Multiple sequence alignment - TraesCS3D01G331500

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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 TraesCS3D01G331500 chr3D 100.000 8376 0 0 1 8376 443677790 443669415 0.000000e+00 15468.0
1 TraesCS3D01G331500 chr3D 97.123 730 18 3 1 728 539841542 539840814 0.000000e+00 1229.0
2 TraesCS3D01G331500 chr3D 96.699 727 20 4 1 725 515137698 515138422 0.000000e+00 1206.0
3 TraesCS3D01G331500 chr3D 90.947 718 58 7 6763 7475 500866238 500865523 0.000000e+00 959.0
4 TraesCS3D01G331500 chr3D 92.582 674 21 6 7730 8376 480169792 480170463 0.000000e+00 941.0
5 TraesCS3D01G331500 chr3D 86.920 474 54 8 1440 1911 596703410 596703877 7.450000e-145 525.0
6 TraesCS3D01G331500 chr3D 88.462 260 21 4 2180 2430 596703918 596704177 1.060000e-78 305.0
7 TraesCS3D01G331500 chr3D 80.570 386 51 19 782 1154 33320171 33320545 8.280000e-70 276.0
8 TraesCS3D01G331500 chr3D 86.607 224 26 3 7510 7729 554698423 554698646 2.340000e-60 244.0
9 TraesCS3D01G331500 chr3D 87.500 192 20 1 7510 7697 14028774 14028583 1.420000e-52 219.0
10 TraesCS3D01G331500 chr3D 92.857 84 4 2 2511 2592 596704174 596704257 4.110000e-23 121.0
11 TraesCS3D01G331500 chr3D 88.119 101 9 3 2057 2154 596703938 596704038 5.310000e-22 117.0
12 TraesCS3D01G331500 chr4A 97.001 3168 90 4 1833 4998 56485038 56481874 0.000000e+00 5319.0
13 TraesCS3D01G331500 chr4A 97.590 2739 59 6 4994 7730 56472999 56470266 0.000000e+00 4686.0
14 TraesCS3D01G331500 chr4A 92.213 1143 60 7 724 1839 56495059 56493919 0.000000e+00 1591.0
15 TraesCS3D01G331500 chr4A 91.778 1046 71 7 3721 4756 98602261 98601221 0.000000e+00 1441.0
16 TraesCS3D01G331500 chr4A 84.797 296 37 5 723 1014 2618185 2618476 2.960000e-74 291.0
17 TraesCS3D01G331500 chr4A 81.229 293 43 8 797 1086 563459556 563459273 8.460000e-55 226.0
18 TraesCS3D01G331500 chr2A 91.994 2773 173 22 4755 7498 578016062 578013310 0.000000e+00 3845.0
19 TraesCS3D01G331500 chr2A 93.994 616 37 0 4145 4760 578017975 578017360 0.000000e+00 933.0
20 TraesCS3D01G331500 chr2A 87.925 588 53 12 5840 6417 291674159 291673580 0.000000e+00 676.0
21 TraesCS3D01G331500 chr2A 94.545 440 20 4 3721 4160 578033395 578032960 0.000000e+00 676.0
22 TraesCS3D01G331500 chr2A 81.530 379 53 11 720 1090 762710050 762710419 6.360000e-76 296.0
23 TraesCS3D01G331500 chr2A 90.909 220 19 1 7510 7729 578013181 578012963 2.290000e-75 294.0
24 TraesCS3D01G331500 chr2A 90.265 113 6 5 4910 5021 736736956 736737064 8.760000e-30 143.0
25 TraesCS3D01G331500 chr6B 96.883 1476 41 3 2549 4022 101433857 101435329 0.000000e+00 2466.0
26 TraesCS3D01G331500 chr6B 96.447 760 25 2 4552 5309 101435317 101436076 0.000000e+00 1253.0
27 TraesCS3D01G331500 chr6B 90.145 345 33 1 3298 3641 64266222 64265878 1.660000e-121 448.0
28 TraesCS3D01G331500 chr6B 88.624 378 29 6 4827 5195 667074816 667074444 1.660000e-121 448.0
29 TraesCS3D01G331500 chr6B 94.318 88 4 1 6681 6768 677053285 677053199 5.270000e-27 134.0
30 TraesCS3D01G331500 chr6B 90.476 84 8 0 3640 3723 64265830 64265747 2.470000e-20 111.0
31 TraesCS3D01G331500 chr5B 95.737 1079 34 8 2431 3504 606969912 606968841 0.000000e+00 1727.0
32 TraesCS3D01G331500 chr5B 90.251 718 62 8 6763 7475 42948829 42949543 0.000000e+00 931.0
33 TraesCS3D01G331500 chr5B 86.357 645 50 19 5010 5636 22357219 22356595 0.000000e+00 669.0
34 TraesCS3D01G331500 chr5B 87.415 588 56 11 5837 6414 492796128 492796707 0.000000e+00 660.0
35 TraesCS3D01G331500 chr5B 88.433 268 28 3 3376 3641 534815838 534816104 3.770000e-83 320.0
36 TraesCS3D01G331500 chr5B 82.335 334 49 5 722 1045 35177427 35177094 1.780000e-71 281.0
37 TraesCS3D01G331500 chr5B 79.023 348 50 18 782 1114 532180946 532180607 5.090000e-52 217.0
38 TraesCS3D01G331500 chr5B 81.702 235 33 9 784 1014 492787987 492788215 3.990000e-43 187.0
39 TraesCS3D01G331500 chr5B 76.667 210 40 6 7528 7730 592808082 592807875 3.200000e-19 108.0
40 TraesCS3D01G331500 chr5B 89.583 48 3 2 7511 7556 448228036 448228083 9.080000e-05 60.2
41 TraesCS3D01G331500 chr4B 93.265 876 48 7 4755 5628 580716828 580715962 0.000000e+00 1280.0
42 TraesCS3D01G331500 chr4B 88.450 961 67 19 5830 6765 580715818 580714877 0.000000e+00 1120.0
43 TraesCS3D01G331500 chr4B 91.927 768 44 3 3991 4756 450912891 450913642 0.000000e+00 1059.0
44 TraesCS3D01G331500 chr4B 90.457 744 65 6 6763 7502 580698703 580697962 0.000000e+00 976.0
45 TraesCS3D01G331500 chr4B 88.502 287 25 3 3721 4001 450912216 450912500 2.900000e-89 340.0
46 TraesCS3D01G331500 chr4B 88.938 226 17 5 4827 5046 37561471 37561694 1.070000e-68 272.0
47 TraesCS3D01G331500 chr4B 89.062 192 15 2 5010 5200 564328338 564328524 5.060000e-57 233.0
48 TraesCS3D01G331500 chr4B 88.542 192 16 2 5010 5200 564273926 564274112 2.350000e-55 228.0
49 TraesCS3D01G331500 chr7D 97.111 727 17 4 1 725 375476000 375476724 0.000000e+00 1223.0
50 TraesCS3D01G331500 chr7D 96.712 730 22 2 1 728 128700908 128700179 0.000000e+00 1214.0
51 TraesCS3D01G331500 chr7D 87.161 958 80 24 5837 6768 108485402 108486342 0.000000e+00 1048.0
52 TraesCS3D01G331500 chr7D 91.924 681 20 9 7729 8376 204837228 204836550 0.000000e+00 920.0
53 TraesCS3D01G331500 chr7D 88.874 728 62 11 6773 7489 548339251 548338532 0.000000e+00 878.0
54 TraesCS3D01G331500 chr7D 88.445 476 45 8 1440 1911 556286500 556286969 4.390000e-157 566.0
55 TraesCS3D01G331500 chr7D 87.054 224 25 1 7510 7729 548338452 548338229 5.020000e-62 250.0
56 TraesCS3D01G331500 chr5D 97.103 725 18 3 1 723 90048423 90049146 0.000000e+00 1219.0
57 TraesCS3D01G331500 chr5D 96.974 727 19 3 1 725 277051866 277052591 0.000000e+00 1218.0
58 TraesCS3D01G331500 chr5D 91.304 690 25 8 7719 8376 127006742 127007428 0.000000e+00 909.0
59 TraesCS3D01G331500 chr5D 89.474 684 29 11 7729 8376 67319000 67318324 0.000000e+00 824.0
60 TraesCS3D01G331500 chr5D 87.961 623 26 22 7719 8307 529401543 529402150 0.000000e+00 689.0
61 TraesCS3D01G331500 chr5D 87.054 224 25 1 7510 7729 505021491 505021268 5.020000e-62 250.0
62 TraesCS3D01G331500 chr1D 96.712 730 21 3 1 728 424562877 424562149 0.000000e+00 1212.0
63 TraesCS3D01G331500 chr1D 96.575 730 22 3 1 728 83110993 83110265 0.000000e+00 1206.0
64 TraesCS3D01G331500 chr1D 96.561 727 23 2 1 725 84739878 84740604 0.000000e+00 1203.0
65 TraesCS3D01G331500 chr1D 92.194 679 17 7 7729 8376 142759430 142758757 0.000000e+00 928.0
66 TraesCS3D01G331500 chr1D 91.412 687 24 9 7719 8376 84740596 84741276 0.000000e+00 909.0
67 TraesCS3D01G331500 chr1D 82.222 270 30 13 836 1093 484184395 484184658 5.090000e-52 217.0
68 TraesCS3D01G331500 chr4D 93.995 766 44 1 3991 4756 366321233 366321996 0.000000e+00 1158.0
69 TraesCS3D01G331500 chr4D 91.852 675 26 3 7730 8376 403565615 403564942 0.000000e+00 915.0
70 TraesCS3D01G331500 chr4D 87.960 706 28 26 7719 8376 460763914 460763218 0.000000e+00 780.0
71 TraesCS3D01G331500 chr4D 87.591 685 42 14 7719 8375 398507287 398507956 0.000000e+00 754.0
72 TraesCS3D01G331500 chr4D 87.188 320 14 4 7719 8013 288818099 288818416 1.040000e-88 339.0
73 TraesCS3D01G331500 chr4D 88.194 288 26 3 3721 4001 366320561 366320847 3.750000e-88 337.0
74 TraesCS3D01G331500 chr4D 94.783 115 6 0 3935 4049 509048875 509048989 6.680000e-41 180.0
75 TraesCS3D01G331500 chr2D 87.937 945 77 24 5837 6768 78796822 78797742 0.000000e+00 1079.0
76 TraesCS3D01G331500 chr2D 87.287 645 44 17 5010 5636 592104109 592104733 0.000000e+00 702.0
77 TraesCS3D01G331500 chr2D 89.925 268 24 3 3376 3641 560281197 560280931 8.050000e-90 342.0
78 TraesCS3D01G331500 chr2D 86.283 226 27 1 7510 7731 27633725 27633950 8.400000e-60 243.0
79 TraesCS3D01G331500 chr7A 87.043 957 81 23 5837 6768 113427510 113428448 0.000000e+00 1040.0
80 TraesCS3D01G331500 chr7A 90.668 793 57 14 5357 6140 38531699 38532483 0.000000e+00 1038.0
81 TraesCS3D01G331500 chr7A 90.668 793 57 14 5357 6140 38580756 38581540 0.000000e+00 1038.0
82 TraesCS3D01G331500 chr7A 90.416 793 59 14 5357 6140 38556221 38557005 0.000000e+00 1027.0
83 TraesCS3D01G331500 chr7A 90.290 793 60 14 5357 6140 38608364 38609148 0.000000e+00 1022.0
84 TraesCS3D01G331500 chr7A 90.189 795 60 15 5357 6141 38648573 38649359 0.000000e+00 1020.0
85 TraesCS3D01G331500 chr7A 89.912 793 63 13 5357 6140 38619818 38620602 0.000000e+00 1005.0
86 TraesCS3D01G331500 chr7A 86.264 728 41 28 7703 8376 118562812 118562090 0.000000e+00 736.0
87 TraesCS3D01G331500 chr7A 86.149 296 33 5 723 1014 619256036 619255745 6.310000e-81 313.0
88 TraesCS3D01G331500 chrUn 90.416 793 59 14 5357 6140 338526379 338525595 0.000000e+00 1027.0
89 TraesCS3D01G331500 chrUn 87.132 645 45 17 5010 5636 8489059 8489683 0.000000e+00 697.0
90 TraesCS3D01G331500 chrUn 86.047 172 17 7 723 891 67085921 67085754 2.400000e-40 178.0
91 TraesCS3D01G331500 chr2B 90.821 719 59 7 6762 7475 639524052 639523336 0.000000e+00 955.0
92 TraesCS3D01G331500 chr2B 86.378 624 43 17 6117 6718 635074566 635075169 1.970000e-180 643.0
93 TraesCS3D01G331500 chr2B 85.687 531 48 9 6046 6556 382244156 382243634 1.240000e-147 534.0
94 TraesCS3D01G331500 chr2B 90.076 262 24 2 3382 3641 116353591 116353852 1.040000e-88 339.0
95 TraesCS3D01G331500 chr2B 94.505 91 4 1 6675 6765 546783755 546783666 1.130000e-28 139.0
96 TraesCS3D01G331500 chr2B 93.407 91 5 1 6675 6765 50042438 50042527 5.270000e-27 134.0
97 TraesCS3D01G331500 chr6D 92.308 689 17 13 7719 8376 440823060 440823743 0.000000e+00 946.0
98 TraesCS3D01G331500 chr6D 91.557 687 23 8 7719 8376 142761115 142761795 0.000000e+00 915.0
99 TraesCS3D01G331500 chr6D 87.518 705 41 22 7706 8376 225058175 225057484 0.000000e+00 771.0
100 TraesCS3D01G331500 chr6D 88.889 378 29 6 4827 5195 441623115 441622742 3.560000e-123 453.0
101 TraesCS3D01G331500 chr6D 87.701 374 32 11 2245 2605 253726249 253726621 2.790000e-114 424.0
102 TraesCS3D01G331500 chr6D 90.265 226 15 3 4827 5046 460156842 460157066 1.060000e-73 289.0
103 TraesCS3D01G331500 chr6D 90.845 142 11 2 2081 2220 253726164 253726305 1.110000e-43 189.0
104 TraesCS3D01G331500 chr3B 91.043 681 47 8 1905 2573 732147026 732147704 0.000000e+00 907.0
105 TraesCS3D01G331500 chr3B 91.700 506 32 7 3122 3623 769469583 769470082 0.000000e+00 693.0
106 TraesCS3D01G331500 chr3B 89.943 527 40 8 1905 2418 790620599 790621125 0.000000e+00 667.0
107 TraesCS3D01G331500 chr3B 85.954 477 58 8 1440 1911 732146101 732146573 1.260000e-137 501.0
108 TraesCS3D01G331500 chr3B 84.342 479 47 8 6133 6593 9159348 9159816 2.150000e-120 444.0
109 TraesCS3D01G331500 chr3A 89.833 718 57 9 6763 7475 135998188 135997482 0.000000e+00 907.0
110 TraesCS3D01G331500 chr3A 89.459 721 62 8 6763 7476 648186337 648187050 0.000000e+00 898.0
111 TraesCS3D01G331500 chr1A 91.454 667 34 15 7729 8376 222859149 222858487 0.000000e+00 894.0
112 TraesCS3D01G331500 chr1A 87.097 589 59 10 5840 6418 7690336 7689755 0.000000e+00 651.0
113 TraesCS3D01G331500 chr1A 90.667 75 7 0 1175 1249 41739167 41739093 5.350000e-17 100.0
114 TraesCS3D01G331500 chr1B 89.755 693 27 15 7719 8376 434791573 434790890 0.000000e+00 846.0
115 TraesCS3D01G331500 chr1B 89.913 575 44 7 2010 2573 595341739 595342310 0.000000e+00 728.0
116 TraesCS3D01G331500 chr1B 92.262 504 32 4 3122 3623 371490795 371491293 0.000000e+00 708.0
117 TraesCS3D01G331500 chr1B 86.202 645 49 18 5010 5636 635879390 635878768 0.000000e+00 662.0
118 TraesCS3D01G331500 chr1B 87.265 479 49 8 1440 1911 595340320 595340793 3.440000e-148 536.0
119 TraesCS3D01G331500 chr1B 95.413 109 5 0 1913 2021 595341256 595341364 3.110000e-39 174.0
120 TraesCS3D01G331500 chr7B 86.293 642 53 18 5010 5636 68749921 68749300 0.000000e+00 665.0
121 TraesCS3D01G331500 chr7B 88.372 129 13 2 3922 4049 538560673 538560546 4.050000e-33 154.0
122 TraesCS3D01G331500 chr6A 89.744 429 33 9 2175 2592 545803250 545802822 9.570000e-149 538.0
123 TraesCS3D01G331500 chr6A 85.498 462 48 11 1451 1909 545803733 545803288 1.650000e-126 464.0
124 TraesCS3D01G331500 chr6A 85.938 128 12 6 2032 2154 545803250 545803124 1.900000e-26 132.0
125 TraesCS3D01G331500 chr5A 90.667 75 7 0 1175 1249 510016325 510016399 5.350000e-17 100.0


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 TraesCS3D01G331500 chr3D 443669415 443677790 8375 True 15468.000000 15468 100.000000 1 8376 1 chr3D.!!$R2 8375
1 TraesCS3D01G331500 chr3D 539840814 539841542 728 True 1229.000000 1229 97.123000 1 728 1 chr3D.!!$R4 727
2 TraesCS3D01G331500 chr3D 515137698 515138422 724 False 1206.000000 1206 96.699000 1 725 1 chr3D.!!$F3 724
3 TraesCS3D01G331500 chr3D 500865523 500866238 715 True 959.000000 959 90.947000 6763 7475 1 chr3D.!!$R3 712
4 TraesCS3D01G331500 chr3D 480169792 480170463 671 False 941.000000 941 92.582000 7730 8376 1 chr3D.!!$F2 646
5 TraesCS3D01G331500 chr3D 596703410 596704257 847 False 267.000000 525 89.089500 1440 2592 4 chr3D.!!$F5 1152
6 TraesCS3D01G331500 chr4A 56481874 56485038 3164 True 5319.000000 5319 97.001000 1833 4998 1 chr4A.!!$R2 3165
7 TraesCS3D01G331500 chr4A 56470266 56472999 2733 True 4686.000000 4686 97.590000 4994 7730 1 chr4A.!!$R1 2736
8 TraesCS3D01G331500 chr4A 56493919 56495059 1140 True 1591.000000 1591 92.213000 724 1839 1 chr4A.!!$R3 1115
9 TraesCS3D01G331500 chr4A 98601221 98602261 1040 True 1441.000000 1441 91.778000 3721 4756 1 chr4A.!!$R4 1035
10 TraesCS3D01G331500 chr2A 578012963 578017975 5012 True 1690.666667 3845 92.299000 4145 7729 3 chr2A.!!$R3 3584
11 TraesCS3D01G331500 chr2A 291673580 291674159 579 True 676.000000 676 87.925000 5840 6417 1 chr2A.!!$R1 577
12 TraesCS3D01G331500 chr6B 101433857 101436076 2219 False 1859.500000 2466 96.665000 2549 5309 2 chr6B.!!$F1 2760
13 TraesCS3D01G331500 chr5B 606968841 606969912 1071 True 1727.000000 1727 95.737000 2431 3504 1 chr5B.!!$R5 1073
14 TraesCS3D01G331500 chr5B 42948829 42949543 714 False 931.000000 931 90.251000 6763 7475 1 chr5B.!!$F1 712
15 TraesCS3D01G331500 chr5B 22356595 22357219 624 True 669.000000 669 86.357000 5010 5636 1 chr5B.!!$R1 626
16 TraesCS3D01G331500 chr5B 492796128 492796707 579 False 660.000000 660 87.415000 5837 6414 1 chr5B.!!$F4 577
17 TraesCS3D01G331500 chr4B 580714877 580716828 1951 True 1200.000000 1280 90.857500 4755 6765 2 chr4B.!!$R2 2010
18 TraesCS3D01G331500 chr4B 580697962 580698703 741 True 976.000000 976 90.457000 6763 7502 1 chr4B.!!$R1 739
19 TraesCS3D01G331500 chr4B 450912216 450913642 1426 False 699.500000 1059 90.214500 3721 4756 2 chr4B.!!$F4 1035
20 TraesCS3D01G331500 chr7D 375476000 375476724 724 False 1223.000000 1223 97.111000 1 725 1 chr7D.!!$F2 724
21 TraesCS3D01G331500 chr7D 128700179 128700908 729 True 1214.000000 1214 96.712000 1 728 1 chr7D.!!$R1 727
22 TraesCS3D01G331500 chr7D 108485402 108486342 940 False 1048.000000 1048 87.161000 5837 6768 1 chr7D.!!$F1 931
23 TraesCS3D01G331500 chr7D 204836550 204837228 678 True 920.000000 920 91.924000 7729 8376 1 chr7D.!!$R2 647
24 TraesCS3D01G331500 chr7D 548338229 548339251 1022 True 564.000000 878 87.964000 6773 7729 2 chr7D.!!$R3 956
25 TraesCS3D01G331500 chr5D 90048423 90049146 723 False 1219.000000 1219 97.103000 1 723 1 chr5D.!!$F1 722
26 TraesCS3D01G331500 chr5D 277051866 277052591 725 False 1218.000000 1218 96.974000 1 725 1 chr5D.!!$F3 724
27 TraesCS3D01G331500 chr5D 127006742 127007428 686 False 909.000000 909 91.304000 7719 8376 1 chr5D.!!$F2 657
28 TraesCS3D01G331500 chr5D 67318324 67319000 676 True 824.000000 824 89.474000 7729 8376 1 chr5D.!!$R1 647
29 TraesCS3D01G331500 chr5D 529401543 529402150 607 False 689.000000 689 87.961000 7719 8307 1 chr5D.!!$F4 588
30 TraesCS3D01G331500 chr1D 424562149 424562877 728 True 1212.000000 1212 96.712000 1 728 1 chr1D.!!$R3 727
31 TraesCS3D01G331500 chr1D 83110265 83110993 728 True 1206.000000 1206 96.575000 1 728 1 chr1D.!!$R1 727
32 TraesCS3D01G331500 chr1D 84739878 84741276 1398 False 1056.000000 1203 93.986500 1 8376 2 chr1D.!!$F2 8375
33 TraesCS3D01G331500 chr1D 142758757 142759430 673 True 928.000000 928 92.194000 7729 8376 1 chr1D.!!$R2 647
34 TraesCS3D01G331500 chr4D 403564942 403565615 673 True 915.000000 915 91.852000 7730 8376 1 chr4D.!!$R1 646
35 TraesCS3D01G331500 chr4D 460763218 460763914 696 True 780.000000 780 87.960000 7719 8376 1 chr4D.!!$R2 657
36 TraesCS3D01G331500 chr4D 398507287 398507956 669 False 754.000000 754 87.591000 7719 8375 1 chr4D.!!$F2 656
37 TraesCS3D01G331500 chr4D 366320561 366321996 1435 False 747.500000 1158 91.094500 3721 4756 2 chr4D.!!$F4 1035
38 TraesCS3D01G331500 chr2D 78796822 78797742 920 False 1079.000000 1079 87.937000 5837 6768 1 chr2D.!!$F2 931
39 TraesCS3D01G331500 chr2D 592104109 592104733 624 False 702.000000 702 87.287000 5010 5636 1 chr2D.!!$F3 626
40 TraesCS3D01G331500 chr7A 113427510 113428448 938 False 1040.000000 1040 87.043000 5837 6768 1 chr7A.!!$F7 931
41 TraesCS3D01G331500 chr7A 38531699 38532483 784 False 1038.000000 1038 90.668000 5357 6140 1 chr7A.!!$F1 783
42 TraesCS3D01G331500 chr7A 38580756 38581540 784 False 1038.000000 1038 90.668000 5357 6140 1 chr7A.!!$F3 783
43 TraesCS3D01G331500 chr7A 38556221 38557005 784 False 1027.000000 1027 90.416000 5357 6140 1 chr7A.!!$F2 783
44 TraesCS3D01G331500 chr7A 38608364 38609148 784 False 1022.000000 1022 90.290000 5357 6140 1 chr7A.!!$F4 783
45 TraesCS3D01G331500 chr7A 38648573 38649359 786 False 1020.000000 1020 90.189000 5357 6141 1 chr7A.!!$F6 784
46 TraesCS3D01G331500 chr7A 38619818 38620602 784 False 1005.000000 1005 89.912000 5357 6140 1 chr7A.!!$F5 783
47 TraesCS3D01G331500 chr7A 118562090 118562812 722 True 736.000000 736 86.264000 7703 8376 1 chr7A.!!$R1 673
48 TraesCS3D01G331500 chrUn 338525595 338526379 784 True 1027.000000 1027 90.416000 5357 6140 1 chrUn.!!$R2 783
49 TraesCS3D01G331500 chrUn 8489059 8489683 624 False 697.000000 697 87.132000 5010 5636 1 chrUn.!!$F1 626
50 TraesCS3D01G331500 chr2B 639523336 639524052 716 True 955.000000 955 90.821000 6762 7475 1 chr2B.!!$R3 713
51 TraesCS3D01G331500 chr2B 635074566 635075169 603 False 643.000000 643 86.378000 6117 6718 1 chr2B.!!$F3 601
52 TraesCS3D01G331500 chr2B 382243634 382244156 522 True 534.000000 534 85.687000 6046 6556 1 chr2B.!!$R1 510
53 TraesCS3D01G331500 chr6D 440823060 440823743 683 False 946.000000 946 92.308000 7719 8376 1 chr6D.!!$F2 657
54 TraesCS3D01G331500 chr6D 142761115 142761795 680 False 915.000000 915 91.557000 7719 8376 1 chr6D.!!$F1 657
55 TraesCS3D01G331500 chr6D 225057484 225058175 691 True 771.000000 771 87.518000 7706 8376 1 chr6D.!!$R1 670
56 TraesCS3D01G331500 chr3B 732146101 732147704 1603 False 704.000000 907 88.498500 1440 2573 2 chr3B.!!$F4 1133
57 TraesCS3D01G331500 chr3B 790620599 790621125 526 False 667.000000 667 89.943000 1905 2418 1 chr3B.!!$F3 513
58 TraesCS3D01G331500 chr3A 135997482 135998188 706 True 907.000000 907 89.833000 6763 7475 1 chr3A.!!$R1 712
59 TraesCS3D01G331500 chr3A 648186337 648187050 713 False 898.000000 898 89.459000 6763 7476 1 chr3A.!!$F1 713
60 TraesCS3D01G331500 chr1A 222858487 222859149 662 True 894.000000 894 91.454000 7729 8376 1 chr1A.!!$R3 647
61 TraesCS3D01G331500 chr1A 7689755 7690336 581 True 651.000000 651 87.097000 5840 6418 1 chr1A.!!$R1 578
62 TraesCS3D01G331500 chr1B 434790890 434791573 683 True 846.000000 846 89.755000 7719 8376 1 chr1B.!!$R1 657
63 TraesCS3D01G331500 chr1B 635878768 635879390 622 True 662.000000 662 86.202000 5010 5636 1 chr1B.!!$R2 626
64 TraesCS3D01G331500 chr1B 595340320 595342310 1990 False 479.333333 728 90.863667 1440 2573 3 chr1B.!!$F2 1133
65 TraesCS3D01G331500 chr7B 68749300 68749921 621 True 665.000000 665 86.293000 5010 5636 1 chr7B.!!$R1 626
66 TraesCS3D01G331500 chr6A 545802822 545803733 911 True 378.000000 538 87.060000 1451 2592 3 chr6A.!!$R1 1141

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
715 719 0.469917 ATCAACGGGCTATGGAGGTG 59.530 55.000 0.00 0.00 0.00 4.00 F
1340 1369 0.321671 ATGAGTCCCACTGTCAACGG 59.678 55.000 0.00 0.00 0.00 4.44 F
1552 1581 0.825010 AACCCAAGCTGAGTTGCCTG 60.825 55.000 0.00 0.00 0.00 4.85 F
1614 1643 1.003718 CCCCCGTTTCCACTGTCTC 60.004 63.158 0.00 0.00 0.00 3.36 F
1615 1644 1.481056 CCCCCGTTTCCACTGTCTCT 61.481 60.000 0.00 0.00 0.00 3.10 F
2520 3415 2.040278 TGCCTGGCAGATAGTTCAAGTT 59.960 45.455 19.30 0.00 33.32 2.66 F
2776 3675 3.920231 TCTCTGAACTGGCATAGCATT 57.080 42.857 0.00 0.00 0.00 3.56 F
4402 5716 0.950836 CCTGATTGTCGGTGCAACAA 59.049 50.000 0.98 3.35 39.98 2.83 F
5486 8125 5.043903 CAGTACACCGAATCCTATGACTTG 58.956 45.833 0.00 0.00 0.00 3.16 F
6619 9302 3.126831 AGCGATTCTCTTTTAGATGCGG 58.873 45.455 0.00 0.00 34.28 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2418 3313 2.039084 AGGTCAGGTTACTTCCAGCAAG 59.961 50.000 0.00 0.0 38.21 4.01 R
3156 4058 0.693049 AAAGGGCCTCAACGTCTCAT 59.307 50.000 6.46 0.0 0.00 2.90 R
3521 4423 7.862274 AGGAGATAGATATCAACATGTCCAA 57.138 36.000 20.67 0.0 35.17 3.53 R
3594 4496 8.519799 TTCCAGATTGTTTAGGATATTTCACC 57.480 34.615 0.00 0.0 0.00 4.02 R
3623 4525 9.155975 GAACACGATTATCCATTCAAGCTATAT 57.844 33.333 0.00 0.0 0.00 0.86 R
4402 5716 0.036010 CCGGCTTTGATCTGTCCAGT 60.036 55.000 0.00 0.0 0.00 4.00 R
4467 5781 1.335145 AAGGCAGCAAGCATTCAACT 58.665 45.000 0.00 0.0 45.41 3.16 R
6327 8987 1.447314 GAAAGGGGCGGTGAGTACG 60.447 63.158 0.00 0.0 0.00 3.67 R
7319 10018 1.160137 GCACTCCACAGGTCATTCAC 58.840 55.000 0.00 0.0 0.00 3.18 R
7508 10325 5.862924 AGTTCAACATGTTCATAAGACCG 57.137 39.130 8.48 0.0 0.00 4.79 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
49 51 3.495377 CGTTTGGACTCCGTTTGTATTCA 59.505 43.478 0.00 0.00 0.00 2.57
269 272 2.947652 TCGTCCTCGAGTAGGTAAATGG 59.052 50.000 12.31 0.00 46.62 3.16
362 365 7.478322 CATGAATGTTCAGATCCGAAAGATTT 58.522 34.615 1.65 0.00 41.08 2.17
448 451 6.433716 TCATGTCTTCTCAAAATAACATGGCA 59.566 34.615 11.95 0.00 42.52 4.92
520 523 9.349713 TCTTCACCACACAAAGTATTTAAATCT 57.650 29.630 3.39 0.00 35.03 2.40
557 560 3.870419 GACAAGCCAAGCAATTGTTTCAA 59.130 39.130 4.35 0.00 37.29 2.69
662 666 2.174639 TGGTGGTTGTGGAGAAGACAAT 59.825 45.455 0.00 0.00 35.81 2.71
692 696 7.500892 GGAGAAGATAGTCTCACATCAACTAGA 59.499 40.741 0.00 0.00 45.03 2.43
701 705 6.469595 GTCTCACATCAACTAGACGTATCAAC 59.530 42.308 0.00 0.00 30.03 3.18
712 716 2.065993 CGTATCAACGGGCTATGGAG 57.934 55.000 0.00 0.00 45.50 3.86
713 717 1.336887 CGTATCAACGGGCTATGGAGG 60.337 57.143 0.00 0.00 45.50 4.30
714 718 1.692519 GTATCAACGGGCTATGGAGGT 59.307 52.381 0.00 0.00 0.00 3.85
715 719 0.469917 ATCAACGGGCTATGGAGGTG 59.530 55.000 0.00 0.00 0.00 4.00
716 720 1.819632 CAACGGGCTATGGAGGTGC 60.820 63.158 0.00 0.00 0.00 5.01
717 721 3.043999 AACGGGCTATGGAGGTGCC 62.044 63.158 0.00 0.00 45.42 5.01
721 725 1.073897 GGCTATGGAGGTGCCCATC 59.926 63.158 0.00 0.00 43.07 3.51
722 726 1.708993 GGCTATGGAGGTGCCCATCA 61.709 60.000 0.00 0.00 43.07 3.07
736 740 4.816385 GTGCCCATCAATCGAGAAATAAGA 59.184 41.667 0.00 0.00 0.00 2.10
744 748 7.776933 TCAATCGAGAAATAAGAATGACAGG 57.223 36.000 0.00 0.00 0.00 4.00
779 783 5.567623 GCTCCTCAGCGATTTATGATTCCTA 60.568 44.000 0.00 0.00 35.39 2.94
780 784 6.419484 TCCTCAGCGATTTATGATTCCTAA 57.581 37.500 0.00 0.00 0.00 2.69
834 838 3.917760 CGGATCGAGCCCTGGGAC 61.918 72.222 19.27 8.07 0.00 4.46
853 857 2.443952 ACCTCGGCCATCGGATCA 60.444 61.111 2.24 0.00 39.77 2.92
882 886 4.572389 GTGACCCTGTAGCAATGAATAGTG 59.428 45.833 0.00 0.00 0.00 2.74
913 917 3.192922 GCCACCGCGCGTAATTCT 61.193 61.111 29.95 0.00 0.00 2.40
916 920 1.355796 CCACCGCGCGTAATTCTGAA 61.356 55.000 29.95 0.00 0.00 3.02
919 923 0.996462 CCGCGCGTAATTCTGAAGAA 59.004 50.000 29.95 0.00 38.56 2.52
923 927 1.266891 CGCGTAATTCTGAAGAACCGC 60.267 52.381 17.07 17.07 41.42 5.68
950 954 4.445385 GGGCATTTTCATCATTTCGCATAC 59.555 41.667 0.00 0.00 0.00 2.39
1197 1226 3.691342 CTCCCACGCTCGTTCCCA 61.691 66.667 0.00 0.00 0.00 4.37
1245 1274 1.110442 CATCTCCTCTCGCACTTCCT 58.890 55.000 0.00 0.00 0.00 3.36
1284 1313 3.357079 CGTGCTTCACCACCTGGC 61.357 66.667 0.00 0.00 39.32 4.85
1336 1365 0.610174 GCAGATGAGTCCCACTGTCA 59.390 55.000 0.00 0.00 33.57 3.58
1340 1369 0.321671 ATGAGTCCCACTGTCAACGG 59.678 55.000 0.00 0.00 0.00 4.44
1346 1375 4.846551 CACTGTCAACGGTGGTGA 57.153 55.556 13.25 0.00 46.65 4.02
1354 1383 2.067605 AACGGTGGTGAGGGTGACA 61.068 57.895 0.00 0.00 0.00 3.58
1373 1402 1.797933 CACAACTCCGACGAGCTCG 60.798 63.158 33.45 33.45 46.33 5.03
1400 1429 2.522436 AGACCGACGGACAACCCA 60.522 61.111 23.38 0.00 34.14 4.51
1407 1436 4.289245 CGGACAACCCACGGTCGT 62.289 66.667 0.00 0.00 33.12 4.34
1416 1445 4.059459 CACGGTCGTCGCTTGCAC 62.059 66.667 0.00 0.00 43.89 4.57
1446 1475 2.184322 GAGGCGACCTGATGCGAA 59.816 61.111 2.98 0.00 31.76 4.70
1477 1506 2.362375 GCTTCCCCGCCAAATCCA 60.362 61.111 0.00 0.00 0.00 3.41
1533 1562 2.027745 GTGCATCTCTGGGAAGAAGACA 60.028 50.000 0.00 0.00 0.00 3.41
1547 1576 2.173569 AGAAGACAACCCAAGCTGAGTT 59.826 45.455 0.00 0.00 0.00 3.01
1552 1581 0.825010 AACCCAAGCTGAGTTGCCTG 60.825 55.000 0.00 0.00 0.00 4.85
1614 1643 1.003718 CCCCCGTTTCCACTGTCTC 60.004 63.158 0.00 0.00 0.00 3.36
1615 1644 1.481056 CCCCCGTTTCCACTGTCTCT 61.481 60.000 0.00 0.00 0.00 3.10
1670 1699 7.064016 CGAGATTCGATCAGATGTGTCTATCTA 59.936 40.741 0.00 0.00 43.74 1.98
2050 2932 3.900966 AGCTAGATCACACATGCAGAA 57.099 42.857 0.00 0.00 0.00 3.02
2051 2933 4.418973 AGCTAGATCACACATGCAGAAT 57.581 40.909 0.00 0.00 0.00 2.40
2351 3238 3.699038 TGCCTGGCAAAATACAATACTCC 59.301 43.478 21.08 0.00 34.76 3.85
2449 3344 6.264518 GGAAGTAACCTGACCTTTCAAAATCA 59.735 38.462 0.00 0.00 0.00 2.57
2520 3415 2.040278 TGCCTGGCAGATAGTTCAAGTT 59.960 45.455 19.30 0.00 33.32 2.66
2776 3675 3.920231 TCTCTGAACTGGCATAGCATT 57.080 42.857 0.00 0.00 0.00 3.56
3156 4058 4.524714 TGGTTGTTTGTTTCAGTTTGGAGA 59.475 37.500 0.00 0.00 0.00 3.71
3361 4263 7.229907 TGCTGTTTTCATGTATATGAGATGCAT 59.770 33.333 0.00 0.00 43.76 3.96
3370 4272 7.967890 TGTATATGAGATGCATGTAAACTGG 57.032 36.000 2.46 0.00 37.87 4.00
3521 4423 5.523438 ACTGAGAGTCGTTCTTTTCTTCT 57.477 39.130 0.00 0.00 35.87 2.85
3931 4840 4.081198 TGGAACAAGCCACAATTCAGTTTT 60.081 37.500 0.00 0.00 31.92 2.43
4402 5716 0.950836 CCTGATTGTCGGTGCAACAA 59.049 50.000 0.98 3.35 39.98 2.83
4467 5781 6.351711 CCTCATGAAATACAATCAGGTCTCA 58.648 40.000 0.00 0.00 30.99 3.27
5150 7774 7.715657 TGTCATAAAAATGCATAGGACCATTC 58.284 34.615 0.00 0.00 33.20 2.67
5486 8125 5.043903 CAGTACACCGAATCCTATGACTTG 58.956 45.833 0.00 0.00 0.00 3.16
6327 8987 6.371809 TTTAGACATTGGCCATATTCGTTC 57.628 37.500 6.09 0.00 0.00 3.95
6619 9302 3.126831 AGCGATTCTCTTTTAGATGCGG 58.873 45.455 0.00 0.00 34.28 5.69
7508 10325 1.197721 GTACATGTTCACCTGCAGCAC 59.802 52.381 8.66 2.39 0.00 4.40
7698 10519 1.529713 AAAACGTTGGGACCGGCAT 60.530 52.632 0.00 0.00 0.00 4.40
7843 10688 3.333680 AGACCTAGGGCATTTTGAGGAAA 59.666 43.478 19.45 0.00 0.00 3.13
7854 10699 5.569227 GCATTTTGAGGAAACCCATCATTGA 60.569 40.000 0.00 0.00 0.00 2.57
7866 10711 7.658525 AACCCATCATTGAAATATACAAGCA 57.341 32.000 0.00 0.00 0.00 3.91
7869 10714 7.981225 ACCCATCATTGAAATATACAAGCAAAC 59.019 33.333 0.00 0.00 0.00 2.93
7988 10834 7.393515 GTGGAAAAAGGATAGTAACATTGTCCT 59.606 37.037 8.37 0.00 40.91 3.85
8255 11171 4.155462 CGGGATATGCAATGAATCAAGAGG 59.845 45.833 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 51 6.381801 CCTATTTCAGTGTTTCGCAGAAAAT 58.618 36.000 5.51 0.00 45.90 1.82
419 422 9.850628 CATGTTATTTTGAGAAGACATGATTGT 57.149 29.630 0.00 0.00 44.21 2.71
520 523 0.466372 TTGTCATCGGGGTTGTGCAA 60.466 50.000 0.00 0.00 0.00 4.08
621 624 6.043243 CCACCATTCTATTCCACCTATAGTGT 59.957 42.308 0.00 0.00 45.74 3.55
662 666 8.470805 GTTGATGTGAGACTATCTTCTCCTTTA 58.529 37.037 0.00 0.00 41.34 1.85
692 696 1.340248 CTCCATAGCCCGTTGATACGT 59.660 52.381 0.00 0.00 46.20 3.57
713 717 4.816385 TCTTATTTCTCGATTGATGGGCAC 59.184 41.667 0.00 0.00 0.00 5.01
714 718 5.034852 TCTTATTTCTCGATTGATGGGCA 57.965 39.130 0.00 0.00 0.00 5.36
715 719 6.205464 TCATTCTTATTTCTCGATTGATGGGC 59.795 38.462 0.00 0.00 0.00 5.36
716 720 7.227314 TGTCATTCTTATTTCTCGATTGATGGG 59.773 37.037 0.00 0.00 0.00 4.00
717 721 8.146479 TGTCATTCTTATTTCTCGATTGATGG 57.854 34.615 0.00 0.00 0.00 3.51
718 722 8.281194 CCTGTCATTCTTATTTCTCGATTGATG 58.719 37.037 0.00 0.00 0.00 3.07
719 723 7.041508 GCCTGTCATTCTTATTTCTCGATTGAT 60.042 37.037 0.00 0.00 0.00 2.57
720 724 6.258727 GCCTGTCATTCTTATTTCTCGATTGA 59.741 38.462 0.00 0.00 0.00 2.57
721 725 6.037500 TGCCTGTCATTCTTATTTCTCGATTG 59.962 38.462 0.00 0.00 0.00 2.67
722 726 6.115446 TGCCTGTCATTCTTATTTCTCGATT 58.885 36.000 0.00 0.00 0.00 3.34
765 769 7.360101 CGATCCAACGGTTAGGAATCATAAATC 60.360 40.741 13.47 6.01 37.48 2.17
770 774 3.134081 ACGATCCAACGGTTAGGAATCAT 59.866 43.478 13.47 1.34 37.48 2.45
771 775 2.498481 ACGATCCAACGGTTAGGAATCA 59.502 45.455 13.47 0.00 37.48 2.57
779 783 1.314730 AGCAAAACGATCCAACGGTT 58.685 45.000 0.00 0.00 45.18 4.44
780 784 1.001815 CAAGCAAAACGATCCAACGGT 60.002 47.619 0.00 0.00 37.61 4.83
811 815 4.688966 GGGCTCGATCCGATGGCC 62.689 72.222 10.07 10.07 43.40 5.36
834 838 3.559657 GATCCGATGGCCGAGGTCG 62.560 68.421 10.24 10.80 41.76 4.79
845 849 1.486726 GGGTCACCTCTTTGATCCGAT 59.513 52.381 0.00 0.00 37.03 4.18
853 857 1.729586 TGCTACAGGGTCACCTCTTT 58.270 50.000 0.00 0.00 46.95 2.52
908 912 1.676014 CCTCGGCGGTTCTTCAGAATT 60.676 52.381 7.21 0.00 36.33 2.17
913 917 4.388499 GCCCTCGGCGGTTCTTCA 62.388 66.667 7.21 0.00 39.62 3.02
923 927 3.709987 GAAATGATGAAAATGCCCTCGG 58.290 45.455 0.00 0.00 0.00 4.63
931 935 4.261572 CCCCGTATGCGAAATGATGAAAAT 60.262 41.667 4.21 0.00 41.33 1.82
937 941 0.108585 AGCCCCGTATGCGAAATGAT 59.891 50.000 4.21 0.00 41.33 2.45
939 943 1.808411 ATAGCCCCGTATGCGAAATG 58.192 50.000 4.21 0.00 41.33 2.32
1086 1115 2.870161 CAAGAGACGACGCGACGG 60.870 66.667 31.73 15.80 37.61 4.79
1093 1122 2.579738 GGGGGAGCAAGAGACGAC 59.420 66.667 0.00 0.00 0.00 4.34
1197 1226 0.463295 CGGCATGAGAGAGGCAACAT 60.463 55.000 0.00 0.00 41.41 2.71
1231 1260 1.216710 GGACAGGAAGTGCGAGAGG 59.783 63.158 0.00 0.00 0.00 3.69
1336 1365 2.067605 TGTCACCCTCACCACCGTT 61.068 57.895 0.00 0.00 0.00 4.44
1340 1369 0.107410 TTGTGTGTCACCCTCACCAC 60.107 55.000 0.00 0.00 36.87 4.16
1346 1375 1.046472 TCGGAGTTGTGTGTCACCCT 61.046 55.000 0.00 0.00 32.73 4.34
1354 1383 1.286260 GAGCTCGTCGGAGTTGTGT 59.714 57.895 0.00 0.00 42.53 3.72
1373 1402 4.083862 GTCGGTCTCCCCACTGCC 62.084 72.222 0.00 0.00 0.00 4.85
1374 1403 4.436998 CGTCGGTCTCCCCACTGC 62.437 72.222 0.00 0.00 0.00 4.40
1383 1412 2.522436 TGGGTTGTCCGTCGGTCT 60.522 61.111 11.88 0.00 38.76 3.85
1388 1417 2.356673 GACCGTGGGTTGTCCGTC 60.357 66.667 0.00 0.00 35.25 4.79
1390 1419 4.289245 ACGACCGTGGGTTGTCCG 62.289 66.667 1.75 0.00 46.45 4.79
1395 1424 3.920196 AAGCGACGACCGTGGGTT 61.920 61.111 14.34 14.34 39.13 4.11
1407 1436 2.738521 GCCTTCTCGTGCAAGCGA 60.739 61.111 0.00 0.00 39.22 4.93
1416 1445 4.214327 GCCTCCCTCGCCTTCTCG 62.214 72.222 0.00 0.00 0.00 4.04
1533 1562 4.181051 GGCAACTCAGCTTGGGTT 57.819 55.556 0.00 0.00 42.84 4.11
1552 1581 4.742201 TTCTCACTGCGGCTCGGC 62.742 66.667 0.00 0.00 0.00 5.54
1614 1643 8.522830 GGATGAATAGGTAAATCTGAGAGAGAG 58.477 40.741 0.00 0.00 32.80 3.20
1615 1644 8.007153 TGGATGAATAGGTAAATCTGAGAGAGA 58.993 37.037 0.00 0.00 34.25 3.10
1657 1686 7.094890 CCCTGCAAATGAATAGATAGACACATC 60.095 40.741 0.00 0.00 0.00 3.06
2343 3229 5.989477 TGTACCATTTCCTCTGGAGTATTG 58.011 41.667 0.00 0.00 37.22 1.90
2351 3238 2.947652 CCATGCTGTACCATTTCCTCTG 59.052 50.000 0.00 0.00 0.00 3.35
2418 3313 2.039084 AGGTCAGGTTACTTCCAGCAAG 59.961 50.000 0.00 0.00 38.21 4.01
2776 3675 2.369860 ACACTTTCCTGACAGCAGATCA 59.630 45.455 0.00 0.00 45.17 2.92
3135 4037 6.329496 TCATCTCCAAACTGAAACAAACAAC 58.671 36.000 0.00 0.00 0.00 3.32
3156 4058 0.693049 AAAGGGCCTCAACGTCTCAT 59.307 50.000 6.46 0.00 0.00 2.90
3521 4423 7.862274 AGGAGATAGATATCAACATGTCCAA 57.138 36.000 20.67 0.00 35.17 3.53
3594 4496 8.519799 TTCCAGATTGTTTAGGATATTTCACC 57.480 34.615 0.00 0.00 0.00 4.02
3623 4525 9.155975 GAACACGATTATCCATTCAAGCTATAT 57.844 33.333 0.00 0.00 0.00 0.86
3931 4840 4.517453 GCACAAAGATTGGTGTGGTTACTA 59.483 41.667 5.99 0.00 44.32 1.82
4402 5716 0.036010 CCGGCTTTGATCTGTCCAGT 60.036 55.000 0.00 0.00 0.00 4.00
4467 5781 1.335145 AAGGCAGCAAGCATTCAACT 58.665 45.000 0.00 0.00 45.41 3.16
5150 7774 5.047590 GTGGGTAACAATACAAGAAAAGGGG 60.048 44.000 0.00 0.00 39.74 4.79
5351 7990 5.509832 TTGGGCAGCTATGAGATGAATAT 57.490 39.130 0.00 0.00 32.38 1.28
6327 8987 1.447314 GAAAGGGGCGGTGAGTACG 60.447 63.158 0.00 0.00 0.00 3.67
6619 9302 3.195661 GGAAGTGGAATACATCGGACAC 58.804 50.000 0.00 0.00 0.00 3.67
7069 9758 1.825474 AGTATGGTCAACCTGAGTCGG 59.175 52.381 0.10 0.00 36.82 4.79
7319 10018 1.160137 GCACTCCACAGGTCATTCAC 58.840 55.000 0.00 0.00 0.00 3.18
7508 10325 5.862924 AGTTCAACATGTTCATAAGACCG 57.137 39.130 8.48 0.00 0.00 4.79
7843 10688 7.658525 TTGCTTGTATATTTCAATGATGGGT 57.341 32.000 0.00 0.00 0.00 4.51


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

AutoCloner maintained by Alex Coulton.