Multiple sequence alignment - TraesCS7A01G070300

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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 TraesCS7A01G070300 chr7A 100.000 2933 0 0 1 2933 36254226 36251294 0.000000e+00 5417
1 TraesCS7A01G070300 chr2A 97.937 1842 35 3 984 2823 724964719 724962879 0.000000e+00 3188
2 TraesCS7A01G070300 chr2A 99.136 926 8 0 1 926 724965644 724964719 0.000000e+00 1666
3 TraesCS7A01G070300 chr5A 97.453 1845 42 5 984 2823 564871634 564873478 0.000000e+00 3142
4 TraesCS7A01G070300 chr5A 97.080 1849 49 5 980 2823 579993689 579991841 0.000000e+00 3110
5 TraesCS7A01G070300 chr5A 93.879 1797 97 10 1032 2823 669688148 669689936 0.000000e+00 2697
6 TraesCS7A01G070300 chr5A 88.858 1804 156 28 1032 2819 349135972 349137746 0.000000e+00 2176
7 TraesCS7A01G070300 chr5A 98.488 926 13 1 1 926 579994613 579993689 0.000000e+00 1631
8 TraesCS7A01G070300 chr5A 98.380 926 15 0 1 926 564870709 564871634 0.000000e+00 1628
9 TraesCS7A01G070300 chr5A 94.338 936 32 9 1 923 669686981 669687908 0.000000e+00 1415
10 TraesCS7A01G070300 chr3D 95.220 1799 76 7 1032 2823 555156088 555154293 0.000000e+00 2837
11 TraesCS7A01G070300 chr3D 95.958 569 23 0 467 1035 555156833 555156265 0.000000e+00 924
12 TraesCS7A01G070300 chr3D 96.133 362 11 3 112 471 555175546 555175186 3.260000e-164 588
13 TraesCS7A01G070300 chr2D 93.823 1797 98 9 1032 2823 2170407 2172195 0.000000e+00 2691
14 TraesCS7A01G070300 chr2D 88.434 1807 177 20 1032 2824 340329760 340327972 0.000000e+00 2150
15 TraesCS7A01G070300 chr7B 93.437 1798 96 13 1032 2824 289877423 289879203 0.000000e+00 2647
16 TraesCS7A01G070300 chr7B 94.691 923 47 2 1 923 289876284 289877204 0.000000e+00 1432
17 TraesCS7A01G070300 chr1B 90.993 1743 140 12 1093 2823 669571284 669569547 0.000000e+00 2333
18 TraesCS7A01G070300 chr1B 92.779 637 37 2 290 926 669572240 669571613 0.000000e+00 913
19 TraesCS7A01G070300 chr1B 89.623 318 29 4 1 317 669572607 669572293 4.550000e-108 401
20 TraesCS7A01G070300 chr2B 85.909 1831 191 30 1032 2825 758233762 758231962 0.000000e+00 1890
21 TraesCS7A01G070300 chr6B 91.888 678 44 4 1 677 316320038 316320705 0.000000e+00 937
22 TraesCS7A01G070300 chr3A 93.089 492 31 2 432 923 198182313 198182801 0.000000e+00 717
23 TraesCS7A01G070300 chr7D 91.262 515 40 2 407 917 26329889 26330402 0.000000e+00 697
24 TraesCS7A01G070300 chr7D 98.182 110 2 0 2824 2933 36371253 36371144 2.980000e-45 193
25 TraesCS7A01G070300 chr4B 91.068 515 41 2 407 917 592246303 592246816 0.000000e+00 691
26 TraesCS7A01G070300 chr5B 80.970 268 45 4 1 267 10420141 10419879 1.070000e-49 207


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 TraesCS7A01G070300 chr7A 36251294 36254226 2932 True 5417.000000 5417 100.000000 1 2933 1 chr7A.!!$R1 2932
1 TraesCS7A01G070300 chr2A 724962879 724965644 2765 True 2427.000000 3188 98.536500 1 2823 2 chr2A.!!$R1 2822
2 TraesCS7A01G070300 chr5A 564870709 564873478 2769 False 2385.000000 3142 97.916500 1 2823 2 chr5A.!!$F2 2822
3 TraesCS7A01G070300 chr5A 579991841 579994613 2772 True 2370.500000 3110 97.784000 1 2823 2 chr5A.!!$R1 2822
4 TraesCS7A01G070300 chr5A 349135972 349137746 1774 False 2176.000000 2176 88.858000 1032 2819 1 chr5A.!!$F1 1787
5 TraesCS7A01G070300 chr5A 669686981 669689936 2955 False 2056.000000 2697 94.108500 1 2823 2 chr5A.!!$F3 2822
6 TraesCS7A01G070300 chr3D 555154293 555156833 2540 True 1880.500000 2837 95.589000 467 2823 2 chr3D.!!$R2 2356
7 TraesCS7A01G070300 chr2D 2170407 2172195 1788 False 2691.000000 2691 93.823000 1032 2823 1 chr2D.!!$F1 1791
8 TraesCS7A01G070300 chr2D 340327972 340329760 1788 True 2150.000000 2150 88.434000 1032 2824 1 chr2D.!!$R1 1792
9 TraesCS7A01G070300 chr7B 289876284 289879203 2919 False 2039.500000 2647 94.064000 1 2824 2 chr7B.!!$F1 2823
10 TraesCS7A01G070300 chr1B 669569547 669572607 3060 True 1215.666667 2333 91.131667 1 2823 3 chr1B.!!$R1 2822
11 TraesCS7A01G070300 chr2B 758231962 758233762 1800 True 1890.000000 1890 85.909000 1032 2825 1 chr2B.!!$R1 1793
12 TraesCS7A01G070300 chr6B 316320038 316320705 667 False 937.000000 937 91.888000 1 677 1 chr6B.!!$F1 676
13 TraesCS7A01G070300 chr7D 26329889 26330402 513 False 697.000000 697 91.262000 407 917 1 chr7D.!!$F1 510
14 TraesCS7A01G070300 chr4B 592246303 592246816 513 False 691.000000 691 91.068000 407 917 1 chr4B.!!$F1 510

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
942 1041 0.167908 CCACACACACACACACACAC 59.832 55.0 0.0 0.0 0.0 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2864 3333 2.953648 TGCATGCATTCCACAAGATAGG 59.046 45.455 18.46 0.0 0.0 2.57 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
937 1036 1.135170 CAATTGCCACACACACACACA 60.135 47.619 0.00 0.00 0.00 3.72
938 1037 0.455410 ATTGCCACACACACACACAC 59.545 50.000 0.00 0.00 0.00 3.82
939 1038 0.890996 TTGCCACACACACACACACA 60.891 50.000 0.00 0.00 0.00 3.72
940 1039 1.136565 GCCACACACACACACACAC 59.863 57.895 0.00 0.00 0.00 3.82
941 1040 1.581727 GCCACACACACACACACACA 61.582 55.000 0.00 0.00 0.00 3.72
942 1041 0.167908 CCACACACACACACACACAC 59.832 55.000 0.00 0.00 0.00 3.82
943 1042 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
944 1043 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
945 1044 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
946 1045 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
947 1046 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
948 1047 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
949 1048 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
950 1049 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
951 1050 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
952 1051 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
1074 1378 3.957497 TGCCAGAGGTAAATTTTGTGTGT 59.043 39.130 0.00 0.00 0.00 3.72
1313 1730 4.301072 TGGCTTACTGCACCTAAATTCT 57.699 40.909 0.00 0.00 45.15 2.40
1448 1869 6.445786 AGGTGACCTTGGGTATTATTAGACAA 59.554 38.462 0.00 0.00 35.25 3.18
1450 1871 7.778382 GGTGACCTTGGGTATTATTAGACAATT 59.222 37.037 0.00 0.00 35.25 2.32
1734 2156 5.546526 TGTGCGCATATATCAACCTATTCA 58.453 37.500 15.91 0.00 0.00 2.57
1917 2343 5.119125 GTGCAATTTTCTTTTCCAGATTCGG 59.881 40.000 0.00 0.00 0.00 4.30
1944 2370 6.822676 AGAAGGATAATTGAGTTGAAGCTGAG 59.177 38.462 0.00 0.00 0.00 3.35
2489 2953 1.039068 TTGGTTGTGTTCCCATGCTG 58.961 50.000 0.00 0.00 0.00 4.41
2777 3246 5.397109 GGCTAGTAACATAGTTTTGGGCCTA 60.397 44.000 4.53 0.00 32.92 3.93
2787 3256 4.510571 AGTTTTGGGCCTATAGTAACACG 58.489 43.478 4.53 0.00 0.00 4.49
2825 3294 2.823154 GCTCTGTCCTCTTGTAGTGACT 59.177 50.000 0.00 0.00 0.00 3.41
2826 3295 4.011023 GCTCTGTCCTCTTGTAGTGACTA 58.989 47.826 0.00 0.00 0.00 2.59
2827 3296 4.095782 GCTCTGTCCTCTTGTAGTGACTAG 59.904 50.000 0.00 0.00 0.00 2.57
2828 3297 5.244189 TCTGTCCTCTTGTAGTGACTAGT 57.756 43.478 0.00 0.00 31.22 2.57
2829 3298 5.004448 TCTGTCCTCTTGTAGTGACTAGTG 58.996 45.833 0.00 0.00 31.22 2.74
2830 3299 4.079970 TGTCCTCTTGTAGTGACTAGTGG 58.920 47.826 0.00 0.00 40.97 4.00
2831 3300 4.080687 GTCCTCTTGTAGTGACTAGTGGT 58.919 47.826 0.00 0.00 40.67 4.16
2832 3301 4.156373 GTCCTCTTGTAGTGACTAGTGGTC 59.844 50.000 0.00 0.00 40.67 4.02
2833 3302 4.043059 TCCTCTTGTAGTGACTAGTGGTCT 59.957 45.833 0.00 0.00 44.74 3.85
2834 3303 4.767928 CCTCTTGTAGTGACTAGTGGTCTT 59.232 45.833 0.00 0.00 44.74 3.01
2835 3304 5.944599 CCTCTTGTAGTGACTAGTGGTCTTA 59.055 44.000 0.00 0.00 44.74 2.10
2836 3305 6.603997 CCTCTTGTAGTGACTAGTGGTCTTAT 59.396 42.308 0.00 0.00 44.74 1.73
2837 3306 7.122948 CCTCTTGTAGTGACTAGTGGTCTTATT 59.877 40.741 0.00 0.00 44.74 1.40
2838 3307 7.827701 TCTTGTAGTGACTAGTGGTCTTATTG 58.172 38.462 0.00 0.00 44.74 1.90
2839 3308 5.962433 TGTAGTGACTAGTGGTCTTATTGC 58.038 41.667 0.00 0.00 44.74 3.56
2840 3309 4.111375 AGTGACTAGTGGTCTTATTGCG 57.889 45.455 0.00 0.00 44.74 4.85
2841 3310 3.762288 AGTGACTAGTGGTCTTATTGCGA 59.238 43.478 0.00 0.00 44.74 5.10
2842 3311 4.402793 AGTGACTAGTGGTCTTATTGCGAT 59.597 41.667 0.00 0.00 44.74 4.58
2843 3312 5.105310 AGTGACTAGTGGTCTTATTGCGATT 60.105 40.000 0.00 0.00 44.74 3.34
2844 3313 5.232414 GTGACTAGTGGTCTTATTGCGATTC 59.768 44.000 0.00 0.00 44.74 2.52
2845 3314 5.127194 TGACTAGTGGTCTTATTGCGATTCT 59.873 40.000 0.00 0.00 44.74 2.40
2846 3315 5.978814 ACTAGTGGTCTTATTGCGATTCTT 58.021 37.500 0.00 0.00 0.00 2.52
2847 3316 6.407202 ACTAGTGGTCTTATTGCGATTCTTT 58.593 36.000 0.00 0.00 0.00 2.52
2848 3317 7.553334 ACTAGTGGTCTTATTGCGATTCTTTA 58.447 34.615 0.00 0.00 0.00 1.85
2849 3318 8.204836 ACTAGTGGTCTTATTGCGATTCTTTAT 58.795 33.333 0.00 0.00 0.00 1.40
2850 3319 7.484035 AGTGGTCTTATTGCGATTCTTTATC 57.516 36.000 0.00 0.00 0.00 1.75
2851 3320 7.275920 AGTGGTCTTATTGCGATTCTTTATCT 58.724 34.615 0.00 0.00 0.00 1.98
2852 3321 7.439655 AGTGGTCTTATTGCGATTCTTTATCTC 59.560 37.037 0.00 0.00 0.00 2.75
2853 3322 7.439655 GTGGTCTTATTGCGATTCTTTATCTCT 59.560 37.037 0.00 0.00 0.00 3.10
2854 3323 7.987458 TGGTCTTATTGCGATTCTTTATCTCTT 59.013 33.333 0.00 0.00 0.00 2.85
2855 3324 9.477484 GGTCTTATTGCGATTCTTTATCTCTTA 57.523 33.333 0.00 0.00 0.00 2.10
2860 3329 8.908786 ATTGCGATTCTTTATCTCTTAATGGA 57.091 30.769 0.00 0.00 0.00 3.41
2861 3330 7.715265 TGCGATTCTTTATCTCTTAATGGAC 57.285 36.000 0.00 0.00 0.00 4.02
2862 3331 7.500992 TGCGATTCTTTATCTCTTAATGGACT 58.499 34.615 0.00 0.00 0.00 3.85
2863 3332 7.987458 TGCGATTCTTTATCTCTTAATGGACTT 59.013 33.333 0.00 0.00 0.00 3.01
2864 3333 8.491950 GCGATTCTTTATCTCTTAATGGACTTC 58.508 37.037 0.00 0.00 0.00 3.01
2865 3334 8.983724 CGATTCTTTATCTCTTAATGGACTTCC 58.016 37.037 0.00 0.00 0.00 3.46
2873 3342 7.979786 TCTCTTAATGGACTTCCTATCTTGT 57.020 36.000 0.00 0.00 36.82 3.16
2874 3343 7.786030 TCTCTTAATGGACTTCCTATCTTGTG 58.214 38.462 0.00 0.00 36.82 3.33
2875 3344 6.889198 TCTTAATGGACTTCCTATCTTGTGG 58.111 40.000 0.00 0.00 36.82 4.17
2876 3345 6.672218 TCTTAATGGACTTCCTATCTTGTGGA 59.328 38.462 0.00 0.00 36.82 4.02
2877 3346 5.779241 AATGGACTTCCTATCTTGTGGAA 57.221 39.130 0.00 0.00 39.73 3.53
2878 3347 5.983333 ATGGACTTCCTATCTTGTGGAAT 57.017 39.130 0.00 0.00 40.98 3.01
2879 3348 5.102953 TGGACTTCCTATCTTGTGGAATG 57.897 43.478 0.00 0.00 40.98 2.67
2880 3349 3.879892 GGACTTCCTATCTTGTGGAATGC 59.120 47.826 0.00 0.00 40.98 3.56
2881 3350 4.517285 GACTTCCTATCTTGTGGAATGCA 58.483 43.478 0.00 0.00 40.98 3.96
2882 3351 5.121380 ACTTCCTATCTTGTGGAATGCAT 57.879 39.130 0.00 0.00 40.98 3.96
2883 3352 4.885907 ACTTCCTATCTTGTGGAATGCATG 59.114 41.667 0.00 0.00 40.98 4.06
2884 3353 3.216800 TCCTATCTTGTGGAATGCATGC 58.783 45.455 11.82 11.82 0.00 4.06
2885 3354 2.953648 CCTATCTTGTGGAATGCATGCA 59.046 45.455 25.04 25.04 0.00 3.96
2886 3355 3.572682 CCTATCTTGTGGAATGCATGCAT 59.427 43.478 27.46 27.46 38.46 3.96
2888 3357 3.965379 TCTTGTGGAATGCATGCATTT 57.035 38.095 38.66 25.66 45.50 2.32
2889 3358 5.601583 ATCTTGTGGAATGCATGCATTTA 57.398 34.783 38.66 29.06 45.50 1.40
2890 3359 5.402997 TCTTGTGGAATGCATGCATTTAA 57.597 34.783 38.66 28.50 45.50 1.52
2891 3360 5.170021 TCTTGTGGAATGCATGCATTTAAC 58.830 37.500 38.66 34.85 45.50 2.01
2892 3361 4.532314 TGTGGAATGCATGCATTTAACA 57.468 36.364 38.66 36.44 45.50 2.41
2893 3362 5.087391 TGTGGAATGCATGCATTTAACAT 57.913 34.783 38.66 21.69 45.50 2.71
2894 3363 5.489249 TGTGGAATGCATGCATTTAACATT 58.511 33.333 38.66 21.62 45.50 2.71
2895 3364 5.581479 TGTGGAATGCATGCATTTAACATTC 59.419 36.000 38.66 27.07 45.50 2.67
2896 3365 5.813672 GTGGAATGCATGCATTTAACATTCT 59.186 36.000 38.66 19.58 45.50 2.40
2897 3366 6.979817 GTGGAATGCATGCATTTAACATTCTA 59.020 34.615 38.66 23.86 45.50 2.10
2898 3367 6.979817 TGGAATGCATGCATTTAACATTCTAC 59.020 34.615 38.66 24.18 45.50 2.59
2899 3368 6.979817 GGAATGCATGCATTTAACATTCTACA 59.020 34.615 38.66 6.52 45.50 2.74
2900 3369 7.654520 GGAATGCATGCATTTAACATTCTACAT 59.345 33.333 38.66 17.76 45.50 2.29
2901 3370 8.951787 AATGCATGCATTTAACATTCTACATT 57.048 26.923 34.78 12.50 43.32 2.71
2903 3372 9.687210 ATGCATGCATTTAACATTCTACATTAG 57.313 29.630 27.46 0.00 31.82 1.73
2904 3373 8.685427 TGCATGCATTTAACATTCTACATTAGT 58.315 29.630 18.46 0.00 0.00 2.24
2905 3374 9.173939 GCATGCATTTAACATTCTACATTAGTC 57.826 33.333 14.21 0.00 0.00 2.59
2915 3384 8.240267 ACATTCTACATTAGTCTTACCTCTCC 57.760 38.462 0.00 0.00 0.00 3.71
2916 3385 6.939132 TTCTACATTAGTCTTACCTCTCCG 57.061 41.667 0.00 0.00 0.00 4.63
2917 3386 5.999044 TCTACATTAGTCTTACCTCTCCGT 58.001 41.667 0.00 0.00 0.00 4.69
2918 3387 6.054295 TCTACATTAGTCTTACCTCTCCGTC 58.946 44.000 0.00 0.00 0.00 4.79
2919 3388 3.626670 ACATTAGTCTTACCTCTCCGTCG 59.373 47.826 0.00 0.00 0.00 5.12
2920 3389 3.340814 TTAGTCTTACCTCTCCGTCGT 57.659 47.619 0.00 0.00 0.00 4.34
2921 3390 4.471904 TTAGTCTTACCTCTCCGTCGTA 57.528 45.455 0.00 0.00 0.00 3.43
2922 3391 3.557228 AGTCTTACCTCTCCGTCGTAT 57.443 47.619 0.00 0.00 0.00 3.06
2923 3392 3.883669 AGTCTTACCTCTCCGTCGTATT 58.116 45.455 0.00 0.00 0.00 1.89
2924 3393 4.268359 AGTCTTACCTCTCCGTCGTATTT 58.732 43.478 0.00 0.00 0.00 1.40
2925 3394 5.431765 AGTCTTACCTCTCCGTCGTATTTA 58.568 41.667 0.00 0.00 0.00 1.40
2926 3395 5.526846 AGTCTTACCTCTCCGTCGTATTTAG 59.473 44.000 0.00 0.00 0.00 1.85
2927 3396 5.295540 GTCTTACCTCTCCGTCGTATTTAGT 59.704 44.000 0.00 0.00 0.00 2.24
2928 3397 5.882557 TCTTACCTCTCCGTCGTATTTAGTT 59.117 40.000 0.00 0.00 0.00 2.24
2929 3398 7.011482 GTCTTACCTCTCCGTCGTATTTAGTTA 59.989 40.741 0.00 0.00 0.00 2.24
2930 3399 5.491635 ACCTCTCCGTCGTATTTAGTTAC 57.508 43.478 0.00 0.00 0.00 2.50
2931 3400 5.189180 ACCTCTCCGTCGTATTTAGTTACT 58.811 41.667 0.00 0.00 0.00 2.24
2932 3401 5.295540 ACCTCTCCGTCGTATTTAGTTACTC 59.704 44.000 0.00 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 4.816385 GCCATTAGCATGTACAGTACACAT 59.184 41.667 15.89 7.37 42.23 3.21
94 97 7.447238 CCGTACATGGTTTATGGGATTTTCTAT 59.553 37.037 0.00 0.00 41.25 1.98
937 1036 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
938 1037 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
939 1038 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
940 1039 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
941 1040 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
942 1041 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
943 1042 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
944 1043 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
945 1044 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
946 1045 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
947 1046 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
948 1047 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
949 1048 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
950 1049 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
951 1050 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
952 1051 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
993 1110 3.716353 TGGTTAGCATGTCCATCACCTAT 59.284 43.478 0.00 0.00 0.00 2.57
1011 1128 6.464465 GGTCTTCATAGTGCAGGTATATGGTT 60.464 42.308 0.00 0.00 0.00 3.67
1074 1378 6.043854 AGCTACAACTTCAAAACCCAAAAA 57.956 33.333 0.00 0.00 0.00 1.94
1204 1621 3.610911 GTGTTCAGTTCTATTCCCCTGG 58.389 50.000 0.00 0.00 0.00 4.45
1313 1730 4.525996 CATGATAATGTGGTCTGGGTTGA 58.474 43.478 0.00 0.00 0.00 3.18
1448 1869 7.571025 ACTAAATAAACTGGACCCGACATAAT 58.429 34.615 0.00 0.00 0.00 1.28
1450 1871 6.549433 ACTAAATAAACTGGACCCGACATA 57.451 37.500 0.00 0.00 0.00 2.29
1734 2156 5.911178 TCCCTTACCAACTCCTCATTATCAT 59.089 40.000 0.00 0.00 0.00 2.45
1908 2334 4.899352 ATTATCCTTCTCCCGAATCTGG 57.101 45.455 0.00 0.00 0.00 3.86
1917 2343 6.038050 CAGCTTCAACTCAATTATCCTTCTCC 59.962 42.308 0.00 0.00 0.00 3.71
1970 2398 7.491696 ACGACTATTGGTAGCTAAAATCTTCAC 59.508 37.037 0.00 0.00 0.00 3.18
2195 2643 9.950496 ATTGAAACTGAACTAGAACACATCTAT 57.050 29.630 0.00 0.00 39.88 1.98
2208 2656 9.362539 GCATCAAAATGATATTGAAACTGAACT 57.637 29.630 0.00 0.00 39.98 3.01
2383 2843 9.709495 TTTGTAACTATAGTAACACCATCGTTT 57.291 29.630 5.65 0.00 0.00 3.60
2385 2845 9.880157 ATTTTGTAACTATAGTAACACCATCGT 57.120 29.630 5.65 0.00 0.00 3.73
2489 2953 5.656480 ACACAACTGGTAACACATTTTTCC 58.344 37.500 0.00 0.00 46.17 3.13
2634 3101 8.792633 AGTGTGTTACAATTACATTGCAGTAAT 58.207 29.630 5.71 5.71 44.32 1.89
2679 3146 6.768381 TGGTGTCAACTGTCACACATAATAAA 59.232 34.615 19.06 0.64 44.07 1.40
2787 3256 3.184581 CAGAGCTTTTGTAACACCGTCTC 59.815 47.826 0.00 0.00 0.00 3.36
2825 3294 8.421784 AGATAAAGAATCGCAATAAGACCACTA 58.578 33.333 0.00 0.00 39.79 2.74
2826 3295 7.275920 AGATAAAGAATCGCAATAAGACCACT 58.724 34.615 0.00 0.00 39.79 4.00
2827 3296 7.439655 AGAGATAAAGAATCGCAATAAGACCAC 59.560 37.037 0.00 0.00 39.79 4.16
2828 3297 7.500992 AGAGATAAAGAATCGCAATAAGACCA 58.499 34.615 0.00 0.00 39.79 4.02
2829 3298 7.954788 AGAGATAAAGAATCGCAATAAGACC 57.045 36.000 0.00 0.00 39.79 3.85
2834 3303 9.996554 TCCATTAAGAGATAAAGAATCGCAATA 57.003 29.630 0.00 0.00 39.79 1.90
2835 3304 8.778358 GTCCATTAAGAGATAAAGAATCGCAAT 58.222 33.333 0.00 0.00 39.79 3.56
2836 3305 7.987458 AGTCCATTAAGAGATAAAGAATCGCAA 59.013 33.333 0.00 0.00 39.79 4.85
2837 3306 7.500992 AGTCCATTAAGAGATAAAGAATCGCA 58.499 34.615 0.00 0.00 39.79 5.10
2838 3307 7.954788 AGTCCATTAAGAGATAAAGAATCGC 57.045 36.000 0.00 0.00 39.79 4.58
2839 3308 8.983724 GGAAGTCCATTAAGAGATAAAGAATCG 58.016 37.037 0.00 0.00 36.43 3.34
2847 3316 9.661954 ACAAGATAGGAAGTCCATTAAGAGATA 57.338 33.333 0.00 0.00 38.89 1.98
2848 3317 8.428063 CACAAGATAGGAAGTCCATTAAGAGAT 58.572 37.037 0.00 0.00 38.89 2.75
2849 3318 7.147655 CCACAAGATAGGAAGTCCATTAAGAGA 60.148 40.741 0.00 0.00 38.89 3.10
2850 3319 6.989169 CCACAAGATAGGAAGTCCATTAAGAG 59.011 42.308 0.00 0.00 38.89 2.85
2851 3320 6.672218 TCCACAAGATAGGAAGTCCATTAAGA 59.328 38.462 0.00 0.00 38.89 2.10
2852 3321 6.889198 TCCACAAGATAGGAAGTCCATTAAG 58.111 40.000 0.00 0.00 38.89 1.85
2853 3322 6.884472 TCCACAAGATAGGAAGTCCATTAA 57.116 37.500 0.00 0.00 38.89 1.40
2854 3323 6.884472 TTCCACAAGATAGGAAGTCCATTA 57.116 37.500 0.00 0.00 38.91 1.90
2855 3324 5.779241 TTCCACAAGATAGGAAGTCCATT 57.221 39.130 0.00 0.00 38.91 3.16
2856 3325 5.688807 CATTCCACAAGATAGGAAGTCCAT 58.311 41.667 0.00 0.00 46.25 3.41
2857 3326 4.626287 GCATTCCACAAGATAGGAAGTCCA 60.626 45.833 0.00 0.00 46.25 4.02
2858 3327 3.879892 GCATTCCACAAGATAGGAAGTCC 59.120 47.826 0.00 0.00 46.25 3.85
2859 3328 4.517285 TGCATTCCACAAGATAGGAAGTC 58.483 43.478 0.00 0.00 46.25 3.01
2860 3329 4.574674 TGCATTCCACAAGATAGGAAGT 57.425 40.909 0.00 0.00 46.25 3.01
2861 3330 4.261489 GCATGCATTCCACAAGATAGGAAG 60.261 45.833 14.21 0.00 46.25 3.46
2862 3331 8.990692 AAATGCATGCATTCCACAAGATAGGAA 61.991 37.037 38.48 5.27 44.86 3.36
2863 3332 3.216800 GCATGCATTCCACAAGATAGGA 58.783 45.455 14.21 0.00 0.00 2.94
2864 3333 2.953648 TGCATGCATTCCACAAGATAGG 59.046 45.455 18.46 0.00 0.00 2.57
2865 3334 4.848562 ATGCATGCATTCCACAAGATAG 57.151 40.909 27.46 0.00 31.82 2.08
2866 3335 5.601583 AAATGCATGCATTCCACAAGATA 57.398 34.783 38.48 7.18 44.86 1.98
2867 3336 4.481368 AAATGCATGCATTCCACAAGAT 57.519 36.364 38.48 21.95 44.86 2.40
2868 3337 3.965379 AAATGCATGCATTCCACAAGA 57.035 38.095 38.48 7.94 44.86 3.02
2869 3338 4.930405 TGTTAAATGCATGCATTCCACAAG 59.070 37.500 38.48 0.00 44.86 3.16
2870 3339 4.891260 TGTTAAATGCATGCATTCCACAA 58.109 34.783 38.48 27.02 44.86 3.33
2871 3340 4.532314 TGTTAAATGCATGCATTCCACA 57.468 36.364 38.48 35.47 44.86 4.17
2872 3341 5.813672 AGAATGTTAAATGCATGCATTCCAC 59.186 36.000 38.48 33.83 44.86 4.02
2873 3342 5.979993 AGAATGTTAAATGCATGCATTCCA 58.020 33.333 38.48 32.42 44.86 3.53
2874 3343 6.979817 TGTAGAATGTTAAATGCATGCATTCC 59.020 34.615 38.48 28.97 44.86 3.01
2875 3344 7.990541 TGTAGAATGTTAAATGCATGCATTC 57.009 32.000 38.48 28.09 44.86 2.67
2877 3346 9.687210 CTAATGTAGAATGTTAAATGCATGCAT 57.313 29.630 27.46 27.46 38.46 3.96
2878 3347 8.685427 ACTAATGTAGAATGTTAAATGCATGCA 58.315 29.630 25.04 25.04 0.00 3.96
2879 3348 9.173939 GACTAATGTAGAATGTTAAATGCATGC 57.826 33.333 11.82 11.82 0.00 4.06
2889 3358 8.697292 GGAGAGGTAAGACTAATGTAGAATGTT 58.303 37.037 0.00 0.00 0.00 2.71
2890 3359 7.013464 CGGAGAGGTAAGACTAATGTAGAATGT 59.987 40.741 0.00 0.00 0.00 2.71
2891 3360 7.013464 ACGGAGAGGTAAGACTAATGTAGAATG 59.987 40.741 0.00 0.00 0.00 2.67
2892 3361 7.061688 ACGGAGAGGTAAGACTAATGTAGAAT 58.938 38.462 0.00 0.00 0.00 2.40
2893 3362 6.421485 ACGGAGAGGTAAGACTAATGTAGAA 58.579 40.000 0.00 0.00 0.00 2.10
2894 3363 5.999044 ACGGAGAGGTAAGACTAATGTAGA 58.001 41.667 0.00 0.00 0.00 2.59
2895 3364 5.050227 CGACGGAGAGGTAAGACTAATGTAG 60.050 48.000 0.00 0.00 0.00 2.74
2896 3365 4.813161 CGACGGAGAGGTAAGACTAATGTA 59.187 45.833 0.00 0.00 0.00 2.29
2897 3366 3.626670 CGACGGAGAGGTAAGACTAATGT 59.373 47.826 0.00 0.00 0.00 2.71
2898 3367 3.626670 ACGACGGAGAGGTAAGACTAATG 59.373 47.826 0.00 0.00 0.00 1.90
2899 3368 3.883669 ACGACGGAGAGGTAAGACTAAT 58.116 45.455 0.00 0.00 0.00 1.73
2900 3369 3.340814 ACGACGGAGAGGTAAGACTAA 57.659 47.619 0.00 0.00 0.00 2.24
2901 3370 4.679373 ATACGACGGAGAGGTAAGACTA 57.321 45.455 0.00 0.00 0.00 2.59
2902 3371 3.557228 ATACGACGGAGAGGTAAGACT 57.443 47.619 0.00 0.00 0.00 3.24
2903 3372 4.629251 AAATACGACGGAGAGGTAAGAC 57.371 45.455 0.00 0.00 0.00 3.01
2904 3373 5.431765 ACTAAATACGACGGAGAGGTAAGA 58.568 41.667 0.00 0.00 0.00 2.10
2905 3374 5.747951 ACTAAATACGACGGAGAGGTAAG 57.252 43.478 0.00 0.00 0.00 2.34
2906 3375 6.823689 AGTAACTAAATACGACGGAGAGGTAA 59.176 38.462 0.00 0.00 0.00 2.85
2907 3376 6.349300 AGTAACTAAATACGACGGAGAGGTA 58.651 40.000 0.00 0.00 0.00 3.08
2908 3377 5.189180 AGTAACTAAATACGACGGAGAGGT 58.811 41.667 0.00 0.00 0.00 3.85
2909 3378 5.746539 GAGTAACTAAATACGACGGAGAGG 58.253 45.833 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.