546 AAAAACTGCCATCCCCGC 58.623 55.556 0.00 0.00 0.00 6.13
2630 2923 5.626955 GTCAGTTTTTCTTAGCAAGCATGAC 59.373 40.000 0.00 0.00 0.00 3.06
2632 2925 5.522456 TGTCAGTTTTTCTTAGCAAGCATG 58.478 37.500 0.00 0.00 0.00 4.06
2633 2926 5.772825 TGTCAGTTTTTCTTAGCAAGCAT 57.227 34.783 0.00 0.00 0.00 3.79
2644 2937 7.928908 TGCTACAAATTGATGTCAGTTTTTC 57.071 32.000 0.00 0.00 34.24 2.29
2755 3048 4.614946 CTGGCAAAGTTTTTCTCCTTCAG 58.385 43.478 0.00 0.00 0.00 3.02
2793 3086 5.641636 TGTATGTTCTCGTACCGTTGTAGTA 59.358 40.000 0.00 0.00 35.77 1.82
2794 3087 4.455533 TGTATGTTCTCGTACCGTTGTAGT 59.544 41.667 0.00 0.00 35.77 2.73
3006 3330 6.038603 GCATGTAGAGCAAATGAACCTTGATA 59.961 38.462 0.00 0.00 0.00 2.15


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.