Multiple sequence alignment - TraesCS2A01G004900

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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 TraesCS2A01G004900 chr2A 100.000 8416 0 0 1 8416 2496245 2487830 0.000000e+00 15542.0
1 TraesCS2A01G004900 chr2A 84.394 3614 512 36 988 4572 2915299 2918889 0.000000e+00 3502.0
2 TraesCS2A01G004900 chr2A 85.909 3236 409 25 1540 4738 2321684 2324909 0.000000e+00 3406.0
3 TraesCS2A01G004900 chr2A 83.835 3452 506 34 1614 5027 2881572 2885009 0.000000e+00 3236.0
4 TraesCS2A01G004900 chr2A 85.076 2774 390 16 1612 4365 2363348 2366117 0.000000e+00 2808.0
5 TraesCS2A01G004900 chr2A 86.812 1380 146 15 4177 5526 2381071 2382444 0.000000e+00 1507.0
6 TraesCS2A01G004900 chr2A 93.092 608 38 4 6293 6898 2383022 2383627 0.000000e+00 887.0
7 TraesCS2A01G004900 chr2A 90.355 394 23 10 5678 6071 2382463 2382841 3.510000e-138 503.0
8 TraesCS2A01G004900 chr2A 82.653 588 42 28 5565 6129 2325516 2326066 4.600000e-127 466.0
9 TraesCS2A01G004900 chr2A 84.536 485 44 13 6908 7381 2384029 2384493 1.290000e-122 451.0
10 TraesCS2A01G004900 chr2A 90.431 209 16 3 5678 5883 2919810 2920017 1.080000e-68 272.0
11 TraesCS2A01G004900 chr2A 81.081 148 18 8 7178 7320 2229865 2230007 8.930000e-20 110.0
12 TraesCS2A01G004900 chr2A 91.304 69 6 0 6936 7004 2920475 2920543 2.500000e-15 95.3
13 TraesCS2A01G004900 chr2A 96.364 55 2 0 5914 5968 2920013 2920067 3.240000e-14 91.6
14 TraesCS2A01G004900 chr2A 84.337 83 6 1 6129 6211 2382837 2382912 3.260000e-09 75.0
15 TraesCS2A01G004900 chr2A 100.000 38 0 0 6139 6176 2326102 2326139 4.210000e-08 71.3
16 TraesCS2A01G004900 chr2B 89.996 5138 369 67 457 5526 9127973 9122913 0.000000e+00 6506.0
17 TraesCS2A01G004900 chr2B 93.514 3284 180 17 1155 4436 8994387 8997639 0.000000e+00 4854.0
18 TraesCS2A01G004900 chr2B 81.846 3933 636 49 1643 5526 9100017 9096114 0.000000e+00 3236.0
19 TraesCS2A01G004900 chr2B 84.975 2376 336 10 1540 3897 8339263 8341635 0.000000e+00 2390.0
20 TraesCS2A01G004900 chr2B 84.308 2326 341 16 996 3312 8592546 8594856 0.000000e+00 2252.0
21 TraesCS2A01G004900 chr2B 88.448 1108 105 7 4439 5526 8997788 8998892 0.000000e+00 1315.0
22 TraesCS2A01G004900 chr2B 92.047 679 43 7 6223 6898 9122333 9121663 0.000000e+00 944.0
23 TraesCS2A01G004900 chr2B 82.902 965 149 11 4568 5526 8342767 8343721 0.000000e+00 854.0
24 TraesCS2A01G004900 chr2B 88.321 548 39 8 7226 7761 9112608 9112074 1.190000e-177 634.0
25 TraesCS2A01G004900 chr2B 94.663 356 19 0 6234 6589 8999186 8999541 3.430000e-153 553.0
26 TraesCS2A01G004900 chr2B 80.000 720 114 17 675 1379 8385262 8385966 9.750000e-139 505.0
27 TraesCS2A01G004900 chr2B 93.396 318 18 2 5816 6132 9122822 9122507 1.280000e-127 468.0
28 TraesCS2A01G004900 chr2B 92.581 310 19 3 6592 6898 8999572 8999880 7.750000e-120 442.0
29 TraesCS2A01G004900 chr2B 85.294 238 25 7 6908 7138 8675087 8675321 3.930000e-58 237.0
30 TraesCS2A01G004900 chr2B 85.641 195 18 2 6908 7092 31365581 31365387 6.660000e-46 196.0
31 TraesCS2A01G004900 chr2B 86.740 181 12 7 5678 5857 8998911 8999080 3.100000e-44 191.0
32 TraesCS2A01G004900 chr2B 88.406 138 10 1 6908 7039 9000332 9000469 2.430000e-35 161.0
33 TraesCS2A01G004900 chr2B 76.667 360 39 25 5563 5882 8537874 8538228 3.140000e-34 158.0
34 TraesCS2A01G004900 chr2B 77.460 315 33 15 7259 7558 9094368 9094077 4.070000e-33 154.0
35 TraesCS2A01G004900 chr2B 95.789 95 2 1 130 224 9128493 9128401 1.460000e-32 152.0
36 TraesCS2A01G004900 chr2B 78.800 250 31 11 224 453 8665648 8665895 1.890000e-31 148.0
37 TraesCS2A01G004900 chr2B 87.069 116 14 1 224 338 8636760 8636645 6.860000e-26 130.0
38 TraesCS2A01G004900 chr2B 90.625 96 7 2 6908 7003 9090916 9090823 8.870000e-25 126.0
39 TraesCS2A01G004900 chr2B 79.459 185 25 7 5691 5875 8343752 8343923 1.480000e-22 119.0
40 TraesCS2A01G004900 chr2B 93.590 78 5 0 224 301 9128366 9128289 5.340000e-22 117.0
41 TraesCS2A01G004900 chr2B 79.213 178 18 6 7784 7948 8345205 8345376 1.160000e-18 106.0
42 TraesCS2A01G004900 chr2B 90.361 83 1 1 6129 6211 9122484 9122409 1.490000e-17 102.0
43 TraesCS2A01G004900 chr2B 93.939 66 3 1 8350 8414 8734633 8734698 1.930000e-16 99.0
44 TraesCS2A01G004900 chr2B 96.429 56 2 0 420 475 9128042 9127987 8.990000e-15 93.5
45 TraesCS2A01G004900 chrUn 87.745 4023 415 35 1544 5526 15918838 15914854 0.000000e+00 4626.0
46 TraesCS2A01G004900 chrUn 84.801 3928 514 51 1638 5514 15481217 15477322 0.000000e+00 3869.0
47 TraesCS2A01G004900 chrUn 83.991 4029 559 43 1548 5526 15550797 15554789 0.000000e+00 3788.0
48 TraesCS2A01G004900 chrUn 83.892 4029 560 45 1548 5526 15775001 15778990 0.000000e+00 3762.0
49 TraesCS2A01G004900 chrUn 88.884 2294 240 11 2532 4813 305054161 305056451 0.000000e+00 2809.0
50 TraesCS2A01G004900 chrUn 84.036 2775 359 35 1540 4287 330378950 330376233 0.000000e+00 2593.0
51 TraesCS2A01G004900 chrUn 90.525 686 53 9 6224 6898 15914238 15913554 0.000000e+00 896.0
52 TraesCS2A01G004900 chrUn 90.547 677 36 11 6223 6898 418518616 418519265 0.000000e+00 870.0
53 TraesCS2A01G004900 chrUn 93.798 516 28 2 7846 8358 15912410 15911896 0.000000e+00 773.0
54 TraesCS2A01G004900 chrUn 90.296 608 31 11 6223 6829 364736368 364736948 0.000000e+00 771.0
55 TraesCS2A01G004900 chrUn 87.179 624 61 11 6274 6890 15849728 15850339 0.000000e+00 691.0
56 TraesCS2A01G004900 chrUn 84.828 725 62 17 6908 7600 15913112 15912404 0.000000e+00 686.0
57 TraesCS2A01G004900 chrUn 90.315 444 18 5 5690 6132 15914819 15914400 7.380000e-155 558.0
58 TraesCS2A01G004900 chrUn 88.793 464 19 6 627 1061 15922803 15922344 9.610000e-149 538.0
59 TraesCS2A01G004900 chrUn 80.083 723 110 20 675 1379 15774207 15774913 2.710000e-139 507.0
60 TraesCS2A01G004900 chrUn 80.083 723 110 20 675 1379 424221242 424221948 2.710000e-139 507.0
61 TraesCS2A01G004900 chrUn 79.862 725 112 19 675 1379 15549999 15550709 4.540000e-137 499.0
62 TraesCS2A01G004900 chrUn 79.862 725 112 19 675 1379 241627993 241628703 4.540000e-137 499.0
63 TraesCS2A01G004900 chrUn 79.586 725 114 20 675 1379 410123783 410124493 9.820000e-134 488.0
64 TraesCS2A01G004900 chrUn 82.529 601 43 32 5555 6129 364735628 364736192 9.890000e-129 472.0
65 TraesCS2A01G004900 chrUn 81.750 537 88 7 849 1379 381159155 381159687 2.790000e-119 440.0
66 TraesCS2A01G004900 chrUn 83.533 334 25 15 5555 5862 460309972 460310301 1.380000e-72 285.0
67 TraesCS2A01G004900 chrUn 85.235 298 15 13 7514 7789 248043497 248043787 6.430000e-71 279.0
68 TraesCS2A01G004900 chrUn 84.899 298 16 13 7514 7789 15560159 15560449 2.990000e-69 274.0
69 TraesCS2A01G004900 chrUn 84.899 298 16 13 7514 7789 15780849 15781139 2.990000e-69 274.0
70 TraesCS2A01G004900 chrUn 84.899 298 16 11 7514 7789 350094694 350094984 2.990000e-69 274.0
71 TraesCS2A01G004900 chrUn 84.899 298 16 13 7514 7789 385010224 385009934 2.990000e-69 274.0
72 TraesCS2A01G004900 chrUn 84.762 210 16 12 7931 8134 15560523 15560722 6.660000e-46 196.0
73 TraesCS2A01G004900 chrUn 84.762 210 16 12 7931 8134 15781213 15781412 6.660000e-46 196.0
74 TraesCS2A01G004900 chrUn 84.286 210 17 12 7931 8134 248043861 248044060 3.100000e-44 191.0
75 TraesCS2A01G004900 chrUn 84.286 210 17 12 7931 8134 350095058 350095257 3.100000e-44 191.0
76 TraesCS2A01G004900 chrUn 83.117 231 17 9 5887 6117 418518220 418518428 3.100000e-44 191.0
77 TraesCS2A01G004900 chrUn 83.810 210 18 10 7931 8134 385009860 385009661 1.440000e-42 185.0
78 TraesCS2A01G004900 chrUn 80.916 262 20 14 5544 5783 305056883 305057136 6.710000e-41 180.0
79 TraesCS2A01G004900 chrUn 80.916 262 20 14 5544 5783 331986275 331986528 6.710000e-41 180.0
80 TraesCS2A01G004900 chrUn 87.342 158 16 3 5884 6040 15490891 15490737 2.410000e-40 178.0
81 TraesCS2A01G004900 chrUn 81.982 222 27 8 8146 8360 15560707 15560922 8.680000e-40 176.0
82 TraesCS2A01G004900 chrUn 81.982 222 27 8 8146 8360 15781397 15781612 8.680000e-40 176.0
83 TraesCS2A01G004900 chrUn 87.037 162 13 3 6908 7063 370379105 370379264 8.680000e-40 176.0
84 TraesCS2A01G004900 chrUn 81.532 222 28 8 8146 8360 248044045 248044260 4.040000e-38 171.0
85 TraesCS2A01G004900 chrUn 81.532 222 28 8 8146 8360 330687051 330687266 4.040000e-38 171.0
86 TraesCS2A01G004900 chrUn 81.532 222 28 8 8146 8360 385009676 385009461 4.040000e-38 171.0
87 TraesCS2A01G004900 chrUn 81.532 222 28 8 8146 8360 399003024 399002809 4.040000e-38 171.0
88 TraesCS2A01G004900 chrUn 92.500 120 5 3 359 475 15923061 15922943 1.450000e-37 169.0
89 TraesCS2A01G004900 chrUn 96.000 100 4 0 224 323 15923216 15923117 6.760000e-36 163.0
90 TraesCS2A01G004900 chrUn 77.570 321 36 17 5566 5858 15491202 15490890 2.430000e-35 161.0
91 TraesCS2A01G004900 chrUn 95.789 95 2 1 130 224 15923343 15923251 1.460000e-32 152.0
92 TraesCS2A01G004900 chrUn 95.946 74 2 1 143 215 15482412 15482339 1.480000e-22 119.0
93 TraesCS2A01G004900 chrUn 84.496 129 10 3 675 803 440099199 440099317 1.480000e-22 119.0
94 TraesCS2A01G004900 chrUn 82.353 136 16 5 8146 8274 350095242 350095376 2.480000e-20 111.0
95 TraesCS2A01G004900 chrUn 86.747 83 4 1 6129 6211 364736218 364736293 1.510000e-12 86.1
96 TraesCS2A01G004900 chrUn 79.675 123 9 10 112 229 15535476 15535587 3.260000e-09 75.0
97 TraesCS2A01G004900 chrUn 79.675 123 9 4 112 229 213004047 213004158 3.260000e-09 75.0
98 TraesCS2A01G004900 chrUn 92.157 51 3 1 180 229 222057079 222057129 4.210000e-08 71.3
99 TraesCS2A01G004900 chrUn 92.157 51 3 1 180 229 243184494 243184444 4.210000e-08 71.3
100 TraesCS2A01G004900 chrUn 92.157 51 3 1 180 229 268961816 268961766 4.210000e-08 71.3
101 TraesCS2A01G004900 chrUn 92.157 51 3 1 180 229 355104667 355104617 4.210000e-08 71.3
102 TraesCS2A01G004900 chr2D 83.816 4696 664 62 892 5525 22571492 22566831 0.000000e+00 4373.0
103 TraesCS2A01G004900 chr2D 84.802 3053 416 27 1540 4572 2680850 2677826 0.000000e+00 3024.0
104 TraesCS2A01G004900 chr2D 92.157 1326 69 17 7059 8358 2467686 2469002 0.000000e+00 1840.0
105 TraesCS2A01G004900 chr2D 88.433 951 103 6 4577 5524 2539072 2538126 0.000000e+00 1140.0
106 TraesCS2A01G004900 chr2D 93.520 679 41 3 6223 6898 2537713 2537035 0.000000e+00 1007.0
107 TraesCS2A01G004900 chr2D 84.588 571 64 15 6314 6864 2730894 2730328 5.740000e-151 545.0
108 TraesCS2A01G004900 chr2D 88.158 456 25 15 5678 6132 22566811 22566384 4.500000e-142 516.0
109 TraesCS2A01G004900 chr2D 91.233 365 29 3 6535 6898 2466778 2467140 2.110000e-135 494.0
110 TraesCS2A01G004900 chr2D 88.298 282 16 6 5690 5968 2538093 2537826 1.050000e-83 322.0
111 TraesCS2A01G004900 chr2D 90.291 103 8 2 6908 7009 2467580 2467681 5.300000e-27 134.0
112 TraesCS2A01G004900 chr4B 84.864 3984 554 31 1540 5493 634313649 634317613 0.000000e+00 3971.0
113 TraesCS2A01G004900 chr3B 85.101 2376 333 10 1540 3897 52920588 52918216 0.000000e+00 2407.0
114 TraesCS2A01G004900 chr4A 85.988 678 45 5 6223 6898 207381012 207381641 0.000000e+00 680.0
115 TraesCS2A01G004900 chr4A 86.866 434 28 10 5804 6211 207380517 207380947 7.700000e-125 459.0
116 TraesCS2A01G004900 chr6A 83.309 677 45 7 6224 6898 599239979 599239369 5.700000e-156 562.0
117 TraesCS2A01G004900 chr6A 98.571 70 1 0 6142 6211 599240113 599240044 3.190000e-24 124.0
118 TraesCS2A01G004900 chr6B 85.246 122 7 3 7849 7959 50782281 50782402 1.920000e-21 115.0
119 TraesCS2A01G004900 chr6B 79.144 187 17 9 7784 7959 50831756 50831931 8.930000e-20 110.0


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 TraesCS2A01G004900 chr2A 2487830 2496245 8415 True 15542.000000 15542 100.000000 1 8416 1 chr2A.!!$R1 8415
1 TraesCS2A01G004900 chr2A 2881572 2885009 3437 False 3236.000000 3236 83.835000 1614 5027 1 chr2A.!!$F3 3413
2 TraesCS2A01G004900 chr2A 2363348 2366117 2769 False 2808.000000 2808 85.076000 1612 4365 1 chr2A.!!$F2 2753
3 TraesCS2A01G004900 chr2A 2321684 2326139 4455 False 1314.433333 3406 89.520667 1540 6176 3 chr2A.!!$F4 4636
4 TraesCS2A01G004900 chr2A 2915299 2920543 5244 False 990.225000 3502 90.623250 988 7004 4 chr2A.!!$F6 6016
5 TraesCS2A01G004900 chr2A 2381071 2384493 3422 False 684.600000 1507 87.826400 4177 7381 5 chr2A.!!$F5 3204
6 TraesCS2A01G004900 chr2B 8592546 8594856 2310 False 2252.000000 2252 84.308000 996 3312 1 chr2B.!!$F3 2316
7 TraesCS2A01G004900 chr2B 8994387 9000469 6082 False 1252.666667 4854 90.725333 1155 7039 6 chr2B.!!$F8 5884
8 TraesCS2A01G004900 chr2B 9121663 9128493 6830 True 1197.500000 6506 93.086857 130 6898 7 chr2B.!!$R5 6768
9 TraesCS2A01G004900 chr2B 9090823 9100017 9194 True 1172.000000 3236 83.310333 1643 7558 3 chr2B.!!$R4 5915
10 TraesCS2A01G004900 chr2B 8339263 8345376 6113 False 867.250000 2390 81.637250 1540 7948 4 chr2B.!!$F7 6408
11 TraesCS2A01G004900 chr2B 9112074 9112608 534 True 634.000000 634 88.321000 7226 7761 1 chr2B.!!$R2 535
12 TraesCS2A01G004900 chr2B 8385262 8385966 704 False 505.000000 505 80.000000 675 1379 1 chr2B.!!$F1 704
13 TraesCS2A01G004900 chrUn 330376233 330378950 2717 True 2593.000000 2593 84.036000 1540 4287 1 chrUn.!!$R3 2747
14 TraesCS2A01G004900 chrUn 15549999 15554789 4790 False 2143.500000 3788 81.926500 675 5526 2 chrUn.!!$F14 4851
15 TraesCS2A01G004900 chrUn 15477322 15482412 5090 True 1994.000000 3869 90.373500 143 5514 2 chrUn.!!$R6 5371
16 TraesCS2A01G004900 chrUn 305054161 305057136 2975 False 1494.500000 2809 84.900000 2532 5783 2 chrUn.!!$F18 3251
17 TraesCS2A01G004900 chrUn 15774207 15781612 7405 False 983.000000 3762 83.123600 675 8360 5 chrUn.!!$F16 7685
18 TraesCS2A01G004900 chrUn 15911896 15923343 11447 True 951.222222 4626 91.143667 130 8358 9 chrUn.!!$R8 8228
19 TraesCS2A01G004900 chrUn 15849728 15850339 611 False 691.000000 691 87.179000 6274 6890 1 chrUn.!!$F2 616
20 TraesCS2A01G004900 chrUn 418518220 418519265 1045 False 530.500000 870 86.832000 5887 6898 2 chrUn.!!$F21 1011
21 TraesCS2A01G004900 chrUn 424221242 424221948 706 False 507.000000 507 80.083000 675 1379 1 chrUn.!!$F11 704
22 TraesCS2A01G004900 chrUn 241627993 241628703 710 False 499.000000 499 79.862000 675 1379 1 chrUn.!!$F5 704
23 TraesCS2A01G004900 chrUn 410123783 410124493 710 False 488.000000 488 79.586000 675 1379 1 chrUn.!!$F10 704
24 TraesCS2A01G004900 chrUn 364735628 364736948 1320 False 443.033333 771 86.524000 5555 6829 3 chrUn.!!$F20 1274
25 TraesCS2A01G004900 chrUn 381159155 381159687 532 False 440.000000 440 81.750000 849 1379 1 chrUn.!!$F9 530
26 TraesCS2A01G004900 chrUn 15560159 15560922 763 False 215.333333 274 83.881000 7514 8360 3 chrUn.!!$F15 846
27 TraesCS2A01G004900 chrUn 248043497 248044260 763 False 213.666667 279 83.684333 7514 8360 3 chrUn.!!$F17 846
28 TraesCS2A01G004900 chrUn 385009461 385010224 763 True 210.000000 274 83.413667 7514 8360 3 chrUn.!!$R9 846
29 TraesCS2A01G004900 chr2D 2677826 2680850 3024 True 3024.000000 3024 84.802000 1540 4572 1 chr2D.!!$R1 3032
30 TraesCS2A01G004900 chr2D 22566384 22571492 5108 True 2444.500000 4373 85.987000 892 6132 2 chr2D.!!$R4 5240
31 TraesCS2A01G004900 chr2D 2537035 2539072 2037 True 823.000000 1140 90.083667 4577 6898 3 chr2D.!!$R3 2321
32 TraesCS2A01G004900 chr2D 2466778 2469002 2224 False 822.666667 1840 91.227000 6535 8358 3 chr2D.!!$F1 1823
33 TraesCS2A01G004900 chr2D 2730328 2730894 566 True 545.000000 545 84.588000 6314 6864 1 chr2D.!!$R2 550
34 TraesCS2A01G004900 chr4B 634313649 634317613 3964 False 3971.000000 3971 84.864000 1540 5493 1 chr4B.!!$F1 3953
35 TraesCS2A01G004900 chr3B 52918216 52920588 2372 True 2407.000000 2407 85.101000 1540 3897 1 chr3B.!!$R1 2357
36 TraesCS2A01G004900 chr4A 207380517 207381641 1124 False 569.500000 680 86.427000 5804 6898 2 chr4A.!!$F1 1094
37 TraesCS2A01G004900 chr6A 599239369 599240113 744 True 343.000000 562 90.940000 6142 6898 2 chr6A.!!$R1 756

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
435 600 0.038159 GTGTGACTCTCTCAACCCCG 60.038 60.000 0.00 0.00 0.00 5.73 F
1186 4617 1.448540 CGCAAGGAGATCTGCGGTT 60.449 57.895 16.77 1.43 45.59 4.44 F
1589 5042 1.003233 CGGTAAACTCCTCCCTTGCTT 59.997 52.381 0.00 0.00 0.00 3.91 F
1701 5161 1.542915 CAAAGGATGAAGGGCACTGTG 59.457 52.381 2.76 2.76 0.00 3.66 F
3570 7050 2.291190 GGATAGTGAGCGGTCTACTGTC 59.709 54.545 22.86 22.86 33.47 3.51 F
4116 7629 1.071542 TGGATTGAAGGTCTGCGTCAA 59.928 47.619 0.00 0.00 0.00 3.18 F
5422 9607 2.164865 CTTCAGGTGCAGCGAGGAGT 62.165 60.000 10.78 0.00 0.00 3.85 F
5715 9948 0.250038 CCCATCCACTATGCAGGACG 60.250 60.000 0.00 0.00 36.60 4.79 F
7392 16348 0.593128 CTGCGCAGGCCATAATTACC 59.407 55.000 29.88 0.00 38.85 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1589 5042 0.475632 ATGGGGATGCGGGGAAGATA 60.476 55.000 0.00 0.0 0.00 1.98 R
2817 6292 2.086094 AGACAATCATGCGATGCAACA 58.914 42.857 0.00 0.0 43.62 3.33 R
3570 7050 1.354040 CTGCTTCAACACTAGCCTCG 58.646 55.000 0.00 0.0 36.56 4.63 R
3718 7198 5.396324 GGAAAACTTCCCAAGAAACACCATT 60.396 40.000 0.00 0.0 44.30 3.16 R
5066 9248 0.167470 CAGTGTGGATGAAGCAAGCG 59.833 55.000 0.00 0.0 0.00 4.68 R
5522 9707 0.250640 CTACCAGGCTGATGATGGGC 60.251 60.000 17.94 0.0 38.48 5.36 R
7397 16353 0.321919 GTCAGCTGCACATGGAGGAA 60.322 55.000 9.47 0.0 33.79 3.36 R
7404 16360 0.538977 AAAGGCTGTCAGCTGCACAT 60.539 50.000 23.68 0.0 41.99 3.21 R
8371 17638 0.945813 GCAAGCCAGATGAGATCAGC 59.054 55.000 0.00 0.0 0.00 4.26 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
19 20 3.941081 TTTTTGGCGCCTGGAACA 58.059 50.000 29.70 10.10 0.00 3.18
20 21 2.202866 TTTTTGGCGCCTGGAACAA 58.797 47.368 29.70 9.58 38.70 2.83
21 22 0.755686 TTTTTGGCGCCTGGAACAAT 59.244 45.000 29.70 0.00 38.70 2.71
22 23 1.621992 TTTTGGCGCCTGGAACAATA 58.378 45.000 29.70 4.37 38.70 1.90
23 24 0.885196 TTTGGCGCCTGGAACAATAC 59.115 50.000 29.70 0.00 38.70 1.89
24 25 0.963355 TTGGCGCCTGGAACAATACC 60.963 55.000 29.70 0.00 38.70 2.73
25 26 1.377987 GGCGCCTGGAACAATACCA 60.378 57.895 22.15 0.00 38.70 3.25
26 27 0.963355 GGCGCCTGGAACAATACCAA 60.963 55.000 22.15 0.00 38.70 3.67
27 28 0.451783 GCGCCTGGAACAATACCAAG 59.548 55.000 0.00 0.00 38.70 3.61
28 29 1.821216 CGCCTGGAACAATACCAAGT 58.179 50.000 0.00 0.00 38.70 3.16
29 30 2.159382 CGCCTGGAACAATACCAAGTT 58.841 47.619 0.00 0.00 38.70 2.66
30 31 3.340034 CGCCTGGAACAATACCAAGTTA 58.660 45.455 0.00 0.00 38.70 2.24
31 32 3.945285 CGCCTGGAACAATACCAAGTTAT 59.055 43.478 0.00 0.00 38.70 1.89
32 33 4.201910 CGCCTGGAACAATACCAAGTTATG 60.202 45.833 0.00 0.00 38.70 1.90
33 34 4.705023 GCCTGGAACAATACCAAGTTATGT 59.295 41.667 0.00 0.00 38.70 2.29
34 35 5.185056 GCCTGGAACAATACCAAGTTATGTT 59.815 40.000 0.00 0.00 38.70 2.71
35 36 6.620678 CCTGGAACAATACCAAGTTATGTTG 58.379 40.000 0.00 0.00 38.70 3.33
36 37 6.432783 CCTGGAACAATACCAAGTTATGTTGA 59.567 38.462 0.00 0.00 38.70 3.18
37 38 7.040062 CCTGGAACAATACCAAGTTATGTTGAA 60.040 37.037 0.00 0.00 38.70 2.69
38 39 7.653647 TGGAACAATACCAAGTTATGTTGAAC 58.346 34.615 0.00 0.00 34.59 3.18
39 40 7.285629 TGGAACAATACCAAGTTATGTTGAACA 59.714 33.333 0.00 0.00 34.59 3.18
40 41 8.138712 GGAACAATACCAAGTTATGTTGAACAA 58.861 33.333 0.62 0.00 34.59 2.83
41 42 9.691362 GAACAATACCAAGTTATGTTGAACAAT 57.309 29.630 0.62 0.00 34.59 2.71
44 45 9.567848 CAATACCAAGTTATGTTGAACAATACC 57.432 33.333 0.62 0.00 0.00 2.73
45 46 8.871629 ATACCAAGTTATGTTGAACAATACCA 57.128 30.769 0.62 0.00 0.00 3.25
46 47 7.589958 ACCAAGTTATGTTGAACAATACCAA 57.410 32.000 0.62 0.00 0.00 3.67
47 48 7.430441 ACCAAGTTATGTTGAACAATACCAAC 58.570 34.615 0.62 2.54 42.04 3.77
84 85 4.772046 AATACTTGTACTGTTATGCGCG 57.228 40.909 0.00 0.00 0.00 6.86
85 86 2.074547 ACTTGTACTGTTATGCGCGT 57.925 45.000 8.43 7.55 0.00 6.01
86 87 1.990563 ACTTGTACTGTTATGCGCGTC 59.009 47.619 4.79 0.00 0.00 5.19
87 88 1.323534 CTTGTACTGTTATGCGCGTCC 59.676 52.381 4.79 0.00 0.00 4.79
88 89 0.799152 TGTACTGTTATGCGCGTCCG 60.799 55.000 4.79 0.00 37.57 4.79
89 90 0.523968 GTACTGTTATGCGCGTCCGA 60.524 55.000 4.79 0.00 36.29 4.55
90 91 0.382873 TACTGTTATGCGCGTCCGAT 59.617 50.000 4.79 0.00 36.29 4.18
91 92 0.870307 ACTGTTATGCGCGTCCGATC 60.870 55.000 4.79 0.00 36.29 3.69
92 93 1.548973 CTGTTATGCGCGTCCGATCC 61.549 60.000 4.79 0.00 36.29 3.36
93 94 1.590525 GTTATGCGCGTCCGATCCA 60.591 57.895 4.79 0.00 36.29 3.41
94 95 1.299850 TTATGCGCGTCCGATCCAG 60.300 57.895 4.79 0.00 36.29 3.86
95 96 1.730451 TTATGCGCGTCCGATCCAGA 61.730 55.000 4.79 0.00 36.29 3.86
96 97 1.524008 TATGCGCGTCCGATCCAGAT 61.524 55.000 4.79 0.00 36.29 2.90
97 98 2.731348 GCGCGTCCGATCCAGATC 60.731 66.667 8.43 0.00 36.29 2.75
98 99 2.049985 CGCGTCCGATCCAGATCC 60.050 66.667 0.00 0.00 36.29 3.36
99 100 2.845550 CGCGTCCGATCCAGATCCA 61.846 63.158 0.00 0.00 36.29 3.41
100 101 1.441729 GCGTCCGATCCAGATCCAA 59.558 57.895 2.11 0.00 34.40 3.53
101 102 0.598680 GCGTCCGATCCAGATCCAAG 60.599 60.000 2.11 0.00 34.40 3.61
102 103 1.032794 CGTCCGATCCAGATCCAAGA 58.967 55.000 2.11 0.00 34.40 3.02
103 104 1.000827 CGTCCGATCCAGATCCAAGAG 60.001 57.143 2.11 0.00 34.40 2.85
104 105 1.342819 GTCCGATCCAGATCCAAGAGG 59.657 57.143 2.11 0.00 34.40 3.69
105 106 1.062886 TCCGATCCAGATCCAAGAGGT 60.063 52.381 2.11 0.00 34.40 3.85
106 107 1.069823 CCGATCCAGATCCAAGAGGTG 59.930 57.143 2.11 0.00 34.40 4.00
107 108 1.539929 CGATCCAGATCCAAGAGGTGC 60.540 57.143 2.11 0.00 34.40 5.01
108 109 1.767681 GATCCAGATCCAAGAGGTGCT 59.232 52.381 0.00 0.00 35.89 4.40
109 110 2.550277 TCCAGATCCAAGAGGTGCTA 57.450 50.000 0.00 0.00 35.89 3.49
110 111 2.832838 TCCAGATCCAAGAGGTGCTAA 58.167 47.619 0.00 0.00 35.89 3.09
111 112 3.181329 TCCAGATCCAAGAGGTGCTAAA 58.819 45.455 0.00 0.00 35.89 1.85
112 113 3.055094 TCCAGATCCAAGAGGTGCTAAAC 60.055 47.826 0.00 0.00 35.89 2.01
125 126 3.767278 GTGCTAAACCAGTACTCCTACG 58.233 50.000 0.00 0.00 36.95 3.51
126 127 2.165030 TGCTAAACCAGTACTCCTACGC 59.835 50.000 0.00 0.00 0.00 4.42
127 128 2.426381 GCTAAACCAGTACTCCTACGCT 59.574 50.000 0.00 0.00 0.00 5.07
128 129 3.488890 GCTAAACCAGTACTCCTACGCTC 60.489 52.174 0.00 0.00 0.00 5.03
129 130 2.211250 AACCAGTACTCCTACGCTCA 57.789 50.000 0.00 0.00 0.00 4.26
130 131 1.461559 ACCAGTACTCCTACGCTCAC 58.538 55.000 0.00 0.00 0.00 3.51
131 132 1.004511 ACCAGTACTCCTACGCTCACT 59.995 52.381 0.00 0.00 0.00 3.41
132 133 1.671845 CCAGTACTCCTACGCTCACTC 59.328 57.143 0.00 0.00 0.00 3.51
133 134 2.357075 CAGTACTCCTACGCTCACTCA 58.643 52.381 0.00 0.00 0.00 3.41
134 135 2.353269 CAGTACTCCTACGCTCACTCAG 59.647 54.545 0.00 0.00 0.00 3.35
135 136 2.027007 AGTACTCCTACGCTCACTCAGT 60.027 50.000 0.00 0.00 0.00 3.41
136 137 1.455248 ACTCCTACGCTCACTCAGTC 58.545 55.000 0.00 0.00 0.00 3.51
137 138 1.003812 ACTCCTACGCTCACTCAGTCT 59.996 52.381 0.00 0.00 0.00 3.24
138 139 2.088423 CTCCTACGCTCACTCAGTCTT 58.912 52.381 0.00 0.00 0.00 3.01
221 258 2.019897 GCTCCTCTGCTCTGCTCTCC 62.020 65.000 0.00 0.00 0.00 3.71
222 259 0.683828 CTCCTCTGCTCTGCTCTCCA 60.684 60.000 0.00 0.00 0.00 3.86
323 360 3.781307 CCGCCCGGATCTGAACCA 61.781 66.667 0.73 0.00 37.50 3.67
328 365 2.892425 CGGATCTGAACCAGCCGC 60.892 66.667 4.77 0.00 32.44 6.53
329 366 2.268920 GGATCTGAACCAGCCGCA 59.731 61.111 0.00 0.00 0.00 5.69
333 381 4.335647 CTGAACCAGCCGCACCCT 62.336 66.667 0.00 0.00 0.00 4.34
334 382 2.925706 TGAACCAGCCGCACCCTA 60.926 61.111 0.00 0.00 0.00 3.53
345 393 0.529119 CGCACCCTACCGGATAACAC 60.529 60.000 9.46 0.00 34.64 3.32
362 410 0.976641 CACCAGGTCAGTTGCCTCTA 59.023 55.000 0.00 0.00 33.31 2.43
373 421 4.080072 TCAGTTGCCTCTATCTCTCTCTCA 60.080 45.833 0.00 0.00 0.00 3.27
374 422 4.828939 CAGTTGCCTCTATCTCTCTCTCAT 59.171 45.833 0.00 0.00 0.00 2.90
380 464 4.455533 CCTCTATCTCTCTCTCATTCCGTG 59.544 50.000 0.00 0.00 0.00 4.94
435 600 0.038159 GTGTGACTCTCTCAACCCCG 60.038 60.000 0.00 0.00 0.00 5.73
492 689 4.731612 CTCCGACGCACAGCAGCT 62.732 66.667 0.00 0.00 0.00 4.24
506 703 1.997311 CAGCTGGTCAGATCCCCCA 60.997 63.158 5.57 0.00 0.00 4.96
516 713 1.540118 GATCCCCCATCCCCTCTCC 60.540 68.421 0.00 0.00 0.00 3.71
524 721 3.924013 ATCCCCTCTCCGTGGCACA 62.924 63.158 19.09 0.00 0.00 4.57
575 772 5.694910 ACCACACAGAGAAATAAACTACGTG 59.305 40.000 0.00 0.00 0.00 4.49
667 922 4.282703 TCCCTCTCCGTGCCTTAATTATAC 59.717 45.833 0.00 0.00 0.00 1.47
670 925 5.696724 CCTCTCCGTGCCTTAATTATACTTG 59.303 44.000 0.00 0.00 0.00 3.16
922 1244 1.826024 GCTTCCAGCTAGCAGCCTA 59.174 57.895 18.83 0.00 43.77 3.93
1105 4536 4.047059 CCAGCAGCAACCTTGGCG 62.047 66.667 0.00 0.00 36.08 5.69
1134 4565 2.192263 GAGGACCTCAGGATGGAACTT 58.808 52.381 17.10 0.00 36.16 2.66
1186 4617 1.448540 CGCAAGGAGATCTGCGGTT 60.449 57.895 16.77 1.43 45.59 4.44
1589 5042 1.003233 CGGTAAACTCCTCCCTTGCTT 59.997 52.381 0.00 0.00 0.00 3.91
1701 5161 1.542915 CAAAGGATGAAGGGCACTGTG 59.457 52.381 2.76 2.76 0.00 3.66
1887 5347 3.904965 TCACCAAGGGTCAATACTGTACA 59.095 43.478 0.00 0.00 31.02 2.90
2068 5531 5.014858 AGATTGAAGTAGGTACTCGTCCAA 58.985 41.667 0.00 0.00 41.75 3.53
2206 5669 4.081586 GGGAAAAACTCCTGTCGATACTCT 60.082 45.833 0.00 0.00 44.68 3.24
2211 5674 4.440826 ACTCCTGTCGATACTCTACCAT 57.559 45.455 0.00 0.00 0.00 3.55
2522 5985 7.039011 GGTCCTCAAAAGTAAAGAATGGGAAAT 60.039 37.037 0.00 0.00 0.00 2.17
2766 6241 7.660030 TTATGGATTTTTCAGGGAAGATTCC 57.340 36.000 2.81 2.81 46.82 3.01
2817 6292 5.296780 CCTACTACACGATTTGGCATTGAAT 59.703 40.000 0.00 0.00 0.00 2.57
2849 6324 4.851558 GCATGATTGTCTTTGTTTACGTCC 59.148 41.667 0.00 0.00 0.00 4.79
2987 6462 6.396829 AGAACTGAAGACAAAATTGAAGGG 57.603 37.500 0.00 0.00 0.00 3.95
3335 6813 2.681848 GTGATGGTGAGCTTCATTCTGG 59.318 50.000 3.54 0.00 0.00 3.86
3570 7050 2.291190 GGATAGTGAGCGGTCTACTGTC 59.709 54.545 22.86 22.86 33.47 3.51
3718 7198 8.298729 TGAAGCTCTACAATCTCTTTATCTGA 57.701 34.615 0.00 0.00 0.00 3.27
3821 7301 9.695526 CAGACTGAAGGATTTTATCATAGAGAG 57.304 37.037 0.00 0.00 0.00 3.20
4116 7629 1.071542 TGGATTGAAGGTCTGCGTCAA 59.928 47.619 0.00 0.00 0.00 3.18
4138 7651 9.683069 GTCAAGTCATGATGAAAAATGTAAAGT 57.317 29.630 0.00 0.00 40.97 2.66
4147 7660 9.677567 TGATGAAAAATGTAAAGTTACTGAAGC 57.322 29.630 3.07 0.00 34.77 3.86
4330 7843 4.091424 GCTAACATCGTTGAAGACATTGC 58.909 43.478 0.00 0.00 0.00 3.56
4337 7850 5.940192 TCGTTGAAGACATTGCTTGTAAT 57.060 34.783 0.00 0.00 39.18 1.89
4393 7906 2.636830 GTCAGAGTGATGTGGAATGGG 58.363 52.381 0.00 0.00 0.00 4.00
4575 8743 5.181748 ACACAAGAAGCATCAGAGATAACC 58.818 41.667 0.00 0.00 0.00 2.85
4831 9013 2.295349 CTGCAGTTTCTGATGCTTTGGT 59.705 45.455 5.25 0.00 42.98 3.67
4832 9014 2.694628 TGCAGTTTCTGATGCTTTGGTT 59.305 40.909 3.68 0.00 42.98 3.67
4845 9027 3.449018 TGCTTTGGTTTGTGAAAGGCTTA 59.551 39.130 0.00 0.00 31.07 3.09
5377 9559 2.215451 ATTGCCCAACGATGCCCTCT 62.215 55.000 0.00 0.00 0.00 3.69
5422 9607 2.164865 CTTCAGGTGCAGCGAGGAGT 62.165 60.000 10.78 0.00 0.00 3.85
5470 9655 4.569719 GGAACCATCCCAGAACTCTTAA 57.430 45.455 0.00 0.00 40.10 1.85
5471 9656 5.117406 GGAACCATCCCAGAACTCTTAAT 57.883 43.478 0.00 0.00 40.10 1.40
5472 9657 6.248569 GGAACCATCCCAGAACTCTTAATA 57.751 41.667 0.00 0.00 40.10 0.98
5473 9658 6.056236 GGAACCATCCCAGAACTCTTAATAC 58.944 44.000 0.00 0.00 40.10 1.89
5474 9659 6.352737 GGAACCATCCCAGAACTCTTAATACA 60.353 42.308 0.00 0.00 40.10 2.29
5475 9660 5.990668 ACCATCCCAGAACTCTTAATACAC 58.009 41.667 0.00 0.00 0.00 2.90
5476 9661 5.726793 ACCATCCCAGAACTCTTAATACACT 59.273 40.000 0.00 0.00 0.00 3.55
5477 9662 6.051717 CCATCCCAGAACTCTTAATACACTG 58.948 44.000 0.00 0.00 0.00 3.66
5478 9663 6.127054 CCATCCCAGAACTCTTAATACACTGA 60.127 42.308 0.00 0.00 0.00 3.41
5479 9664 7.419518 CCATCCCAGAACTCTTAATACACTGAT 60.420 40.741 0.00 0.00 0.00 2.90
5480 9665 7.113658 TCCCAGAACTCTTAATACACTGATC 57.886 40.000 0.00 0.00 0.00 2.92
5481 9666 6.098409 TCCCAGAACTCTTAATACACTGATCC 59.902 42.308 0.00 0.00 0.00 3.36
5482 9667 6.127054 CCCAGAACTCTTAATACACTGATCCA 60.127 42.308 0.00 0.00 0.00 3.41
5483 9668 7.331026 CCAGAACTCTTAATACACTGATCCAA 58.669 38.462 0.00 0.00 0.00 3.53
5484 9669 7.493971 CCAGAACTCTTAATACACTGATCCAAG 59.506 40.741 0.00 0.00 0.00 3.61
5485 9670 7.493971 CAGAACTCTTAATACACTGATCCAAGG 59.506 40.741 0.00 0.00 0.00 3.61
5486 9671 6.875972 ACTCTTAATACACTGATCCAAGGT 57.124 37.500 0.00 0.00 0.00 3.50
5487 9672 7.973048 ACTCTTAATACACTGATCCAAGGTA 57.027 36.000 0.00 0.00 0.00 3.08
5488 9673 8.375493 ACTCTTAATACACTGATCCAAGGTAA 57.625 34.615 0.00 0.00 0.00 2.85
5489 9674 8.258708 ACTCTTAATACACTGATCCAAGGTAAC 58.741 37.037 0.00 0.00 0.00 2.50
5490 9675 8.141298 TCTTAATACACTGATCCAAGGTAACA 57.859 34.615 0.00 0.00 41.41 2.41
5491 9676 8.038944 TCTTAATACACTGATCCAAGGTAACAC 58.961 37.037 0.00 0.00 41.41 3.32
5492 9677 5.755409 ATACACTGATCCAAGGTAACACA 57.245 39.130 0.00 0.00 41.41 3.72
5493 9678 4.431416 ACACTGATCCAAGGTAACACAA 57.569 40.909 0.00 0.00 41.41 3.33
5494 9679 4.787551 ACACTGATCCAAGGTAACACAAA 58.212 39.130 0.00 0.00 41.41 2.83
5495 9680 4.578928 ACACTGATCCAAGGTAACACAAAC 59.421 41.667 0.00 0.00 41.41 2.93
5496 9681 4.578516 CACTGATCCAAGGTAACACAAACA 59.421 41.667 0.00 0.00 41.41 2.83
5497 9682 5.241506 CACTGATCCAAGGTAACACAAACAT 59.758 40.000 0.00 0.00 41.41 2.71
5498 9683 6.429692 CACTGATCCAAGGTAACACAAACATA 59.570 38.462 0.00 0.00 41.41 2.29
5499 9684 6.430000 ACTGATCCAAGGTAACACAAACATAC 59.570 38.462 0.00 0.00 41.41 2.39
5500 9685 6.539173 TGATCCAAGGTAACACAAACATACT 58.461 36.000 0.00 0.00 41.41 2.12
5501 9686 7.001674 TGATCCAAGGTAACACAAACATACTT 58.998 34.615 0.00 0.00 41.41 2.24
5502 9687 7.504238 TGATCCAAGGTAACACAAACATACTTT 59.496 33.333 0.00 0.00 41.41 2.66
5503 9688 7.266922 TCCAAGGTAACACAAACATACTTTC 57.733 36.000 0.00 0.00 41.41 2.62
5504 9689 7.057894 TCCAAGGTAACACAAACATACTTTCT 58.942 34.615 0.00 0.00 41.41 2.52
5505 9690 7.558444 TCCAAGGTAACACAAACATACTTTCTT 59.442 33.333 0.00 0.00 41.41 2.52
5506 9691 7.647715 CCAAGGTAACACAAACATACTTTCTTG 59.352 37.037 0.00 0.00 41.41 3.02
5507 9692 7.272037 AGGTAACACAAACATACTTTCTTGG 57.728 36.000 0.00 0.00 41.41 3.61
5508 9693 6.831868 AGGTAACACAAACATACTTTCTTGGT 59.168 34.615 0.00 0.00 41.41 3.67
5509 9694 6.915843 GGTAACACAAACATACTTTCTTGGTG 59.084 38.462 0.00 0.00 0.00 4.17
5510 9695 6.524101 AACACAAACATACTTTCTTGGTGT 57.476 33.333 0.00 0.00 0.00 4.16
5511 9696 6.524101 ACACAAACATACTTTCTTGGTGTT 57.476 33.333 0.00 0.00 34.74 3.32
5512 9697 6.930731 ACACAAACATACTTTCTTGGTGTTT 58.069 32.000 0.00 0.00 41.98 2.83
5513 9698 7.382898 ACACAAACATACTTTCTTGGTGTTTT 58.617 30.769 0.00 0.00 40.02 2.43
5514 9699 7.875554 ACACAAACATACTTTCTTGGTGTTTTT 59.124 29.630 0.00 0.00 40.02 1.94
5515 9700 8.379902 CACAAACATACTTTCTTGGTGTTTTTC 58.620 33.333 0.00 0.00 40.02 2.29
5516 9701 7.547722 ACAAACATACTTTCTTGGTGTTTTTCC 59.452 33.333 0.00 0.00 40.02 3.13
5517 9702 6.783708 ACATACTTTCTTGGTGTTTTTCCA 57.216 33.333 0.00 0.00 0.00 3.53
5518 9703 6.569780 ACATACTTTCTTGGTGTTTTTCCAC 58.430 36.000 0.00 0.00 34.45 4.02
5519 9704 6.379988 ACATACTTTCTTGGTGTTTTTCCACT 59.620 34.615 0.00 0.00 35.63 4.00
5520 9705 5.738619 ACTTTCTTGGTGTTTTTCCACTT 57.261 34.783 0.00 0.00 35.63 3.16
5521 9706 6.109156 ACTTTCTTGGTGTTTTTCCACTTT 57.891 33.333 0.00 0.00 35.63 2.66
5522 9707 5.931724 ACTTTCTTGGTGTTTTTCCACTTTG 59.068 36.000 0.00 0.00 35.63 2.77
5523 9708 3.855858 TCTTGGTGTTTTTCCACTTTGC 58.144 40.909 0.00 0.00 35.63 3.68
5524 9709 2.682155 TGGTGTTTTTCCACTTTGCC 57.318 45.000 0.00 0.00 35.63 4.52
5525 9710 1.208293 TGGTGTTTTTCCACTTTGCCC 59.792 47.619 0.00 0.00 35.63 5.36
5526 9711 1.208293 GGTGTTTTTCCACTTTGCCCA 59.792 47.619 0.00 0.00 35.63 5.36
5527 9712 2.158827 GGTGTTTTTCCACTTTGCCCAT 60.159 45.455 0.00 0.00 35.63 4.00
5528 9713 3.130633 GTGTTTTTCCACTTTGCCCATC 58.869 45.455 0.00 0.00 32.50 3.51
5529 9714 2.768527 TGTTTTTCCACTTTGCCCATCA 59.231 40.909 0.00 0.00 0.00 3.07
5530 9715 3.390639 TGTTTTTCCACTTTGCCCATCAT 59.609 39.130 0.00 0.00 0.00 2.45
5531 9716 3.959535 TTTTCCACTTTGCCCATCATC 57.040 42.857 0.00 0.00 0.00 2.92
5532 9717 2.601240 TTCCACTTTGCCCATCATCA 57.399 45.000 0.00 0.00 0.00 3.07
5533 9718 2.133281 TCCACTTTGCCCATCATCAG 57.867 50.000 0.00 0.00 0.00 2.90
5534 9719 0.458669 CCACTTTGCCCATCATCAGC 59.541 55.000 0.00 0.00 0.00 4.26
5535 9720 0.458669 CACTTTGCCCATCATCAGCC 59.541 55.000 0.00 0.00 0.00 4.85
5536 9721 0.333993 ACTTTGCCCATCATCAGCCT 59.666 50.000 0.00 0.00 0.00 4.58
5537 9722 0.744874 CTTTGCCCATCATCAGCCTG 59.255 55.000 0.00 0.00 0.00 4.85
5538 9723 0.685131 TTTGCCCATCATCAGCCTGG 60.685 55.000 0.00 0.00 0.00 4.45
5539 9724 1.866483 TTGCCCATCATCAGCCTGGT 61.866 55.000 0.00 0.00 0.00 4.00
5540 9725 0.987613 TGCCCATCATCAGCCTGGTA 60.988 55.000 0.00 0.00 0.00 3.25
5541 9726 0.250640 GCCCATCATCAGCCTGGTAG 60.251 60.000 0.00 0.00 0.00 3.18
5542 9727 1.135094 CCCATCATCAGCCTGGTAGT 58.865 55.000 0.00 0.00 0.00 2.73
5543 9728 1.202734 CCCATCATCAGCCTGGTAGTG 60.203 57.143 0.00 0.00 0.00 2.74
5544 9729 1.764723 CCATCATCAGCCTGGTAGTGA 59.235 52.381 0.00 0.00 0.00 3.41
5545 9730 2.371179 CCATCATCAGCCTGGTAGTGAT 59.629 50.000 0.00 0.00 0.00 3.06
5546 9731 3.580022 CCATCATCAGCCTGGTAGTGATA 59.420 47.826 7.67 0.61 29.64 2.15
5547 9732 4.224594 CCATCATCAGCCTGGTAGTGATAT 59.775 45.833 7.67 0.00 29.64 1.63
5548 9733 5.417811 CATCATCAGCCTGGTAGTGATATC 58.582 45.833 7.67 0.00 29.64 1.63
5549 9734 4.745351 TCATCAGCCTGGTAGTGATATCT 58.255 43.478 3.98 0.00 29.64 1.98
5550 9735 5.150715 TCATCAGCCTGGTAGTGATATCTT 58.849 41.667 3.98 0.00 29.64 2.40
5551 9736 5.244851 TCATCAGCCTGGTAGTGATATCTTC 59.755 44.000 3.98 0.00 29.64 2.87
5552 9737 4.546674 TCAGCCTGGTAGTGATATCTTCA 58.453 43.478 3.98 0.00 0.00 3.02
5553 9738 4.586421 TCAGCCTGGTAGTGATATCTTCAG 59.414 45.833 3.98 4.74 34.17 3.02
5560 9745 3.472283 AGTGATATCTTCAGCTGCAGG 57.528 47.619 17.12 0.00 34.17 4.85
5615 9800 4.842531 GGAACCATCCCCAAAATCAAAT 57.157 40.909 0.00 0.00 40.10 2.32
5616 9801 5.948742 GGAACCATCCCCAAAATCAAATA 57.051 39.130 0.00 0.00 40.10 1.40
5617 9802 5.917462 GGAACCATCCCCAAAATCAAATAG 58.083 41.667 0.00 0.00 40.10 1.73
5618 9803 5.660864 GGAACCATCCCCAAAATCAAATAGA 59.339 40.000 0.00 0.00 40.10 1.98
5619 9804 6.406961 GGAACCATCCCCAAAATCAAATAGAC 60.407 42.308 0.00 0.00 40.10 2.59
5620 9805 5.588845 ACCATCCCCAAAATCAAATAGACA 58.411 37.500 0.00 0.00 0.00 3.41
5621 9806 6.204555 ACCATCCCCAAAATCAAATAGACAT 58.795 36.000 0.00 0.00 0.00 3.06
5622 9807 6.324770 ACCATCCCCAAAATCAAATAGACATC 59.675 38.462 0.00 0.00 0.00 3.06
5625 9816 7.976414 TCCCCAAAATCAAATAGACATCATT 57.024 32.000 0.00 0.00 0.00 2.57
5659 9861 9.705290 GATCCAAGGTAACACAAACATATTTTT 57.295 29.630 0.00 0.00 41.41 1.94
5660 9862 8.879342 TCCAAGGTAACACAAACATATTTTTG 57.121 30.769 11.86 11.86 41.47 2.44
5670 9872 7.288317 ACAAACATATTTTTGTGTGTGTGTG 57.712 32.000 17.09 0.00 44.50 3.82
5672 9874 7.386299 ACAAACATATTTTTGTGTGTGTGTGTT 59.614 29.630 17.09 0.00 44.50 3.32
5673 9875 7.897575 AACATATTTTTGTGTGTGTGTGTTT 57.102 28.000 0.00 0.00 0.00 2.83
5676 9878 5.854431 ATTTTTGTGTGTGTGTGTTTTCC 57.146 34.783 0.00 0.00 0.00 3.13
5715 9948 0.250038 CCCATCCACTATGCAGGACG 60.250 60.000 0.00 0.00 36.60 4.79
5794 10105 3.704512 TCAAACACATGCATGACACAAC 58.295 40.909 32.75 0.00 0.00 3.32
5795 10106 2.404265 AACACATGCATGACACAACG 57.596 45.000 32.75 13.14 0.00 4.10
5796 10107 1.592064 ACACATGCATGACACAACGA 58.408 45.000 32.75 0.00 0.00 3.85
5797 10108 1.946081 ACACATGCATGACACAACGAA 59.054 42.857 32.75 0.00 0.00 3.85
5951 10271 8.527810 CACACTAATAACAACAATATTTGGGGT 58.472 33.333 0.00 0.00 34.12 4.95
5979 10300 4.466370 TGGTGGAGAAGTGTATGAACTAGG 59.534 45.833 0.00 0.00 0.00 3.02
5980 10301 4.710375 GGTGGAGAAGTGTATGAACTAGGA 59.290 45.833 0.00 0.00 0.00 2.94
6093 10432 1.115326 GGGGATTAAGCACATGGGGC 61.115 60.000 0.00 0.00 0.00 5.80
6211 10577 2.233431 GGTGGAGCCATTACATGCAAAA 59.767 45.455 0.00 0.00 37.17 2.44
6212 10578 3.253230 GTGGAGCCATTACATGCAAAAC 58.747 45.455 0.00 0.00 0.00 2.43
6213 10579 2.233431 TGGAGCCATTACATGCAAAACC 59.767 45.455 0.00 0.00 0.00 3.27
6214 10580 2.233431 GGAGCCATTACATGCAAAACCA 59.767 45.455 0.00 0.00 0.00 3.67
6216 10582 2.632028 AGCCATTACATGCAAAACCACA 59.368 40.909 0.00 0.00 0.00 4.17
6217 10583 3.070734 AGCCATTACATGCAAAACCACAA 59.929 39.130 0.00 0.00 0.00 3.33
6218 10584 3.812053 GCCATTACATGCAAAACCACAAA 59.188 39.130 0.00 0.00 0.00 2.83
6258 10693 6.995091 ACTTTTACTCCTGCCATATCAGATTC 59.005 38.462 0.00 0.00 36.19 2.52
6330 10768 3.070878 GCCCCTTTTCTTTCCACAAATCA 59.929 43.478 0.00 0.00 0.00 2.57
6432 10895 6.701145 TTGTTTTTGTTATCTGTGCAGGTA 57.299 33.333 0.00 0.00 0.00 3.08
6468 10932 9.407380 TCTTATAGGCTTCTTCATATTTTGCAA 57.593 29.630 0.00 0.00 0.00 4.08
6635 14926 4.790810 CATAGACTGCTATGTTGCTGTG 57.209 45.455 3.92 0.00 45.77 3.66
6669 14960 7.327032 GGTGTTCTTGCATTTCTAATTTCTGTC 59.673 37.037 0.00 0.00 0.00 3.51
6763 15057 3.389329 ACTCATGAAGACTGAAGGTGTGT 59.611 43.478 0.00 0.00 0.00 3.72
6765 15059 2.910688 TGAAGACTGAAGGTGTGTCC 57.089 50.000 0.00 0.00 0.00 4.02
6898 15200 7.282450 GGTATACTTGCAACTTATAGGTTTGCT 59.718 37.037 16.84 6.03 0.00 3.91
6899 15201 9.321562 GTATACTTGCAACTTATAGGTTTGCTA 57.678 33.333 16.84 11.64 0.00 3.49
6900 15202 6.496338 ACTTGCAACTTATAGGTTTGCTAC 57.504 37.500 16.84 1.48 0.00 3.58
6967 15889 7.244886 TCTGTTTTGTAGATGAATCTCCTCA 57.755 36.000 0.00 0.00 38.32 3.86
7072 16007 5.222631 GGTGGATGCAGTTTTAAGTTTCAG 58.777 41.667 0.00 0.00 0.00 3.02
7147 16089 1.199097 GCAGTGTACCAACCAAATCCG 59.801 52.381 0.00 0.00 0.00 4.18
7153 16095 4.756135 GTGTACCAACCAAATCCGTCTAAA 59.244 41.667 0.00 0.00 0.00 1.85
7357 16313 6.064717 GGAGGGATGATGCTTTTGTACTAAT 58.935 40.000 0.00 0.00 0.00 1.73
7389 16345 0.956633 CATCTGCGCAGGCCATAATT 59.043 50.000 35.36 9.03 38.85 1.40
7392 16348 0.593128 CTGCGCAGGCCATAATTACC 59.407 55.000 29.88 0.00 38.85 2.85
7394 16350 1.247567 GCGCAGGCCATAATTACCAT 58.752 50.000 5.01 0.00 0.00 3.55
7395 16351 1.613437 GCGCAGGCCATAATTACCATT 59.387 47.619 5.01 0.00 0.00 3.16
7396 16352 2.035832 GCGCAGGCCATAATTACCATTT 59.964 45.455 5.01 0.00 0.00 2.32
7397 16353 3.492482 GCGCAGGCCATAATTACCATTTT 60.492 43.478 5.01 0.00 0.00 1.82
7398 16354 4.692228 CGCAGGCCATAATTACCATTTTT 58.308 39.130 5.01 0.00 0.00 1.94
7399 16355 4.744631 CGCAGGCCATAATTACCATTTTTC 59.255 41.667 5.01 0.00 0.00 2.29
7400 16356 5.056480 GCAGGCCATAATTACCATTTTTCC 58.944 41.667 5.01 0.00 0.00 3.13
7401 16357 5.163311 GCAGGCCATAATTACCATTTTTCCT 60.163 40.000 5.01 0.00 0.00 3.36
7402 16358 6.515832 CAGGCCATAATTACCATTTTTCCTC 58.484 40.000 5.01 0.00 0.00 3.71
7403 16359 5.602561 AGGCCATAATTACCATTTTTCCTCC 59.397 40.000 5.01 0.00 0.00 4.30
7404 16360 5.365314 GGCCATAATTACCATTTTTCCTCCA 59.635 40.000 0.00 0.00 0.00 3.86
7405 16361 6.043127 GGCCATAATTACCATTTTTCCTCCAT 59.957 38.462 0.00 0.00 0.00 3.41
7406 16362 6.930722 GCCATAATTACCATTTTTCCTCCATG 59.069 38.462 0.00 0.00 0.00 3.66
7407 16363 7.418942 GCCATAATTACCATTTTTCCTCCATGT 60.419 37.037 0.00 0.00 0.00 3.21
7408 16364 7.927629 CCATAATTACCATTTTTCCTCCATGTG 59.072 37.037 0.00 0.00 0.00 3.21
7409 16365 4.799564 TTACCATTTTTCCTCCATGTGC 57.200 40.909 0.00 0.00 0.00 4.57
7512 16507 5.226396 ACGCTATGAATAATCAGCTGACTC 58.774 41.667 20.97 13.56 39.39 3.36
7519 16514 1.760192 AATCAGCTGACTCAATGGCC 58.240 50.000 20.97 0.00 0.00 5.36
7526 16521 1.144057 GACTCAATGGCCGGTCGAT 59.856 57.895 0.00 0.00 0.00 3.59
7814 17045 4.400251 TCTCGGTCATTCGGTATTAGTGTT 59.600 41.667 0.00 0.00 0.00 3.32
7817 17048 4.032445 CGGTCATTCGGTATTAGTGTTGTG 59.968 45.833 0.00 0.00 0.00 3.33
7877 17108 4.517453 TGCCAATTACTTACACACCTTGTC 59.483 41.667 0.00 0.00 39.91 3.18
7893 17137 0.394192 TGTCAGGAACCAGACTGCAG 59.606 55.000 13.48 13.48 35.35 4.41
7948 17201 2.632996 TCTGAAGAAATCGACACCCAGT 59.367 45.455 0.00 0.00 0.00 4.00
7986 17240 0.672889 TAACAGCAACGTACCACCGA 59.327 50.000 0.00 0.00 0.00 4.69
8035 17291 1.064463 ACCCTTGATCGTGCATCCAAT 60.064 47.619 0.00 0.00 0.00 3.16
8061 17317 4.402829 TCTGAAGACTAGAGCTGTCACTT 58.597 43.478 0.00 0.00 36.94 3.16
8299 17566 8.812147 AATTCGCTATATATTTTCTGTCACGA 57.188 30.769 0.00 0.00 0.00 4.35
8325 17592 4.610333 TCCTCTGAATTCACCTAGCTACA 58.390 43.478 3.38 0.00 0.00 2.74
8360 17627 8.367911 TCTGAGAGTAATTTAGTTTTCTCAGCA 58.632 33.333 19.30 9.53 45.44 4.41
8361 17628 8.539770 TGAGAGTAATTTAGTTTTCTCAGCAG 57.460 34.615 0.00 0.00 35.85 4.24
8362 17629 8.367911 TGAGAGTAATTTAGTTTTCTCAGCAGA 58.632 33.333 0.00 0.00 35.85 4.26
8363 17630 9.209175 GAGAGTAATTTAGTTTTCTCAGCAGAA 57.791 33.333 0.00 0.00 36.82 3.02
8364 17631 9.213799 AGAGTAATTTAGTTTTCTCAGCAGAAG 57.786 33.333 0.00 0.00 39.90 2.85
8365 17632 9.209175 GAGTAATTTAGTTTTCTCAGCAGAAGA 57.791 33.333 0.00 0.00 39.90 2.87
8366 17633 9.561069 AGTAATTTAGTTTTCTCAGCAGAAGAA 57.439 29.630 0.00 0.00 39.90 2.52
8369 17636 7.807977 TTTAGTTTTCTCAGCAGAAGAATGT 57.192 32.000 0.00 0.00 39.90 2.71
8370 17637 7.807977 TTAGTTTTCTCAGCAGAAGAATGTT 57.192 32.000 0.00 0.00 39.90 2.71
8371 17638 6.069684 AGTTTTCTCAGCAGAAGAATGTTG 57.930 37.500 0.00 0.00 39.90 3.33
8372 17639 4.494350 TTTCTCAGCAGAAGAATGTTGC 57.506 40.909 0.00 0.00 39.90 4.17
8378 17645 3.952931 AGCAGAAGAATGTTGCTGATCT 58.047 40.909 0.00 0.00 45.75 2.75
8379 17646 3.940221 AGCAGAAGAATGTTGCTGATCTC 59.060 43.478 0.00 0.00 45.75 2.75
8380 17647 3.688185 GCAGAAGAATGTTGCTGATCTCA 59.312 43.478 0.00 0.00 35.05 3.27
8381 17648 4.335874 GCAGAAGAATGTTGCTGATCTCAT 59.664 41.667 0.00 0.00 35.05 2.90
8382 17649 5.504337 GCAGAAGAATGTTGCTGATCTCATC 60.504 44.000 0.00 0.00 35.05 2.92
8383 17650 5.818336 CAGAAGAATGTTGCTGATCTCATCT 59.182 40.000 0.00 0.00 0.00 2.90
8384 17651 5.818336 AGAAGAATGTTGCTGATCTCATCTG 59.182 40.000 0.00 0.00 0.00 2.90
8385 17652 4.452825 AGAATGTTGCTGATCTCATCTGG 58.547 43.478 0.00 0.00 0.00 3.86
8386 17653 2.034104 TGTTGCTGATCTCATCTGGC 57.966 50.000 0.00 0.00 0.00 4.85
8387 17654 1.558294 TGTTGCTGATCTCATCTGGCT 59.442 47.619 0.00 0.00 32.82 4.75
8388 17655 2.026542 TGTTGCTGATCTCATCTGGCTT 60.027 45.455 0.00 0.00 32.82 4.35
8389 17656 2.327200 TGCTGATCTCATCTGGCTTG 57.673 50.000 0.00 0.00 32.82 4.01
8390 17657 0.945813 GCTGATCTCATCTGGCTTGC 59.054 55.000 0.00 0.00 0.00 4.01
8391 17658 1.475392 GCTGATCTCATCTGGCTTGCT 60.475 52.381 0.00 0.00 0.00 3.91
8392 17659 2.920524 CTGATCTCATCTGGCTTGCTT 58.079 47.619 0.00 0.00 0.00 3.91
8393 17660 2.614520 CTGATCTCATCTGGCTTGCTTG 59.385 50.000 0.00 0.00 0.00 4.01
8394 17661 2.237893 TGATCTCATCTGGCTTGCTTGA 59.762 45.455 0.00 0.00 0.00 3.02
8395 17662 2.865119 TCTCATCTGGCTTGCTTGAA 57.135 45.000 0.00 0.00 0.00 2.69
8396 17663 2.708051 TCTCATCTGGCTTGCTTGAAG 58.292 47.619 0.00 0.00 34.41 3.02
8397 17664 2.039480 TCTCATCTGGCTTGCTTGAAGT 59.961 45.455 0.00 0.00 33.73 3.01
8398 17665 2.419324 CTCATCTGGCTTGCTTGAAGTC 59.581 50.000 0.00 0.00 36.75 3.01
8399 17666 2.156917 CATCTGGCTTGCTTGAAGTCA 58.843 47.619 0.00 0.00 44.28 3.41
8400 17667 2.574006 TCTGGCTTGCTTGAAGTCAT 57.426 45.000 0.00 0.00 45.35 3.06
8401 17668 2.156917 TCTGGCTTGCTTGAAGTCATG 58.843 47.619 0.00 0.00 45.35 3.07
8402 17669 2.156917 CTGGCTTGCTTGAAGTCATGA 58.843 47.619 0.00 0.00 45.35 3.07
8403 17670 1.881973 TGGCTTGCTTGAAGTCATGAC 59.118 47.619 18.47 18.47 41.53 3.06
8404 17671 1.200948 GGCTTGCTTGAAGTCATGACC 59.799 52.381 22.21 8.64 36.19 4.02
8405 17672 2.157738 GCTTGCTTGAAGTCATGACCT 58.842 47.619 22.21 9.80 33.73 3.85
8406 17673 2.555757 GCTTGCTTGAAGTCATGACCTT 59.444 45.455 22.21 15.00 33.73 3.50
8407 17674 3.365767 GCTTGCTTGAAGTCATGACCTTC 60.366 47.826 22.21 21.73 33.73 3.46
8408 17675 3.490439 TGCTTGAAGTCATGACCTTCA 57.510 42.857 24.55 24.55 35.60 3.02
8409 17676 3.405831 TGCTTGAAGTCATGACCTTCAG 58.594 45.455 25.74 22.06 38.19 3.02
8410 17677 3.181451 TGCTTGAAGTCATGACCTTCAGT 60.181 43.478 25.74 8.44 38.19 3.41
8411 17678 3.817647 GCTTGAAGTCATGACCTTCAGTT 59.182 43.478 25.74 14.75 38.19 3.16
8412 17679 4.320057 GCTTGAAGTCATGACCTTCAGTTG 60.320 45.833 25.74 21.95 38.19 3.16
8413 17680 4.422073 TGAAGTCATGACCTTCAGTTGT 57.578 40.909 24.55 5.05 33.75 3.32
8414 17681 4.129380 TGAAGTCATGACCTTCAGTTGTG 58.871 43.478 24.55 0.00 33.75 3.33
8415 17682 3.845781 AGTCATGACCTTCAGTTGTGT 57.154 42.857 22.21 0.00 0.00 3.72
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.271102 GTATTGTTCCAGGCGCCAAAA 59.729 47.619 31.54 16.65 0.00 2.44
5 6 0.963355 GGTATTGTTCCAGGCGCCAA 60.963 55.000 31.54 13.75 0.00 4.52
7 8 0.963355 TTGGTATTGTTCCAGGCGCC 60.963 55.000 21.89 21.89 36.28 6.53
8 9 0.451783 CTTGGTATTGTTCCAGGCGC 59.548 55.000 0.00 0.00 36.28 6.53
9 10 1.821216 ACTTGGTATTGTTCCAGGCG 58.179 50.000 0.00 0.00 35.82 5.52
10 11 4.705023 ACATAACTTGGTATTGTTCCAGGC 59.295 41.667 0.00 0.00 35.82 4.85
11 12 6.432783 TCAACATAACTTGGTATTGTTCCAGG 59.567 38.462 0.00 0.00 37.92 4.45
12 13 7.447374 TCAACATAACTTGGTATTGTTCCAG 57.553 36.000 0.00 0.00 36.28 3.86
13 14 7.285629 TGTTCAACATAACTTGGTATTGTTCCA 59.714 33.333 0.00 0.00 0.00 3.53
14 15 7.653647 TGTTCAACATAACTTGGTATTGTTCC 58.346 34.615 0.00 0.00 0.00 3.62
15 16 9.691362 ATTGTTCAACATAACTTGGTATTGTTC 57.309 29.630 0.00 0.00 0.00 3.18
18 19 9.567848 GGTATTGTTCAACATAACTTGGTATTG 57.432 33.333 0.00 0.00 0.00 1.90
19 20 9.303116 TGGTATTGTTCAACATAACTTGGTATT 57.697 29.630 0.00 0.00 0.00 1.89
20 21 8.871629 TGGTATTGTTCAACATAACTTGGTAT 57.128 30.769 0.00 0.00 0.00 2.73
21 22 8.569641 GTTGGTATTGTTCAACATAACTTGGTA 58.430 33.333 0.00 0.00 41.85 3.25
22 23 7.068839 TGTTGGTATTGTTCAACATAACTTGGT 59.931 33.333 4.98 0.00 45.40 3.67
23 24 7.429633 TGTTGGTATTGTTCAACATAACTTGG 58.570 34.615 4.98 0.00 45.40 3.61
32 33 7.826690 ACTTCCATATGTTGGTATTGTTCAAC 58.173 34.615 1.24 0.00 46.52 3.18
33 34 9.521841 TTACTTCCATATGTTGGTATTGTTCAA 57.478 29.630 1.24 0.00 46.52 2.69
34 35 9.521841 TTTACTTCCATATGTTGGTATTGTTCA 57.478 29.630 1.24 0.00 46.52 3.18
60 61 6.019152 CGCGCATAACAGTACAAGTATTTTT 58.981 36.000 8.75 0.00 0.00 1.94
61 62 5.121142 ACGCGCATAACAGTACAAGTATTTT 59.879 36.000 5.73 0.00 0.00 1.82
62 63 4.628333 ACGCGCATAACAGTACAAGTATTT 59.372 37.500 5.73 0.00 0.00 1.40
63 64 4.178540 ACGCGCATAACAGTACAAGTATT 58.821 39.130 5.73 0.00 0.00 1.89
64 65 3.777478 ACGCGCATAACAGTACAAGTAT 58.223 40.909 5.73 0.00 0.00 2.12
65 66 3.173599 GACGCGCATAACAGTACAAGTA 58.826 45.455 5.73 0.00 0.00 2.24
66 67 1.990563 GACGCGCATAACAGTACAAGT 59.009 47.619 5.73 0.00 0.00 3.16
67 68 1.323534 GGACGCGCATAACAGTACAAG 59.676 52.381 5.73 0.00 0.00 3.16
68 69 1.352114 GGACGCGCATAACAGTACAA 58.648 50.000 5.73 0.00 0.00 2.41
69 70 0.799152 CGGACGCGCATAACAGTACA 60.799 55.000 5.73 0.00 0.00 2.90
70 71 0.523968 TCGGACGCGCATAACAGTAC 60.524 55.000 5.73 0.00 0.00 2.73
71 72 0.382873 ATCGGACGCGCATAACAGTA 59.617 50.000 5.73 0.00 0.00 2.74
72 73 0.870307 GATCGGACGCGCATAACAGT 60.870 55.000 5.73 0.00 0.00 3.55
73 74 1.548973 GGATCGGACGCGCATAACAG 61.549 60.000 5.73 0.00 0.00 3.16
74 75 1.590525 GGATCGGACGCGCATAACA 60.591 57.895 5.73 0.00 0.00 2.41
75 76 1.548973 CTGGATCGGACGCGCATAAC 61.549 60.000 5.73 0.00 0.00 1.89
76 77 1.299850 CTGGATCGGACGCGCATAA 60.300 57.895 5.73 0.00 0.00 1.90
77 78 1.524008 ATCTGGATCGGACGCGCATA 61.524 55.000 5.73 0.00 0.00 3.14
78 79 2.755542 GATCTGGATCGGACGCGCAT 62.756 60.000 5.73 0.00 0.00 4.73
79 80 3.484742 GATCTGGATCGGACGCGCA 62.485 63.158 5.73 0.00 0.00 6.09
80 81 2.731348 GATCTGGATCGGACGCGC 60.731 66.667 5.73 0.00 0.00 6.86
81 82 2.049985 GGATCTGGATCGGACGCG 60.050 66.667 3.53 3.53 38.69 6.01
82 83 0.598680 CTTGGATCTGGATCGGACGC 60.599 60.000 4.75 0.00 38.69 5.19
83 84 1.000827 CTCTTGGATCTGGATCGGACG 60.001 57.143 4.75 0.00 38.69 4.79
84 85 1.342819 CCTCTTGGATCTGGATCGGAC 59.657 57.143 4.75 0.00 38.69 4.79
85 86 1.062886 ACCTCTTGGATCTGGATCGGA 60.063 52.381 4.75 3.14 38.69 4.55
86 87 1.069823 CACCTCTTGGATCTGGATCGG 59.930 57.143 4.75 3.09 38.69 4.18
87 88 1.539929 GCACCTCTTGGATCTGGATCG 60.540 57.143 4.75 0.00 38.69 3.69
88 89 1.767681 AGCACCTCTTGGATCTGGATC 59.232 52.381 2.24 2.24 37.04 3.36
89 90 1.890552 AGCACCTCTTGGATCTGGAT 58.109 50.000 0.00 0.00 37.04 3.41
90 91 2.550277 TAGCACCTCTTGGATCTGGA 57.450 50.000 0.00 0.00 37.04 3.86
91 92 3.274288 GTTTAGCACCTCTTGGATCTGG 58.726 50.000 0.00 0.00 37.04 3.86
92 93 3.274288 GGTTTAGCACCTCTTGGATCTG 58.726 50.000 0.00 0.00 43.29 2.90
93 94 3.636153 GGTTTAGCACCTCTTGGATCT 57.364 47.619 0.00 0.00 43.29 2.75
104 105 3.767278 CGTAGGAGTACTGGTTTAGCAC 58.233 50.000 0.00 0.00 0.00 4.40
105 106 2.165030 GCGTAGGAGTACTGGTTTAGCA 59.835 50.000 0.00 0.00 0.00 3.49
106 107 2.426381 AGCGTAGGAGTACTGGTTTAGC 59.574 50.000 0.00 0.00 0.00 3.09
107 108 3.693085 TGAGCGTAGGAGTACTGGTTTAG 59.307 47.826 0.00 0.00 0.00 1.85
108 109 3.441572 GTGAGCGTAGGAGTACTGGTTTA 59.558 47.826 0.00 0.00 0.00 2.01
109 110 2.230750 GTGAGCGTAGGAGTACTGGTTT 59.769 50.000 0.00 0.00 0.00 3.27
110 111 1.817447 GTGAGCGTAGGAGTACTGGTT 59.183 52.381 0.00 0.00 0.00 3.67
111 112 1.004511 AGTGAGCGTAGGAGTACTGGT 59.995 52.381 0.00 0.00 0.00 4.00
112 113 1.671845 GAGTGAGCGTAGGAGTACTGG 59.328 57.143 0.00 0.00 0.00 4.00
113 114 2.353269 CTGAGTGAGCGTAGGAGTACTG 59.647 54.545 0.00 0.00 0.00 2.74
114 115 2.027007 ACTGAGTGAGCGTAGGAGTACT 60.027 50.000 0.00 0.00 0.00 2.73
115 116 2.352342 GACTGAGTGAGCGTAGGAGTAC 59.648 54.545 0.00 0.00 0.00 2.73
116 117 2.236644 AGACTGAGTGAGCGTAGGAGTA 59.763 50.000 0.00 0.00 0.00 2.59
117 118 1.003812 AGACTGAGTGAGCGTAGGAGT 59.996 52.381 0.00 0.00 0.00 3.85
118 119 1.745232 AGACTGAGTGAGCGTAGGAG 58.255 55.000 0.00 0.00 0.00 3.69
119 120 2.201921 AAGACTGAGTGAGCGTAGGA 57.798 50.000 0.00 0.00 0.00 2.94
120 121 3.246619 GAAAAGACTGAGTGAGCGTAGG 58.753 50.000 0.00 0.00 0.00 3.18
121 122 3.246619 GGAAAAGACTGAGTGAGCGTAG 58.753 50.000 0.00 0.00 0.00 3.51
122 123 2.626266 TGGAAAAGACTGAGTGAGCGTA 59.374 45.455 0.00 0.00 0.00 4.42
123 124 1.412710 TGGAAAAGACTGAGTGAGCGT 59.587 47.619 0.00 0.00 0.00 5.07
124 125 1.795286 GTGGAAAAGACTGAGTGAGCG 59.205 52.381 0.00 0.00 0.00 5.03
125 126 3.063485 GAGTGGAAAAGACTGAGTGAGC 58.937 50.000 0.00 0.00 0.00 4.26
126 127 4.054671 GTGAGTGGAAAAGACTGAGTGAG 58.945 47.826 0.00 0.00 0.00 3.51
127 128 3.706594 AGTGAGTGGAAAAGACTGAGTGA 59.293 43.478 0.00 0.00 0.00 3.41
128 129 4.054671 GAGTGAGTGGAAAAGACTGAGTG 58.945 47.826 0.00 0.00 0.00 3.51
129 130 3.706594 TGAGTGAGTGGAAAAGACTGAGT 59.293 43.478 0.00 0.00 0.00 3.41
130 131 4.054671 GTGAGTGAGTGGAAAAGACTGAG 58.945 47.826 0.00 0.00 0.00 3.35
131 132 3.706594 AGTGAGTGAGTGGAAAAGACTGA 59.293 43.478 0.00 0.00 0.00 3.41
132 133 4.054671 GAGTGAGTGAGTGGAAAAGACTG 58.945 47.826 0.00 0.00 0.00 3.51
133 134 3.964031 AGAGTGAGTGAGTGGAAAAGACT 59.036 43.478 0.00 0.00 0.00 3.24
134 135 4.054671 CAGAGTGAGTGAGTGGAAAAGAC 58.945 47.826 0.00 0.00 0.00 3.01
135 136 3.706594 ACAGAGTGAGTGAGTGGAAAAGA 59.293 43.478 0.00 0.00 0.00 2.52
136 137 4.054671 GACAGAGTGAGTGAGTGGAAAAG 58.945 47.826 0.00 0.00 0.00 2.27
137 138 3.490933 CGACAGAGTGAGTGAGTGGAAAA 60.491 47.826 0.00 0.00 0.00 2.29
138 139 2.034685 CGACAGAGTGAGTGAGTGGAAA 59.965 50.000 0.00 0.00 0.00 3.13
323 360 3.744003 TATCCGGTAGGGTGCGGCT 62.744 63.158 0.00 0.00 38.33 5.52
328 365 1.138266 CTGGTGTTATCCGGTAGGGTG 59.862 57.143 0.00 0.00 38.33 4.61
329 366 1.492764 CTGGTGTTATCCGGTAGGGT 58.507 55.000 0.00 0.00 38.33 4.34
333 381 2.104967 CTGACCTGGTGTTATCCGGTA 58.895 52.381 2.82 0.00 35.65 4.02
334 382 0.902531 CTGACCTGGTGTTATCCGGT 59.097 55.000 2.82 0.00 37.20 5.28
340 388 3.717842 GGCAACTGACCTGGTGTTA 57.282 52.632 2.82 0.00 0.00 2.41
362 410 2.622942 GAGCACGGAATGAGAGAGAGAT 59.377 50.000 0.00 0.00 0.00 2.75
373 421 2.146342 CACTGAAACAGAGCACGGAAT 58.854 47.619 5.76 0.00 35.18 3.01
374 422 1.581934 CACTGAAACAGAGCACGGAA 58.418 50.000 5.76 0.00 35.18 4.30
380 464 0.250467 TGGAGGCACTGAAACAGAGC 60.250 55.000 11.46 11.46 44.89 4.09
435 600 0.864455 CGCCTAGCTAGCTGCAAATC 59.136 55.000 27.68 8.97 45.94 2.17
492 689 1.385915 GGGATGGGGGATCTGACCA 60.386 63.158 6.13 6.13 38.88 4.02
516 713 2.287188 GCATTGATCCTATTGTGCCACG 60.287 50.000 0.00 0.00 0.00 4.94
524 721 4.891756 CCAAACTCAGGCATTGATCCTATT 59.108 41.667 0.00 0.00 34.68 1.73
617 838 6.212388 AGTGGGGAAACATGCATTTATTTGTA 59.788 34.615 0.00 0.00 0.00 2.41
619 840 5.490159 AGTGGGGAAACATGCATTTATTTG 58.510 37.500 0.00 0.00 0.00 2.32
623 844 4.016444 GAGAGTGGGGAAACATGCATTTA 58.984 43.478 0.00 0.00 0.00 1.40
667 922 7.115378 GCCAAGAATTTACAATCACAAGACAAG 59.885 37.037 0.00 0.00 0.00 3.16
670 925 5.863935 GGCCAAGAATTTACAATCACAAGAC 59.136 40.000 0.00 0.00 0.00 3.01
888 1207 0.978907 AAGCTGCAAATGAAAGGGGG 59.021 50.000 1.02 0.00 0.00 5.40
1105 4536 1.134965 CCTGAGGTCCTCGATGTTGAC 60.135 57.143 14.34 0.00 32.35 3.18
1134 4565 2.343758 GTGGCCTTGACGAGCAGA 59.656 61.111 3.32 0.00 0.00 4.26
1186 4617 3.473647 CAGCTCCTCCATGGCCGA 61.474 66.667 6.96 3.49 35.26 5.54
1502 4952 4.951963 GCGGCGAGGAGGAATCGG 62.952 72.222 12.98 0.00 40.50 4.18
1530 4980 0.902048 TGAGCTCCTGACCAGTCTGG 60.902 60.000 17.88 17.88 46.32 3.86
1589 5042 0.475632 ATGGGGATGCGGGGAAGATA 60.476 55.000 0.00 0.00 0.00 1.98
1701 5161 2.539750 GCGCATAAGCTTTAGTTGCTCC 60.540 50.000 3.20 0.62 40.22 4.70
1887 5347 2.550208 CGGAAGCACAGTTAGACCCTTT 60.550 50.000 0.00 0.00 0.00 3.11
2068 5531 3.575687 CTGCCCTCCTTTTCACTTTCAAT 59.424 43.478 0.00 0.00 0.00 2.57
2206 5669 4.830600 GGAACCCTTTTCTTGTGAATGGTA 59.169 41.667 0.00 0.00 32.39 3.25
2211 5674 3.640967 CCATGGAACCCTTTTCTTGTGAA 59.359 43.478 5.56 0.00 0.00 3.18
2522 5985 4.096231 CAGACATAATTCCATCGGTTTGCA 59.904 41.667 0.00 0.00 0.00 4.08
2556 6025 5.745227 TGGAAAGGGAGAAAGTTATAGCTG 58.255 41.667 0.00 0.00 0.00 4.24
2563 6032 3.181429 TGCAGATGGAAAGGGAGAAAGTT 60.181 43.478 0.00 0.00 0.00 2.66
2766 6241 2.502213 TAACATACCGCTGACCATCG 57.498 50.000 0.00 0.00 0.00 3.84
2817 6292 2.086094 AGACAATCATGCGATGCAACA 58.914 42.857 0.00 0.00 43.62 3.33
2849 6324 2.242196 ACCACTGATCCAACATTAGGGG 59.758 50.000 0.00 0.00 37.94 4.79
2987 6462 3.245754 CACCAATGTGTGCAAATGTTCAC 59.754 43.478 0.00 0.00 37.72 3.18
3538 7018 3.430790 CGCTCACTATCCCAGTTCAATGA 60.431 47.826 0.00 0.00 34.26 2.57
3570 7050 1.354040 CTGCTTCAACACTAGCCTCG 58.646 55.000 0.00 0.00 36.56 4.63
3718 7198 5.396324 GGAAAACTTCCCAAGAAACACCATT 60.396 40.000 0.00 0.00 44.30 3.16
3821 7301 6.567959 AGATTTATTAGCCTGCAAAAGCTTC 58.432 36.000 10.46 2.41 40.56 3.86
3843 7323 3.719871 TCCTAGGCCAATGAGTGTAAGA 58.280 45.455 5.01 0.00 0.00 2.10
4138 7651 7.575414 TTGAGTACCAAAAATGCTTCAGTAA 57.425 32.000 0.00 0.00 0.00 2.24
4153 7666 3.605634 CACCGGATGATTTTGAGTACCA 58.394 45.455 9.46 0.00 0.00 3.25
4314 7827 5.940192 TTACAAGCAATGTCTTCAACGAT 57.060 34.783 0.00 0.00 42.70 3.73
4393 7906 3.118629 TGGATACACTCAACATGGAGCTC 60.119 47.826 4.71 4.71 46.17 4.09
4533 8239 1.675483 GTTGTCTGTTGCACATCCACA 59.325 47.619 0.00 0.00 0.00 4.17
4575 8743 1.810441 CTCTTCCTCTGCTGCTGCG 60.810 63.158 11.21 6.13 43.34 5.18
4831 9013 4.338118 CAGTGTCCTTAAGCCTTTCACAAA 59.662 41.667 0.00 0.00 0.00 2.83
4832 9014 3.882888 CAGTGTCCTTAAGCCTTTCACAA 59.117 43.478 0.00 0.00 0.00 3.33
4845 9027 1.920835 GAGGGGCTCCAGTGTCCTT 60.921 63.158 4.79 0.00 34.83 3.36
5066 9248 0.167470 CAGTGTGGATGAAGCAAGCG 59.833 55.000 0.00 0.00 0.00 4.68
5310 9492 5.862845 ACTGATAATATCTTGAGGCTGGTG 58.137 41.667 0.00 0.00 0.00 4.17
5377 9559 2.859165 AGCTTTTCCAGTGAATCCGA 57.141 45.000 0.00 0.00 0.00 4.55
5422 9607 2.444010 ACCCCCTGCAGTACTGTTTTAA 59.556 45.455 23.44 4.75 0.00 1.52
5464 9649 8.258007 TGTTACCTTGGATCAGTGTATTAAGAG 58.742 37.037 0.00 0.00 0.00 2.85
5465 9650 8.038944 GTGTTACCTTGGATCAGTGTATTAAGA 58.961 37.037 0.00 0.00 0.00 2.10
5466 9651 7.822334 TGTGTTACCTTGGATCAGTGTATTAAG 59.178 37.037 0.00 0.00 0.00 1.85
5467 9652 7.681679 TGTGTTACCTTGGATCAGTGTATTAA 58.318 34.615 0.00 0.00 0.00 1.40
5468 9653 7.247456 TGTGTTACCTTGGATCAGTGTATTA 57.753 36.000 0.00 0.00 0.00 0.98
5469 9654 6.121776 TGTGTTACCTTGGATCAGTGTATT 57.878 37.500 0.00 0.00 0.00 1.89
5470 9655 5.755409 TGTGTTACCTTGGATCAGTGTAT 57.245 39.130 0.00 0.00 0.00 2.29
5471 9656 5.554437 TTGTGTTACCTTGGATCAGTGTA 57.446 39.130 0.00 0.00 0.00 2.90
5472 9657 4.431416 TTGTGTTACCTTGGATCAGTGT 57.569 40.909 0.00 0.00 0.00 3.55
5473 9658 4.578516 TGTTTGTGTTACCTTGGATCAGTG 59.421 41.667 0.00 0.00 0.00 3.66
5474 9659 4.787551 TGTTTGTGTTACCTTGGATCAGT 58.212 39.130 0.00 0.00 0.00 3.41
5475 9660 5.964958 ATGTTTGTGTTACCTTGGATCAG 57.035 39.130 0.00 0.00 0.00 2.90
5476 9661 6.539173 AGTATGTTTGTGTTACCTTGGATCA 58.461 36.000 0.00 0.00 0.00 2.92
5477 9662 7.448748 AAGTATGTTTGTGTTACCTTGGATC 57.551 36.000 0.00 0.00 0.00 3.36
5478 9663 7.724061 AGAAAGTATGTTTGTGTTACCTTGGAT 59.276 33.333 0.00 0.00 0.00 3.41
5479 9664 7.057894 AGAAAGTATGTTTGTGTTACCTTGGA 58.942 34.615 0.00 0.00 0.00 3.53
5480 9665 7.272037 AGAAAGTATGTTTGTGTTACCTTGG 57.728 36.000 0.00 0.00 0.00 3.61
5481 9666 7.647715 CCAAGAAAGTATGTTTGTGTTACCTTG 59.352 37.037 0.00 0.00 0.00 3.61
5482 9667 7.340999 ACCAAGAAAGTATGTTTGTGTTACCTT 59.659 33.333 0.00 0.00 0.00 3.50
5483 9668 6.831868 ACCAAGAAAGTATGTTTGTGTTACCT 59.168 34.615 0.00 0.00 0.00 3.08
5484 9669 6.915843 CACCAAGAAAGTATGTTTGTGTTACC 59.084 38.462 0.00 0.00 0.00 2.85
5485 9670 7.477494 ACACCAAGAAAGTATGTTTGTGTTAC 58.523 34.615 0.00 0.00 0.00 2.50
5486 9671 7.633193 ACACCAAGAAAGTATGTTTGTGTTA 57.367 32.000 0.00 0.00 0.00 2.41
5487 9672 6.524101 ACACCAAGAAAGTATGTTTGTGTT 57.476 33.333 0.00 0.00 0.00 3.32
5488 9673 6.524101 AACACCAAGAAAGTATGTTTGTGT 57.476 33.333 0.00 0.00 0.00 3.72
5489 9674 7.826260 AAAACACCAAGAAAGTATGTTTGTG 57.174 32.000 1.74 0.00 0.00 3.33
5490 9675 7.547722 GGAAAAACACCAAGAAAGTATGTTTGT 59.452 33.333 1.74 0.00 0.00 2.83
5491 9676 7.547370 TGGAAAAACACCAAGAAAGTATGTTTG 59.453 33.333 1.74 0.00 34.25 2.93
5492 9677 7.547722 GTGGAAAAACACCAAGAAAGTATGTTT 59.452 33.333 0.00 0.00 39.22 2.83
5493 9678 7.039270 GTGGAAAAACACCAAGAAAGTATGTT 58.961 34.615 0.00 0.00 39.22 2.71
5494 9679 6.379988 AGTGGAAAAACACCAAGAAAGTATGT 59.620 34.615 0.00 0.00 42.28 2.29
5495 9680 6.805713 AGTGGAAAAACACCAAGAAAGTATG 58.194 36.000 0.00 0.00 42.28 2.39
5496 9681 7.418337 AAGTGGAAAAACACCAAGAAAGTAT 57.582 32.000 0.00 0.00 42.28 2.12
5497 9682 6.844097 AAGTGGAAAAACACCAAGAAAGTA 57.156 33.333 0.00 0.00 42.28 2.24
5498 9683 5.738619 AAGTGGAAAAACACCAAGAAAGT 57.261 34.783 0.00 0.00 42.28 2.66
5499 9684 5.163864 GCAAAGTGGAAAAACACCAAGAAAG 60.164 40.000 0.00 0.00 42.28 2.62
5500 9685 4.693095 GCAAAGTGGAAAAACACCAAGAAA 59.307 37.500 0.00 0.00 42.28 2.52
5501 9686 4.249661 GCAAAGTGGAAAAACACCAAGAA 58.750 39.130 0.00 0.00 42.28 2.52
5502 9687 3.368948 GGCAAAGTGGAAAAACACCAAGA 60.369 43.478 0.00 0.00 42.28 3.02
5503 9688 2.935849 GGCAAAGTGGAAAAACACCAAG 59.064 45.455 0.00 0.00 42.28 3.61
5504 9689 2.355209 GGGCAAAGTGGAAAAACACCAA 60.355 45.455 0.00 0.00 42.28 3.67
5505 9690 1.208293 GGGCAAAGTGGAAAAACACCA 59.792 47.619 0.00 0.00 42.28 4.17
5506 9691 1.208293 TGGGCAAAGTGGAAAAACACC 59.792 47.619 0.00 0.00 42.28 4.16
5507 9692 2.682155 TGGGCAAAGTGGAAAAACAC 57.318 45.000 0.00 0.00 41.63 3.32
5508 9693 2.768527 TGATGGGCAAAGTGGAAAAACA 59.231 40.909 0.00 0.00 0.00 2.83
5509 9694 3.467374 TGATGGGCAAAGTGGAAAAAC 57.533 42.857 0.00 0.00 0.00 2.43
5510 9695 3.645212 TGATGATGGGCAAAGTGGAAAAA 59.355 39.130 0.00 0.00 0.00 1.94
5511 9696 3.237746 TGATGATGGGCAAAGTGGAAAA 58.762 40.909 0.00 0.00 0.00 2.29
5512 9697 2.827322 CTGATGATGGGCAAAGTGGAAA 59.173 45.455 0.00 0.00 0.00 3.13
5513 9698 2.449464 CTGATGATGGGCAAAGTGGAA 58.551 47.619 0.00 0.00 0.00 3.53
5514 9699 1.956636 GCTGATGATGGGCAAAGTGGA 60.957 52.381 0.00 0.00 0.00 4.02
5515 9700 0.458669 GCTGATGATGGGCAAAGTGG 59.541 55.000 0.00 0.00 0.00 4.00
5516 9701 0.458669 GGCTGATGATGGGCAAAGTG 59.541 55.000 0.00 0.00 0.00 3.16
5517 9702 0.333993 AGGCTGATGATGGGCAAAGT 59.666 50.000 0.00 0.00 0.00 2.66
5518 9703 0.744874 CAGGCTGATGATGGGCAAAG 59.255 55.000 9.42 0.00 0.00 2.77
5519 9704 0.685131 CCAGGCTGATGATGGGCAAA 60.685 55.000 17.94 0.00 0.00 3.68
5520 9705 1.076559 CCAGGCTGATGATGGGCAA 60.077 57.895 17.94 0.00 0.00 4.52
5521 9706 0.987613 TACCAGGCTGATGATGGGCA 60.988 55.000 17.94 0.00 38.48 5.36
5522 9707 0.250640 CTACCAGGCTGATGATGGGC 60.251 60.000 17.94 0.00 38.48 5.36
5523 9708 1.135094 ACTACCAGGCTGATGATGGG 58.865 55.000 17.94 0.00 38.48 4.00
5524 9709 1.764723 TCACTACCAGGCTGATGATGG 59.235 52.381 17.94 0.47 40.10 3.51
5525 9710 3.766068 ATCACTACCAGGCTGATGATG 57.234 47.619 17.94 9.13 0.00 3.07
5526 9711 5.340322 AGATATCACTACCAGGCTGATGAT 58.660 41.667 17.94 19.25 0.00 2.45
5527 9712 4.745351 AGATATCACTACCAGGCTGATGA 58.255 43.478 17.94 13.84 0.00 2.92
5528 9713 5.011431 TGAAGATATCACTACCAGGCTGATG 59.989 44.000 17.94 8.76 31.50 3.07
5529 9714 5.150715 TGAAGATATCACTACCAGGCTGAT 58.849 41.667 17.94 0.00 31.50 2.90
5530 9715 4.546674 TGAAGATATCACTACCAGGCTGA 58.453 43.478 17.94 0.00 31.50 4.26
5531 9716 4.798924 GCTGAAGATATCACTACCAGGCTG 60.799 50.000 7.75 7.75 33.47 4.85
5532 9717 3.323403 GCTGAAGATATCACTACCAGGCT 59.677 47.826 5.32 0.00 33.47 4.58
5533 9718 3.323403 AGCTGAAGATATCACTACCAGGC 59.677 47.826 5.32 0.00 33.47 4.85
5534 9719 4.798924 GCAGCTGAAGATATCACTACCAGG 60.799 50.000 20.43 0.00 33.47 4.45
5535 9720 4.202192 TGCAGCTGAAGATATCACTACCAG 60.202 45.833 20.43 5.66 33.47 4.00
5536 9721 3.706086 TGCAGCTGAAGATATCACTACCA 59.294 43.478 20.43 0.00 33.47 3.25
5537 9722 4.305769 CTGCAGCTGAAGATATCACTACC 58.694 47.826 17.72 0.00 33.47 3.18
5538 9723 4.305769 CCTGCAGCTGAAGATATCACTAC 58.694 47.826 24.34 0.00 33.47 2.73
5539 9724 3.323115 CCCTGCAGCTGAAGATATCACTA 59.677 47.826 24.34 0.00 33.47 2.74
5540 9725 2.104451 CCCTGCAGCTGAAGATATCACT 59.896 50.000 24.34 0.00 33.47 3.41
5541 9726 2.103771 TCCCTGCAGCTGAAGATATCAC 59.896 50.000 24.34 0.00 33.47 3.06
5542 9727 2.367894 CTCCCTGCAGCTGAAGATATCA 59.632 50.000 24.34 5.50 36.38 2.15
5543 9728 2.289569 CCTCCCTGCAGCTGAAGATATC 60.290 54.545 24.34 0.24 0.00 1.63
5544 9729 1.698532 CCTCCCTGCAGCTGAAGATAT 59.301 52.381 24.34 0.00 0.00 1.63
5545 9730 1.126488 CCTCCCTGCAGCTGAAGATA 58.874 55.000 24.34 9.44 0.00 1.98
5546 9731 0.619832 TCCTCCCTGCAGCTGAAGAT 60.620 55.000 24.34 0.00 0.00 2.40
5547 9732 1.229304 TCCTCCCTGCAGCTGAAGA 60.229 57.895 24.34 9.09 0.00 2.87
5548 9733 1.221293 CTCCTCCCTGCAGCTGAAG 59.779 63.158 20.43 17.87 0.00 3.02
5549 9734 2.964310 GCTCCTCCCTGCAGCTGAA 61.964 63.158 20.43 5.87 0.00 3.02
5550 9735 3.397439 GCTCCTCCCTGCAGCTGA 61.397 66.667 20.43 6.08 0.00 4.26
5551 9736 3.400928 AGCTCCTCCCTGCAGCTG 61.401 66.667 10.11 10.11 42.07 4.24
5552 9737 3.400928 CAGCTCCTCCCTGCAGCT 61.401 66.667 8.66 0.00 44.59 4.24
5553 9738 2.475371 TTTCAGCTCCTCCCTGCAGC 62.475 60.000 8.66 0.00 0.00 5.25
5615 9800 7.201947 CCTTGGATCAGTAGTCAATGATGTCTA 60.202 40.741 0.00 0.00 36.30 2.59
5616 9801 6.407865 CCTTGGATCAGTAGTCAATGATGTCT 60.408 42.308 0.00 0.00 36.30 3.41
5617 9802 5.757320 CCTTGGATCAGTAGTCAATGATGTC 59.243 44.000 0.00 0.00 36.30 3.06
5618 9803 5.190528 ACCTTGGATCAGTAGTCAATGATGT 59.809 40.000 0.00 0.00 36.30 3.06
5619 9804 5.678583 ACCTTGGATCAGTAGTCAATGATG 58.321 41.667 0.00 0.00 36.30 3.07
5620 9805 5.965033 ACCTTGGATCAGTAGTCAATGAT 57.035 39.130 0.00 0.00 38.84 2.45
5621 9806 6.212589 TGTTACCTTGGATCAGTAGTCAATGA 59.787 38.462 0.00 0.00 0.00 2.57
5622 9807 6.313905 GTGTTACCTTGGATCAGTAGTCAATG 59.686 42.308 0.00 0.00 0.00 2.82
5625 9816 4.836175 TGTGTTACCTTGGATCAGTAGTCA 59.164 41.667 0.00 0.00 0.00 3.41
5659 9861 6.374613 TGTTATTAGGAAAACACACACACACA 59.625 34.615 0.00 0.00 30.88 3.72
5660 9862 6.787225 TGTTATTAGGAAAACACACACACAC 58.213 36.000 0.00 0.00 30.88 3.82
5672 9874 9.016438 GGGAACAAACTATGTGTTATTAGGAAA 57.984 33.333 0.00 0.00 42.99 3.13
5673 9875 8.164733 TGGGAACAAACTATGTGTTATTAGGAA 58.835 33.333 0.00 0.00 42.99 3.36
5715 9948 1.272147 ACAAGGGAACTCCAAGGCATC 60.272 52.381 0.00 0.00 42.68 3.91
5814 10129 6.157123 ACCAGATTTAAGTAGAGGAAGGAAGG 59.843 42.308 0.00 0.00 0.00 3.46
5979 10300 7.145323 GGTTGCTAGATAGATCAACTTCTCTC 58.855 42.308 0.00 0.00 38.90 3.20
5980 10301 6.609212 TGGTTGCTAGATAGATCAACTTCTCT 59.391 38.462 0.00 0.00 38.90 3.10
6016 10355 6.662414 TGCTTCAACCAAGTTATCTATTCG 57.338 37.500 0.00 0.00 34.13 3.34
6027 10366 5.239306 TCACATCTACTTTGCTTCAACCAAG 59.761 40.000 0.00 0.00 34.85 3.61
6093 10432 3.826157 TCAGAAAGGTATTTTGGGTGCAG 59.174 43.478 0.00 0.00 0.00 4.41
6258 10693 4.154195 CACTACCGTTGAGAAGAAAATGGG 59.846 45.833 0.00 0.00 36.86 4.00
6338 10778 3.570975 GGCATTGGCTGATAATGATGTCA 59.429 43.478 2.42 0.00 37.65 3.58
6432 10895 7.987458 TGAAGAAGCCTATAAGATCGAACAAAT 59.013 33.333 0.00 0.00 0.00 2.32
6618 14909 2.693069 ACTCACAGCAACATAGCAGTC 58.307 47.619 0.00 0.00 36.85 3.51
6635 14926 2.543777 TGCAAGAACACCTGGTACTC 57.456 50.000 0.00 0.00 0.00 2.59
6669 14960 1.447317 AACACCTGAACAGCAAGCCG 61.447 55.000 0.00 0.00 0.00 5.52
6719 15011 7.543868 TGAGTTTTGGACAAAATGTAAACACAG 59.456 33.333 12.72 0.00 41.64 3.66
6763 15057 4.521256 CCCTAAAACTGAACATTTTCCGGA 59.479 41.667 0.00 0.00 31.79 5.14
6765 15059 5.699097 TCCCTAAAACTGAACATTTTCCG 57.301 39.130 0.00 0.00 31.79 4.30
6829 15131 2.950975 TGATCAGCAGCAAAACACTGAA 59.049 40.909 0.00 0.00 42.08 3.02
6866 15168 7.990886 CCTATAAGTTGCAAGTATACCTGGAAA 59.009 37.037 9.68 0.00 0.00 3.13
6867 15169 7.126726 ACCTATAAGTTGCAAGTATACCTGGAA 59.873 37.037 7.33 4.46 0.00 3.53
6898 15200 5.188434 AGCTACTGACAGTACGTATTGGTA 58.812 41.667 20.49 12.39 0.00 3.25
6899 15201 4.015084 AGCTACTGACAGTACGTATTGGT 58.985 43.478 20.49 11.97 0.00 3.67
6900 15202 4.634184 AGCTACTGACAGTACGTATTGG 57.366 45.455 20.49 7.07 0.00 3.16
6901 15203 7.640852 AGATTAGCTACTGACAGTACGTATTG 58.359 38.462 15.73 15.73 0.00 1.90
6902 15204 7.498239 TGAGATTAGCTACTGACAGTACGTATT 59.502 37.037 11.37 0.00 0.00 1.89
6903 15205 6.990939 TGAGATTAGCTACTGACAGTACGTAT 59.009 38.462 11.37 7.63 0.00 3.06
6906 15820 5.294799 ACTGAGATTAGCTACTGACAGTACG 59.705 44.000 11.37 8.98 35.95 3.67
6967 15889 3.152341 CCCAACTCAATCTGTTGCTTCT 58.848 45.455 0.00 0.00 42.25 2.85
7072 16007 2.191128 AGGATGTCACAAGGAACAGC 57.809 50.000 0.00 0.00 0.00 4.40
7147 16089 0.790814 GACCAGTGTGCGCTTTAGAC 59.209 55.000 9.73 0.00 0.00 2.59
7273 16227 5.105997 CCTGACCTTTATCCTTTTCTTGCAG 60.106 44.000 0.00 0.00 0.00 4.41
7357 16313 2.095768 GCGCAGATGAGTTGCTTGTTAA 60.096 45.455 0.30 0.00 39.38 2.01
7389 16345 3.763360 CTGCACATGGAGGAAAAATGGTA 59.237 43.478 0.00 0.00 0.00 3.25
7392 16348 2.232941 AGCTGCACATGGAGGAAAAATG 59.767 45.455 1.02 0.00 33.79 2.32
7394 16350 1.614903 CAGCTGCACATGGAGGAAAAA 59.385 47.619 0.00 0.00 33.79 1.94
7395 16351 1.202915 TCAGCTGCACATGGAGGAAAA 60.203 47.619 9.47 0.00 33.79 2.29
7396 16352 0.401356 TCAGCTGCACATGGAGGAAA 59.599 50.000 9.47 0.00 33.79 3.13
7397 16353 0.321919 GTCAGCTGCACATGGAGGAA 60.322 55.000 9.47 0.00 33.79 3.36
7398 16354 1.297689 GTCAGCTGCACATGGAGGA 59.702 57.895 9.47 0.00 33.79 3.71
7399 16355 1.002990 TGTCAGCTGCACATGGAGG 60.003 57.895 9.47 0.00 33.79 4.30
7400 16356 1.645704 GCTGTCAGCTGCACATGGAG 61.646 60.000 17.89 4.22 38.45 3.86
7401 16357 1.673337 GCTGTCAGCTGCACATGGA 60.673 57.895 17.89 0.00 38.45 3.41
7402 16358 2.697761 GGCTGTCAGCTGCACATGG 61.698 63.158 23.68 5.21 41.99 3.66
7403 16359 1.241990 AAGGCTGTCAGCTGCACATG 61.242 55.000 23.68 9.36 41.99 3.21
7404 16360 0.538977 AAAGGCTGTCAGCTGCACAT 60.539 50.000 23.68 0.00 41.99 3.21
7405 16361 0.752743 AAAAGGCTGTCAGCTGCACA 60.753 50.000 23.68 13.20 41.99 4.57
7406 16362 1.238439 TAAAAGGCTGTCAGCTGCAC 58.762 50.000 23.68 9.02 41.99 4.57
7407 16363 2.086869 GATAAAAGGCTGTCAGCTGCA 58.913 47.619 23.68 9.73 41.99 4.41
7408 16364 2.086869 TGATAAAAGGCTGTCAGCTGC 58.913 47.619 23.68 8.80 41.99 5.25
7409 16365 2.094894 CGTGATAAAAGGCTGTCAGCTG 59.905 50.000 23.68 7.63 41.99 4.24
7512 16507 1.627879 CAAAAATCGACCGGCCATTG 58.372 50.000 0.00 0.00 0.00 2.82
7519 16514 0.591170 ACACCTGCAAAAATCGACCG 59.409 50.000 0.00 0.00 0.00 4.79
7526 16521 4.404073 ACCAATTACTCACACCTGCAAAAA 59.596 37.500 0.00 0.00 0.00 1.94
7652 16724 5.655488 AGAACATGTTAGCTAGCTAGTGTG 58.345 41.667 26.49 23.87 0.00 3.82
7814 17045 7.498900 CAGGGTCAGATTATTTTATACTGCACA 59.501 37.037 0.00 0.00 0.00 4.57
7817 17048 7.173390 GGTCAGGGTCAGATTATTTTATACTGC 59.827 40.741 0.00 0.00 0.00 4.40
7877 17108 0.250640 AAGCTGCAGTCTGGTTCCTG 60.251 55.000 16.64 0.00 0.00 3.86
7893 17137 4.212214 ACAAGTGTCGATTTCTTCAGAAGC 59.788 41.667 5.15 0.00 35.21 3.86
7948 17201 7.828717 TGCTGTTAGATTTGATGAAGATAACCA 59.171 33.333 0.00 0.00 0.00 3.67
8299 17566 3.135530 GCTAGGTGAATTCAGAGGATGGT 59.864 47.826 8.80 0.00 0.00 3.55
8325 17592 8.140112 ACTAAATTACTCTCAGATCACACCTT 57.860 34.615 0.00 0.00 0.00 3.50
8360 17627 5.818336 CAGATGAGATCAGCAACATTCTTCT 59.182 40.000 0.42 0.00 34.14 2.85
8361 17628 5.007823 CCAGATGAGATCAGCAACATTCTTC 59.992 44.000 0.42 0.00 34.14 2.87
8362 17629 4.882427 CCAGATGAGATCAGCAACATTCTT 59.118 41.667 0.42 0.00 34.14 2.52
8363 17630 4.452825 CCAGATGAGATCAGCAACATTCT 58.547 43.478 0.42 0.00 34.14 2.40
8364 17631 3.003482 GCCAGATGAGATCAGCAACATTC 59.997 47.826 0.42 0.00 34.14 2.67
8365 17632 2.950309 GCCAGATGAGATCAGCAACATT 59.050 45.455 0.42 0.00 34.14 2.71
8366 17633 2.172930 AGCCAGATGAGATCAGCAACAT 59.827 45.455 0.42 0.00 34.14 2.71
8367 17634 1.558294 AGCCAGATGAGATCAGCAACA 59.442 47.619 0.42 0.00 34.14 3.33
8368 17635 2.328819 AGCCAGATGAGATCAGCAAC 57.671 50.000 0.42 0.00 34.14 4.17
8369 17636 2.640184 CAAGCCAGATGAGATCAGCAA 58.360 47.619 0.42 0.00 34.14 3.91
8370 17637 1.746171 GCAAGCCAGATGAGATCAGCA 60.746 52.381 0.42 0.00 34.14 4.41
8371 17638 0.945813 GCAAGCCAGATGAGATCAGC 59.054 55.000 0.00 0.00 0.00 4.26
8372 17639 2.614520 CAAGCAAGCCAGATGAGATCAG 59.385 50.000 0.00 0.00 0.00 2.90
8373 17640 2.237893 TCAAGCAAGCCAGATGAGATCA 59.762 45.455 0.00 0.00 0.00 2.92
8374 17641 2.915349 TCAAGCAAGCCAGATGAGATC 58.085 47.619 0.00 0.00 0.00 2.75
8375 17642 3.280295 CTTCAAGCAAGCCAGATGAGAT 58.720 45.455 0.00 0.00 0.00 2.75
8376 17643 2.039480 ACTTCAAGCAAGCCAGATGAGA 59.961 45.455 0.00 0.00 35.17 3.27
8377 17644 2.419324 GACTTCAAGCAAGCCAGATGAG 59.581 50.000 0.00 0.00 35.17 2.90
8378 17645 2.224597 TGACTTCAAGCAAGCCAGATGA 60.225 45.455 0.00 0.00 35.17 2.92
8379 17646 2.156917 TGACTTCAAGCAAGCCAGATG 58.843 47.619 0.00 0.00 35.17 2.90
8380 17647 2.574006 TGACTTCAAGCAAGCCAGAT 57.426 45.000 0.00 0.00 35.17 2.90
8381 17648 2.156917 CATGACTTCAAGCAAGCCAGA 58.843 47.619 0.00 0.00 35.17 3.86
8382 17649 2.095364 GTCATGACTTCAAGCAAGCCAG 60.095 50.000 18.83 0.00 35.17 4.85
8383 17650 1.881973 GTCATGACTTCAAGCAAGCCA 59.118 47.619 18.83 0.00 35.17 4.75
8384 17651 1.200948 GGTCATGACTTCAAGCAAGCC 59.799 52.381 24.50 0.23 35.17 4.35
8385 17652 2.157738 AGGTCATGACTTCAAGCAAGC 58.842 47.619 24.50 4.69 35.17 4.01
8386 17653 4.416505 GAAGGTCATGACTTCAAGCAAG 57.583 45.455 24.50 0.00 42.92 4.01
8393 17660 4.130118 ACACAACTGAAGGTCATGACTTC 58.870 43.478 24.50 22.64 43.52 3.01
8394 17661 4.156455 ACACAACTGAAGGTCATGACTT 57.844 40.909 24.50 15.52 0.00 3.01
8395 17662 3.845781 ACACAACTGAAGGTCATGACT 57.154 42.857 24.50 6.55 0.00 3.41


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

AutoCloner maintained by Alex Coulton.