Multiple sequence alignment - TraesCS6D01G174600

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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 TraesCS6D01G174600 chr6D 100.000 8310 0 0 1 8310 164760977 164769286 0.000000e+00 15346.0
1 TraesCS6D01G174600 chr6D 86.870 754 57 20 7342 8054 292079011 292078259 0.000000e+00 806.0
2 TraesCS6D01G174600 chr6D 92.806 278 15 5 568 844 448338196 448337923 1.680000e-106 398.0
3 TraesCS6D01G174600 chr6D 93.985 133 6 1 2216 2346 164764302 164764434 5.090000e-47 200.0
4 TraesCS6D01G174600 chr6B 95.426 2099 77 12 2718 4807 316607902 316605814 0.000000e+00 3326.0
5 TraesCS6D01G174600 chr6B 96.572 1546 35 7 5805 7342 316605819 316604284 0.000000e+00 2545.0
6 TraesCS6D01G174600 chr6B 94.959 734 25 6 939 1671 316609141 316608419 0.000000e+00 1140.0
7 TraesCS6D01G174600 chr6B 87.868 544 31 9 52 580 316660856 316660333 2.570000e-169 606.0
8 TraesCS6D01G174600 chr6B 88.386 508 25 11 2216 2720 316608423 316607947 1.550000e-161 580.0
9 TraesCS6D01G174600 chr6B 92.164 268 20 1 575 842 712457956 712458222 2.190000e-100 377.0
10 TraesCS6D01G174600 chr6B 94.737 133 5 1 2216 2346 316607295 316607163 1.090000e-48 206.0
11 TraesCS6D01G174600 chr6B 96.970 66 2 0 1 66 316660959 316660894 2.450000e-20 111.0
12 TraesCS6D01G174600 chr6B 80.469 128 19 2 5392 5518 642321215 642321093 8.880000e-15 93.5
13 TraesCS6D01G174600 chr6A 93.671 1185 49 5 2717 3877 259205001 259206183 0.000000e+00 1749.0
14 TraesCS6D01G174600 chr6A 97.354 945 18 5 3861 4805 259206195 259207132 0.000000e+00 1600.0
15 TraesCS6D01G174600 chr6A 94.712 832 24 10 842 1671 259203493 259204306 0.000000e+00 1275.0
16 TraesCS6D01G174600 chr6A 98.074 727 12 2 6616 7342 259207861 259208585 0.000000e+00 1264.0
17 TraesCS6D01G174600 chr6A 97.418 736 10 4 5806 6541 259207130 259207856 0.000000e+00 1245.0
18 TraesCS6D01G174600 chr6A 89.262 596 36 12 1 578 259202906 259203491 0.000000e+00 721.0
19 TraesCS6D01G174600 chr6A 88.246 553 55 4 1672 2215 573651472 573652023 0.000000e+00 652.0
20 TraesCS6D01G174600 chr6A 87.156 218 12 6 2511 2726 259204759 259204962 5.020000e-57 233.0
21 TraesCS6D01G174600 chr6A 93.985 133 6 1 2216 2346 259205632 259205764 5.090000e-47 200.0
22 TraesCS6D01G174600 chr6A 97.414 116 3 0 2216 2331 259204302 259204417 1.830000e-46 198.0
23 TraesCS6D01G174600 chr1D 95.016 943 43 2 4805 5743 48792932 48791990 0.000000e+00 1478.0
24 TraesCS6D01G174600 chr1D 84.414 725 70 21 7342 8036 399158874 399159585 0.000000e+00 673.0
25 TraesCS6D01G174600 chr1D 86.151 556 65 7 7491 8036 376788585 376789138 2.580000e-164 590.0
26 TraesCS6D01G174600 chr1D 78.977 176 27 8 4457 4624 300054349 300054522 2.450000e-20 111.0
27 TraesCS6D01G174600 chr1D 100.000 37 0 0 5769 5805 48791982 48791946 1.500000e-07 69.4
28 TraesCS6D01G174600 chr1D 100.000 32 0 0 2549 2580 110839499 110839468 9.010000e-05 60.2
29 TraesCS6D01G174600 chr2B 91.857 1007 71 6 4807 5806 548939704 548940706 0.000000e+00 1395.0
30 TraesCS6D01G174600 chr2B 88.727 550 54 4 1672 2215 797420261 797419714 0.000000e+00 665.0
31 TraesCS6D01G174600 chr2B 83.106 734 95 14 7342 8051 10415342 10416070 7.030000e-180 641.0
32 TraesCS6D01G174600 chr2B 77.230 1076 133 62 4805 5806 597547381 597546344 2.050000e-145 527.0
33 TraesCS6D01G174600 chr2B 80.071 562 70 33 4803 5347 28447058 28447594 6.090000e-101 379.0
34 TraesCS6D01G174600 chr2B 78.671 286 23 15 2225 2508 249524007 249523758 1.120000e-33 156.0
35 TraesCS6D01G174600 chr2B 80.193 207 26 4 2518 2723 23640075 23639883 3.130000e-29 141.0
36 TraesCS6D01G174600 chr2B 84.375 128 14 2 5392 5518 794326043 794326165 4.070000e-23 121.0
37 TraesCS6D01G174600 chr3A 91.658 1019 65 12 4802 5809 539198234 539197225 0.000000e+00 1393.0
38 TraesCS6D01G174600 chr3A 92.453 265 19 1 578 842 529744978 529744715 2.190000e-100 377.0
39 TraesCS6D01G174600 chr3A 92.164 268 18 3 576 842 5880418 5880153 7.870000e-100 375.0
40 TraesCS6D01G174600 chr7D 97.243 544 14 1 1672 2215 430953672 430954214 0.000000e+00 920.0
41 TraesCS6D01G174600 chr7D 92.857 266 17 2 8046 8310 77473153 77472889 1.310000e-102 385.0
42 TraesCS6D01G174600 chr7D 92.857 266 18 1 8046 8310 101338767 101339032 1.310000e-102 385.0
43 TraesCS6D01G174600 chr7D 84.122 296 33 8 2216 2507 100317220 100316935 2.960000e-69 274.0
44 TraesCS6D01G174600 chr7D 83.103 290 29 11 2225 2508 56934984 56934709 6.440000e-61 246.0
45 TraesCS6D01G174600 chr7D 80.702 171 30 3 2766 2934 2815017 2814848 6.770000e-26 130.0
46 TraesCS6D01G174600 chr7D 78.286 175 36 2 5633 5806 192691644 192691471 2.450000e-20 111.0
47 TraesCS6D01G174600 chr5D 84.274 744 78 16 7342 8051 276265428 276266166 0.000000e+00 689.0
48 TraesCS6D01G174600 chr5D 87.862 552 52 11 7505 8054 424080594 424080056 1.180000e-177 634.0
49 TraesCS6D01G174600 chr5D 84.561 285 30 7 2227 2508 509829074 509829347 3.820000e-68 270.0
50 TraesCS6D01G174600 chr5D 84.321 287 32 6 2225 2508 135750792 135751068 1.370000e-67 268.0
51 TraesCS6D01G174600 chr5D 88.235 204 20 2 4801 5001 64241810 64241608 3.000000e-59 241.0
52 TraesCS6D01G174600 chr5D 77.297 185 40 2 5624 5806 309682001 309682185 3.170000e-19 108.0
53 TraesCS6D01G174600 chr5D 83.721 86 12 2 405 489 201519601 201519517 6.910000e-11 80.5
54 TraesCS6D01G174600 chr5D 85.526 76 7 3 417 489 519816369 519816443 8.940000e-10 76.8
55 TraesCS6D01G174600 chr5A 84.196 734 87 22 7342 8051 52877115 52876387 0.000000e+00 686.0
56 TraesCS6D01G174600 chr5A 92.164 268 18 3 576 842 490049082 490049347 7.870000e-100 375.0
57 TraesCS6D01G174600 chr5A 81.215 181 14 14 7368 7546 547327299 547327461 2.430000e-25 128.0
58 TraesCS6D01G174600 chr5A 90.323 62 6 0 411 472 656660562 656660501 1.920000e-11 82.4
59 TraesCS6D01G174600 chr5A 77.698 139 23 5 4490 4622 464169005 464168869 2.490000e-10 78.7
60 TraesCS6D01G174600 chr5A 83.750 80 12 1 405 483 225789879 225789958 3.220000e-09 75.0
61 TraesCS6D01G174600 chr1A 89.094 541 56 3 1672 2212 78522020 78522557 0.000000e+00 669.0
62 TraesCS6D01G174600 chr1A 82.168 286 37 7 2226 2508 112967933 112968207 5.020000e-57 233.0
63 TraesCS6D01G174600 chr1A 82.517 286 26 11 2228 2504 1650307 1650577 6.490000e-56 230.0
64 TraesCS6D01G174600 chr1A 81.250 288 33 10 2228 2508 209353308 209353035 6.530000e-51 213.0
65 TraesCS6D01G174600 chr1A 84.293 191 16 3 2520 2709 580624967 580624790 3.080000e-39 174.0
66 TraesCS6D01G174600 chr1A 78.764 259 43 9 97 347 60503251 60503505 6.670000e-36 163.0
67 TraesCS6D01G174600 chr1A 88.136 118 11 2 2228 2343 532594867 532594983 4.050000e-28 137.0
68 TraesCS6D01G174600 chr3B 88.807 545 58 3 1672 2215 623315188 623314646 0.000000e+00 665.0
69 TraesCS6D01G174600 chr3B 88.624 545 59 3 1672 2215 628812897 628812355 0.000000e+00 660.0
70 TraesCS6D01G174600 chr3B 92.937 269 16 3 575 842 432599263 432599529 1.010000e-103 388.0
71 TraesCS6D01G174600 chr3B 91.039 279 20 5 576 852 501121596 501121321 1.020000e-98 372.0
72 TraesCS6D01G174600 chr3B 84.039 307 37 8 7342 7640 421012027 421011725 1.370000e-72 285.0
73 TraesCS6D01G174600 chr3B 78.423 482 66 28 3008 3457 128939346 128938871 6.350000e-71 279.0
74 TraesCS6D01G174600 chr3B 84.429 289 25 13 2225 2508 56052546 56052273 4.940000e-67 267.0
75 TraesCS6D01G174600 chr3B 82.673 202 21 4 2516 2716 159935636 159935824 5.160000e-37 167.0
76 TraesCS6D01G174600 chr3B 84.762 105 13 3 7341 7445 729687131 729687232 1.480000e-17 102.0
77 TraesCS6D01G174600 chr3B 75.500 200 39 8 4433 4624 70982834 70983031 1.150000e-13 89.8
78 TraesCS6D01G174600 chr2D 88.608 553 52 7 1672 2215 7137566 7137016 0.000000e+00 662.0
79 TraesCS6D01G174600 chr2D 88.406 552 55 3 1672 2215 602339374 602338824 0.000000e+00 656.0
80 TraesCS6D01G174600 chr2D 86.356 601 70 9 7459 8053 629575825 629575231 0.000000e+00 645.0
81 TraesCS6D01G174600 chr2D 92.884 267 15 4 8046 8310 520073283 520073019 1.310000e-102 385.0
82 TraesCS6D01G174600 chr2D 96.970 33 1 0 4592 4624 55404156 55404124 1.000000e-03 56.5
83 TraesCS6D01G174600 chr4D 87.900 562 57 7 1662 2215 444258861 444259419 0.000000e+00 651.0
84 TraesCS6D01G174600 chr4D 94.553 257 12 2 8056 8310 68804160 68803904 6.040000e-106 396.0
85 TraesCS6D01G174600 chr4D 94.553 257 11 3 8056 8310 287593727 287593472 2.170000e-105 394.0
86 TraesCS6D01G174600 chr4D 93.233 266 17 1 8046 8310 173151424 173151159 2.810000e-104 390.0
87 TraesCS6D01G174600 chr4D 79.231 520 64 21 7342 7819 54673622 54673105 1.040000e-83 322.0
88 TraesCS6D01G174600 chr4D 82.986 288 31 12 2225 2508 431405855 431406128 2.320000e-60 244.0
89 TraesCS6D01G174600 chr4D 94.000 50 3 0 411 460 325108320 325108271 8.940000e-10 76.8
90 TraesCS6D01G174600 chr4D 93.750 48 3 0 5762 5809 419687636 419687683 1.160000e-08 73.1
91 TraesCS6D01G174600 chr1B 83.039 737 96 19 7343 8051 392000401 392001136 7.030000e-180 641.0
92 TraesCS6D01G174600 chr1B 86.775 552 63 6 7491 8036 623959615 623960162 2.570000e-169 606.0
93 TraesCS6D01G174600 chr1B 78.333 480 70 25 3007 3457 457000476 457000002 6.350000e-71 279.0
94 TraesCS6D01G174600 chr1B 78.102 137 23 5 4488 4624 404902310 404902439 6.910000e-11 80.5
95 TraesCS6D01G174600 chr5B 87.619 525 56 7 7528 8051 313117583 313118099 1.190000e-167 601.0
96 TraesCS6D01G174600 chr5B 84.458 489 59 11 7346 7820 616436671 616437156 4.540000e-127 466.0
97 TraesCS6D01G174600 chr5B 78.526 475 67 25 3014 3457 473751838 473751368 6.350000e-71 279.0
98 TraesCS6D01G174600 chr5B 78.333 480 67 29 3008 3457 665957137 665957609 8.220000e-70 276.0
99 TraesCS6D01G174600 chr5B 78.307 189 37 4 5624 5810 25253676 25253490 1.470000e-22 119.0
100 TraesCS6D01G174600 chr5B 84.884 86 12 1 405 489 212190217 212190132 1.490000e-12 86.1
101 TraesCS6D01G174600 chr5B 86.207 58 8 0 5753 5810 477886376 477886319 6.960000e-06 63.9
102 TraesCS6D01G174600 chr4A 94.922 256 12 1 8054 8308 238587382 238587127 4.670000e-107 399.0
103 TraesCS6D01G174600 chr4A 92.135 267 20 1 576 842 107265040 107265305 7.870000e-100 375.0
104 TraesCS6D01G174600 chr4A 77.034 762 97 42 4804 5523 577808332 577809057 4.740000e-97 366.0
105 TraesCS6D01G174600 chr4A 87.622 307 32 5 3011 3314 175759271 175758968 1.330000e-92 351.0
106 TraesCS6D01G174600 chr4A 84.247 292 23 15 2224 2508 726668261 726667986 6.400000e-66 263.0
107 TraesCS6D01G174600 chr4A 83.158 285 28 10 2228 2508 313066256 313065988 8.330000e-60 243.0
108 TraesCS6D01G174600 chr7B 94.553 257 13 1 8055 8310 483833457 483833201 6.040000e-106 396.0
109 TraesCS6D01G174600 chr7B 94.531 256 12 2 8056 8310 525626020 525626274 2.170000e-105 394.0
110 TraesCS6D01G174600 chr7B 79.089 483 65 25 3008 3458 293068194 293067716 4.880000e-77 300.0
111 TraesCS6D01G174600 chr7A 92.193 269 18 3 577 844 717839773 717840039 2.190000e-100 377.0
112 TraesCS6D01G174600 chr7A 97.059 34 1 0 4591 4624 706368002 706367969 3.240000e-04 58.4
113 TraesCS6D01G174600 chr7A 74.534 161 26 14 1 151 515201024 515201179 1.000000e-03 56.5
114 TraesCS6D01G174600 chr2A 81.684 475 47 22 4805 5258 739935396 739935851 7.930000e-95 359.0
115 TraesCS6D01G174600 chr2A 76.531 392 53 23 7342 7703 447894316 447894698 2.380000e-40 178.0
116 TraesCS6D01G174600 chr2A 77.959 245 50 4 5563 5805 739936151 739936393 5.200000e-32 150.0
117 TraesCS6D01G174600 chr2A 82.114 123 16 2 5393 5514 765267634 765267751 5.310000e-17 100.0
118 TraesCS6D01G174600 chr3D 79.661 472 62 22 3015 3457 365522892 365522426 8.100000e-80 309.0
119 TraesCS6D01G174600 chr3D 80.189 318 32 5 7339 7628 586369401 586369715 8.450000e-50 209.0
120 TraesCS6D01G174600 chr3D 82.051 195 21 3 2516 2709 108379261 108379442 4.020000e-33 154.0
121 TraesCS6D01G174600 chr3D 82.249 169 18 7 5327 5491 548527958 548527798 1.450000e-27 135.0
122 TraesCS6D01G174600 chr3D 83.333 108 18 0 4436 4543 32351364 32351471 5.310000e-17 100.0
123 TraesCS6D01G174600 chrUn 86.321 212 24 3 4793 5001 19373872 19373663 8.390000e-55 226.0
124 TraesCS6D01G174600 chr4B 85.096 208 17 3 2517 2723 377969291 377969485 5.090000e-47 200.0
125 TraesCS6D01G174600 chr4B 90.909 55 4 1 407 460 405376805 405376751 1.160000e-08 73.1


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 TraesCS6D01G174600 chr6D 164760977 164769286 8309 False 15346.000000 15346 100.000000 1 8310 1 chr6D.!!$F1 8309
1 TraesCS6D01G174600 chr6D 292078259 292079011 752 True 806.000000 806 86.870000 7342 8054 1 chr6D.!!$R1 712
2 TraesCS6D01G174600 chr6B 316604284 316609141 4857 True 1559.400000 3326 94.016000 939 7342 5 chr6B.!!$R2 6403
3 TraesCS6D01G174600 chr6B 316660333 316660959 626 True 358.500000 606 92.419000 1 580 2 chr6B.!!$R3 579
4 TraesCS6D01G174600 chr6A 259202906 259208585 5679 False 942.777778 1749 94.338444 1 7342 9 chr6A.!!$F2 7341
5 TraesCS6D01G174600 chr6A 573651472 573652023 551 False 652.000000 652 88.246000 1672 2215 1 chr6A.!!$F1 543
6 TraesCS6D01G174600 chr1D 48791946 48792932 986 True 773.700000 1478 97.508000 4805 5805 2 chr1D.!!$R2 1000
7 TraesCS6D01G174600 chr1D 399158874 399159585 711 False 673.000000 673 84.414000 7342 8036 1 chr1D.!!$F3 694
8 TraesCS6D01G174600 chr1D 376788585 376789138 553 False 590.000000 590 86.151000 7491 8036 1 chr1D.!!$F2 545
9 TraesCS6D01G174600 chr2B 548939704 548940706 1002 False 1395.000000 1395 91.857000 4807 5806 1 chr2B.!!$F3 999
10 TraesCS6D01G174600 chr2B 797419714 797420261 547 True 665.000000 665 88.727000 1672 2215 1 chr2B.!!$R4 543
11 TraesCS6D01G174600 chr2B 10415342 10416070 728 False 641.000000 641 83.106000 7342 8051 1 chr2B.!!$F1 709
12 TraesCS6D01G174600 chr2B 597546344 597547381 1037 True 527.000000 527 77.230000 4805 5806 1 chr2B.!!$R3 1001
13 TraesCS6D01G174600 chr2B 28447058 28447594 536 False 379.000000 379 80.071000 4803 5347 1 chr2B.!!$F2 544
14 TraesCS6D01G174600 chr3A 539197225 539198234 1009 True 1393.000000 1393 91.658000 4802 5809 1 chr3A.!!$R3 1007
15 TraesCS6D01G174600 chr7D 430953672 430954214 542 False 920.000000 920 97.243000 1672 2215 1 chr7D.!!$F2 543
16 TraesCS6D01G174600 chr5D 276265428 276266166 738 False 689.000000 689 84.274000 7342 8051 1 chr5D.!!$F2 709
17 TraesCS6D01G174600 chr5D 424080056 424080594 538 True 634.000000 634 87.862000 7505 8054 1 chr5D.!!$R3 549
18 TraesCS6D01G174600 chr5A 52876387 52877115 728 True 686.000000 686 84.196000 7342 8051 1 chr5A.!!$R1 709
19 TraesCS6D01G174600 chr1A 78522020 78522557 537 False 669.000000 669 89.094000 1672 2212 1 chr1A.!!$F3 540
20 TraesCS6D01G174600 chr3B 623314646 623315188 542 True 665.000000 665 88.807000 1672 2215 1 chr3B.!!$R5 543
21 TraesCS6D01G174600 chr3B 628812355 628812897 542 True 660.000000 660 88.624000 1672 2215 1 chr3B.!!$R6 543
22 TraesCS6D01G174600 chr2D 7137016 7137566 550 True 662.000000 662 88.608000 1672 2215 1 chr2D.!!$R1 543
23 TraesCS6D01G174600 chr2D 602338824 602339374 550 True 656.000000 656 88.406000 1672 2215 1 chr2D.!!$R4 543
24 TraesCS6D01G174600 chr2D 629575231 629575825 594 True 645.000000 645 86.356000 7459 8053 1 chr2D.!!$R5 594
25 TraesCS6D01G174600 chr4D 444258861 444259419 558 False 651.000000 651 87.900000 1662 2215 1 chr4D.!!$F3 553
26 TraesCS6D01G174600 chr4D 54673105 54673622 517 True 322.000000 322 79.231000 7342 7819 1 chr4D.!!$R1 477
27 TraesCS6D01G174600 chr1B 392000401 392001136 735 False 641.000000 641 83.039000 7343 8051 1 chr1B.!!$F1 708
28 TraesCS6D01G174600 chr1B 623959615 623960162 547 False 606.000000 606 86.775000 7491 8036 1 chr1B.!!$F3 545
29 TraesCS6D01G174600 chr5B 313117583 313118099 516 False 601.000000 601 87.619000 7528 8051 1 chr5B.!!$F1 523
30 TraesCS6D01G174600 chr4A 577808332 577809057 725 False 366.000000 366 77.034000 4804 5523 1 chr4A.!!$F2 719
31 TraesCS6D01G174600 chr2A 739935396 739936393 997 False 254.500000 359 79.821500 4805 5805 2 chr2A.!!$F3 1000

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
596 661 0.033796 ATACTCCCTCCGTCCGTGAA 60.034 55.000 0.00 0.00 0.00 3.18 F
840 905 0.033796 TATTCACGGACGGAGGGAGT 60.034 55.000 0.00 0.00 0.00 3.85 F
841 906 0.033796 ATTCACGGACGGAGGGAGTA 60.034 55.000 0.00 0.00 0.00 2.59 F
842 907 0.679002 TTCACGGACGGAGGGAGTAG 60.679 60.000 0.00 0.00 0.00 2.57 F
2398 2477 0.681733 ACGCAGACTGTGAGATTGGT 59.318 50.000 22.51 0.00 0.00 3.67 F
2645 2888 1.002257 ATGATGGCGGTGCAGACAA 60.002 52.632 0.00 0.00 30.05 3.18 F
3233 3525 0.399454 CCCAAGCGGAGATCATGGAT 59.601 55.000 0.00 0.00 32.82 3.41 F
4543 4889 1.536662 GCGGGGAGGATATGAGGGT 60.537 63.158 0.00 0.00 0.00 4.34 F
5389 5837 0.541764 GAGCGGGAGAGAGGATCCAT 60.542 60.000 15.82 0.99 38.70 3.41 F
5817 6291 0.250553 CACACCCTTAGTTTCCCGCA 60.251 55.000 0.00 0.00 0.00 5.69 F
7047 7529 2.976882 GGGGGTATAACACTGCTCCATA 59.023 50.000 0.00 0.00 0.00 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2359 2438 0.508641 CACTACTGTTGTGACTGCGC 59.491 55.000 15.73 0.00 37.60 6.09 R
2640 2883 0.687354 ACCACCTCGCTTCATTGTCT 59.313 50.000 0.00 0.00 0.00 3.41 R
2645 2888 1.513158 CTCGACCACCTCGCTTCAT 59.487 57.895 0.00 0.00 42.62 2.57 R
2697 2940 3.120979 CTATCCGCTCGTCCGCACA 62.121 63.158 0.00 0.00 0.00 4.57 R
3217 3509 3.092301 TCGATATCCATGATCTCCGCTT 58.908 45.455 0.00 0.00 0.00 4.68 R
4568 4914 1.535202 TGGTGGGCCAAATCCAACC 60.535 57.895 8.40 3.48 42.83 3.77 R
5227 5618 2.094597 TGGCATGCAACTGCTACAATTC 60.095 45.455 21.36 0.00 41.95 2.17 R
5514 5963 0.975556 TACGAAGCCATGCTCCCAGA 60.976 55.000 0.00 0.00 38.25 3.86 R
7047 7529 0.178975 TCCGGCCAGTTTGAACCATT 60.179 50.000 2.24 0.00 0.00 3.16 R
7300 7785 1.980765 AGCCAGAACTTCCACTCATGA 59.019 47.619 0.00 0.00 0.00 3.07 R
8076 8706 0.037326 TTGGCAGAGGTTCGCTGTAG 60.037 55.000 0.00 0.00 33.92 2.74 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
136 184 4.322274 CGTAAAATGTGCACCAAAATACCG 59.678 41.667 15.69 3.55 0.00 4.02
177 225 4.784838 CCCACTCCATCATATCCCTAATCA 59.215 45.833 0.00 0.00 0.00 2.57
274 322 8.398878 TGACCAAGTTTAGAACGGAAAATATT 57.601 30.769 0.00 0.00 36.23 1.28
371 434 6.624710 TTTATCCGCAAATTTGATCAAACG 57.375 33.333 22.71 19.61 32.51 3.60
377 440 5.401079 CCGCAAATTTGATCAAACGTAAAGT 59.599 36.000 22.71 2.70 32.51 2.66
469 534 6.565247 GCTCGATAGTTCGTTTTCTCCAAAAA 60.565 38.462 0.00 0.00 45.65 1.94
580 645 8.126700 CGGTTTACATCCCTATTTGAAACATAC 58.873 37.037 0.00 0.00 0.00 2.39
581 646 9.185680 GGTTTACATCCCTATTTGAAACATACT 57.814 33.333 0.00 0.00 0.00 2.12
583 648 8.974060 TTACATCCCTATTTGAAACATACTCC 57.026 34.615 0.00 0.00 0.00 3.85
584 649 6.365520 ACATCCCTATTTGAAACATACTCCC 58.634 40.000 0.00 0.00 0.00 4.30
586 651 6.248569 TCCCTATTTGAAACATACTCCCTC 57.751 41.667 0.00 0.00 0.00 4.30
587 652 5.132144 TCCCTATTTGAAACATACTCCCTCC 59.868 44.000 0.00 0.00 0.00 4.30
588 653 5.057149 CCTATTTGAAACATACTCCCTCCG 58.943 45.833 0.00 0.00 0.00 4.63
589 654 4.569719 ATTTGAAACATACTCCCTCCGT 57.430 40.909 0.00 0.00 0.00 4.69
590 655 3.604875 TTGAAACATACTCCCTCCGTC 57.395 47.619 0.00 0.00 0.00 4.79
591 656 1.829222 TGAAACATACTCCCTCCGTCC 59.171 52.381 0.00 0.00 0.00 4.79
592 657 0.822164 AAACATACTCCCTCCGTCCG 59.178 55.000 0.00 0.00 0.00 4.79
593 658 0.324091 AACATACTCCCTCCGTCCGT 60.324 55.000 0.00 0.00 0.00 4.69
594 659 1.035932 ACATACTCCCTCCGTCCGTG 61.036 60.000 0.00 0.00 0.00 4.94
595 660 0.750546 CATACTCCCTCCGTCCGTGA 60.751 60.000 0.00 0.00 0.00 4.35
596 661 0.033796 ATACTCCCTCCGTCCGTGAA 60.034 55.000 0.00 0.00 0.00 3.18
597 662 0.033796 TACTCCCTCCGTCCGTGAAT 60.034 55.000 0.00 0.00 0.00 2.57
598 663 0.033796 ACTCCCTCCGTCCGTGAATA 60.034 55.000 0.00 0.00 0.00 1.75
599 664 1.108776 CTCCCTCCGTCCGTGAATAA 58.891 55.000 0.00 0.00 0.00 1.40
600 665 1.067212 CTCCCTCCGTCCGTGAATAAG 59.933 57.143 0.00 0.00 0.00 1.73
601 666 0.104304 CCCTCCGTCCGTGAATAAGG 59.896 60.000 0.00 0.00 0.00 2.69
602 667 0.104304 CCTCCGTCCGTGAATAAGGG 59.896 60.000 0.00 0.00 34.94 3.95
603 668 0.822164 CTCCGTCCGTGAATAAGGGT 59.178 55.000 0.00 0.00 35.20 4.34
604 669 2.026641 CTCCGTCCGTGAATAAGGGTA 58.973 52.381 0.00 0.00 35.20 3.69
605 670 1.750778 TCCGTCCGTGAATAAGGGTAC 59.249 52.381 0.00 0.00 35.20 3.34
606 671 1.477700 CCGTCCGTGAATAAGGGTACA 59.522 52.381 0.00 0.00 35.20 2.90
607 672 2.101917 CCGTCCGTGAATAAGGGTACAT 59.898 50.000 0.00 0.00 35.20 2.29
608 673 3.378339 CGTCCGTGAATAAGGGTACATC 58.622 50.000 0.00 0.00 35.20 3.06
609 674 3.067742 CGTCCGTGAATAAGGGTACATCT 59.932 47.826 0.00 0.00 35.20 2.90
610 675 4.276678 CGTCCGTGAATAAGGGTACATCTA 59.723 45.833 0.00 0.00 35.20 1.98
611 676 5.562307 CGTCCGTGAATAAGGGTACATCTAG 60.562 48.000 0.00 0.00 35.20 2.43
612 677 4.280174 TCCGTGAATAAGGGTACATCTAGC 59.720 45.833 0.00 0.00 35.20 3.42
613 678 4.281182 CCGTGAATAAGGGTACATCTAGCT 59.719 45.833 0.00 0.00 0.00 3.32
614 679 5.221461 CCGTGAATAAGGGTACATCTAGCTT 60.221 44.000 0.00 0.00 0.00 3.74
615 680 6.281405 CGTGAATAAGGGTACATCTAGCTTT 58.719 40.000 0.00 0.00 0.00 3.51
616 681 6.761714 CGTGAATAAGGGTACATCTAGCTTTT 59.238 38.462 0.00 0.00 0.00 2.27
617 682 7.254455 CGTGAATAAGGGTACATCTAGCTTTTG 60.254 40.741 0.00 0.00 0.00 2.44
618 683 7.553044 GTGAATAAGGGTACATCTAGCTTTTGT 59.447 37.037 0.00 0.00 0.00 2.83
619 684 7.769044 TGAATAAGGGTACATCTAGCTTTTGTC 59.231 37.037 0.00 0.00 0.00 3.18
620 685 5.763876 AAGGGTACATCTAGCTTTTGTCT 57.236 39.130 0.00 0.00 0.00 3.41
621 686 5.763876 AGGGTACATCTAGCTTTTGTCTT 57.236 39.130 0.00 0.00 0.00 3.01
622 687 6.869206 AGGGTACATCTAGCTTTTGTCTTA 57.131 37.500 0.00 0.00 0.00 2.10
623 688 7.253905 AGGGTACATCTAGCTTTTGTCTTAA 57.746 36.000 0.00 0.00 0.00 1.85
624 689 7.331791 AGGGTACATCTAGCTTTTGTCTTAAG 58.668 38.462 0.00 0.00 0.00 1.85
625 690 7.038231 AGGGTACATCTAGCTTTTGTCTTAAGT 60.038 37.037 1.63 0.00 0.00 2.24
626 691 7.278203 GGGTACATCTAGCTTTTGTCTTAAGTC 59.722 40.741 1.63 0.00 0.00 3.01
627 692 7.817962 GGTACATCTAGCTTTTGTCTTAAGTCA 59.182 37.037 1.63 0.00 0.00 3.41
628 693 9.204570 GTACATCTAGCTTTTGTCTTAAGTCAA 57.795 33.333 10.54 10.54 0.00 3.18
629 694 8.677148 ACATCTAGCTTTTGTCTTAAGTCAAA 57.323 30.769 19.60 19.60 32.81 2.69
630 695 8.778358 ACATCTAGCTTTTGTCTTAAGTCAAAG 58.222 33.333 21.47 17.68 35.29 2.77
631 696 8.778358 CATCTAGCTTTTGTCTTAAGTCAAAGT 58.222 33.333 21.47 15.13 35.29 2.66
632 697 8.732746 TCTAGCTTTTGTCTTAAGTCAAAGTT 57.267 30.769 21.47 17.02 35.29 2.66
633 698 9.174166 TCTAGCTTTTGTCTTAAGTCAAAGTTT 57.826 29.630 21.47 15.16 35.29 2.66
634 699 9.788960 CTAGCTTTTGTCTTAAGTCAAAGTTTT 57.211 29.630 21.47 13.93 35.29 2.43
660 725 7.669089 AAAAATTTGACCACCTTTCTAGGAA 57.331 32.000 0.00 0.00 45.05 3.36
661 726 7.669089 AAAATTTGACCACCTTTCTAGGAAA 57.331 32.000 0.00 0.00 45.05 3.13
662 727 7.669089 AAATTTGACCACCTTTCTAGGAAAA 57.331 32.000 0.00 0.00 45.05 2.29
663 728 7.669089 AATTTGACCACCTTTCTAGGAAAAA 57.331 32.000 0.00 0.00 45.05 1.94
664 729 6.709018 TTTGACCACCTTTCTAGGAAAAAG 57.291 37.500 0.00 0.00 45.05 2.27
665 730 5.382664 TGACCACCTTTCTAGGAAAAAGT 57.617 39.130 0.00 0.00 45.05 2.66
666 731 6.503560 TGACCACCTTTCTAGGAAAAAGTA 57.496 37.500 0.00 0.00 45.05 2.24
667 732 6.902408 TGACCACCTTTCTAGGAAAAAGTAA 58.098 36.000 0.00 0.00 45.05 2.24
668 733 7.348033 TGACCACCTTTCTAGGAAAAAGTAAA 58.652 34.615 0.00 0.00 45.05 2.01
669 734 7.283807 TGACCACCTTTCTAGGAAAAAGTAAAC 59.716 37.037 0.00 0.00 45.05 2.01
670 735 6.261603 ACCACCTTTCTAGGAAAAAGTAAACG 59.738 38.462 0.00 0.00 45.05 3.60
671 736 6.140786 CACCTTTCTAGGAAAAAGTAAACGC 58.859 40.000 0.00 0.00 45.05 4.84
672 737 5.824097 ACCTTTCTAGGAAAAAGTAAACGCA 59.176 36.000 0.00 0.00 45.05 5.24
673 738 6.489022 ACCTTTCTAGGAAAAAGTAAACGCAT 59.511 34.615 0.00 0.00 45.05 4.73
674 739 7.013942 ACCTTTCTAGGAAAAAGTAAACGCATT 59.986 33.333 0.00 0.00 45.05 3.56
675 740 7.865889 CCTTTCTAGGAAAAAGTAAACGCATTT 59.134 33.333 0.00 0.00 45.05 2.32
676 741 9.887406 CTTTCTAGGAAAAAGTAAACGCATTTA 57.113 29.630 0.00 0.00 0.00 1.40
678 743 9.834628 TTCTAGGAAAAAGTAAACGCATTTATG 57.165 29.630 0.00 0.00 32.91 1.90
679 744 8.455682 TCTAGGAAAAAGTAAACGCATTTATGG 58.544 33.333 0.00 0.00 32.91 2.74
680 745 5.867174 AGGAAAAAGTAAACGCATTTATGGC 59.133 36.000 0.00 0.00 32.91 4.40
681 746 5.635700 GGAAAAAGTAAACGCATTTATGGCA 59.364 36.000 0.00 0.00 32.91 4.92
682 747 6.400621 GGAAAAAGTAAACGCATTTATGGCAC 60.401 38.462 0.00 0.00 32.91 5.01
683 748 3.775661 AGTAAACGCATTTATGGCACC 57.224 42.857 0.00 0.00 32.91 5.01
684 749 3.085533 AGTAAACGCATTTATGGCACCA 58.914 40.909 0.00 0.00 32.91 4.17
685 750 3.508012 AGTAAACGCATTTATGGCACCAA 59.492 39.130 0.00 0.00 32.91 3.67
686 751 2.652941 AACGCATTTATGGCACCAAG 57.347 45.000 0.00 0.00 0.00 3.61
687 752 1.544724 ACGCATTTATGGCACCAAGT 58.455 45.000 0.00 0.00 0.00 3.16
688 753 1.892474 ACGCATTTATGGCACCAAGTT 59.108 42.857 0.00 0.00 0.00 2.66
689 754 3.085533 ACGCATTTATGGCACCAAGTTA 58.914 40.909 0.00 0.00 0.00 2.24
690 755 3.128589 ACGCATTTATGGCACCAAGTTAG 59.871 43.478 0.00 0.00 0.00 2.34
691 756 3.128589 CGCATTTATGGCACCAAGTTAGT 59.871 43.478 0.00 0.00 0.00 2.24
692 757 4.334203 CGCATTTATGGCACCAAGTTAGTA 59.666 41.667 0.00 0.00 0.00 1.82
693 758 5.578776 GCATTTATGGCACCAAGTTAGTAC 58.421 41.667 0.00 0.00 0.00 2.73
694 759 5.449999 GCATTTATGGCACCAAGTTAGTACC 60.450 44.000 0.00 0.00 0.00 3.34
695 760 4.912317 TTATGGCACCAAGTTAGTACCA 57.088 40.909 0.00 0.00 35.15 3.25
696 761 2.554370 TGGCACCAAGTTAGTACCAC 57.446 50.000 0.00 0.00 0.00 4.16
697 762 2.051692 TGGCACCAAGTTAGTACCACT 58.948 47.619 0.00 0.00 0.00 4.00
698 763 3.241156 TGGCACCAAGTTAGTACCACTA 58.759 45.455 0.00 0.00 0.00 2.74
699 764 3.259876 TGGCACCAAGTTAGTACCACTAG 59.740 47.826 0.00 0.00 31.47 2.57
700 765 3.512724 GGCACCAAGTTAGTACCACTAGA 59.487 47.826 0.00 0.00 31.47 2.43
701 766 4.161754 GGCACCAAGTTAGTACCACTAGAT 59.838 45.833 0.00 0.00 31.47 1.98
702 767 5.338137 GGCACCAAGTTAGTACCACTAGATT 60.338 44.000 0.00 0.00 31.47 2.40
703 768 6.171213 GCACCAAGTTAGTACCACTAGATTT 58.829 40.000 0.00 0.00 31.47 2.17
704 769 6.092259 GCACCAAGTTAGTACCACTAGATTTG 59.908 42.308 0.00 0.00 31.47 2.32
705 770 7.159372 CACCAAGTTAGTACCACTAGATTTGT 58.841 38.462 0.00 0.00 31.47 2.83
706 771 7.660208 CACCAAGTTAGTACCACTAGATTTGTT 59.340 37.037 0.00 0.00 31.47 2.83
707 772 8.215736 ACCAAGTTAGTACCACTAGATTTGTTT 58.784 33.333 0.00 0.00 31.47 2.83
708 773 9.063615 CCAAGTTAGTACCACTAGATTTGTTTT 57.936 33.333 0.00 0.00 31.47 2.43
710 775 9.841295 AAGTTAGTACCACTAGATTTGTTTTCA 57.159 29.630 0.00 0.00 31.47 2.69
711 776 9.841295 AGTTAGTACCACTAGATTTGTTTTCAA 57.159 29.630 0.00 0.00 33.35 2.69
812 877 8.570068 AACTTTGACTTAGAACAAAACCTACA 57.430 30.769 9.40 0.00 35.95 2.74
813 878 8.747538 ACTTTGACTTAGAACAAAACCTACAT 57.252 30.769 9.40 0.00 35.95 2.29
814 879 8.621286 ACTTTGACTTAGAACAAAACCTACATG 58.379 33.333 0.00 0.00 35.95 3.21
815 880 8.514330 TTTGACTTAGAACAAAACCTACATGT 57.486 30.769 2.69 2.69 33.90 3.21
816 881 9.616156 TTTGACTTAGAACAAAACCTACATGTA 57.384 29.630 5.25 5.25 33.90 2.29
817 882 8.597662 TGACTTAGAACAAAACCTACATGTAC 57.402 34.615 0.08 0.00 0.00 2.90
818 883 8.205512 TGACTTAGAACAAAACCTACATGTACA 58.794 33.333 0.08 0.00 0.00 2.90
819 884 8.374327 ACTTAGAACAAAACCTACATGTACAC 57.626 34.615 0.08 0.00 0.00 2.90
820 885 8.208903 ACTTAGAACAAAACCTACATGTACACT 58.791 33.333 0.08 0.00 0.00 3.55
821 886 8.967664 TTAGAACAAAACCTACATGTACACTT 57.032 30.769 0.08 0.00 0.00 3.16
824 889 9.569122 AGAACAAAACCTACATGTACACTTATT 57.431 29.630 0.08 0.00 0.00 1.40
825 890 9.821662 GAACAAAACCTACATGTACACTTATTC 57.178 33.333 0.08 0.00 0.00 1.75
826 891 8.911918 ACAAAACCTACATGTACACTTATTCA 57.088 30.769 0.08 0.00 0.00 2.57
827 892 8.780249 ACAAAACCTACATGTACACTTATTCAC 58.220 33.333 0.08 0.00 0.00 3.18
828 893 7.591006 AAACCTACATGTACACTTATTCACG 57.409 36.000 0.08 0.00 0.00 4.35
829 894 5.657474 ACCTACATGTACACTTATTCACGG 58.343 41.667 0.08 0.00 0.00 4.94
830 895 5.419788 ACCTACATGTACACTTATTCACGGA 59.580 40.000 0.08 0.00 0.00 4.69
831 896 5.747197 CCTACATGTACACTTATTCACGGAC 59.253 44.000 0.08 0.00 0.00 4.79
832 897 4.171005 ACATGTACACTTATTCACGGACG 58.829 43.478 0.00 0.00 0.00 4.79
833 898 3.220507 TGTACACTTATTCACGGACGG 57.779 47.619 0.00 0.00 0.00 4.79
834 899 2.819019 TGTACACTTATTCACGGACGGA 59.181 45.455 0.00 0.00 0.00 4.69
835 900 2.649331 ACACTTATTCACGGACGGAG 57.351 50.000 0.00 0.00 0.00 4.63
836 901 1.203994 ACACTTATTCACGGACGGAGG 59.796 52.381 0.00 0.00 0.00 4.30
837 902 0.822164 ACTTATTCACGGACGGAGGG 59.178 55.000 0.00 0.00 0.00 4.30
838 903 1.108776 CTTATTCACGGACGGAGGGA 58.891 55.000 0.00 0.00 0.00 4.20
839 904 1.067212 CTTATTCACGGACGGAGGGAG 59.933 57.143 0.00 0.00 0.00 4.30
840 905 0.033796 TATTCACGGACGGAGGGAGT 60.034 55.000 0.00 0.00 0.00 3.85
841 906 0.033796 ATTCACGGACGGAGGGAGTA 60.034 55.000 0.00 0.00 0.00 2.59
842 907 0.679002 TTCACGGACGGAGGGAGTAG 60.679 60.000 0.00 0.00 0.00 2.57
843 908 2.119655 CACGGACGGAGGGAGTAGG 61.120 68.421 0.00 0.00 0.00 3.18
844 909 2.518825 CGGACGGAGGGAGTAGGG 60.519 72.222 0.00 0.00 0.00 3.53
845 910 3.013631 GGACGGAGGGAGTAGGGA 58.986 66.667 0.00 0.00 0.00 4.20
846 911 1.152715 GGACGGAGGGAGTAGGGAG 60.153 68.421 0.00 0.00 0.00 4.30
847 912 1.614160 GACGGAGGGAGTAGGGAGT 59.386 63.158 0.00 0.00 0.00 3.85
851 916 2.043526 ACGGAGGGAGTAGGGAGTAAAA 59.956 50.000 0.00 0.00 0.00 1.52
883 948 6.315393 AGAAAACCGAGCAACATTATATTCGT 59.685 34.615 0.00 0.00 0.00 3.85
932 997 9.903682 TGAATTTGCATCTTCTTCTAGAAAAAG 57.096 29.630 11.67 11.67 33.19 2.27
937 1002 9.956720 TTGCATCTTCTTCTAGAAAAAGAAAAG 57.043 29.630 21.92 16.08 41.02 2.27
938 1003 9.342308 TGCATCTTCTTCTAGAAAAAGAAAAGA 57.658 29.630 21.92 15.09 41.02 2.52
1003 1068 5.619220 TCGAGGAATAGGTTCTAGGTAGAC 58.381 45.833 0.00 0.00 34.68 2.59
1011 1076 9.444600 GAATAGGTTCTAGGTAGACAGATCTAG 57.555 40.741 0.00 0.00 38.14 2.43
1013 1078 5.912354 AGGTTCTAGGTAGACAGATCTAGGA 59.088 44.000 0.00 0.00 38.14 2.94
1014 1079 5.999600 GGTTCTAGGTAGACAGATCTAGGAC 59.000 48.000 0.00 0.00 38.14 3.85
1015 1080 5.829062 TCTAGGTAGACAGATCTAGGACC 57.171 47.826 0.00 0.93 38.14 4.46
1016 1081 5.225227 TCTAGGTAGACAGATCTAGGACCA 58.775 45.833 14.40 4.02 38.14 4.02
1017 1082 4.173290 AGGTAGACAGATCTAGGACCAC 57.827 50.000 14.40 1.95 38.14 4.16
1018 1083 2.879646 GGTAGACAGATCTAGGACCACG 59.120 54.545 0.00 0.00 38.14 4.94
1019 1084 1.394618 AGACAGATCTAGGACCACGC 58.605 55.000 0.00 0.00 31.46 5.34
1020 1085 1.064314 AGACAGATCTAGGACCACGCT 60.064 52.381 0.00 0.00 31.46 5.07
1021 1086 2.172930 AGACAGATCTAGGACCACGCTA 59.827 50.000 0.00 0.00 31.46 4.26
1022 1087 2.950309 GACAGATCTAGGACCACGCTAA 59.050 50.000 0.00 0.00 0.00 3.09
1023 1088 3.362706 ACAGATCTAGGACCACGCTAAA 58.637 45.455 0.00 0.00 0.00 1.85
1227 1292 4.081642 GGTTTGGGGAATTTTCTAAGCCTC 60.082 45.833 4.63 0.00 0.00 4.70
1367 1432 3.071479 GGTGAGGTTGCTGAACGATTTA 58.929 45.455 0.00 0.00 32.28 1.40
1608 1674 2.802247 CGTGATTTGACACTTCAGAGCA 59.198 45.455 0.00 0.00 38.47 4.26
1611 1677 1.581934 TTTGACACTTCAGAGCACGG 58.418 50.000 0.00 0.00 31.71 4.94
1804 1870 0.691748 CATGGGTAGGGGACGGGTAA 60.692 60.000 0.00 0.00 0.00 2.85
1883 1949 5.586243 CCTTACCCATGATTCACAAGTGTAG 59.414 44.000 0.00 0.00 0.00 2.74
2007 2081 7.604164 TGAGTAGAGATCAATGTTCTTTTGTCC 59.396 37.037 0.00 0.00 0.00 4.02
2215 2292 1.149101 CCATACCCTACCCATTGCCT 58.851 55.000 0.00 0.00 0.00 4.75
2216 2293 1.202927 CCATACCCTACCCATTGCCTG 60.203 57.143 0.00 0.00 0.00 4.85
2217 2294 1.494721 CATACCCTACCCATTGCCTGT 59.505 52.381 0.00 0.00 0.00 4.00
2218 2295 2.572229 TACCCTACCCATTGCCTGTA 57.428 50.000 0.00 0.00 0.00 2.74
2219 2296 1.676248 ACCCTACCCATTGCCTGTAA 58.324 50.000 0.00 0.00 0.00 2.41
2260 2339 4.584743 TGAGCCTCGTGCATATATATAGGG 59.415 45.833 6.54 0.00 44.83 3.53
2282 2361 5.163195 GGGGTACATGATCAACTTGGAGTAT 60.163 44.000 0.00 0.00 0.00 2.12
2293 2372 9.421806 GATCAACTTGGAGTATAAGATGAGATG 57.578 37.037 0.00 0.00 39.33 2.90
2377 2456 0.939577 CGCGCAGTCACAACAGTAGT 60.940 55.000 8.75 0.00 0.00 2.73
2387 2466 1.681793 ACAACAGTAGTGACGCAGACT 59.318 47.619 4.09 0.00 0.00 3.24
2394 2473 1.252175 AGTGACGCAGACTGTGAGAT 58.748 50.000 22.51 0.00 0.00 2.75
2398 2477 0.681733 ACGCAGACTGTGAGATTGGT 59.318 50.000 22.51 0.00 0.00 3.67
2455 2534 2.890808 AGTCGTAATGGTCGATGCAT 57.109 45.000 0.00 0.00 39.45 3.96
2590 2833 2.126071 AATCCGACCGCACACGAG 60.126 61.111 0.00 0.00 43.93 4.18
2591 2834 3.642778 AATCCGACCGCACACGAGG 62.643 63.158 0.00 0.00 43.93 4.63
2593 2836 4.657824 CCGACCGCACACGAGGTT 62.658 66.667 0.00 0.00 46.56 3.50
2594 2837 3.403057 CGACCGCACACGAGGTTG 61.403 66.667 0.00 0.00 46.56 3.77
2595 2838 3.041940 GACCGCACACGAGGTTGG 61.042 66.667 0.00 0.00 46.56 3.77
2596 2839 4.619227 ACCGCACACGAGGTTGGG 62.619 66.667 0.00 0.00 43.76 4.12
2598 2841 4.308458 CGCACACGAGGTTGGGGA 62.308 66.667 0.00 0.00 43.93 4.81
2599 2842 2.668550 GCACACGAGGTTGGGGAC 60.669 66.667 0.00 0.00 0.00 4.46
2600 2843 2.357034 CACACGAGGTTGGGGACG 60.357 66.667 0.00 0.00 0.00 4.79
2601 2844 4.309950 ACACGAGGTTGGGGACGC 62.310 66.667 0.00 0.00 0.00 5.19
2602 2845 4.003788 CACGAGGTTGGGGACGCT 62.004 66.667 0.00 0.00 0.00 5.07
2640 2883 1.096967 GTGATGATGATGGCGGTGCA 61.097 55.000 0.00 0.00 0.00 4.57
2645 2888 1.002257 ATGATGGCGGTGCAGACAA 60.002 52.632 0.00 0.00 30.05 3.18
2797 3087 1.628846 AGGTTATGCAGGAGTCCGTTT 59.371 47.619 2.76 0.00 0.00 3.60
2937 3227 1.076923 ATGTCGGAGTAGAGGCGGT 60.077 57.895 0.00 0.00 0.00 5.68
3089 3379 5.332707 CGACATAATCCGATGTATGATCGT 58.667 41.667 13.22 0.00 40.18 3.73
3233 3525 0.399454 CCCAAGCGGAGATCATGGAT 59.601 55.000 0.00 0.00 32.82 3.41
3566 3880 4.284378 GCTCATTGCAGACTTATTGGTC 57.716 45.455 0.00 0.00 42.31 4.02
3660 3974 4.100963 TGGTTCTTACTTGCTTCTCTGACA 59.899 41.667 0.00 0.00 0.00 3.58
3674 3989 4.610333 TCTCTGACATAAGCTACTTCCCA 58.390 43.478 0.00 0.00 0.00 4.37
3979 4322 7.962964 AGTAGATGAAATTGAAAACTGACGA 57.037 32.000 0.00 0.00 0.00 4.20
4024 4367 6.127083 ACAAGAACATTGATTTGAACCCTGTT 60.127 34.615 0.00 0.00 0.00 3.16
4101 4444 5.874810 TCAGATAGTACTGCACAAATTGTCC 59.125 40.000 5.39 0.00 37.75 4.02
4175 4518 8.978874 AGATGTCCATTTGTGTTATATGCTTA 57.021 30.769 0.00 0.00 0.00 3.09
4414 4760 4.137543 CAACTTTCCCCCTATATGTCTGC 58.862 47.826 0.00 0.00 0.00 4.26
4415 4761 3.669949 ACTTTCCCCCTATATGTCTGCT 58.330 45.455 0.00 0.00 0.00 4.24
4543 4889 1.536662 GCGGGGAGGATATGAGGGT 60.537 63.158 0.00 0.00 0.00 4.34
4568 4914 4.742201 CGTGTCCGGGCAGTCCAG 62.742 72.222 10.28 0.00 34.36 3.86
4570 4916 4.954118 TGTCCGGGCAGTCCAGGT 62.954 66.667 3.51 0.00 46.38 4.00
4727 5076 4.018870 TCTTTCTTGTGGTGGCCATGTATA 60.019 41.667 9.72 0.00 35.28 1.47
4784 5133 1.826385 AAAGCACAGTACATCCTGGC 58.174 50.000 0.00 0.00 36.75 4.85
4793 5142 3.131577 CAGTACATCCTGGCATTGCAAAT 59.868 43.478 11.39 0.00 0.00 2.32
4895 5244 1.798813 CGTCCTTGTGTTTGGTAGAGC 59.201 52.381 0.00 0.00 0.00 4.09
4944 5293 5.744666 TTTCGGTGTTTGGTTTTAGAGAG 57.255 39.130 0.00 0.00 0.00 3.20
5035 5395 7.020602 TCAAACACAAACAAGACGCATATATG 58.979 34.615 8.45 8.45 0.00 1.78
5227 5618 0.589729 GCAGCACGACACACAACAAG 60.590 55.000 0.00 0.00 0.00 3.16
5389 5837 0.541764 GAGCGGGAGAGAGGATCCAT 60.542 60.000 15.82 0.99 38.70 3.41
5465 5914 3.268647 AAGGGGAGGGGACGACCAT 62.269 63.158 6.20 0.00 42.91 3.55
5561 6012 4.742201 GTCGCTCGCCTGCTTCCA 62.742 66.667 0.00 0.00 0.00 3.53
5691 6163 5.992217 GGTTCCGCATAAAGAGAGAATATGT 59.008 40.000 0.00 0.00 31.25 2.29
5716 6188 0.673644 CCAGGAATCGGTGCGTTCTT 60.674 55.000 0.00 0.00 0.00 2.52
5720 6192 1.144969 GAATCGGTGCGTTCTTGTCA 58.855 50.000 0.00 0.00 0.00 3.58
5767 6241 1.995626 CCAGGGATGGAACCGACCT 60.996 63.158 0.00 0.00 0.00 3.85
5809 6283 3.951680 CAGAAACCAAACACACCCTTAGT 59.048 43.478 0.00 0.00 0.00 2.24
5810 6284 4.401202 CAGAAACCAAACACACCCTTAGTT 59.599 41.667 0.00 0.00 0.00 2.24
5811 6285 5.020795 AGAAACCAAACACACCCTTAGTTT 58.979 37.500 0.00 0.00 36.00 2.66
5812 6286 4.994907 AACCAAACACACCCTTAGTTTC 57.005 40.909 0.00 0.00 33.54 2.78
5813 6287 3.293337 ACCAAACACACCCTTAGTTTCC 58.707 45.455 0.00 0.00 33.54 3.13
5814 6288 2.626266 CCAAACACACCCTTAGTTTCCC 59.374 50.000 0.00 0.00 33.54 3.97
5815 6289 2.265589 AACACACCCTTAGTTTCCCG 57.734 50.000 0.00 0.00 0.00 5.14
5816 6290 0.250597 ACACACCCTTAGTTTCCCGC 60.251 55.000 0.00 0.00 0.00 6.13
5817 6291 0.250553 CACACCCTTAGTTTCCCGCA 60.251 55.000 0.00 0.00 0.00 5.69
5861 6339 6.540189 CCATACTAGTAAAGCATCAGCAACTT 59.460 38.462 6.70 0.00 45.49 2.66
5862 6340 7.710907 CCATACTAGTAAAGCATCAGCAACTTA 59.289 37.037 6.70 0.00 45.49 2.24
5863 6341 8.759641 CATACTAGTAAAGCATCAGCAACTTAG 58.240 37.037 6.70 0.00 45.49 2.18
5864 6342 6.702329 ACTAGTAAAGCATCAGCAACTTAGT 58.298 36.000 0.00 0.00 45.49 2.24
5876 6354 8.976471 CATCAGCAACTTAGTTAGTCTATGATG 58.024 37.037 0.00 12.32 40.01 3.07
5955 6433 6.823689 GGACAATCTGTACTTGATGGTATGTT 59.176 38.462 8.69 0.00 29.01 2.71
5985 6463 7.739295 TGCTTTGAGATGTTTCGTACTATTTC 58.261 34.615 0.00 0.00 0.00 2.17
6734 7216 6.422333 TGGATGGTATGTAATTTGCTCTCAA 58.578 36.000 0.00 0.00 0.00 3.02
6772 7254 6.128282 CCTTACAATTTGTCGTTACAGCTCAT 60.128 38.462 5.07 0.00 36.83 2.90
6920 7402 4.986054 TTGGTAGCTTCTTTCCCAACTA 57.014 40.909 0.00 0.00 30.51 2.24
7047 7529 2.976882 GGGGGTATAACACTGCTCCATA 59.023 50.000 0.00 0.00 0.00 2.74
7319 7805 2.479566 TCATGAGTGGAAGTTCTGGC 57.520 50.000 2.25 0.00 0.00 4.85
7320 7806 1.980765 TCATGAGTGGAAGTTCTGGCT 59.019 47.619 2.25 0.00 0.00 4.75
7388 7874 4.162690 GCGATCGGGTTCCCAGCT 62.163 66.667 18.30 0.00 0.00 4.24
7416 7903 2.510918 GGTCGCCTTTAGACGCCC 60.511 66.667 0.00 0.00 39.38 6.13
7417 7904 2.577593 GTCGCCTTTAGACGCCCT 59.422 61.111 0.00 0.00 0.00 5.19
7485 7977 3.879295 CAGGACATAGATTCGGCAAACAT 59.121 43.478 0.00 0.00 0.00 2.71
7621 8241 1.371267 CGTCGTCCTTCTTCACGCA 60.371 57.895 0.00 0.00 35.93 5.24
7758 8383 4.593864 GCGCGGTGATCTCCTCCC 62.594 72.222 8.83 0.00 0.00 4.30
7763 8388 2.764128 GTGATCTCCTCCCGGGCA 60.764 66.667 18.49 2.37 34.39 5.36
7799 8424 3.626996 CTCCAGCCGTGCCCAATCA 62.627 63.158 0.00 0.00 0.00 2.57
7861 8486 1.081376 CGTTCTCGCTCTTCACGGT 60.081 57.895 0.00 0.00 0.00 4.83
7885 8510 3.702048 CCCCGGCTCCGTCTTCAA 61.702 66.667 7.59 0.00 37.81 2.69
7981 8610 3.127533 GCAGAGCGGCGTTTCCAT 61.128 61.111 9.37 0.00 34.01 3.41
8038 8668 0.263172 GAGGAGTGGGAGGAGGATCA 59.737 60.000 0.00 0.00 36.25 2.92
8051 8681 1.219213 GAGGATCAGGAGGAGGAGGAA 59.781 57.143 0.00 0.00 33.17 3.36
8054 8684 2.316108 GATCAGGAGGAGGAGGAAGAC 58.684 57.143 0.00 0.00 0.00 3.01
8055 8685 1.388174 TCAGGAGGAGGAGGAAGACT 58.612 55.000 0.00 0.00 0.00 3.24
8056 8686 1.006519 TCAGGAGGAGGAGGAAGACTG 59.993 57.143 0.00 0.00 0.00 3.51
8057 8687 1.089123 AGGAGGAGGAGGAAGACTGT 58.911 55.000 0.00 0.00 0.00 3.55
8058 8688 1.190643 GGAGGAGGAGGAAGACTGTG 58.809 60.000 0.00 0.00 0.00 3.66
8059 8689 1.272760 GGAGGAGGAGGAAGACTGTGA 60.273 57.143 0.00 0.00 0.00 3.58
8060 8690 1.822371 GAGGAGGAGGAAGACTGTGAC 59.178 57.143 0.00 0.00 0.00 3.67
8061 8691 0.528470 GGAGGAGGAAGACTGTGACG 59.472 60.000 0.00 0.00 0.00 4.35
8062 8692 0.109039 GAGGAGGAAGACTGTGACGC 60.109 60.000 0.00 0.00 0.00 5.19
8063 8693 1.079750 GGAGGAAGACTGTGACGCC 60.080 63.158 0.00 0.00 0.00 5.68
8064 8694 1.079750 GAGGAAGACTGTGACGCCC 60.080 63.158 0.00 0.00 0.00 6.13
8065 8695 2.432628 GGAAGACTGTGACGCCCG 60.433 66.667 0.00 0.00 0.00 6.13
8066 8696 2.432628 GAAGACTGTGACGCCCGG 60.433 66.667 0.00 0.00 0.00 5.73
8067 8697 2.915659 AAGACTGTGACGCCCGGA 60.916 61.111 0.73 0.00 0.00 5.14
8068 8698 2.227089 GAAGACTGTGACGCCCGGAT 62.227 60.000 0.73 0.00 0.00 4.18
8069 8699 0.968901 AAGACTGTGACGCCCGGATA 60.969 55.000 0.73 0.00 0.00 2.59
8070 8700 0.968901 AGACTGTGACGCCCGGATAA 60.969 55.000 0.73 0.00 0.00 1.75
8071 8701 0.104304 GACTGTGACGCCCGGATAAT 59.896 55.000 0.73 0.00 0.00 1.28
8072 8702 0.539986 ACTGTGACGCCCGGATAATT 59.460 50.000 0.73 0.00 0.00 1.40
8073 8703 1.758280 ACTGTGACGCCCGGATAATTA 59.242 47.619 0.73 0.00 0.00 1.40
8074 8704 2.168936 ACTGTGACGCCCGGATAATTAA 59.831 45.455 0.73 0.00 0.00 1.40
8075 8705 2.800544 CTGTGACGCCCGGATAATTAAG 59.199 50.000 0.73 0.00 0.00 1.85
8076 8706 1.529865 GTGACGCCCGGATAATTAAGC 59.470 52.381 0.73 0.00 0.00 3.09
8077 8707 1.414919 TGACGCCCGGATAATTAAGCT 59.585 47.619 0.73 0.00 0.00 3.74
8078 8708 2.629137 TGACGCCCGGATAATTAAGCTA 59.371 45.455 0.73 0.00 0.00 3.32
8079 8709 2.991866 GACGCCCGGATAATTAAGCTAC 59.008 50.000 0.73 0.00 0.00 3.58
8080 8710 2.366266 ACGCCCGGATAATTAAGCTACA 59.634 45.455 0.73 0.00 0.00 2.74
8081 8711 2.993899 CGCCCGGATAATTAAGCTACAG 59.006 50.000 0.73 0.00 0.00 2.74
8082 8712 2.742589 GCCCGGATAATTAAGCTACAGC 59.257 50.000 0.73 0.00 42.49 4.40
8092 8722 3.787458 GCTACAGCGAACCTCTGC 58.213 61.111 0.00 0.00 35.04 4.26
8093 8723 1.811679 GCTACAGCGAACCTCTGCC 60.812 63.158 0.00 0.00 35.04 4.85
8094 8724 1.591703 CTACAGCGAACCTCTGCCA 59.408 57.895 0.00 0.00 35.04 4.92
8095 8725 0.037326 CTACAGCGAACCTCTGCCAA 60.037 55.000 0.00 0.00 35.04 4.52
8096 8726 0.613260 TACAGCGAACCTCTGCCAAT 59.387 50.000 0.00 0.00 35.04 3.16
8097 8727 0.957395 ACAGCGAACCTCTGCCAATG 60.957 55.000 0.00 0.00 35.04 2.82
8098 8728 0.674581 CAGCGAACCTCTGCCAATGA 60.675 55.000 0.00 0.00 0.00 2.57
8099 8729 0.254178 AGCGAACCTCTGCCAATGAT 59.746 50.000 0.00 0.00 0.00 2.45
8100 8730 0.379669 GCGAACCTCTGCCAATGATG 59.620 55.000 0.00 0.00 0.00 3.07
8101 8731 0.379669 CGAACCTCTGCCAATGATGC 59.620 55.000 0.00 0.00 0.00 3.91
8102 8732 0.743097 GAACCTCTGCCAATGATGCC 59.257 55.000 0.00 0.00 0.00 4.40
8103 8733 0.040058 AACCTCTGCCAATGATGCCA 59.960 50.000 0.00 0.00 0.00 4.92
8104 8734 0.682209 ACCTCTGCCAATGATGCCAC 60.682 55.000 0.00 0.00 0.00 5.01
8105 8735 1.721664 CCTCTGCCAATGATGCCACG 61.722 60.000 0.00 0.00 0.00 4.94
8106 8736 1.002257 TCTGCCAATGATGCCACGT 60.002 52.632 0.00 0.00 0.00 4.49
8107 8737 1.026182 TCTGCCAATGATGCCACGTC 61.026 55.000 0.00 0.00 0.00 4.34
8108 8738 1.303155 TGCCAATGATGCCACGTCA 60.303 52.632 0.00 0.00 0.00 4.35
8109 8739 1.137404 GCCAATGATGCCACGTCAC 59.863 57.895 0.00 0.00 0.00 3.67
8110 8740 1.802636 CCAATGATGCCACGTCACC 59.197 57.895 0.00 0.00 0.00 4.02
8111 8741 0.677731 CCAATGATGCCACGTCACCT 60.678 55.000 0.00 0.00 0.00 4.00
8112 8742 0.729116 CAATGATGCCACGTCACCTC 59.271 55.000 0.00 0.00 0.00 3.85
8113 8743 0.392998 AATGATGCCACGTCACCTCC 60.393 55.000 0.00 0.00 0.00 4.30
8114 8744 2.509336 GATGCCACGTCACCTCCG 60.509 66.667 0.00 0.00 0.00 4.63
8115 8745 3.296709 GATGCCACGTCACCTCCGT 62.297 63.158 0.00 0.00 39.52 4.69
8116 8746 2.781595 GATGCCACGTCACCTCCGTT 62.782 60.000 0.00 0.00 36.17 4.44
8117 8747 1.537814 ATGCCACGTCACCTCCGTTA 61.538 55.000 0.00 0.00 36.17 3.18
8118 8748 1.735559 GCCACGTCACCTCCGTTAC 60.736 63.158 0.00 0.00 36.17 2.50
8119 8749 1.962144 CCACGTCACCTCCGTTACT 59.038 57.895 0.00 0.00 36.17 2.24
8120 8750 1.167851 CCACGTCACCTCCGTTACTA 58.832 55.000 0.00 0.00 36.17 1.82
8121 8751 1.747355 CCACGTCACCTCCGTTACTAT 59.253 52.381 0.00 0.00 36.17 2.12
8122 8752 2.165030 CCACGTCACCTCCGTTACTATT 59.835 50.000 0.00 0.00 36.17 1.73
8123 8753 3.176708 CACGTCACCTCCGTTACTATTG 58.823 50.000 0.00 0.00 36.17 1.90
8124 8754 2.190981 CGTCACCTCCGTTACTATTGC 58.809 52.381 0.00 0.00 0.00 3.56
8125 8755 2.159282 CGTCACCTCCGTTACTATTGCT 60.159 50.000 0.00 0.00 0.00 3.91
8126 8756 3.065786 CGTCACCTCCGTTACTATTGCTA 59.934 47.826 0.00 0.00 0.00 3.49
8127 8757 4.439153 CGTCACCTCCGTTACTATTGCTAA 60.439 45.833 0.00 0.00 0.00 3.09
8128 8758 5.598769 GTCACCTCCGTTACTATTGCTAAT 58.401 41.667 0.00 0.00 0.00 1.73
8129 8759 5.690857 GTCACCTCCGTTACTATTGCTAATC 59.309 44.000 0.00 0.00 0.00 1.75
8130 8760 5.597182 TCACCTCCGTTACTATTGCTAATCT 59.403 40.000 0.00 0.00 0.00 2.40
8131 8761 5.921408 CACCTCCGTTACTATTGCTAATCTC 59.079 44.000 0.00 0.00 0.00 2.75
8132 8762 5.154932 CCTCCGTTACTATTGCTAATCTCG 58.845 45.833 0.00 0.00 0.00 4.04
8133 8763 4.543692 TCCGTTACTATTGCTAATCTCGC 58.456 43.478 0.00 0.00 0.00 5.03
8134 8764 3.361053 CCGTTACTATTGCTAATCTCGCG 59.639 47.826 0.00 0.00 0.00 5.87
8135 8765 3.973135 CGTTACTATTGCTAATCTCGCGT 59.027 43.478 5.77 0.00 0.00 6.01
8136 8766 4.440103 CGTTACTATTGCTAATCTCGCGTT 59.560 41.667 5.77 0.00 0.00 4.84
8137 8767 5.622448 CGTTACTATTGCTAATCTCGCGTTA 59.378 40.000 5.77 0.00 0.00 3.18
8138 8768 6.183359 CGTTACTATTGCTAATCTCGCGTTAG 60.183 42.308 5.77 8.34 33.36 2.34
8139 8769 5.184340 ACTATTGCTAATCTCGCGTTAGT 57.816 39.130 5.77 0.00 32.90 2.24
8140 8770 5.589192 ACTATTGCTAATCTCGCGTTAGTT 58.411 37.500 5.77 0.00 32.90 2.24
8141 8771 5.686397 ACTATTGCTAATCTCGCGTTAGTTC 59.314 40.000 5.77 0.00 32.90 3.01
8142 8772 3.497297 TGCTAATCTCGCGTTAGTTCA 57.503 42.857 5.77 0.00 32.90 3.18
8143 8773 3.840468 TGCTAATCTCGCGTTAGTTCAA 58.160 40.909 5.77 0.00 32.90 2.69
8144 8774 4.239304 TGCTAATCTCGCGTTAGTTCAAA 58.761 39.130 5.77 0.00 32.90 2.69
8145 8775 4.687018 TGCTAATCTCGCGTTAGTTCAAAA 59.313 37.500 5.77 0.00 32.90 2.44
8146 8776 5.013859 GCTAATCTCGCGTTAGTTCAAAAC 58.986 41.667 5.77 0.00 32.90 2.43
8147 8777 4.400036 AATCTCGCGTTAGTTCAAAACC 57.600 40.909 5.77 0.00 0.00 3.27
8148 8778 1.788308 TCTCGCGTTAGTTCAAAACCG 59.212 47.619 5.77 0.00 0.00 4.44
8149 8779 1.788308 CTCGCGTTAGTTCAAAACCGA 59.212 47.619 5.77 0.00 32.53 4.69
8150 8780 2.406130 TCGCGTTAGTTCAAAACCGAT 58.594 42.857 5.77 0.00 30.22 4.18
8151 8781 2.801679 TCGCGTTAGTTCAAAACCGATT 59.198 40.909 5.77 0.00 30.22 3.34
8152 8782 3.120923 TCGCGTTAGTTCAAAACCGATTC 60.121 43.478 5.77 0.00 30.22 2.52
8153 8783 3.363182 CGCGTTAGTTCAAAACCGATTCA 60.363 43.478 0.00 0.00 0.00 2.57
8154 8784 4.529446 GCGTTAGTTCAAAACCGATTCAA 58.471 39.130 0.00 0.00 0.00 2.69
8155 8785 4.971220 GCGTTAGTTCAAAACCGATTCAAA 59.029 37.500 0.00 0.00 0.00 2.69
8156 8786 5.456173 GCGTTAGTTCAAAACCGATTCAAAA 59.544 36.000 0.00 0.00 0.00 2.44
8157 8787 6.143278 GCGTTAGTTCAAAACCGATTCAAAAT 59.857 34.615 0.00 0.00 0.00 1.82
8158 8788 7.616514 GCGTTAGTTCAAAACCGATTCAAAATC 60.617 37.037 0.00 0.00 0.00 2.17
8159 8789 7.149031 CGTTAGTTCAAAACCGATTCAAAATCC 60.149 37.037 0.00 0.00 0.00 3.01
8160 8790 6.155475 AGTTCAAAACCGATTCAAAATCCA 57.845 33.333 0.00 0.00 0.00 3.41
8161 8791 6.578023 AGTTCAAAACCGATTCAAAATCCAA 58.422 32.000 0.00 0.00 0.00 3.53
8162 8792 7.044798 AGTTCAAAACCGATTCAAAATCCAAA 58.955 30.769 0.00 0.00 0.00 3.28
8163 8793 7.714813 AGTTCAAAACCGATTCAAAATCCAAAT 59.285 29.630 0.00 0.00 0.00 2.32
8164 8794 8.341903 GTTCAAAACCGATTCAAAATCCAAATT 58.658 29.630 0.00 0.00 0.00 1.82
8165 8795 8.443953 TCAAAACCGATTCAAAATCCAAATTT 57.556 26.923 0.00 0.00 36.64 1.82
8166 8796 9.547753 TCAAAACCGATTCAAAATCCAAATTTA 57.452 25.926 0.00 0.00 33.93 1.40
8211 8841 8.862550 AAGCTCTCAAAAGTCAAAACTAAATG 57.137 30.769 0.00 0.00 33.48 2.32
8212 8842 8.000780 AGCTCTCAAAAGTCAAAACTAAATGT 57.999 30.769 0.00 0.00 33.48 2.71
8213 8843 8.470002 AGCTCTCAAAAGTCAAAACTAAATGTT 58.530 29.630 0.00 0.00 41.29 2.71
8214 8844 8.746751 GCTCTCAAAAGTCAAAACTAAATGTTC 58.253 33.333 0.00 0.00 38.03 3.18
8256 8886 9.965902 ATTCATAGGATATATTGGTGGAGAAAC 57.034 33.333 0.00 0.00 0.00 2.78
8257 8887 7.918076 TCATAGGATATATTGGTGGAGAAACC 58.082 38.462 0.00 0.00 40.94 3.27
8274 8904 9.362151 TGGAGAAACCAAGTCTTTATAAAATGT 57.638 29.630 0.00 0.00 46.75 2.71
8306 8936 9.667107 TGCACTAAACTAATTAAATCAGTAGCT 57.333 29.630 0.00 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
99 147 3.889196 TTTTACGGTGTGATTCTGTGC 57.111 42.857 0.00 0.00 0.00 4.57
151 199 4.228237 AGGGATATGATGGAGTGGGTTA 57.772 45.455 0.00 0.00 0.00 2.85
155 203 5.723405 TCTGATTAGGGATATGATGGAGTGG 59.277 44.000 0.00 0.00 0.00 4.00
177 225 7.004086 TGAAACTGATGGAGTATTTGGTTTCT 58.996 34.615 13.64 0.00 40.69 2.52
243 291 6.731164 TCCGTTCTAAACTTGGTCAAAATTC 58.269 36.000 0.00 0.00 0.00 2.17
580 645 1.067212 CTTATTCACGGACGGAGGGAG 59.933 57.143 0.00 0.00 0.00 4.30
581 646 1.108776 CTTATTCACGGACGGAGGGA 58.891 55.000 0.00 0.00 0.00 4.20
582 647 0.104304 CCTTATTCACGGACGGAGGG 59.896 60.000 0.00 0.00 0.00 4.30
583 648 0.104304 CCCTTATTCACGGACGGAGG 59.896 60.000 0.00 0.00 0.00 4.30
584 649 0.822164 ACCCTTATTCACGGACGGAG 59.178 55.000 0.00 0.00 0.00 4.63
586 651 1.477700 TGTACCCTTATTCACGGACGG 59.522 52.381 0.00 0.00 0.00 4.79
587 652 2.945447 TGTACCCTTATTCACGGACG 57.055 50.000 0.00 0.00 0.00 4.79
588 653 4.667519 AGATGTACCCTTATTCACGGAC 57.332 45.455 0.00 0.00 0.00 4.79
589 654 4.280174 GCTAGATGTACCCTTATTCACGGA 59.720 45.833 0.00 0.00 0.00 4.69
590 655 4.281182 AGCTAGATGTACCCTTATTCACGG 59.719 45.833 0.00 0.00 0.00 4.94
591 656 5.455056 AGCTAGATGTACCCTTATTCACG 57.545 43.478 0.00 0.00 0.00 4.35
592 657 7.553044 ACAAAAGCTAGATGTACCCTTATTCAC 59.447 37.037 0.00 0.00 0.00 3.18
593 658 7.630082 ACAAAAGCTAGATGTACCCTTATTCA 58.370 34.615 0.00 0.00 0.00 2.57
594 659 7.988028 AGACAAAAGCTAGATGTACCCTTATTC 59.012 37.037 0.00 0.00 0.00 1.75
595 660 7.862675 AGACAAAAGCTAGATGTACCCTTATT 58.137 34.615 0.00 0.00 0.00 1.40
596 661 7.439108 AGACAAAAGCTAGATGTACCCTTAT 57.561 36.000 0.00 0.00 0.00 1.73
597 662 6.869206 AGACAAAAGCTAGATGTACCCTTA 57.131 37.500 0.00 0.00 0.00 2.69
598 663 5.763876 AGACAAAAGCTAGATGTACCCTT 57.236 39.130 0.00 0.00 0.00 3.95
599 664 5.763876 AAGACAAAAGCTAGATGTACCCT 57.236 39.130 0.00 0.00 0.00 4.34
600 665 7.104290 ACTTAAGACAAAAGCTAGATGTACCC 58.896 38.462 10.09 0.00 0.00 3.69
601 666 7.817962 TGACTTAAGACAAAAGCTAGATGTACC 59.182 37.037 10.09 0.00 0.00 3.34
602 667 8.758633 TGACTTAAGACAAAAGCTAGATGTAC 57.241 34.615 10.09 0.00 0.00 2.90
603 668 9.772973 TTTGACTTAAGACAAAAGCTAGATGTA 57.227 29.630 24.34 4.07 36.92 2.29
604 669 8.677148 TTTGACTTAAGACAAAAGCTAGATGT 57.323 30.769 24.34 0.00 36.92 3.06
605 670 8.778358 ACTTTGACTTAAGACAAAAGCTAGATG 58.222 33.333 25.68 16.98 38.68 2.90
606 671 8.910351 ACTTTGACTTAAGACAAAAGCTAGAT 57.090 30.769 25.68 9.44 38.68 1.98
607 672 8.732746 AACTTTGACTTAAGACAAAAGCTAGA 57.267 30.769 25.68 9.24 38.68 2.43
608 673 9.788960 AAAACTTTGACTTAAGACAAAAGCTAG 57.211 29.630 25.68 18.71 38.68 3.42
636 701 7.669089 TTCCTAGAAAGGTGGTCAAATTTTT 57.331 32.000 0.00 0.00 44.09 1.94
637 702 7.669089 TTTCCTAGAAAGGTGGTCAAATTTT 57.331 32.000 0.00 0.00 44.09 1.82
638 703 7.669089 TTTTCCTAGAAAGGTGGTCAAATTT 57.331 32.000 0.00 0.00 44.09 1.82
639 704 7.344612 ACTTTTTCCTAGAAAGGTGGTCAAATT 59.655 33.333 7.18 0.00 44.09 1.82
640 705 6.839134 ACTTTTTCCTAGAAAGGTGGTCAAAT 59.161 34.615 7.18 0.00 44.09 2.32
641 706 6.192044 ACTTTTTCCTAGAAAGGTGGTCAAA 58.808 36.000 7.18 0.00 44.09 2.69
642 707 5.762279 ACTTTTTCCTAGAAAGGTGGTCAA 58.238 37.500 7.18 0.00 44.09 3.18
643 708 5.382664 ACTTTTTCCTAGAAAGGTGGTCA 57.617 39.130 7.18 0.00 44.09 4.02
644 709 7.519488 CGTTTACTTTTTCCTAGAAAGGTGGTC 60.519 40.741 7.18 0.00 44.09 4.02
645 710 6.261603 CGTTTACTTTTTCCTAGAAAGGTGGT 59.738 38.462 7.18 0.00 44.09 4.16
646 711 6.665465 CGTTTACTTTTTCCTAGAAAGGTGG 58.335 40.000 7.18 0.00 44.09 4.61
647 712 6.140786 GCGTTTACTTTTTCCTAGAAAGGTG 58.859 40.000 7.18 0.00 44.09 4.00
648 713 5.824097 TGCGTTTACTTTTTCCTAGAAAGGT 59.176 36.000 7.18 3.08 44.09 3.50
649 714 6.308371 TGCGTTTACTTTTTCCTAGAAAGG 57.692 37.500 7.18 0.00 45.21 3.11
650 715 8.797266 AAATGCGTTTACTTTTTCCTAGAAAG 57.203 30.769 0.95 0.00 39.43 2.62
652 717 9.834628 CATAAATGCGTTTACTTTTTCCTAGAA 57.165 29.630 13.22 0.00 32.91 2.10
653 718 8.455682 CCATAAATGCGTTTACTTTTTCCTAGA 58.544 33.333 13.22 0.00 32.91 2.43
654 719 7.220108 GCCATAAATGCGTTTACTTTTTCCTAG 59.780 37.037 13.22 0.00 32.91 3.02
655 720 7.030768 GCCATAAATGCGTTTACTTTTTCCTA 58.969 34.615 13.22 0.00 32.91 2.94
656 721 5.867174 GCCATAAATGCGTTTACTTTTTCCT 59.133 36.000 13.22 0.00 32.91 3.36
657 722 5.635700 TGCCATAAATGCGTTTACTTTTTCC 59.364 36.000 13.22 0.13 32.91 3.13
658 723 6.400621 GGTGCCATAAATGCGTTTACTTTTTC 60.401 38.462 13.22 3.74 32.91 2.29
659 724 5.407084 GGTGCCATAAATGCGTTTACTTTTT 59.593 36.000 13.22 0.00 32.91 1.94
660 725 4.926832 GGTGCCATAAATGCGTTTACTTTT 59.073 37.500 13.22 0.00 32.91 2.27
661 726 4.021894 TGGTGCCATAAATGCGTTTACTTT 60.022 37.500 13.22 0.00 32.91 2.66
662 727 3.508012 TGGTGCCATAAATGCGTTTACTT 59.492 39.130 13.22 0.00 32.91 2.24
663 728 3.085533 TGGTGCCATAAATGCGTTTACT 58.914 40.909 13.22 1.13 32.91 2.24
664 729 3.495670 TGGTGCCATAAATGCGTTTAC 57.504 42.857 13.22 3.19 32.91 2.01
665 730 3.508012 ACTTGGTGCCATAAATGCGTTTA 59.492 39.130 13.32 13.32 34.50 2.01
666 731 2.298729 ACTTGGTGCCATAAATGCGTTT 59.701 40.909 9.25 9.25 0.00 3.60
667 732 1.892474 ACTTGGTGCCATAAATGCGTT 59.108 42.857 0.00 0.00 0.00 4.84
668 733 1.544724 ACTTGGTGCCATAAATGCGT 58.455 45.000 0.00 0.00 0.00 5.24
669 734 2.652941 AACTTGGTGCCATAAATGCG 57.347 45.000 0.00 0.00 0.00 4.73
670 735 4.718940 ACTAACTTGGTGCCATAAATGC 57.281 40.909 0.00 0.00 0.00 3.56
671 736 5.650266 TGGTACTAACTTGGTGCCATAAATG 59.350 40.000 10.48 0.00 42.73 2.32
672 737 5.822204 TGGTACTAACTTGGTGCCATAAAT 58.178 37.500 10.48 0.00 42.73 1.40
673 738 5.244189 TGGTACTAACTTGGTGCCATAAA 57.756 39.130 10.48 0.00 42.73 1.40
674 739 4.912317 TGGTACTAACTTGGTGCCATAA 57.088 40.909 10.48 0.00 42.73 1.90
677 742 2.051692 AGTGGTACTAACTTGGTGCCA 58.948 47.619 10.48 10.48 44.71 4.92
678 743 2.853235 AGTGGTACTAACTTGGTGCC 57.147 50.000 5.57 5.57 39.38 5.01
679 744 4.796038 TCTAGTGGTACTAACTTGGTGC 57.204 45.455 7.00 0.00 29.00 5.01
680 745 7.159372 ACAAATCTAGTGGTACTAACTTGGTG 58.841 38.462 7.00 7.33 29.00 4.17
681 746 7.312415 ACAAATCTAGTGGTACTAACTTGGT 57.688 36.000 7.00 0.18 29.00 3.67
682 747 8.617290 AAACAAATCTAGTGGTACTAACTTGG 57.383 34.615 7.00 2.78 29.00 3.61
684 749 9.841295 TGAAAACAAATCTAGTGGTACTAACTT 57.159 29.630 7.00 0.00 29.00 2.66
685 750 9.841295 TTGAAAACAAATCTAGTGGTACTAACT 57.159 29.630 6.91 6.91 29.00 2.24
689 754 9.131791 ACATTTGAAAACAAATCTAGTGGTACT 57.868 29.630 0.00 0.00 32.97 2.73
692 757 9.131791 ACTACATTTGAAAACAAATCTAGTGGT 57.868 29.630 16.49 11.90 36.02 4.16
693 758 9.965824 AACTACATTTGAAAACAAATCTAGTGG 57.034 29.630 17.32 11.92 36.81 4.00
786 851 9.016438 TGTAGGTTTTGTTCTAAGTCAAAGTTT 57.984 29.630 0.00 0.00 35.47 2.66
787 852 8.570068 TGTAGGTTTTGTTCTAAGTCAAAGTT 57.430 30.769 0.00 0.00 35.47 2.66
788 853 8.621286 CATGTAGGTTTTGTTCTAAGTCAAAGT 58.379 33.333 0.00 0.00 35.47 2.66
789 854 8.621286 ACATGTAGGTTTTGTTCTAAGTCAAAG 58.379 33.333 0.00 0.00 35.47 2.77
790 855 8.514330 ACATGTAGGTTTTGTTCTAAGTCAAA 57.486 30.769 0.00 0.00 32.75 2.69
791 856 9.048446 GTACATGTAGGTTTTGTTCTAAGTCAA 57.952 33.333 5.62 0.00 0.00 3.18
792 857 8.205512 TGTACATGTAGGTTTTGTTCTAAGTCA 58.794 33.333 5.62 0.00 0.00 3.41
793 858 8.493547 GTGTACATGTAGGTTTTGTTCTAAGTC 58.506 37.037 5.62 0.00 0.00 3.01
794 859 8.208903 AGTGTACATGTAGGTTTTGTTCTAAGT 58.791 33.333 5.62 0.00 0.00 2.24
795 860 8.603242 AGTGTACATGTAGGTTTTGTTCTAAG 57.397 34.615 5.62 0.00 0.00 2.18
796 861 8.967664 AAGTGTACATGTAGGTTTTGTTCTAA 57.032 30.769 5.62 0.00 0.00 2.10
798 863 9.569122 AATAAGTGTACATGTAGGTTTTGTTCT 57.431 29.630 5.62 0.00 0.00 3.01
799 864 9.821662 GAATAAGTGTACATGTAGGTTTTGTTC 57.178 33.333 5.62 8.82 0.00 3.18
800 865 9.344772 TGAATAAGTGTACATGTAGGTTTTGTT 57.655 29.630 5.62 3.85 0.00 2.83
801 866 8.780249 GTGAATAAGTGTACATGTAGGTTTTGT 58.220 33.333 5.62 0.00 0.00 2.83
802 867 7.955324 CGTGAATAAGTGTACATGTAGGTTTTG 59.045 37.037 5.62 0.00 0.00 2.44
803 868 7.118680 CCGTGAATAAGTGTACATGTAGGTTTT 59.881 37.037 5.62 1.88 0.00 2.43
804 869 6.592607 CCGTGAATAAGTGTACATGTAGGTTT 59.407 38.462 5.62 3.62 0.00 3.27
805 870 6.071221 TCCGTGAATAAGTGTACATGTAGGTT 60.071 38.462 5.62 2.88 0.00 3.50
806 871 5.419788 TCCGTGAATAAGTGTACATGTAGGT 59.580 40.000 5.62 0.00 0.00 3.08
807 872 5.747197 GTCCGTGAATAAGTGTACATGTAGG 59.253 44.000 5.62 0.00 0.00 3.18
808 873 5.454554 CGTCCGTGAATAAGTGTACATGTAG 59.545 44.000 5.62 0.00 0.00 2.74
809 874 5.334319 CGTCCGTGAATAAGTGTACATGTA 58.666 41.667 0.08 0.08 0.00 2.29
810 875 4.171005 CGTCCGTGAATAAGTGTACATGT 58.829 43.478 2.69 2.69 0.00 3.21
811 876 3.550275 CCGTCCGTGAATAAGTGTACATG 59.450 47.826 0.00 0.00 0.00 3.21
812 877 3.444742 TCCGTCCGTGAATAAGTGTACAT 59.555 43.478 0.00 0.00 0.00 2.29
813 878 2.819019 TCCGTCCGTGAATAAGTGTACA 59.181 45.455 0.00 0.00 0.00 2.90
814 879 3.432782 CTCCGTCCGTGAATAAGTGTAC 58.567 50.000 0.00 0.00 0.00 2.90
815 880 2.424601 CCTCCGTCCGTGAATAAGTGTA 59.575 50.000 0.00 0.00 0.00 2.90
816 881 1.203994 CCTCCGTCCGTGAATAAGTGT 59.796 52.381 0.00 0.00 0.00 3.55
817 882 1.470979 CCCTCCGTCCGTGAATAAGTG 60.471 57.143 0.00 0.00 0.00 3.16
818 883 0.822164 CCCTCCGTCCGTGAATAAGT 59.178 55.000 0.00 0.00 0.00 2.24
819 884 1.067212 CTCCCTCCGTCCGTGAATAAG 59.933 57.143 0.00 0.00 0.00 1.73
820 885 1.108776 CTCCCTCCGTCCGTGAATAA 58.891 55.000 0.00 0.00 0.00 1.40
821 886 0.033796 ACTCCCTCCGTCCGTGAATA 60.034 55.000 0.00 0.00 0.00 1.75
822 887 0.033796 TACTCCCTCCGTCCGTGAAT 60.034 55.000 0.00 0.00 0.00 2.57
823 888 0.679002 CTACTCCCTCCGTCCGTGAA 60.679 60.000 0.00 0.00 0.00 3.18
824 889 1.077930 CTACTCCCTCCGTCCGTGA 60.078 63.158 0.00 0.00 0.00 4.35
825 890 2.119655 CCTACTCCCTCCGTCCGTG 61.120 68.421 0.00 0.00 0.00 4.94
826 891 2.274760 CCTACTCCCTCCGTCCGT 59.725 66.667 0.00 0.00 0.00 4.69
827 892 2.518825 CCCTACTCCCTCCGTCCG 60.519 72.222 0.00 0.00 0.00 4.79
828 893 1.152715 CTCCCTACTCCCTCCGTCC 60.153 68.421 0.00 0.00 0.00 4.79
829 894 0.842635 TACTCCCTACTCCCTCCGTC 59.157 60.000 0.00 0.00 0.00 4.79
830 895 1.302907 TTACTCCCTACTCCCTCCGT 58.697 55.000 0.00 0.00 0.00 4.69
831 896 2.449137 TTTACTCCCTACTCCCTCCG 57.551 55.000 0.00 0.00 0.00 4.63
851 916 4.561105 TGTTGCTCGGTTTTCTTGTTTTT 58.439 34.783 0.00 0.00 0.00 1.94
864 929 4.055360 TCCACGAATATAATGTTGCTCGG 58.945 43.478 0.00 0.00 0.00 4.63
866 931 6.785488 TCATCCACGAATATAATGTTGCTC 57.215 37.500 0.00 0.00 0.00 4.26
883 948 5.576563 TTTAGTCCTCTTTGGTTCATCCA 57.423 39.130 0.00 0.00 45.60 3.41
925 990 9.150348 TGCGAATTCTTTTTCTTTTCTTTTTCT 57.850 25.926 3.52 0.00 0.00 2.52
926 991 9.920826 ATGCGAATTCTTTTTCTTTTCTTTTTC 57.079 25.926 3.52 0.00 0.00 2.29
932 997 6.032880 CCGAGATGCGAATTCTTTTTCTTTTC 59.967 38.462 3.52 0.00 44.57 2.29
937 1002 3.101546 GCCGAGATGCGAATTCTTTTTC 58.898 45.455 3.52 0.00 44.57 2.29
938 1003 3.136808 GCCGAGATGCGAATTCTTTTT 57.863 42.857 3.52 0.00 44.57 1.94
939 1004 2.832672 GCCGAGATGCGAATTCTTTT 57.167 45.000 3.52 0.00 44.57 2.27
964 1029 2.615493 CCTCGAGGGCACACTTTGTATT 60.615 50.000 24.62 0.00 0.00 1.89
1003 1068 3.797184 GCTTTAGCGTGGTCCTAGATCTG 60.797 52.174 5.18 0.00 0.00 2.90
1011 1076 1.745489 CTGGGCTTTAGCGTGGTCC 60.745 63.158 0.00 0.00 43.26 4.46
1013 1078 1.296715 CTCTGGGCTTTAGCGTGGT 59.703 57.895 0.00 0.00 43.26 4.16
1014 1079 2.109126 GCTCTGGGCTTTAGCGTGG 61.109 63.158 0.00 0.00 43.26 4.94
1015 1080 2.109126 GGCTCTGGGCTTTAGCGTG 61.109 63.158 0.00 0.00 43.26 5.34
1016 1081 2.269241 GGCTCTGGGCTTTAGCGT 59.731 61.111 0.00 0.00 43.26 5.07
1017 1082 2.514824 GGGCTCTGGGCTTTAGCG 60.515 66.667 0.00 0.00 43.26 4.26
1018 1083 2.514824 CGGGCTCTGGGCTTTAGC 60.515 66.667 0.00 0.00 41.46 3.09
1019 1084 1.153349 GTCGGGCTCTGGGCTTTAG 60.153 63.158 0.00 0.00 41.46 1.85
1020 1085 1.916273 TGTCGGGCTCTGGGCTTTA 60.916 57.895 0.00 0.00 41.46 1.85
1021 1086 3.249189 TGTCGGGCTCTGGGCTTT 61.249 61.111 0.00 0.00 41.46 3.51
1022 1087 4.021925 GTGTCGGGCTCTGGGCTT 62.022 66.667 0.00 0.00 41.46 4.35
1061 1126 2.767496 CTCCCCCAGCTCCTCCAG 60.767 72.222 0.00 0.00 0.00 3.86
1227 1292 1.732259 CTGCACTAGCCAACTTAACCG 59.268 52.381 0.00 0.00 41.13 4.44
1520 1585 7.919690 ACATCGTTCCAATTATACATCACTTG 58.080 34.615 0.00 0.00 0.00 3.16
1595 1661 0.249489 ACACCGTGCTCTGAAGTGTC 60.249 55.000 0.00 0.00 37.05 3.67
1608 1674 0.470766 TTGCCTCAAACCTACACCGT 59.529 50.000 0.00 0.00 0.00 4.83
1611 1677 3.572255 TCCAAATTGCCTCAAACCTACAC 59.428 43.478 0.00 0.00 0.00 2.90
1654 1720 5.264395 CATCCTTTTACACCAATCCCTCTT 58.736 41.667 0.00 0.00 0.00 2.85
1804 1870 5.162914 GGGTATATCCATGGGTAAAAGGGTT 60.163 44.000 9.27 0.00 38.11 4.11
1883 1949 6.092670 TCACAAGCTCACAACTTTAGCATATC 59.907 38.462 0.00 0.00 38.75 1.63
2007 2081 7.691050 CGCAATACATTCATCTATAGCACATTG 59.309 37.037 0.00 0.00 0.00 2.82
2091 2168 3.720002 ACTTTACCCATACCCATACCAGG 59.280 47.826 0.00 0.00 0.00 4.45
2215 2292 6.685657 TCAAGCAATACAACAATGCATTACA 58.314 32.000 12.53 0.00 42.45 2.41
2216 2293 6.237648 GCTCAAGCAATACAACAATGCATTAC 60.238 38.462 12.53 0.00 42.45 1.89
2217 2294 5.806502 GCTCAAGCAATACAACAATGCATTA 59.193 36.000 12.53 0.00 42.45 1.90
2218 2295 4.628333 GCTCAAGCAATACAACAATGCATT 59.372 37.500 5.99 5.99 42.45 3.56
2219 2296 4.178540 GCTCAAGCAATACAACAATGCAT 58.821 39.130 0.00 0.00 42.45 3.96
2260 2339 8.421784 TCTTATACTCCAAGTTGATCATGTACC 58.578 37.037 3.87 0.00 0.00 3.34
2359 2438 0.508641 CACTACTGTTGTGACTGCGC 59.491 55.000 15.73 0.00 37.60 6.09
2372 2451 1.537638 CTCACAGTCTGCGTCACTACT 59.462 52.381 0.00 0.00 0.00 2.57
2377 2456 1.337167 CCAATCTCACAGTCTGCGTCA 60.337 52.381 0.00 0.00 0.00 4.35
2381 2460 2.462456 TCACCAATCTCACAGTCTGC 57.538 50.000 0.00 0.00 0.00 4.26
2387 2466 3.330405 TGGGATTCTTCACCAATCTCACA 59.670 43.478 0.00 0.00 36.08 3.58
2394 2473 4.662278 CTTACCTTGGGATTCTTCACCAA 58.338 43.478 0.00 0.00 41.66 3.67
2398 2477 2.355716 CGGCTTACCTTGGGATTCTTCA 60.356 50.000 0.00 0.00 0.00 3.02
2455 2534 2.664851 CAGCCACAACTTCCGCGA 60.665 61.111 8.23 0.00 0.00 5.87
2461 2540 2.427095 GTTTTCACTCCAGCCACAACTT 59.573 45.455 0.00 0.00 0.00 2.66
2561 2803 0.815615 GTCGGATTGATCACCTGCCC 60.816 60.000 0.00 0.00 0.00 5.36
2565 2808 1.144057 GCGGTCGGATTGATCACCT 59.856 57.895 0.00 0.00 0.00 4.00
2590 2833 2.983592 CAACCAGCGTCCCCAACC 60.984 66.667 0.00 0.00 0.00 3.77
2591 2834 2.983592 CCAACCAGCGTCCCCAAC 60.984 66.667 0.00 0.00 0.00 3.77
2592 2835 4.278513 CCCAACCAGCGTCCCCAA 62.279 66.667 0.00 0.00 0.00 4.12
2595 2838 4.717313 GTCCCCAACCAGCGTCCC 62.717 72.222 0.00 0.00 0.00 4.46
2601 2844 4.335647 AGCAGCGTCCCCAACCAG 62.336 66.667 0.00 0.00 0.00 4.00
2602 2845 4.329545 GAGCAGCGTCCCCAACCA 62.330 66.667 0.00 0.00 0.00 3.67
2640 2883 0.687354 ACCACCTCGCTTCATTGTCT 59.313 50.000 0.00 0.00 0.00 3.41
2645 2888 1.513158 CTCGACCACCTCGCTTCAT 59.487 57.895 0.00 0.00 42.62 2.57
2697 2940 3.120979 CTATCCGCTCGTCCGCACA 62.121 63.158 0.00 0.00 0.00 4.57
2737 3027 4.760047 GGCCGTCTCACGCATGGT 62.760 66.667 0.00 0.00 40.91 3.55
2892 3182 3.003173 CACCCGGCCTCTTCTCCA 61.003 66.667 0.00 0.00 0.00 3.86
2914 3204 1.393603 CCTCTACTCCGACATCAGCA 58.606 55.000 0.00 0.00 0.00 4.41
2915 3205 0.031449 GCCTCTACTCCGACATCAGC 59.969 60.000 0.00 0.00 0.00 4.26
2937 3227 3.376078 GGTCTACACCGGCCGTCA 61.376 66.667 26.12 4.64 31.06 4.35
3060 3350 0.756294 ATCGGATTATGTCGCCCACA 59.244 50.000 0.00 0.00 40.18 4.17
3217 3509 3.092301 TCGATATCCATGATCTCCGCTT 58.908 45.455 0.00 0.00 0.00 4.68
3385 3699 5.560722 TCCATCTTGTCTTGTACTCCAAA 57.439 39.130 0.00 0.00 31.20 3.28
3566 3880 5.221263 ACAAATCTGTACAGGATACCTAGCG 60.221 44.000 22.48 3.79 32.54 4.26
3636 3950 4.688413 GTCAGAGAAGCAAGTAAGAACCAG 59.312 45.833 0.00 0.00 0.00 4.00
3660 3974 4.210331 CAAGGCAATGGGAAGTAGCTTAT 58.790 43.478 0.00 0.00 0.00 1.73
3674 3989 4.281688 ACAAGTGAAGCATAACAAGGCAAT 59.718 37.500 0.00 0.00 0.00 3.56
4024 4367 8.215050 TCCATTAGAGAAAGTAACAGGTGAAAA 58.785 33.333 0.00 0.00 0.00 2.29
4101 4444 7.487189 GCAACATCAGAGAGGATAAATTTTGTG 59.513 37.037 0.00 0.00 0.00 3.33
4175 4518 7.889469 AGAAAGCATCATAAACAACACAAGAT 58.111 30.769 0.00 0.00 0.00 2.40
4568 4914 1.535202 TGGTGGGCCAAATCCAACC 60.535 57.895 8.40 3.48 42.83 3.77
4569 4915 4.206697 TGGTGGGCCAAATCCAAC 57.793 55.556 8.40 0.00 42.83 3.77
4784 5133 5.990996 ACCCTAAAGTCAAACATTTGCAATG 59.009 36.000 0.00 3.61 38.05 2.82
4793 5142 4.158764 CCAAACACACCCTAAAGTCAAACA 59.841 41.667 0.00 0.00 0.00 2.83
4895 5244 2.097466 CCGTTCCATTCCTTCGAATTGG 59.903 50.000 0.00 4.36 36.54 3.16
4944 5293 3.119990 TGAAGAAATCCATTCCGTTTCGC 60.120 43.478 0.00 0.00 38.94 4.70
5035 5395 6.208599 TGTGTTGATGATTTCCTTTTACCTCC 59.791 38.462 0.00 0.00 0.00 4.30
5227 5618 2.094597 TGGCATGCAACTGCTACAATTC 60.095 45.455 21.36 0.00 41.95 2.17
5389 5837 2.742116 GGCCATCTCCGGTTGCCTA 61.742 63.158 0.00 0.00 0.00 3.93
5465 5914 4.124351 GTGGCGACGACCGGATCA 62.124 66.667 9.46 0.00 39.04 2.92
5514 5963 0.975556 TACGAAGCCATGCTCCCAGA 60.976 55.000 0.00 0.00 38.25 3.86
5648 6120 3.087031 ACCGAGTCGTCTCTCCAAATAA 58.913 45.455 12.31 0.00 38.45 1.40
5649 6121 2.719739 ACCGAGTCGTCTCTCCAAATA 58.280 47.619 12.31 0.00 38.45 1.40
5691 6163 1.594833 CACCGATTCCTGGGAACGA 59.405 57.895 6.18 0.00 36.91 3.85
5720 6192 4.295141 TCCCGTGTTTAGATTGTCCAAT 57.705 40.909 0.00 0.00 0.00 3.16
5767 6241 2.502093 ACGAAGTGGAACGGCACA 59.498 55.556 0.00 0.00 45.86 4.57
5861 6339 6.379988 TGGCAACAGACATCATAGACTAACTA 59.620 38.462 0.00 0.00 46.17 2.24
5862 6340 5.187772 TGGCAACAGACATCATAGACTAACT 59.812 40.000 0.00 0.00 46.17 2.24
5863 6341 5.419542 TGGCAACAGACATCATAGACTAAC 58.580 41.667 0.00 0.00 46.17 2.34
5864 6342 5.675684 TGGCAACAGACATCATAGACTAA 57.324 39.130 0.00 0.00 46.17 2.24
5955 6433 7.097192 AGTACGAAACATCTCAAAGCATTCTA 58.903 34.615 0.00 0.00 0.00 2.10
6561 7039 3.626670 CGTAGTGGAGTAGACTAACCAGG 59.373 52.174 9.16 0.00 32.89 4.45
6614 7092 3.063997 CGACTTGTCAATAACCCATGAGC 59.936 47.826 0.00 0.00 0.00 4.26
6920 7402 3.897505 ACCACATAAGAGCAAGCCTTTTT 59.102 39.130 2.08 0.00 0.00 1.94
7047 7529 0.178975 TCCGGCCAGTTTGAACCATT 60.179 50.000 2.24 0.00 0.00 3.16
7126 7609 7.827236 TGATACCAAACAAGTATCGAAATCCTT 59.173 33.333 0.00 0.00 45.99 3.36
7252 7737 8.750298 CCAAAGTAGACCGAATATATCCATAGT 58.250 37.037 0.00 0.00 0.00 2.12
7300 7785 1.980765 AGCCAGAACTTCCACTCATGA 59.019 47.619 0.00 0.00 0.00 3.07
7319 7805 5.221048 CCCTTAGAACACAAACTTGGAACAG 60.221 44.000 0.00 0.00 42.39 3.16
7320 7806 4.642885 CCCTTAGAACACAAACTTGGAACA 59.357 41.667 0.00 0.00 0.00 3.18
7398 7884 2.510918 GGCGTCTAAAGGCGACCC 60.511 66.667 8.39 0.00 37.15 4.46
7461 7952 2.890808 TGCCGAATCTATGTCCTGTC 57.109 50.000 0.00 0.00 0.00 3.51
7607 8227 2.383527 CGGCTGCGTGAAGAAGGAC 61.384 63.158 0.00 0.00 0.00 3.85
7772 8397 3.842923 CGGCTGGAGATGGAGCGT 61.843 66.667 0.00 0.00 35.95 5.07
7799 8424 3.797353 ATGAAGTGGGCGCGGGAT 61.797 61.111 8.83 0.00 0.00 3.85
7966 8595 2.436646 CCATGGAAACGCCGCTCT 60.437 61.111 5.56 0.00 40.66 4.09
8038 8668 1.089123 ACAGTCTTCCTCCTCCTCCT 58.911 55.000 0.00 0.00 0.00 3.69
8051 8681 0.968901 TTATCCGGGCGTCACAGTCT 60.969 55.000 0.00 0.00 0.00 3.24
8054 8684 2.519377 TAATTATCCGGGCGTCACAG 57.481 50.000 0.00 0.00 0.00 3.66
8055 8685 2.828877 CTTAATTATCCGGGCGTCACA 58.171 47.619 0.00 0.00 0.00 3.58
8056 8686 1.529865 GCTTAATTATCCGGGCGTCAC 59.470 52.381 0.00 0.00 0.00 3.67
8057 8687 1.414919 AGCTTAATTATCCGGGCGTCA 59.585 47.619 0.00 0.00 0.00 4.35
8058 8688 2.165319 AGCTTAATTATCCGGGCGTC 57.835 50.000 0.00 0.00 0.00 5.19
8059 8689 2.366266 TGTAGCTTAATTATCCGGGCGT 59.634 45.455 0.00 0.00 0.00 5.68
8060 8690 2.993899 CTGTAGCTTAATTATCCGGGCG 59.006 50.000 0.00 0.00 0.00 6.13
8061 8691 2.742589 GCTGTAGCTTAATTATCCGGGC 59.257 50.000 0.00 0.00 38.21 6.13
8062 8692 2.993899 CGCTGTAGCTTAATTATCCGGG 59.006 50.000 0.00 0.00 39.32 5.73
8063 8693 3.909430 TCGCTGTAGCTTAATTATCCGG 58.091 45.455 0.00 0.00 39.32 5.14
8064 8694 4.150098 GGTTCGCTGTAGCTTAATTATCCG 59.850 45.833 0.00 0.00 39.32 4.18
8065 8695 5.298347 AGGTTCGCTGTAGCTTAATTATCC 58.702 41.667 0.00 0.00 39.32 2.59
8066 8696 6.144724 CAGAGGTTCGCTGTAGCTTAATTATC 59.855 42.308 0.00 0.00 39.32 1.75
8067 8697 5.986135 CAGAGGTTCGCTGTAGCTTAATTAT 59.014 40.000 0.00 0.00 39.32 1.28
8068 8698 5.348986 CAGAGGTTCGCTGTAGCTTAATTA 58.651 41.667 0.00 0.00 39.32 1.40
8069 8699 4.184629 CAGAGGTTCGCTGTAGCTTAATT 58.815 43.478 0.00 0.00 39.32 1.40
8070 8700 3.786635 CAGAGGTTCGCTGTAGCTTAAT 58.213 45.455 0.00 0.00 39.32 1.40
8071 8701 2.674177 GCAGAGGTTCGCTGTAGCTTAA 60.674 50.000 0.00 0.00 39.32 1.85
8072 8702 1.135083 GCAGAGGTTCGCTGTAGCTTA 60.135 52.381 0.00 0.00 39.32 3.09
8073 8703 0.390472 GCAGAGGTTCGCTGTAGCTT 60.390 55.000 0.00 0.00 39.32 3.74
8074 8704 1.216710 GCAGAGGTTCGCTGTAGCT 59.783 57.895 2.04 0.00 39.32 3.32
8075 8705 1.811679 GGCAGAGGTTCGCTGTAGC 60.812 63.158 0.00 0.00 33.92 3.58
8076 8706 0.037326 TTGGCAGAGGTTCGCTGTAG 60.037 55.000 0.00 0.00 33.92 2.74
8077 8707 0.613260 ATTGGCAGAGGTTCGCTGTA 59.387 50.000 0.00 0.00 33.92 2.74
8078 8708 0.957395 CATTGGCAGAGGTTCGCTGT 60.957 55.000 0.00 0.00 33.92 4.40
8079 8709 0.674581 TCATTGGCAGAGGTTCGCTG 60.675 55.000 0.00 0.00 34.50 5.18
8080 8710 0.254178 ATCATTGGCAGAGGTTCGCT 59.746 50.000 0.00 0.00 0.00 4.93
8081 8711 0.379669 CATCATTGGCAGAGGTTCGC 59.620 55.000 0.00 0.00 0.00 4.70
8082 8712 0.379669 GCATCATTGGCAGAGGTTCG 59.620 55.000 0.00 0.00 0.00 3.95
8092 8722 0.677731 AGGTGACGTGGCATCATTGG 60.678 55.000 0.00 0.00 0.00 3.16
8093 8723 0.729116 GAGGTGACGTGGCATCATTG 59.271 55.000 0.00 0.00 0.00 2.82
8094 8724 0.392998 GGAGGTGACGTGGCATCATT 60.393 55.000 0.00 0.00 0.00 2.57
8095 8725 1.221840 GGAGGTGACGTGGCATCAT 59.778 57.895 0.00 0.00 0.00 2.45
8096 8726 2.662596 GGAGGTGACGTGGCATCA 59.337 61.111 0.00 0.00 0.00 3.07
8097 8727 2.509336 CGGAGGTGACGTGGCATC 60.509 66.667 0.00 0.00 0.00 3.91
8098 8728 1.537814 TAACGGAGGTGACGTGGCAT 61.538 55.000 0.00 0.00 44.83 4.40
8099 8729 2.201708 TAACGGAGGTGACGTGGCA 61.202 57.895 0.00 0.00 44.83 4.92
8100 8730 1.735559 GTAACGGAGGTGACGTGGC 60.736 63.158 0.00 0.00 44.83 5.01
8101 8731 1.167851 TAGTAACGGAGGTGACGTGG 58.832 55.000 0.00 0.00 44.83 4.94
8102 8732 3.176708 CAATAGTAACGGAGGTGACGTG 58.823 50.000 0.00 0.00 44.83 4.49
8104 8734 2.159282 AGCAATAGTAACGGAGGTGACG 60.159 50.000 0.00 0.00 32.28 4.35
8105 8735 3.521947 AGCAATAGTAACGGAGGTGAC 57.478 47.619 0.00 0.00 0.00 3.67
8106 8736 5.597182 AGATTAGCAATAGTAACGGAGGTGA 59.403 40.000 0.00 0.00 0.00 4.02
8107 8737 5.844004 AGATTAGCAATAGTAACGGAGGTG 58.156 41.667 0.00 0.00 0.00 4.00
8108 8738 5.278364 CGAGATTAGCAATAGTAACGGAGGT 60.278 44.000 0.00 0.00 0.00 3.85
8109 8739 5.154932 CGAGATTAGCAATAGTAACGGAGG 58.845 45.833 0.00 0.00 0.00 4.30
8110 8740 4.617645 GCGAGATTAGCAATAGTAACGGAG 59.382 45.833 0.00 0.00 34.19 4.63
8111 8741 4.543692 GCGAGATTAGCAATAGTAACGGA 58.456 43.478 0.00 0.00 34.19 4.69
8112 8742 3.361053 CGCGAGATTAGCAATAGTAACGG 59.639 47.826 0.00 0.00 34.19 4.44
8113 8743 3.973135 ACGCGAGATTAGCAATAGTAACG 59.027 43.478 15.93 0.00 34.19 3.18
8114 8744 5.885020 AACGCGAGATTAGCAATAGTAAC 57.115 39.130 15.93 0.00 34.19 2.50
8115 8745 6.732154 ACTAACGCGAGATTAGCAATAGTAA 58.268 36.000 15.93 0.00 35.38 2.24
8116 8746 6.309712 ACTAACGCGAGATTAGCAATAGTA 57.690 37.500 15.93 0.00 35.38 1.82
8117 8747 5.184340 ACTAACGCGAGATTAGCAATAGT 57.816 39.130 15.93 2.50 33.66 2.12
8118 8748 5.685954 TGAACTAACGCGAGATTAGCAATAG 59.314 40.000 15.93 1.89 33.66 1.73
8119 8749 5.584442 TGAACTAACGCGAGATTAGCAATA 58.416 37.500 15.93 0.00 33.66 1.90
8120 8750 4.430007 TGAACTAACGCGAGATTAGCAAT 58.570 39.130 15.93 0.71 33.66 3.56
8121 8751 3.840468 TGAACTAACGCGAGATTAGCAA 58.160 40.909 15.93 0.00 33.66 3.91
8122 8752 3.497297 TGAACTAACGCGAGATTAGCA 57.503 42.857 15.93 2.23 33.66 3.49
8123 8753 4.835199 TTTGAACTAACGCGAGATTAGC 57.165 40.909 15.93 0.00 33.66 3.09
8124 8754 5.548250 GGTTTTGAACTAACGCGAGATTAG 58.452 41.667 15.93 13.42 36.01 1.73
8125 8755 4.090354 CGGTTTTGAACTAACGCGAGATTA 59.910 41.667 15.93 0.00 0.00 1.75
8126 8756 3.120786 CGGTTTTGAACTAACGCGAGATT 60.121 43.478 15.93 0.00 0.00 2.40
8127 8757 2.410730 CGGTTTTGAACTAACGCGAGAT 59.589 45.455 15.93 0.13 0.00 2.75
8128 8758 1.788308 CGGTTTTGAACTAACGCGAGA 59.212 47.619 15.93 0.00 0.00 4.04
8129 8759 1.788308 TCGGTTTTGAACTAACGCGAG 59.212 47.619 15.93 2.26 0.00 5.03
8130 8760 1.850377 TCGGTTTTGAACTAACGCGA 58.150 45.000 15.93 0.00 0.00 5.87
8131 8761 2.867456 ATCGGTTTTGAACTAACGCG 57.133 45.000 3.53 3.53 0.00 6.01
8132 8762 4.136517 TGAATCGGTTTTGAACTAACGC 57.863 40.909 0.00 0.00 0.00 4.84
8133 8763 7.149031 GGATTTTGAATCGGTTTTGAACTAACG 60.149 37.037 0.00 0.00 0.00 3.18
8134 8764 7.650104 TGGATTTTGAATCGGTTTTGAACTAAC 59.350 33.333 0.00 0.00 0.00 2.34
8135 8765 7.717568 TGGATTTTGAATCGGTTTTGAACTAA 58.282 30.769 0.00 0.00 0.00 2.24
8136 8766 7.278461 TGGATTTTGAATCGGTTTTGAACTA 57.722 32.000 0.00 0.00 0.00 2.24
8137 8767 6.155475 TGGATTTTGAATCGGTTTTGAACT 57.845 33.333 0.00 0.00 0.00 3.01
8138 8768 6.836577 TTGGATTTTGAATCGGTTTTGAAC 57.163 33.333 0.00 0.00 0.00 3.18
8139 8769 8.443953 AATTTGGATTTTGAATCGGTTTTGAA 57.556 26.923 0.00 0.00 0.00 2.69
8140 8770 8.443953 AAATTTGGATTTTGAATCGGTTTTGA 57.556 26.923 0.00 0.00 31.48 2.69
8185 8815 9.305925 CATTTAGTTTTGACTTTTGAGAGCTTT 57.694 29.630 0.00 0.00 0.00 3.51
8186 8816 8.470002 ACATTTAGTTTTGACTTTTGAGAGCTT 58.530 29.630 0.00 0.00 0.00 3.74
8187 8817 8.000780 ACATTTAGTTTTGACTTTTGAGAGCT 57.999 30.769 0.00 0.00 0.00 4.09
8188 8818 8.634475 AACATTTAGTTTTGACTTTTGAGAGC 57.366 30.769 0.00 0.00 37.03 4.09
8230 8860 9.965902 GTTTCTCCACCAATATATCCTATGAAT 57.034 33.333 0.00 0.00 0.00 2.57
8231 8861 8.383175 GGTTTCTCCACCAATATATCCTATGAA 58.617 37.037 0.00 0.00 36.73 2.57
8232 8862 7.515861 TGGTTTCTCCACCAATATATCCTATGA 59.484 37.037 0.00 0.00 44.30 2.15
8233 8863 7.689299 TGGTTTCTCCACCAATATATCCTATG 58.311 38.462 0.00 0.00 44.30 2.23
8234 8864 7.888514 TGGTTTCTCCACCAATATATCCTAT 57.111 36.000 0.00 0.00 44.30 2.57
8248 8878 9.362151 ACATTTTATAAAGACTTGGTTTCTCCA 57.638 29.630 0.00 0.00 45.60 3.86
8280 8910 9.667107 AGCTACTGATTTAATTAGTTTAGTGCA 57.333 29.630 7.66 0.00 31.07 4.57


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

AutoCloner maintained by Alex Coulton.