Multiple sequence alignment - TraesCS7A01G285200

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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 TraesCS7A01G285200 chr7A 100.000 9163 0 0 1 9163 327917525 327908363 0.000000e+00 16921.0
1 TraesCS7A01G285200 chr7A 87.247 494 58 5 1712 2201 360031413 360031905 8.040000e-155 558.0
2 TraesCS7A01G285200 chr7A 94.022 184 10 1 3446 3628 327915842 327915659 2.520000e-70 278.0
3 TraesCS7A01G285200 chr7D 96.715 2557 63 9 3162 5710 327404216 327406759 0.000000e+00 4237.0
4 TraesCS7A01G285200 chr7D 97.814 1876 34 5 6808 8680 327417842 327419713 0.000000e+00 3230.0
5 TraesCS7A01G285200 chr7D 95.241 1786 67 8 540 2319 327400736 327402509 0.000000e+00 2811.0
6 TraesCS7A01G285200 chr7D 97.327 1010 25 2 5695 6703 327416835 327417843 0.000000e+00 1714.0
7 TraesCS7A01G285200 chr7D 92.832 851 60 1 2319 3169 327402555 327403404 0.000000e+00 1232.0
8 TraesCS7A01G285200 chr7D 92.644 435 19 5 8733 9163 327419740 327420165 1.690000e-171 614.0
9 TraesCS7A01G285200 chr7D 88.710 496 53 3 1712 2204 337562921 337562426 3.660000e-168 603.0
10 TraesCS7A01G285200 chr7D 83.527 601 79 19 1730 2317 110325077 110324484 2.250000e-150 544.0
11 TraesCS7A01G285200 chr7D 92.308 351 16 3 83 427 327400412 327400757 1.070000e-133 488.0
12 TraesCS7A01G285200 chr7D 78.511 712 100 28 2013 2688 403762074 403761380 1.420000e-112 418.0
13 TraesCS7A01G285200 chr7D 78.663 389 58 16 3178 3552 625107539 625107916 1.540000e-57 235.0
14 TraesCS7A01G285200 chr7D 79.272 357 51 14 1343 1682 392637712 392638062 2.570000e-55 228.0
15 TraesCS7A01G285200 chr7D 80.992 242 28 11 1458 1684 156185081 156184843 9.460000e-40 176.0
16 TraesCS7A01G285200 chr7D 87.121 132 15 2 1551 1680 552971084 552971215 2.060000e-31 148.0
17 TraesCS7A01G285200 chr7D 92.308 78 5 1 3544 3620 377601106 377601029 9.730000e-20 110.0
18 TraesCS7A01G285200 chr7D 88.889 90 8 2 3540 3628 629525446 629525534 9.730000e-20 110.0
19 TraesCS7A01G285200 chr7D 77.326 172 32 4 4288 4459 486635888 486636052 2.720000e-15 95.3
20 TraesCS7A01G285200 chr7D 77.692 130 27 2 1555 1683 51059289 51059417 2.740000e-10 78.7
21 TraesCS7A01G285200 chr7D 79.464 112 19 4 4090 4200 12632508 12632400 9.870000e-10 76.8
22 TraesCS7A01G285200 chr7D 79.464 112 19 4 4090 4200 12637587 12637479 9.870000e-10 76.8
23 TraesCS7A01G285200 chr7D 78.571 112 20 4 4090 4200 12603707 12603599 4.590000e-08 71.3
24 TraesCS7A01G285200 chr7B 95.717 1681 68 4 642 2319 364211441 364213120 0.000000e+00 2702.0
25 TraesCS7A01G285200 chr7B 95.926 1399 47 5 5305 6703 364216425 364217813 0.000000e+00 2259.0
26 TraesCS7A01G285200 chr7B 96.189 1312 35 6 7377 8680 364218620 364219924 0.000000e+00 2132.0
27 TraesCS7A01G285200 chr7B 91.702 1169 86 4 2583 3749 364213400 364214559 0.000000e+00 1611.0
28 TraesCS7A01G285200 chr7B 97.305 371 10 0 4002 4372 364215601 364215971 1.680000e-176 630.0
29 TraesCS7A01G285200 chr7B 93.171 410 21 5 8733 9136 364219951 364220359 6.120000e-166 595.0
30 TraesCS7A01G285200 chr7B 96.100 359 6 3 6808 7164 364217812 364218164 6.170000e-161 579.0
31 TraesCS7A01G285200 chr7B 98.030 203 4 0 3807 4009 364214561 364214763 4.070000e-93 353.0
32 TraesCS7A01G285200 chr7B 75.636 550 101 18 3628 4156 747270067 747269530 9.190000e-60 243.0
33 TraesCS7A01G285200 chr7B 90.503 179 7 8 136 307 364206882 364207057 2.570000e-55 228.0
34 TraesCS7A01G285200 chr7B 79.935 309 55 4 4353 4656 599391871 599392177 4.310000e-53 220.0
35 TraesCS7A01G285200 chr7B 82.684 231 28 9 1460 1684 117999142 117998918 2.610000e-45 195.0
36 TraesCS7A01G285200 chr7B 82.301 226 26 8 1472 1684 118123113 118122889 5.650000e-42 183.0
37 TraesCS7A01G285200 chr7B 93.043 115 7 1 6701 6814 117191413 117191527 5.690000e-37 167.0
38 TraesCS7A01G285200 chr7B 93.750 64 3 1 4396 4459 516359550 516359612 2.720000e-15 95.3
39 TraesCS7A01G285200 chr7B 98.113 53 1 0 34 86 364206719 364206771 9.800000e-15 93.5
40 TraesCS7A01G285200 chr5D 84.337 664 77 19 1681 2319 558714973 558714312 7.810000e-175 625.0
41 TraesCS7A01G285200 chr5D 90.541 444 38 4 1733 2176 486817638 486817199 1.330000e-162 584.0
42 TraesCS7A01G285200 chr5D 87.195 492 51 7 1685 2176 14600915 14601394 4.840000e-152 549.0
43 TraesCS7A01G285200 chr5D 82.222 450 55 13 3772 4198 540275885 540276332 1.880000e-96 364.0
44 TraesCS7A01G285200 chr5D 83.202 381 55 8 2319 2696 520749700 520750074 3.170000e-89 340.0
45 TraesCS7A01G285200 chr5D 77.289 546 96 22 3681 4204 95299005 95298466 6.960000e-76 296.0
46 TraesCS7A01G285200 chr2A 91.275 447 37 2 1730 2176 444791956 444791512 7.870000e-170 608.0
47 TraesCS7A01G285200 chr2A 91.932 409 31 1 6976 7382 367647419 367647827 1.030000e-158 571.0
48 TraesCS7A01G285200 chr2A 91.546 414 30 4 6973 7382 584516803 584516391 4.800000e-157 566.0
49 TraesCS7A01G285200 chr2A 91.325 415 33 2 6970 7382 121288833 121289246 1.730000e-156 564.0
50 TraesCS7A01G285200 chr2A 81.234 389 64 8 2319 2704 516198997 516199379 1.160000e-78 305.0
51 TraesCS7A01G285200 chr2A 77.180 539 95 16 3647 4163 773305405 773304873 1.160000e-73 289.0
52 TraesCS7A01G285200 chr4B 91.449 421 30 4 6973 7389 658319670 658319252 2.870000e-159 573.0
53 TraesCS7A01G285200 chr4B 75.983 483 88 14 4279 4755 588688172 588687712 3.330000e-54 224.0
54 TraesCS7A01G285200 chr4B 94.643 112 6 0 6698 6809 579426498 579426387 3.400000e-39 174.0
55 TraesCS7A01G285200 chr4B 88.372 86 8 1 1 86 325057253 325057170 1.630000e-17 102.0
56 TraesCS7A01G285200 chr2D 90.090 444 40 4 1733 2176 189373944 189373505 2.870000e-159 573.0
57 TraesCS7A01G285200 chr2D 89.427 454 42 6 1723 2176 347796652 347796205 1.340000e-157 568.0
58 TraesCS7A01G285200 chr2D 81.163 430 66 13 4267 4685 646083220 646083645 1.910000e-86 331.0
59 TraesCS7A01G285200 chr2D 77.365 539 95 14 3647 4163 646082459 646082992 2.500000e-75 294.0
60 TraesCS7A01G285200 chr2D 83.388 307 35 11 3178 3476 189851447 189851149 4.220000e-68 270.0
61 TraesCS7A01G285200 chr2D 78.670 361 67 7 4314 4666 7285514 7285156 1.990000e-56 231.0
62 TraesCS7A01G285200 chr2D 90.411 146 11 3 3484 3628 186862575 186862432 1.210000e-43 189.0
63 TraesCS7A01G285200 chr2D 74.822 421 75 18 3804 4204 524519971 524519562 2.650000e-35 161.0
64 TraesCS7A01G285200 chr6A 91.546 414 29 4 6970 7379 203774032 203773621 4.800000e-157 566.0
65 TraesCS7A01G285200 chr6A 78.782 476 77 15 4265 4722 568035664 568035195 1.930000e-76 298.0
66 TraesCS7A01G285200 chr6A 80.906 309 57 2 2013 2319 136315047 136314739 9.190000e-60 243.0
67 TraesCS7A01G285200 chr3D 91.367 417 31 4 6969 7382 554048278 554048692 4.800000e-157 566.0
68 TraesCS7A01G285200 chr3D 80.389 617 78 14 3629 4204 308273428 308272814 6.570000e-116 429.0
69 TraesCS7A01G285200 chr3D 79.035 601 91 19 3629 4204 441189391 441188801 6.710000e-101 379.0
70 TraesCS7A01G285200 chr3D 83.453 278 38 5 2044 2319 136397932 136398203 1.530000e-62 252.0
71 TraesCS7A01G285200 chr3D 93.966 116 7 0 425 540 10652455 10652340 9.460000e-40 176.0
72 TraesCS7A01G285200 chr3D 90.805 87 7 1 1 86 290311003 290311089 2.090000e-21 115.0
73 TraesCS7A01G285200 chr3D 100.000 28 0 0 9065 9092 298616515 298616488 1.700000e-02 52.8
74 TraesCS7A01G285200 chr1A 91.346 416 33 2 6969 7382 277407287 277406873 4.800000e-157 566.0
75 TraesCS7A01G285200 chrUn 91.443 409 33 1 6976 7382 338567389 338566981 2.230000e-155 560.0
76 TraesCS7A01G285200 chrUn 81.414 382 66 4 2323 2702 30044920 30044542 3.210000e-79 307.0
77 TraesCS7A01G285200 chrUn 82.012 328 39 15 3151 3469 153418766 153418450 2.540000e-65 261.0
78 TraesCS7A01G285200 chrUn 94.595 111 6 0 6700 6810 316483355 316483465 1.220000e-38 172.0
79 TraesCS7A01G285200 chrUn 94.595 111 6 0 6700 6810 327795880 327795990 1.220000e-38 172.0
80 TraesCS7A01G285200 chr5B 85.880 517 56 12 1682 2197 704140750 704141250 1.350000e-147 534.0
81 TraesCS7A01G285200 chr5B 79.830 352 51 14 8754 9091 640550067 640550412 1.190000e-58 239.0
82 TraesCS7A01G285200 chr5B 92.562 121 9 0 6698 6818 122849844 122849964 3.400000e-39 174.0
83 TraesCS7A01G285200 chr5B 77.441 297 46 13 1406 1685 613092414 613092706 3.430000e-34 158.0
84 TraesCS7A01G285200 chr5B 74.848 330 62 12 3887 4197 610084124 610083797 7.470000e-26 130.0
85 TraesCS7A01G285200 chr5B 87.209 86 9 1 1 86 136015596 136015513 7.570000e-16 97.1
86 TraesCS7A01G285200 chr3A 82.285 604 74 20 3629 4204 427769423 427768825 8.270000e-135 492.0
87 TraesCS7A01G285200 chr3A 77.629 599 84 26 3629 4204 581620138 581619567 1.480000e-82 318.0
88 TraesCS7A01G285200 chr3A 79.140 465 64 15 4285 4742 427768627 427768189 3.240000e-74 291.0
89 TraesCS7A01G285200 chr3A 82.022 356 44 10 1346 1685 427769769 427769418 1.510000e-72 285.0
90 TraesCS7A01G285200 chr3A 74.831 592 106 24 3629 4198 585572005 585571435 2.570000e-55 228.0
91 TraesCS7A01G285200 chr1B 83.983 462 45 18 1685 2139 457326814 457327253 5.120000e-112 416.0
92 TraesCS7A01G285200 chr1B 79.054 592 97 22 3629 4198 427204475 427205061 1.870000e-101 381.0
93 TraesCS7A01G285200 chr1B 81.579 152 21 4 4594 4740 427205130 427205279 1.620000e-22 119.0
94 TraesCS7A01G285200 chr1D 88.485 330 28 5 1685 2008 22952859 22952534 3.100000e-104 390.0
95 TraesCS7A01G285200 chr1D 83.420 386 59 4 2319 2702 201491322 201491704 4.070000e-93 353.0
96 TraesCS7A01G285200 chr1D 83.029 383 60 4 2319 2699 474007728 474007349 8.810000e-90 342.0
97 TraesCS7A01G285200 chr1D 83.502 297 29 14 3151 3440 201493111 201493394 9.130000e-65 259.0
98 TraesCS7A01G285200 chr1D 81.410 312 53 5 2013 2319 225542814 225542503 5.490000e-62 250.0
99 TraesCS7A01G285200 chr1D 84.615 156 21 3 1528 1682 294462718 294462871 1.590000e-32 152.0
100 TraesCS7A01G285200 chr1D 82.609 161 21 3 4594 4749 315548339 315548181 1.600000e-27 135.0
101 TraesCS7A01G285200 chr1D 100.000 28 0 0 9061 9088 189894198 189894225 1.700000e-02 52.8
102 TraesCS7A01G285200 chr4D 83.032 442 61 9 4277 4711 50362954 50362520 1.120000e-103 388.0
103 TraesCS7A01G285200 chr4D 83.375 403 45 15 3232 3628 298223041 298223427 4.070000e-93 353.0
104 TraesCS7A01G285200 chr4D 80.562 427 66 13 4314 4727 479373778 479374200 6.910000e-81 313.0
105 TraesCS7A01G285200 chr4D 94.737 114 5 1 425 538 435402476 435402364 9.460000e-40 176.0
106 TraesCS7A01G285200 chr4D 75.120 418 78 15 4343 4755 468894750 468894354 1.220000e-38 172.0
107 TraesCS7A01G285200 chr4D 94.231 52 3 0 4216 4267 7907872 7907821 7.630000e-11 80.5
108 TraesCS7A01G285200 chr4A 81.878 458 67 10 4265 4711 546420027 546420479 1.120000e-98 372.0
109 TraesCS7A01G285200 chr4A 91.333 150 11 2 3480 3628 437829931 437830079 4.340000e-48 204.0
110 TraesCS7A01G285200 chr4A 95.614 114 5 0 6701 6814 664237884 664237771 5.650000e-42 183.0
111 TraesCS7A01G285200 chr3B 79.051 611 72 21 3629 4198 413033452 413034047 1.450000e-97 368.0
112 TraesCS7A01G285200 chr3B 79.570 465 63 18 3178 3625 439484976 439485425 4.160000e-78 303.0
113 TraesCS7A01G285200 chr3B 76.333 600 93 26 3629 4201 582785017 582784440 9.060000e-70 276.0
114 TraesCS7A01G285200 chr3B 82.372 312 53 2 2010 2319 316601474 316601785 4.220000e-68 270.0
115 TraesCS7A01G285200 chr3B 80.223 359 51 10 1343 1685 413033103 413033457 1.530000e-62 252.0
116 TraesCS7A01G285200 chr3B 94.783 115 5 1 425 539 617254920 617254807 2.630000e-40 178.0
117 TraesCS7A01G285200 chr3B 93.333 120 6 2 425 544 60416997 60417114 9.460000e-40 176.0
118 TraesCS7A01G285200 chr3B 93.220 118 8 0 6701 6818 579888700 579888583 3.400000e-39 174.0
119 TraesCS7A01G285200 chr3B 93.103 116 8 0 6702 6817 639838979 639839094 4.400000e-38 171.0
120 TraesCS7A01G285200 chr3B 88.182 110 11 2 318 426 14241918 14242026 7.470000e-26 130.0
121 TraesCS7A01G285200 chr3B 90.323 93 7 2 456 548 605266322 605266412 4.490000e-23 121.0
122 TraesCS7A01G285200 chr3B 100.000 28 0 0 9065 9092 441451063 441451090 1.700000e-02 52.8
123 TraesCS7A01G285200 chr3B 100.000 28 0 0 1338 1365 657942975 657943002 1.700000e-02 52.8
124 TraesCS7A01G285200 chr6D 77.311 595 103 17 3629 4204 351742481 351741900 1.150000e-83 322.0
125 TraesCS7A01G285200 chr6D 86.007 293 39 2 2028 2319 468010077 468009786 6.910000e-81 313.0
126 TraesCS7A01G285200 chr6D 82.451 359 59 3 2319 2675 27141957 27142313 2.480000e-80 311.0
127 TraesCS7A01G285200 chr6D 81.137 387 67 5 2319 2702 456808443 456808060 1.160000e-78 305.0
128 TraesCS7A01G285200 chr6D 77.574 272 52 6 4265 4530 423672214 423672482 1.230000e-33 156.0
129 TraesCS7A01G285200 chr6B 81.818 385 66 3 2322 2704 31360232 31360614 4.130000e-83 320.0
130 TraesCS7A01G285200 chr6B 81.796 412 42 20 3178 3575 4544210 4544602 1.920000e-81 315.0
131 TraesCS7A01G285200 chr6B 91.803 122 8 2 6702 6822 118441434 118441554 1.580000e-37 169.0
132 TraesCS7A01G285200 chr6B 76.923 234 43 11 3981 4206 656565053 656564823 1.250000e-23 122.0
133 TraesCS7A01G285200 chr2B 100.000 29 0 0 1687 1715 458293274 458293246 5.000000e-03 54.7


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 TraesCS7A01G285200 chr7A 327908363 327917525 9162 True 8599.500000 16921 97.011000 1 9163 2 chr7A.!!$R1 9162
1 TraesCS7A01G285200 chr7D 327400412 327406759 6347 False 2192.000000 4237 94.274000 83 5710 4 chr7D.!!$F7 5627
2 TraesCS7A01G285200 chr7D 327416835 327420165 3330 False 1852.666667 3230 95.928333 5695 9163 3 chr7D.!!$F8 3468
3 TraesCS7A01G285200 chr7D 110324484 110325077 593 True 544.000000 544 83.527000 1730 2317 1 chr7D.!!$R4 587
4 TraesCS7A01G285200 chr7D 403761380 403762074 694 True 418.000000 418 78.511000 2013 2688 1 chr7D.!!$R8 675
5 TraesCS7A01G285200 chr7B 364211441 364220359 8918 False 1357.625000 2702 95.517500 642 9136 8 chr7B.!!$F5 8494
6 TraesCS7A01G285200 chr7B 747269530 747270067 537 True 243.000000 243 75.636000 3628 4156 1 chr7B.!!$R3 528
7 TraesCS7A01G285200 chr5D 558714312 558714973 661 True 625.000000 625 84.337000 1681 2319 1 chr5D.!!$R3 638
8 TraesCS7A01G285200 chr5D 95298466 95299005 539 True 296.000000 296 77.289000 3681 4204 1 chr5D.!!$R1 523
9 TraesCS7A01G285200 chr2A 773304873 773305405 532 True 289.000000 289 77.180000 3647 4163 1 chr2A.!!$R3 516
10 TraesCS7A01G285200 chr2D 646082459 646083645 1186 False 312.500000 331 79.264000 3647 4685 2 chr2D.!!$F1 1038
11 TraesCS7A01G285200 chr3D 308272814 308273428 614 True 429.000000 429 80.389000 3629 4204 1 chr3D.!!$R3 575
12 TraesCS7A01G285200 chr3D 441188801 441189391 590 True 379.000000 379 79.035000 3629 4204 1 chr3D.!!$R4 575
13 TraesCS7A01G285200 chr5B 704140750 704141250 500 False 534.000000 534 85.880000 1682 2197 1 chr5B.!!$F4 515
14 TraesCS7A01G285200 chr3A 427768189 427769769 1580 True 356.000000 492 81.149000 1346 4742 3 chr3A.!!$R3 3396
15 TraesCS7A01G285200 chr3A 581619567 581620138 571 True 318.000000 318 77.629000 3629 4204 1 chr3A.!!$R1 575
16 TraesCS7A01G285200 chr3A 585571435 585572005 570 True 228.000000 228 74.831000 3629 4198 1 chr3A.!!$R2 569
17 TraesCS7A01G285200 chr1B 427204475 427205279 804 False 250.000000 381 80.316500 3629 4740 2 chr1B.!!$F2 1111
18 TraesCS7A01G285200 chr1D 201491322 201493394 2072 False 306.000000 353 83.461000 2319 3440 2 chr1D.!!$F3 1121
19 TraesCS7A01G285200 chr3B 413033103 413034047 944 False 310.000000 368 79.637000 1343 4198 2 chr3B.!!$F9 2855
20 TraesCS7A01G285200 chr3B 582784440 582785017 577 True 276.000000 276 76.333000 3629 4201 1 chr3B.!!$R2 572
21 TraesCS7A01G285200 chr6D 351741900 351742481 581 True 322.000000 322 77.311000 3629 4204 1 chr6D.!!$R1 575

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
441 448 0.251653 TGAAGGCCGGACTACTGTCT 60.252 55.000 12.33 0.0 42.54 3.41 F
458 465 0.332972 TCTAGCTGAGCTCTGGTCCA 59.667 55.000 25.90 12.8 40.44 4.02 F
2100 2152 0.251474 AGCGTAGGGTGGTGTAGTCA 60.251 55.000 0.00 0.0 0.00 3.41 F
2251 2317 0.460311 ATGTAGGCGAGGAAGAACCG 59.540 55.000 0.00 0.0 44.74 4.44 F
2625 2740 1.153823 GTGCCACACTCGCTACGAT 60.154 57.895 0.00 0.0 34.61 3.73 F
3427 5334 0.251033 GACGGCTAGGGTTTTGGGTT 60.251 55.000 0.00 0.0 0.00 4.11 F
4112 6907 0.390340 TCGCTGCCAGACATTGAGAC 60.390 55.000 0.00 0.0 0.00 3.36 F
5306 8261 0.035317 ATCAAGCAACTGCCTCACGA 59.965 50.000 0.00 0.0 43.38 4.35 F
5436 8391 0.324943 GGGAGACAACCAAGCTAGCA 59.675 55.000 18.83 0.0 0.00 3.49 F
6716 9672 0.042131 AACATACTCCCTCGGTCCCA 59.958 55.000 0.00 0.0 0.00 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2100 2152 0.108804 CACACGGCTAACTCGACCAT 60.109 55.000 0.00 0.00 0.00 3.55 R
2269 2335 1.078072 AACGCCACTGTCAACACCA 60.078 52.632 0.00 0.00 0.00 4.17 R
3065 3887 0.178984 TGGTATGGCCGTCGATCCTA 60.179 55.000 0.00 0.00 41.21 2.94 R
3230 5127 0.249120 TCACGCCGGTCATCTTGATT 59.751 50.000 1.90 0.00 0.00 2.57 R
3874 5794 0.944386 TGCTTCAAAGACGTCTTGCC 59.056 50.000 30.33 16.64 36.12 4.52 R
5306 8261 0.178861 TGCCTTCCTCTTCCCTCCTT 60.179 55.000 0.00 0.00 0.00 3.36 R
5492 8447 0.317479 CGGGTTCTCTTCCAACTCGT 59.683 55.000 0.00 0.00 41.84 4.18 R
6523 9479 1.755200 ACACAGGTAAAGGGGGACAT 58.245 50.000 0.00 0.00 0.00 3.06 R
7352 10483 0.471780 TGGGACTGCTCCACTTCAGA 60.472 55.000 0.00 0.00 38.52 3.27 R
8539 11748 1.215382 CAAGTCATCGGGCGACAGA 59.785 57.895 0.00 0.00 39.42 3.41 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
21 22 3.728845 GAATATCTTAAGCGCTGGTGGA 58.271 45.455 12.58 7.94 0.00 4.02
22 23 2.890808 TATCTTAAGCGCTGGTGGAG 57.109 50.000 12.58 5.00 0.00 3.86
23 24 0.905357 ATCTTAAGCGCTGGTGGAGT 59.095 50.000 12.58 0.00 0.00 3.85
24 25 1.552578 TCTTAAGCGCTGGTGGAGTA 58.447 50.000 12.58 0.00 0.00 2.59
25 26 1.476891 TCTTAAGCGCTGGTGGAGTAG 59.523 52.381 12.58 0.00 0.00 2.57
26 27 1.476891 CTTAAGCGCTGGTGGAGTAGA 59.523 52.381 12.58 0.00 0.00 2.59
27 28 1.776662 TAAGCGCTGGTGGAGTAGAT 58.223 50.000 12.58 0.00 0.00 1.98
28 29 0.461961 AAGCGCTGGTGGAGTAGATC 59.538 55.000 12.58 0.00 0.00 2.75
29 30 0.396417 AGCGCTGGTGGAGTAGATCT 60.396 55.000 10.39 0.00 0.00 2.75
30 31 0.461961 GCGCTGGTGGAGTAGATCTT 59.538 55.000 0.00 0.00 0.00 2.40
31 32 1.681793 GCGCTGGTGGAGTAGATCTTA 59.318 52.381 0.00 0.00 0.00 2.10
32 33 2.287909 GCGCTGGTGGAGTAGATCTTAG 60.288 54.545 0.00 0.00 0.00 2.18
33 34 2.952978 CGCTGGTGGAGTAGATCTTAGT 59.047 50.000 0.00 0.00 0.00 2.24
34 35 3.381908 CGCTGGTGGAGTAGATCTTAGTT 59.618 47.826 0.00 0.00 0.00 2.24
35 36 4.579340 CGCTGGTGGAGTAGATCTTAGTTA 59.421 45.833 0.00 0.00 0.00 2.24
36 37 5.067413 CGCTGGTGGAGTAGATCTTAGTTAA 59.933 44.000 0.00 0.00 0.00 2.01
37 38 6.239064 CGCTGGTGGAGTAGATCTTAGTTAAT 60.239 42.308 0.00 0.00 0.00 1.40
38 39 7.040617 CGCTGGTGGAGTAGATCTTAGTTAATA 60.041 40.741 0.00 0.00 0.00 0.98
39 40 8.808092 GCTGGTGGAGTAGATCTTAGTTAATAT 58.192 37.037 0.00 0.00 0.00 1.28
60 61 7.947782 ATATAAGGGATAAAGGTCCTTGTCA 57.052 36.000 4.45 0.00 40.68 3.58
61 62 6.848562 ATAAGGGATAAAGGTCCTTGTCAT 57.151 37.500 4.45 0.00 40.68 3.06
62 63 5.536497 AAGGGATAAAGGTCCTTGTCATT 57.464 39.130 4.45 3.60 39.22 2.57
63 64 4.860022 AGGGATAAAGGTCCTTGTCATTG 58.140 43.478 4.45 0.00 38.38 2.82
64 65 3.954258 GGGATAAAGGTCCTTGTCATTGG 59.046 47.826 4.45 0.00 38.38 3.16
65 66 4.569865 GGGATAAAGGTCCTTGTCATTGGT 60.570 45.833 4.45 0.00 38.38 3.67
66 67 5.016831 GGATAAAGGTCCTTGTCATTGGTT 58.983 41.667 4.45 0.00 35.32 3.67
67 68 5.125578 GGATAAAGGTCCTTGTCATTGGTTC 59.874 44.000 4.45 0.00 35.32 3.62
68 69 3.884037 AAGGTCCTTGTCATTGGTTCT 57.116 42.857 2.38 0.00 0.00 3.01
69 70 3.425162 AGGTCCTTGTCATTGGTTCTC 57.575 47.619 0.00 0.00 0.00 2.87
70 71 2.711009 AGGTCCTTGTCATTGGTTCTCA 59.289 45.455 0.00 0.00 0.00 3.27
71 72 2.814336 GGTCCTTGTCATTGGTTCTCAC 59.186 50.000 0.00 0.00 0.00 3.51
72 73 3.476552 GTCCTTGTCATTGGTTCTCACA 58.523 45.455 0.00 0.00 0.00 3.58
73 74 3.882888 GTCCTTGTCATTGGTTCTCACAA 59.117 43.478 0.00 0.00 0.00 3.33
74 75 3.882888 TCCTTGTCATTGGTTCTCACAAC 59.117 43.478 0.00 0.00 0.00 3.32
75 76 3.303990 CCTTGTCATTGGTTCTCACAACG 60.304 47.826 0.00 0.00 0.00 4.10
76 77 2.912771 TGTCATTGGTTCTCACAACGT 58.087 42.857 0.00 0.00 0.00 3.99
77 78 2.869801 TGTCATTGGTTCTCACAACGTC 59.130 45.455 0.00 0.00 0.00 4.34
78 79 2.096909 GTCATTGGTTCTCACAACGTCG 60.097 50.000 0.00 0.00 0.00 5.12
79 80 2.131972 CATTGGTTCTCACAACGTCGA 58.868 47.619 0.00 0.00 0.00 4.20
80 81 2.296831 TTGGTTCTCACAACGTCGAA 57.703 45.000 0.00 0.00 0.00 3.71
81 82 2.519377 TGGTTCTCACAACGTCGAAT 57.481 45.000 0.00 0.00 0.00 3.34
94 95 1.003116 CGTCGAATACCTCCTACCGTG 60.003 57.143 0.00 0.00 0.00 4.94
101 102 1.254954 ACCTCCTACCGTGAGTGAAC 58.745 55.000 0.00 0.00 0.00 3.18
108 109 6.713903 CCTCCTACCGTGAGTGAACTAATATA 59.286 42.308 0.00 0.00 0.00 0.86
109 110 7.230108 CCTCCTACCGTGAGTGAACTAATATAA 59.770 40.741 0.00 0.00 0.00 0.98
110 111 8.701908 TCCTACCGTGAGTGAACTAATATAAT 57.298 34.615 0.00 0.00 0.00 1.28
111 112 9.797642 TCCTACCGTGAGTGAACTAATATAATA 57.202 33.333 0.00 0.00 0.00 0.98
180 187 6.821031 TTGTCATGTGAATGTGATTGATCA 57.179 33.333 0.00 0.00 0.00 2.92
225 232 8.795513 TCATCTATTGTGGTGGCAAATATAATG 58.204 33.333 0.00 0.00 31.63 1.90
235 242 9.087871 TGGTGGCAAATATAATGCACTATAATT 57.912 29.630 13.57 0.00 45.60 1.40
284 291 5.072736 AGTTGATTGGATGCCATGATAGAGA 59.927 40.000 0.00 0.00 31.53 3.10
311 318 9.664332 CCAAATATGAGACATTATCCTTCCTAG 57.336 37.037 0.00 0.00 0.00 3.02
322 329 9.057089 ACATTATCCTTCCTAGAAATTTAAGCG 57.943 33.333 0.00 0.00 0.00 4.68
368 375 1.027357 GATTGTGAGCCGGATGCATT 58.973 50.000 5.05 0.00 44.83 3.56
416 423 1.141858 GGGAGGCGGAGAAATGAAGAT 59.858 52.381 0.00 0.00 0.00 2.40
417 424 2.368875 GGGAGGCGGAGAAATGAAGATA 59.631 50.000 0.00 0.00 0.00 1.98
418 425 3.556004 GGGAGGCGGAGAAATGAAGATAG 60.556 52.174 0.00 0.00 0.00 2.08
419 426 3.070302 GGAGGCGGAGAAATGAAGATAGT 59.930 47.826 0.00 0.00 0.00 2.12
420 427 4.054671 GAGGCGGAGAAATGAAGATAGTG 58.945 47.826 0.00 0.00 0.00 2.74
421 428 3.706594 AGGCGGAGAAATGAAGATAGTGA 59.293 43.478 0.00 0.00 0.00 3.41
422 429 4.346418 AGGCGGAGAAATGAAGATAGTGAT 59.654 41.667 0.00 0.00 0.00 3.06
423 430 4.450419 GGCGGAGAAATGAAGATAGTGATG 59.550 45.833 0.00 0.00 0.00 3.07
424 431 5.292765 GCGGAGAAATGAAGATAGTGATGA 58.707 41.667 0.00 0.00 0.00 2.92
425 432 5.755375 GCGGAGAAATGAAGATAGTGATGAA 59.245 40.000 0.00 0.00 0.00 2.57
426 433 6.073873 GCGGAGAAATGAAGATAGTGATGAAG 60.074 42.308 0.00 0.00 0.00 3.02
427 434 6.423302 CGGAGAAATGAAGATAGTGATGAAGG 59.577 42.308 0.00 0.00 0.00 3.46
428 435 6.204495 GGAGAAATGAAGATAGTGATGAAGGC 59.796 42.308 0.00 0.00 0.00 4.35
429 436 6.060788 AGAAATGAAGATAGTGATGAAGGCC 58.939 40.000 0.00 0.00 0.00 5.19
430 437 3.459232 TGAAGATAGTGATGAAGGCCG 57.541 47.619 0.00 0.00 0.00 6.13
431 438 2.103094 TGAAGATAGTGATGAAGGCCGG 59.897 50.000 0.00 0.00 0.00 6.13
432 439 2.088104 AGATAGTGATGAAGGCCGGA 57.912 50.000 5.05 0.00 0.00 5.14
433 440 1.689273 AGATAGTGATGAAGGCCGGAC 59.311 52.381 5.05 0.00 0.00 4.79
434 441 1.689273 GATAGTGATGAAGGCCGGACT 59.311 52.381 2.12 2.12 0.00 3.85
435 442 2.447408 TAGTGATGAAGGCCGGACTA 57.553 50.000 12.33 0.00 0.00 2.59
436 443 0.824759 AGTGATGAAGGCCGGACTAC 59.175 55.000 12.33 4.06 0.00 2.73
437 444 0.824759 GTGATGAAGGCCGGACTACT 59.175 55.000 12.33 0.00 0.00 2.57
438 445 0.824109 TGATGAAGGCCGGACTACTG 59.176 55.000 12.33 0.00 0.00 2.74
439 446 0.824759 GATGAAGGCCGGACTACTGT 59.175 55.000 12.33 0.00 0.00 3.55
440 447 0.824759 ATGAAGGCCGGACTACTGTC 59.175 55.000 12.33 4.56 42.22 3.51
441 448 0.251653 TGAAGGCCGGACTACTGTCT 60.252 55.000 12.33 0.00 42.54 3.41
442 449 1.005097 TGAAGGCCGGACTACTGTCTA 59.995 52.381 12.33 0.00 42.54 2.59
443 450 1.677052 GAAGGCCGGACTACTGTCTAG 59.323 57.143 12.33 0.00 42.54 2.43
444 451 0.752376 AGGCCGGACTACTGTCTAGC 60.752 60.000 9.02 0.00 42.54 3.42
445 452 0.752376 GGCCGGACTACTGTCTAGCT 60.752 60.000 5.05 0.00 42.54 3.32
446 453 0.382515 GCCGGACTACTGTCTAGCTG 59.617 60.000 5.05 0.00 42.54 4.24
447 454 2.017623 GCCGGACTACTGTCTAGCTGA 61.018 57.143 5.05 0.00 42.54 4.26
448 455 1.944024 CCGGACTACTGTCTAGCTGAG 59.056 57.143 0.00 0.00 42.54 3.35
449 456 1.332375 CGGACTACTGTCTAGCTGAGC 59.668 57.143 0.00 0.00 42.54 4.26
450 457 2.650322 GGACTACTGTCTAGCTGAGCT 58.350 52.381 13.25 13.25 42.54 4.09
451 458 2.616842 GGACTACTGTCTAGCTGAGCTC 59.383 54.545 11.68 6.82 42.54 4.09
452 459 3.541632 GACTACTGTCTAGCTGAGCTCT 58.458 50.000 11.68 0.00 39.94 4.09
453 460 3.278574 ACTACTGTCTAGCTGAGCTCTG 58.721 50.000 11.68 15.96 40.44 3.35
454 461 1.473258 ACTGTCTAGCTGAGCTCTGG 58.527 55.000 11.68 11.94 40.44 3.86
455 462 1.272425 ACTGTCTAGCTGAGCTCTGGT 60.272 52.381 25.52 25.52 40.44 4.00
456 463 1.405105 CTGTCTAGCTGAGCTCTGGTC 59.595 57.143 25.90 14.14 40.44 4.02
457 464 0.744281 GTCTAGCTGAGCTCTGGTCC 59.256 60.000 25.90 13.18 40.44 4.46
458 465 0.332972 TCTAGCTGAGCTCTGGTCCA 59.667 55.000 25.90 12.80 40.44 4.02
459 466 0.746063 CTAGCTGAGCTCTGGTCCAG 59.254 60.000 25.90 13.21 40.44 3.86
460 467 0.332972 TAGCTGAGCTCTGGTCCAGA 59.667 55.000 25.90 20.67 40.44 3.86
469 476 2.704190 TCTGGTCCAGAGGAAGTTCT 57.296 50.000 18.15 0.00 35.39 3.01
470 477 2.251818 TCTGGTCCAGAGGAAGTTCTG 58.748 52.381 18.15 0.00 43.35 3.02
471 478 2.158310 TCTGGTCCAGAGGAAGTTCTGA 60.158 50.000 18.15 0.00 45.95 3.27
472 479 2.634940 CTGGTCCAGAGGAAGTTCTGAA 59.365 50.000 14.26 0.00 45.95 3.02
473 480 3.251484 TGGTCCAGAGGAAGTTCTGAAT 58.749 45.455 2.25 0.00 45.95 2.57
474 481 4.425772 TGGTCCAGAGGAAGTTCTGAATA 58.574 43.478 2.25 0.00 45.95 1.75
475 482 5.032846 TGGTCCAGAGGAAGTTCTGAATAT 58.967 41.667 2.25 0.00 45.95 1.28
476 483 5.488919 TGGTCCAGAGGAAGTTCTGAATATT 59.511 40.000 2.25 0.00 45.95 1.28
477 484 5.819901 GGTCCAGAGGAAGTTCTGAATATTG 59.180 44.000 2.25 0.00 45.95 1.90
478 485 6.410540 GTCCAGAGGAAGTTCTGAATATTGT 58.589 40.000 2.25 0.00 45.95 2.71
479 486 6.881602 GTCCAGAGGAAGTTCTGAATATTGTT 59.118 38.462 2.25 0.00 45.95 2.83
480 487 7.391833 GTCCAGAGGAAGTTCTGAATATTGTTT 59.608 37.037 2.25 0.00 45.95 2.83
481 488 7.391554 TCCAGAGGAAGTTCTGAATATTGTTTG 59.608 37.037 2.25 0.00 45.95 2.93
482 489 7.391554 CCAGAGGAAGTTCTGAATATTGTTTGA 59.608 37.037 2.25 0.00 45.95 2.69
483 490 8.954350 CAGAGGAAGTTCTGAATATTGTTTGAT 58.046 33.333 2.25 0.00 45.95 2.57
484 491 8.954350 AGAGGAAGTTCTGAATATTGTTTGATG 58.046 33.333 2.25 0.00 0.00 3.07
485 492 8.868522 AGGAAGTTCTGAATATTGTTTGATGA 57.131 30.769 2.25 0.00 0.00 2.92
486 493 8.954350 AGGAAGTTCTGAATATTGTTTGATGAG 58.046 33.333 2.25 0.00 0.00 2.90
487 494 8.950210 GGAAGTTCTGAATATTGTTTGATGAGA 58.050 33.333 2.25 0.00 0.00 3.27
530 537 8.653338 TCTTGAGTAATACAAGTGTTATTTCGC 58.347 33.333 0.00 0.00 43.30 4.70
531 538 7.892778 TGAGTAATACAAGTGTTATTTCGCA 57.107 32.000 0.00 0.00 0.00 5.10
532 539 8.312896 TGAGTAATACAAGTGTTATTTCGCAA 57.687 30.769 0.00 0.00 0.00 4.85
533 540 8.440059 TGAGTAATACAAGTGTTATTTCGCAAG 58.560 33.333 0.00 0.00 0.00 4.01
569 576 8.997323 AGAACATAGTGATGAAGAAGACAAAAG 58.003 33.333 0.00 0.00 36.48 2.27
584 594 9.741647 AGAAGACAAAAGAAAATTGATCTTGAC 57.258 29.630 7.35 0.00 37.22 3.18
588 598 8.118893 ACAAAAGAAAATTGATCTTGACGTTG 57.881 30.769 7.35 9.66 37.22 4.10
600 610 8.462143 TGATCTTGACGTTGAACTATTAGAAC 57.538 34.615 0.00 0.00 0.00 3.01
608 618 9.793252 GACGTTGAACTATTAGAACAGGTATAA 57.207 33.333 0.00 0.00 0.00 0.98
613 623 9.764363 TGAACTATTAGAACAGGTATAATGCTG 57.236 33.333 0.00 0.00 0.00 4.41
614 624 8.608844 AACTATTAGAACAGGTATAATGCTGC 57.391 34.615 0.00 0.00 0.00 5.25
615 625 6.868864 ACTATTAGAACAGGTATAATGCTGCG 59.131 38.462 0.00 0.00 0.00 5.18
617 627 3.873910 AGAACAGGTATAATGCTGCGTT 58.126 40.909 12.30 12.30 0.00 4.84
618 628 3.623060 AGAACAGGTATAATGCTGCGTTG 59.377 43.478 16.98 2.52 0.00 4.10
619 629 1.670811 ACAGGTATAATGCTGCGTTGC 59.329 47.619 16.98 7.13 0.00 4.17
621 631 1.670811 AGGTATAATGCTGCGTTGCAC 59.329 47.619 16.98 13.10 46.33 4.57
622 632 1.594518 GGTATAATGCTGCGTTGCACG 60.595 52.381 16.98 4.61 46.33 5.34
623 633 0.655208 TATAATGCTGCGTTGCACGG 59.345 50.000 16.98 0.00 46.33 4.94
636 646 1.294138 GCACGGGCAGTTACCTACA 59.706 57.895 3.77 0.00 40.72 2.74
799 810 1.732259 CATTCCAAGAACGTTCTCCGG 59.268 52.381 29.82 29.07 42.24 5.14
804 815 4.368543 GAACGTTCTCCGGGGCGT 62.369 66.667 20.97 0.00 42.24 5.68
1203 1215 1.373497 GGCGCAGATCTGGGATACG 60.373 63.158 36.19 24.64 45.10 3.06
1250 1262 7.721842 TCCTCTCTTCTCTTATCGTGATTATGT 59.278 37.037 0.00 0.00 0.00 2.29
1401 1413 3.244457 CCAAAACGTATCTCCTATCCCCC 60.244 52.174 0.00 0.00 0.00 5.40
1601 1628 6.331369 ACCATCCAAATTCTAACACAACAG 57.669 37.500 0.00 0.00 0.00 3.16
1919 1963 2.989824 CAGGAGGGTCGTGGACGT 60.990 66.667 0.00 0.00 40.80 4.34
2100 2152 0.251474 AGCGTAGGGTGGTGTAGTCA 60.251 55.000 0.00 0.00 0.00 3.41
2109 2161 1.544691 GTGGTGTAGTCATGGTCGAGT 59.455 52.381 0.00 0.00 0.00 4.18
2251 2317 0.460311 ATGTAGGCGAGGAAGAACCG 59.540 55.000 0.00 0.00 44.74 4.44
2269 2335 2.049063 GACAGCGTGCCGAAGACT 60.049 61.111 0.00 0.00 0.00 3.24
2272 2338 3.616721 AGCGTGCCGAAGACTGGT 61.617 61.111 0.00 0.00 0.00 4.00
2274 2340 2.029073 CGTGCCGAAGACTGGTGT 59.971 61.111 0.00 0.00 0.00 4.16
2275 2341 1.594293 CGTGCCGAAGACTGGTGTT 60.594 57.895 0.00 0.00 0.00 3.32
2461 2575 4.873129 CATCGCGAGGGTCGGTGG 62.873 72.222 16.66 0.00 40.84 4.61
2625 2740 1.153823 GTGCCACACTCGCTACGAT 60.154 57.895 0.00 0.00 34.61 3.73
2799 2954 1.160329 AGTTGCAGTCCGTTGCTCAC 61.160 55.000 5.57 3.19 44.38 3.51
2802 2957 1.300931 GCAGTCCGTTGCTCACTCA 60.301 57.895 0.00 0.00 40.89 3.41
2858 3013 1.198713 ACACGAAGGCTGATCTGGAT 58.801 50.000 1.46 0.00 0.00 3.41
2907 3062 2.415893 GCATAAGCCAAAGTGCACGAAT 60.416 45.455 12.01 0.00 37.52 3.34
3036 3858 3.269347 GCGTGTGAGTGGTTGCGT 61.269 61.111 0.00 0.00 0.00 5.24
3055 3877 1.372997 GTGACACGACCAGCACGAT 60.373 57.895 0.00 0.00 34.70 3.73
3176 5073 5.363101 AGACATGCATTGTAGATGACGAAT 58.637 37.500 0.00 0.00 39.18 3.34
3208 5105 3.444916 GACGCAAACCGATCTTAGATCA 58.555 45.455 20.49 0.00 41.02 2.92
3375 5276 2.029666 GGCGATCATGGAGACCGG 59.970 66.667 0.00 0.00 0.00 5.28
3376 5277 2.797278 GGCGATCATGGAGACCGGT 61.797 63.158 6.92 6.92 0.00 5.28
3380 5281 1.739338 GATCATGGAGACCGGTCGCT 61.739 60.000 32.92 16.94 34.09 4.93
3427 5334 0.251033 GACGGCTAGGGTTTTGGGTT 60.251 55.000 0.00 0.00 0.00 4.11
3444 5351 6.824958 TTGGGTTGAGATTAGGCTTATACT 57.175 37.500 0.00 0.00 0.00 2.12
3552 5460 3.055312 GGTACAAAACTCGGAGGGAAGAT 60.055 47.826 10.23 0.00 0.00 2.40
3699 5607 0.881118 CGGTGTGTTTGGAGGAATGG 59.119 55.000 0.00 0.00 0.00 3.16
3874 5794 1.212688 TCAGTAGGGCCATGGACAATG 59.787 52.381 22.13 9.72 35.89 2.82
4112 6907 0.390340 TCGCTGCCAGACATTGAGAC 60.390 55.000 0.00 0.00 0.00 3.36
4283 7232 2.106166 GGCCAGGATGAGATCTCAATGT 59.894 50.000 28.40 13.21 43.58 2.71
4538 7489 2.768527 CACTAGACCATCATGACCCACT 59.231 50.000 0.00 0.00 0.00 4.00
4652 7607 6.538021 ACTCAAATTCATCATCTTCTTCCTCG 59.462 38.462 0.00 0.00 0.00 4.63
4729 7684 7.630242 TGGAGAGTTTAATGATCCATTTGAC 57.370 36.000 0.00 0.00 35.16 3.18
4846 7801 6.127507 GGAAGGCTGAAATTTGAGCTTAAGAT 60.128 38.462 25.54 6.50 37.57 2.40
4847 7802 6.847421 AGGCTGAAATTTGAGCTTAAGATT 57.153 33.333 25.54 4.29 37.57 2.40
4987 7942 4.200874 GTCCGATCTCTAGAAAGGAGTGA 58.799 47.826 6.94 0.00 35.43 3.41
5005 7960 7.796054 AGGAGTGAGCTTTAGCAGATAATTAA 58.204 34.615 4.33 0.00 45.16 1.40
5040 7995 1.902508 TGAGATCCCTTTCTCGCAGTT 59.097 47.619 0.00 0.00 44.22 3.16
5098 8053 4.712337 TCCCAGAGATAGGAAGAAAGACAC 59.288 45.833 0.00 0.00 0.00 3.67
5273 8228 1.804672 AGGGGAGATATGGATCAGGGT 59.195 52.381 0.00 0.00 34.17 4.34
5282 8237 0.689412 TGGATCAGGGTGATGCGGTA 60.689 55.000 4.26 0.00 46.49 4.02
5306 8261 0.035317 ATCAAGCAACTGCCTCACGA 59.965 50.000 0.00 0.00 43.38 4.35
5435 8390 0.393132 GGGGAGACAACCAAGCTAGC 60.393 60.000 6.62 6.62 0.00 3.42
5436 8391 0.324943 GGGAGACAACCAAGCTAGCA 59.675 55.000 18.83 0.00 0.00 3.49
5508 8463 0.784778 CGCACGAGTTGGAAGAGAAC 59.215 55.000 0.00 0.00 0.00 3.01
5631 8586 6.552932 GGGTAGAGGATAAAAGGGCAAATAT 58.447 40.000 0.00 0.00 0.00 1.28
5693 8648 4.865925 CAGGACCGTATTAATTCAACGTGA 59.134 41.667 8.10 0.00 34.90 4.35
5768 8723 7.312888 CGGAAGCGAATTATCAAATCAATTC 57.687 36.000 0.00 0.00 37.65 2.17
5769 8724 7.134815 CGGAAGCGAATTATCAAATCAATTCT 58.865 34.615 5.73 0.00 38.46 2.40
5801 8757 3.081061 GAGGCCACATTACATCAACACA 58.919 45.455 5.01 0.00 0.00 3.72
5929 8885 2.295885 CAAGATCAACTCTGCATCCCC 58.704 52.381 0.00 0.00 33.29 4.81
5930 8886 1.588239 AGATCAACTCTGCATCCCCA 58.412 50.000 0.00 0.00 31.12 4.96
6006 8962 4.682787 TGCGAGTATCTATGTCAACCTTG 58.317 43.478 0.00 0.00 0.00 3.61
6011 8967 6.491714 AGTATCTATGTCAACCTTGCTCAT 57.508 37.500 0.00 0.00 0.00 2.90
6336 9292 3.265995 GGATCCACTCCTTTTCCACCTAA 59.734 47.826 6.95 0.00 41.29 2.69
6523 9479 4.322198 GGGTCTGAACCTGTGTAAATCGTA 60.322 45.833 3.98 0.00 45.66 3.43
6585 9541 4.873259 TGACGACTTCTTGACAACAAATCA 59.127 37.500 0.00 0.00 35.49 2.57
6608 9564 4.880120 ACACGTACTAGTTCTAGCATGCTA 59.120 41.667 25.40 25.40 0.00 3.49
6678 9634 4.617959 CCTTGAACTGAAGTGAGTAACGA 58.382 43.478 0.00 0.00 0.00 3.85
6701 9657 6.128445 CGATGTTAGCTTGTCTCTTGAAACAT 60.128 38.462 0.00 0.00 38.60 2.71
6702 9658 7.063426 CGATGTTAGCTTGTCTCTTGAAACATA 59.937 37.037 0.00 0.00 36.68 2.29
6703 9659 7.421530 TGTTAGCTTGTCTCTTGAAACATAC 57.578 36.000 0.00 0.00 0.00 2.39
6704 9660 7.217200 TGTTAGCTTGTCTCTTGAAACATACT 58.783 34.615 0.00 0.00 0.00 2.12
6705 9661 7.385205 TGTTAGCTTGTCTCTTGAAACATACTC 59.615 37.037 0.00 0.00 0.00 2.59
6706 9662 5.241662 AGCTTGTCTCTTGAAACATACTCC 58.758 41.667 0.00 0.00 0.00 3.85
6707 9663 4.393371 GCTTGTCTCTTGAAACATACTCCC 59.607 45.833 0.00 0.00 0.00 4.30
6708 9664 5.799213 CTTGTCTCTTGAAACATACTCCCT 58.201 41.667 0.00 0.00 0.00 4.20
6709 9665 5.407407 TGTCTCTTGAAACATACTCCCTC 57.593 43.478 0.00 0.00 0.00 4.30
6710 9666 4.082190 TGTCTCTTGAAACATACTCCCTCG 60.082 45.833 0.00 0.00 0.00 4.63
6711 9667 3.447586 TCTCTTGAAACATACTCCCTCGG 59.552 47.826 0.00 0.00 0.00 4.63
6712 9668 3.170717 TCTTGAAACATACTCCCTCGGT 58.829 45.455 0.00 0.00 0.00 4.69
6713 9669 3.194968 TCTTGAAACATACTCCCTCGGTC 59.805 47.826 0.00 0.00 0.00 4.79
6714 9670 1.829222 TGAAACATACTCCCTCGGTCC 59.171 52.381 0.00 0.00 0.00 4.46
6715 9671 1.138464 GAAACATACTCCCTCGGTCCC 59.862 57.143 0.00 0.00 0.00 4.46
6716 9672 0.042131 AACATACTCCCTCGGTCCCA 59.958 55.000 0.00 0.00 0.00 4.37
6717 9673 0.042131 ACATACTCCCTCGGTCCCAA 59.958 55.000 0.00 0.00 0.00 4.12
6718 9674 1.200519 CATACTCCCTCGGTCCCAAA 58.799 55.000 0.00 0.00 0.00 3.28
6719 9675 1.557832 CATACTCCCTCGGTCCCAAAA 59.442 52.381 0.00 0.00 0.00 2.44
6720 9676 1.961133 TACTCCCTCGGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
6721 9677 1.961133 ACTCCCTCGGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
6722 9678 2.271777 ACTCCCTCGGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
6723 9679 2.238898 ACTCCCTCGGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
6724 9680 2.238898 CTCCCTCGGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
6725 9681 2.026636 TCCCTCGGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
6726 9682 2.026636 CCCTCGGTCCCAAAATAAGTGA 60.027 50.000 0.00 0.00 0.00 3.41
6727 9683 3.007635 CCTCGGTCCCAAAATAAGTGAC 58.992 50.000 0.00 0.00 0.00 3.67
6728 9684 3.307480 CCTCGGTCCCAAAATAAGTGACT 60.307 47.826 0.00 0.00 0.00 3.41
6729 9685 3.933332 CTCGGTCCCAAAATAAGTGACTC 59.067 47.826 0.00 0.00 0.00 3.36
6730 9686 3.325425 TCGGTCCCAAAATAAGTGACTCA 59.675 43.478 0.00 0.00 0.00 3.41
6731 9687 4.069304 CGGTCCCAAAATAAGTGACTCAA 58.931 43.478 0.00 0.00 0.00 3.02
6732 9688 4.517453 CGGTCCCAAAATAAGTGACTCAAA 59.483 41.667 0.00 0.00 0.00 2.69
6733 9689 5.009210 CGGTCCCAAAATAAGTGACTCAAAA 59.991 40.000 0.00 0.00 0.00 2.44
6734 9690 6.460399 CGGTCCCAAAATAAGTGACTCAAAAA 60.460 38.462 0.00 0.00 0.00 1.94
6735 9691 7.441836 GGTCCCAAAATAAGTGACTCAAAAAT 58.558 34.615 0.00 0.00 0.00 1.82
6736 9692 7.384932 GGTCCCAAAATAAGTGACTCAAAAATG 59.615 37.037 0.00 0.00 0.00 2.32
6737 9693 8.141268 GTCCCAAAATAAGTGACTCAAAAATGA 58.859 33.333 0.00 0.00 0.00 2.57
6738 9694 8.141268 TCCCAAAATAAGTGACTCAAAAATGAC 58.859 33.333 0.00 0.00 0.00 3.06
6739 9695 8.143835 CCCAAAATAAGTGACTCAAAAATGACT 58.856 33.333 0.00 0.00 0.00 3.41
6740 9696 9.185192 CCAAAATAAGTGACTCAAAAATGACTC 57.815 33.333 0.00 0.00 0.00 3.36
6741 9697 9.734620 CAAAATAAGTGACTCAAAAATGACTCA 57.265 29.630 0.00 0.00 0.00 3.41
6743 9699 9.736023 AAATAAGTGACTCAAAAATGACTCAAC 57.264 29.630 0.00 0.00 0.00 3.18
6744 9700 6.757897 AAGTGACTCAAAAATGACTCAACA 57.242 33.333 0.00 0.00 0.00 3.33
6745 9701 6.949352 AGTGACTCAAAAATGACTCAACAT 57.051 33.333 0.00 0.00 0.00 2.71
6746 9702 7.338800 AGTGACTCAAAAATGACTCAACATT 57.661 32.000 0.00 0.00 41.43 2.71
6747 9703 7.198390 AGTGACTCAAAAATGACTCAACATTG 58.802 34.615 0.00 0.00 39.88 2.82
6748 9704 7.067372 AGTGACTCAAAAATGACTCAACATTGA 59.933 33.333 0.00 0.00 39.88 2.57
6749 9705 7.701924 GTGACTCAAAAATGACTCAACATTGAA 59.298 33.333 0.00 0.00 39.88 2.69
6750 9706 7.701924 TGACTCAAAAATGACTCAACATTGAAC 59.298 33.333 0.00 0.00 39.88 3.18
6751 9707 7.775120 ACTCAAAAATGACTCAACATTGAACT 58.225 30.769 0.00 0.00 39.88 3.01
6752 9708 8.902806 ACTCAAAAATGACTCAACATTGAACTA 58.097 29.630 0.00 0.00 39.88 2.24
6753 9709 9.734620 CTCAAAAATGACTCAACATTGAACTAA 57.265 29.630 0.00 0.00 39.88 2.24
6754 9710 9.515020 TCAAAAATGACTCAACATTGAACTAAC 57.485 29.630 0.00 0.00 39.88 2.34
6755 9711 9.299963 CAAAAATGACTCAACATTGAACTAACA 57.700 29.630 0.00 0.00 39.88 2.41
6760 9716 8.902540 TGACTCAACATTGAACTAACATTAGT 57.097 30.769 0.00 0.00 45.43 2.24
6761 9717 9.990360 TGACTCAACATTGAACTAACATTAGTA 57.010 29.630 4.75 0.00 42.86 1.82
6763 9719 9.772973 ACTCAACATTGAACTAACATTAGTACA 57.227 29.630 4.75 0.00 42.86 2.90
6772 9728 9.826574 TGAACTAACATTAGTACAAAGTTGAGT 57.173 29.630 4.75 0.98 42.86 3.41
6774 9730 9.826574 AACTAACATTAGTACAAAGTTGAGTCA 57.173 29.630 4.75 0.00 42.86 3.41
6775 9731 9.257651 ACTAACATTAGTACAAAGTTGAGTCAC 57.742 33.333 2.38 0.00 41.92 3.67
6776 9732 9.477484 CTAACATTAGTACAAAGTTGAGTCACT 57.523 33.333 0.00 0.00 0.00 3.41
6777 9733 8.732746 AACATTAGTACAAAGTTGAGTCACTT 57.267 30.769 0.00 0.00 38.74 3.16
6778 9734 8.732746 ACATTAGTACAAAGTTGAGTCACTTT 57.267 30.769 12.24 12.24 46.00 2.66
6779 9735 9.174166 ACATTAGTACAAAGTTGAGTCACTTTT 57.826 29.630 14.29 6.60 43.17 2.27
6780 9736 9.438291 CATTAGTACAAAGTTGAGTCACTTTTG 57.562 33.333 19.55 19.55 43.17 2.44
6781 9737 8.780846 TTAGTACAAAGTTGAGTCACTTTTGA 57.219 30.769 24.60 12.36 43.17 2.69
6782 9738 7.308782 AGTACAAAGTTGAGTCACTTTTGAG 57.691 36.000 24.60 14.09 43.17 3.02
6783 9739 6.879458 AGTACAAAGTTGAGTCACTTTTGAGT 59.121 34.615 24.60 17.32 43.17 3.41
6795 9751 7.707104 AGTCACTTTTGAGTCACTTATTTTGG 58.293 34.615 0.00 0.00 28.20 3.28
6796 9752 6.918022 GTCACTTTTGAGTCACTTATTTTGGG 59.082 38.462 0.00 0.00 30.10 4.12
6797 9753 6.831353 TCACTTTTGAGTCACTTATTTTGGGA 59.169 34.615 0.00 0.00 0.00 4.37
6798 9754 6.918022 CACTTTTGAGTCACTTATTTTGGGAC 59.082 38.462 0.00 0.00 0.00 4.46
6799 9755 5.682943 TTTGAGTCACTTATTTTGGGACG 57.317 39.130 0.00 0.00 33.84 4.79
6800 9756 3.670625 TGAGTCACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 33.84 4.79
6801 9757 3.325425 TGAGTCACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 33.84 4.69
6802 9758 3.933332 GAGTCACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 33.84 4.63
6803 9759 3.007635 GTCACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
6804 9760 2.907696 TCACTTATTTTGGGACGGAGGA 59.092 45.455 0.00 0.00 0.00 3.71
6805 9761 3.328343 TCACTTATTTTGGGACGGAGGAA 59.672 43.478 0.00 0.00 0.00 3.36
6806 9762 3.689649 CACTTATTTTGGGACGGAGGAAG 59.310 47.826 0.00 0.00 0.00 3.46
7203 10161 5.536497 AAGTGGATACCCCTTCATTTCTT 57.464 39.130 0.00 0.00 35.38 2.52
7352 10483 8.704668 AGATTTGGTGGAGTAAAACTGATTTTT 58.295 29.630 0.00 0.00 38.91 1.94
7372 10503 0.036577 CTGAAGTGGAGCAGTCCCAG 60.037 60.000 0.00 0.00 43.15 4.45
7402 10603 4.142093 CCTCAATCAAGTGCTAATTTGGGG 60.142 45.833 0.00 0.00 0.00 4.96
7486 10687 9.979578 TGGATTGTTGTGATTATTTATATTGCC 57.020 29.630 0.00 0.00 0.00 4.52
7892 11094 1.376037 GCTAGTCGGCAACAAGGCT 60.376 57.895 0.00 0.00 41.46 4.58
8221 11423 1.884579 CATTGATGGATGGGTAGCTGC 59.115 52.381 0.00 0.00 0.00 5.25
8556 11765 1.399714 TATCTGTCGCCCGATGACTT 58.600 50.000 0.00 0.00 37.26 3.01
8680 11889 7.966246 TTAGTGTTGTTATATTGTGGACGTT 57.034 32.000 0.00 0.00 0.00 3.99
8681 11890 6.870971 AGTGTTGTTATATTGTGGACGTTT 57.129 33.333 0.00 0.00 0.00 3.60
8686 11895 9.828852 TGTTGTTATATTGTGGACGTTTATTTC 57.171 29.630 0.00 0.00 0.00 2.17
8696 11905 8.618702 TGTGGACGTTTATTTCTAATTTACCA 57.381 30.769 0.00 0.00 0.00 3.25
8697 11906 9.064706 TGTGGACGTTTATTTCTAATTTACCAA 57.935 29.630 0.00 0.00 0.00 3.67
8734 11943 8.025243 ACTTATTAGTGTTGTTATTGTGGACG 57.975 34.615 0.00 0.00 31.99 4.79
8876 12092 2.589798 TTAATAGAGTGCCGGTTCCG 57.410 50.000 1.90 4.08 0.00 4.30
8877 12093 4.854764 CTATTAATAGAGTGCCGGTTCCGG 60.855 50.000 23.97 23.97 41.20 5.14
8878 12094 7.240270 CTATTAATAGAGTGCCGGTTCCGGT 62.240 48.000 27.49 11.38 40.78 5.28
8879 12095 8.624956 CTATTAATAGAGTGCCGGTTCCGGTT 62.625 46.154 27.49 16.03 40.78 4.44
8888 12104 1.406180 CCGGTTCCGGTTCTTGTTTTT 59.594 47.619 20.65 0.00 43.86 1.94
8978 12197 5.407407 TTTTTGGGCAACAAGAAACACTA 57.593 34.783 0.00 0.00 40.82 2.74
8994 12213 1.819288 CACTAGAAGCTTCGGGAGACA 59.181 52.381 24.16 6.53 39.59 3.41
9034 12253 2.664851 CACATGGACACGTGGCGT 60.665 61.111 21.57 7.64 42.36 5.68
9111 12330 4.265261 ACCTGATTCCACCCCCATAAATTT 60.265 41.667 0.00 0.00 0.00 1.82
9154 12373 6.486253 TCGTCATTTCTCCAGAAGAATTTG 57.514 37.500 0.00 0.00 43.50 2.32
9159 12378 8.302438 GTCATTTCTCCAGAAGAATTTGATTGT 58.698 33.333 0.00 0.00 43.50 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.728845 TCCACCAGCGCTTAAGATATTC 58.271 45.455 7.50 0.00 0.00 1.75
2 3 2.700897 ACTCCACCAGCGCTTAAGATAT 59.299 45.455 7.50 0.00 0.00 1.63
3 4 2.108168 ACTCCACCAGCGCTTAAGATA 58.892 47.619 7.50 0.00 0.00 1.98
4 5 0.905357 ACTCCACCAGCGCTTAAGAT 59.095 50.000 7.50 0.00 0.00 2.40
5 6 1.476891 CTACTCCACCAGCGCTTAAGA 59.523 52.381 7.50 0.98 0.00 2.10
6 7 1.476891 TCTACTCCACCAGCGCTTAAG 59.523 52.381 7.50 1.35 0.00 1.85
7 8 1.552578 TCTACTCCACCAGCGCTTAA 58.447 50.000 7.50 0.00 0.00 1.85
8 9 1.681793 GATCTACTCCACCAGCGCTTA 59.318 52.381 7.50 0.00 0.00 3.09
9 10 0.461961 GATCTACTCCACCAGCGCTT 59.538 55.000 7.50 0.00 0.00 4.68
10 11 0.396417 AGATCTACTCCACCAGCGCT 60.396 55.000 2.64 2.64 0.00 5.92
11 12 0.461961 AAGATCTACTCCACCAGCGC 59.538 55.000 0.00 0.00 0.00 5.92
12 13 2.952978 ACTAAGATCTACTCCACCAGCG 59.047 50.000 0.00 0.00 0.00 5.18
13 14 6.466885 TTAACTAAGATCTACTCCACCAGC 57.533 41.667 0.00 0.00 0.00 4.85
34 35 9.455144 TGACAAGGACCTTTATCCCTTATATTA 57.545 33.333 3.21 0.00 39.91 0.98
35 36 8.344939 TGACAAGGACCTTTATCCCTTATATT 57.655 34.615 3.21 0.00 39.91 1.28
36 37 7.947782 TGACAAGGACCTTTATCCCTTATAT 57.052 36.000 3.21 0.00 39.91 0.86
37 38 7.947782 ATGACAAGGACCTTTATCCCTTATA 57.052 36.000 3.21 0.00 39.91 0.98
38 39 6.848562 ATGACAAGGACCTTTATCCCTTAT 57.151 37.500 3.21 0.00 39.91 1.73
39 40 6.423182 CAATGACAAGGACCTTTATCCCTTA 58.577 40.000 3.21 0.00 39.91 2.69
40 41 5.264395 CAATGACAAGGACCTTTATCCCTT 58.736 41.667 3.21 0.08 39.91 3.95
41 42 4.325344 CCAATGACAAGGACCTTTATCCCT 60.325 45.833 3.21 0.00 39.91 4.20
42 43 3.954258 CCAATGACAAGGACCTTTATCCC 59.046 47.826 3.21 0.00 39.91 3.85
43 44 4.600062 ACCAATGACAAGGACCTTTATCC 58.400 43.478 3.21 0.00 39.28 2.59
44 45 5.946377 AGAACCAATGACAAGGACCTTTATC 59.054 40.000 3.21 6.17 0.00 1.75
45 46 5.892348 AGAACCAATGACAAGGACCTTTAT 58.108 37.500 3.21 0.00 0.00 1.40
46 47 5.163141 TGAGAACCAATGACAAGGACCTTTA 60.163 40.000 3.21 0.00 0.00 1.85
47 48 4.145052 GAGAACCAATGACAAGGACCTTT 58.855 43.478 3.21 0.00 0.00 3.11
48 49 3.138283 TGAGAACCAATGACAAGGACCTT 59.862 43.478 0.00 0.00 0.00 3.50
49 50 2.711009 TGAGAACCAATGACAAGGACCT 59.289 45.455 4.46 0.00 0.00 3.85
50 51 2.814336 GTGAGAACCAATGACAAGGACC 59.186 50.000 4.46 0.00 0.00 4.46
51 52 3.476552 TGTGAGAACCAATGACAAGGAC 58.523 45.455 4.46 0.00 0.00 3.85
52 53 3.855255 TGTGAGAACCAATGACAAGGA 57.145 42.857 4.46 0.00 0.00 3.36
53 54 3.303990 CGTTGTGAGAACCAATGACAAGG 60.304 47.826 0.00 0.00 31.83 3.61
54 55 3.312421 ACGTTGTGAGAACCAATGACAAG 59.688 43.478 0.00 0.00 33.88 3.16
55 56 3.275143 ACGTTGTGAGAACCAATGACAA 58.725 40.909 0.00 0.00 33.88 3.18
56 57 2.869801 GACGTTGTGAGAACCAATGACA 59.130 45.455 0.00 0.00 33.88 3.58
57 58 2.096909 CGACGTTGTGAGAACCAATGAC 60.097 50.000 0.00 0.00 33.88 3.06
58 59 2.131972 CGACGTTGTGAGAACCAATGA 58.868 47.619 0.00 0.00 33.88 2.57
59 60 2.131972 TCGACGTTGTGAGAACCAATG 58.868 47.619 1.96 0.00 35.44 2.82
60 61 2.519377 TCGACGTTGTGAGAACCAAT 57.481 45.000 1.96 0.00 0.00 3.16
61 62 2.296831 TTCGACGTTGTGAGAACCAA 57.703 45.000 1.96 0.00 0.00 3.67
62 63 2.519377 ATTCGACGTTGTGAGAACCA 57.481 45.000 1.96 0.00 0.00 3.67
63 64 2.665052 GGTATTCGACGTTGTGAGAACC 59.335 50.000 1.96 3.68 0.00 3.62
64 65 3.572584 AGGTATTCGACGTTGTGAGAAC 58.427 45.455 1.96 0.00 0.00 3.01
65 66 3.366679 GGAGGTATTCGACGTTGTGAGAA 60.367 47.826 1.96 0.00 0.00 2.87
66 67 2.163010 GGAGGTATTCGACGTTGTGAGA 59.837 50.000 1.96 0.00 0.00 3.27
67 68 2.163815 AGGAGGTATTCGACGTTGTGAG 59.836 50.000 1.96 0.00 0.00 3.51
68 69 2.165167 AGGAGGTATTCGACGTTGTGA 58.835 47.619 1.96 0.00 0.00 3.58
69 70 2.649331 AGGAGGTATTCGACGTTGTG 57.351 50.000 1.96 0.00 0.00 3.33
70 71 2.424956 GGTAGGAGGTATTCGACGTTGT 59.575 50.000 1.96 0.00 0.00 3.32
71 72 2.540361 CGGTAGGAGGTATTCGACGTTG 60.540 54.545 0.00 0.00 0.00 4.10
72 73 1.672881 CGGTAGGAGGTATTCGACGTT 59.327 52.381 0.00 0.00 0.00 3.99
73 74 1.303309 CGGTAGGAGGTATTCGACGT 58.697 55.000 0.00 0.00 0.00 4.34
74 75 1.003116 CACGGTAGGAGGTATTCGACG 60.003 57.143 0.00 0.00 0.00 5.12
75 76 2.290093 CTCACGGTAGGAGGTATTCGAC 59.710 54.545 0.00 0.00 0.00 4.20
76 77 2.092753 ACTCACGGTAGGAGGTATTCGA 60.093 50.000 1.23 0.00 36.70 3.71
77 78 2.033049 CACTCACGGTAGGAGGTATTCG 59.967 54.545 1.23 0.00 36.70 3.34
78 79 3.285484 TCACTCACGGTAGGAGGTATTC 58.715 50.000 1.23 0.00 36.70 1.75
79 80 3.377253 TCACTCACGGTAGGAGGTATT 57.623 47.619 1.23 0.00 36.70 1.89
80 81 3.022406 GTTCACTCACGGTAGGAGGTAT 58.978 50.000 1.23 0.00 36.70 2.73
81 82 2.040813 AGTTCACTCACGGTAGGAGGTA 59.959 50.000 1.23 0.00 36.70 3.08
131 132 8.675705 ATCGATCAATCACATAACAAACCATA 57.324 30.769 0.00 0.00 0.00 2.74
225 232 7.015877 GGCGTATTAGCAAGAAATTATAGTGC 58.984 38.462 0.00 0.00 39.27 4.40
235 242 0.179067 CCCCGGCGTATTAGCAAGAA 60.179 55.000 6.01 0.00 39.27 2.52
241 248 1.202582 CTCATCTCCCCGGCGTATTAG 59.797 57.143 6.01 0.00 0.00 1.73
284 291 8.050316 AGGAAGGATAATGTCTCATATTTGGT 57.950 34.615 0.00 0.00 0.00 3.67
311 318 7.413767 CCCTACTCAAACCTACGCTTAAATTTC 60.414 40.741 0.00 0.00 0.00 2.17
321 328 1.206371 CCACCCCTACTCAAACCTACG 59.794 57.143 0.00 0.00 0.00 3.51
322 329 2.500504 CTCCACCCCTACTCAAACCTAC 59.499 54.545 0.00 0.00 0.00 3.18
324 331 1.657804 CTCCACCCCTACTCAAACCT 58.342 55.000 0.00 0.00 0.00 3.50
334 341 2.591821 AATCCCTCCCTCCACCCCT 61.592 63.158 0.00 0.00 0.00 4.79
368 375 1.904771 CCCGCCACCTCTATCAACA 59.095 57.895 0.00 0.00 0.00 3.33
416 423 2.029623 GTAGTCCGGCCTTCATCACTA 58.970 52.381 0.00 0.00 0.00 2.74
417 424 0.824759 GTAGTCCGGCCTTCATCACT 59.175 55.000 0.00 0.00 0.00 3.41
418 425 0.824759 AGTAGTCCGGCCTTCATCAC 59.175 55.000 0.00 0.00 0.00 3.06
419 426 0.824109 CAGTAGTCCGGCCTTCATCA 59.176 55.000 0.00 0.00 0.00 3.07
420 427 0.824759 ACAGTAGTCCGGCCTTCATC 59.175 55.000 0.00 0.00 0.00 2.92
421 428 0.824759 GACAGTAGTCCGGCCTTCAT 59.175 55.000 0.00 0.00 38.89 2.57
422 429 0.251653 AGACAGTAGTCCGGCCTTCA 60.252 55.000 0.00 0.00 46.15 3.02
423 430 1.677052 CTAGACAGTAGTCCGGCCTTC 59.323 57.143 0.00 0.00 46.15 3.46
424 431 1.765230 CTAGACAGTAGTCCGGCCTT 58.235 55.000 0.00 0.00 46.15 4.35
425 432 0.752376 GCTAGACAGTAGTCCGGCCT 60.752 60.000 0.00 0.00 46.15 5.19
426 433 0.752376 AGCTAGACAGTAGTCCGGCC 60.752 60.000 0.00 0.00 46.15 6.13
427 434 0.382515 CAGCTAGACAGTAGTCCGGC 59.617 60.000 0.00 0.00 46.15 6.13
428 435 1.944024 CTCAGCTAGACAGTAGTCCGG 59.056 57.143 0.00 0.00 46.15 5.14
429 436 1.332375 GCTCAGCTAGACAGTAGTCCG 59.668 57.143 0.00 0.00 46.15 4.79
430 437 2.616842 GAGCTCAGCTAGACAGTAGTCC 59.383 54.545 9.40 0.00 41.88 3.85
431 438 3.312421 CAGAGCTCAGCTAGACAGTAGTC 59.688 52.174 17.77 0.00 41.50 2.59
432 439 3.278574 CAGAGCTCAGCTAGACAGTAGT 58.721 50.000 17.77 0.00 39.88 2.73
433 440 2.618241 CCAGAGCTCAGCTAGACAGTAG 59.382 54.545 17.77 0.00 39.88 2.57
434 441 2.025793 ACCAGAGCTCAGCTAGACAGTA 60.026 50.000 17.77 0.00 39.88 2.74
435 442 1.272425 ACCAGAGCTCAGCTAGACAGT 60.272 52.381 17.77 0.00 39.88 3.55
436 443 1.405105 GACCAGAGCTCAGCTAGACAG 59.595 57.143 17.77 0.00 39.88 3.51
437 444 1.468985 GACCAGAGCTCAGCTAGACA 58.531 55.000 17.77 0.00 39.88 3.41
438 445 0.744281 GGACCAGAGCTCAGCTAGAC 59.256 60.000 17.77 0.00 39.88 2.59
439 446 0.332972 TGGACCAGAGCTCAGCTAGA 59.667 55.000 17.77 0.00 39.88 2.43
440 447 0.746063 CTGGACCAGAGCTCAGCTAG 59.254 60.000 17.22 5.39 39.88 3.42
441 448 0.332972 TCTGGACCAGAGCTCAGCTA 59.667 55.000 20.74 0.00 39.88 3.32
442 449 1.078166 TCTGGACCAGAGCTCAGCT 59.922 57.895 20.74 0.00 43.88 4.24
443 450 3.705502 TCTGGACCAGAGCTCAGC 58.294 61.111 20.74 0.00 35.39 4.26
450 457 2.158310 TCAGAACTTCCTCTGGACCAGA 60.158 50.000 22.97 22.97 42.68 3.86
451 458 2.251818 TCAGAACTTCCTCTGGACCAG 58.748 52.381 15.99 15.99 42.68 4.00
452 459 2.398754 TCAGAACTTCCTCTGGACCA 57.601 50.000 0.00 0.00 42.68 4.02
453 460 3.990959 ATTCAGAACTTCCTCTGGACC 57.009 47.619 1.03 0.00 42.68 4.46
454 461 6.410540 ACAATATTCAGAACTTCCTCTGGAC 58.589 40.000 1.03 0.00 42.68 4.02
455 462 6.627087 ACAATATTCAGAACTTCCTCTGGA 57.373 37.500 1.03 0.00 42.68 3.86
456 463 7.391554 TCAAACAATATTCAGAACTTCCTCTGG 59.608 37.037 1.03 0.00 42.68 3.86
457 464 8.327941 TCAAACAATATTCAGAACTTCCTCTG 57.672 34.615 0.00 0.00 43.62 3.35
458 465 8.954350 CATCAAACAATATTCAGAACTTCCTCT 58.046 33.333 0.00 0.00 0.00 3.69
459 466 8.950210 TCATCAAACAATATTCAGAACTTCCTC 58.050 33.333 0.00 0.00 0.00 3.71
460 467 8.868522 TCATCAAACAATATTCAGAACTTCCT 57.131 30.769 0.00 0.00 0.00 3.36
461 468 8.950210 TCTCATCAAACAATATTCAGAACTTCC 58.050 33.333 0.00 0.00 0.00 3.46
504 511 8.653338 GCGAAATAACACTTGTATTACTCAAGA 58.347 33.333 11.72 0.00 43.17 3.02
505 512 8.440059 TGCGAAATAACACTTGTATTACTCAAG 58.560 33.333 4.45 4.45 45.15 3.02
506 513 8.312896 TGCGAAATAACACTTGTATTACTCAA 57.687 30.769 0.00 0.00 0.00 3.02
507 514 7.892778 TGCGAAATAACACTTGTATTACTCA 57.107 32.000 0.00 0.00 0.00 3.41
508 515 8.653338 TCTTGCGAAATAACACTTGTATTACTC 58.347 33.333 0.00 0.00 0.00 2.59
509 516 8.542497 TCTTGCGAAATAACACTTGTATTACT 57.458 30.769 0.00 0.00 0.00 2.24
510 517 9.601971 TTTCTTGCGAAATAACACTTGTATTAC 57.398 29.630 0.00 0.00 34.35 1.89
512 519 9.522804 TTTTTCTTGCGAAATAACACTTGTATT 57.477 25.926 0.00 0.00 38.81 1.89
537 544 9.784531 TCTTCTTCATCACTATGTTCTTTCTTT 57.215 29.630 0.00 0.00 34.50 2.52
538 545 9.213799 GTCTTCTTCATCACTATGTTCTTTCTT 57.786 33.333 0.00 0.00 34.50 2.52
539 546 8.370940 TGTCTTCTTCATCACTATGTTCTTTCT 58.629 33.333 0.00 0.00 34.50 2.52
540 547 8.539770 TGTCTTCTTCATCACTATGTTCTTTC 57.460 34.615 0.00 0.00 34.50 2.62
541 548 8.908786 TTGTCTTCTTCATCACTATGTTCTTT 57.091 30.769 0.00 0.00 34.50 2.52
542 549 8.908786 TTTGTCTTCTTCATCACTATGTTCTT 57.091 30.769 0.00 0.00 34.50 2.52
543 550 8.908786 TTTTGTCTTCTTCATCACTATGTTCT 57.091 30.769 0.00 0.00 34.50 3.01
544 551 8.993121 TCTTTTGTCTTCTTCATCACTATGTTC 58.007 33.333 0.00 0.00 34.50 3.18
545 552 8.908786 TCTTTTGTCTTCTTCATCACTATGTT 57.091 30.769 0.00 0.00 34.50 2.71
546 553 8.908786 TTCTTTTGTCTTCTTCATCACTATGT 57.091 30.769 0.00 0.00 34.50 2.29
569 576 9.612620 AATAGTTCAACGTCAAGATCAATTTTC 57.387 29.630 0.00 0.00 0.00 2.29
579 589 6.645415 ACCTGTTCTAATAGTTCAACGTCAAG 59.355 38.462 0.00 0.00 0.00 3.02
588 598 8.713271 GCAGCATTATACCTGTTCTAATAGTTC 58.287 37.037 0.00 0.00 0.00 3.01
597 607 3.788797 GCAACGCAGCATTATACCTGTTC 60.789 47.826 0.00 0.00 0.00 3.18
600 610 1.670295 TGCAACGCAGCATTATACCTG 59.330 47.619 0.00 0.00 40.11 4.00
636 646 7.012894 TCCGCGGATCACAATTTTTCTATAAAT 59.987 33.333 27.28 0.00 0.00 1.40
728 739 1.950098 GAGAGAACGAGCGTTGCTGC 61.950 60.000 13.44 0.00 39.88 5.25
804 815 1.862138 TGGTGGGAGGAGGAGGAGA 60.862 63.158 0.00 0.00 0.00 3.71
942 953 1.023513 CCTCGTACGTTCGTCCTCCT 61.024 60.000 16.05 0.00 0.00 3.69
1203 1215 1.524482 CTACCTCTCTTGGCCAGCC 59.476 63.158 5.11 0.38 0.00 4.85
1378 1390 3.390311 GGGGATAGGAGATACGTTTTGGT 59.610 47.826 0.00 0.00 0.00 3.67
1424 1436 7.672983 TCTGCTCGATGAAGAAAAGTTTATT 57.327 32.000 0.00 0.00 0.00 1.40
1529 1541 9.988815 GATGTGTATTTGACTTCTGAGGTATAT 57.011 33.333 0.00 0.00 0.00 0.86
1601 1628 8.055279 TGAATTCTTAGTTCATTTGGACCATC 57.945 34.615 7.05 0.00 31.07 3.51
1767 1801 0.391263 GCCCTCCAAGTCTTGTACCG 60.391 60.000 11.61 0.00 0.00 4.02
1908 1952 0.663568 CAGTCTGAACGTCCACGACC 60.664 60.000 6.03 0.00 43.02 4.79
1919 1963 3.131933 GCTGCTATTCTCTCCAGTCTGAA 59.868 47.826 0.00 0.00 0.00 3.02
2100 2152 0.108804 CACACGGCTAACTCGACCAT 60.109 55.000 0.00 0.00 0.00 3.55
2109 2161 1.870055 GACGTCCCTCACACGGCTAA 61.870 60.000 3.51 0.00 42.36 3.09
2269 2335 1.078072 AACGCCACTGTCAACACCA 60.078 52.632 0.00 0.00 0.00 4.17
2272 2338 1.525077 GGGAACGCCACTGTCAACA 60.525 57.895 0.00 0.00 35.15 3.33
2549 2664 2.995574 ACCAACCCGAGCGCTACT 60.996 61.111 11.50 0.00 0.00 2.57
2614 2729 1.516365 CCCATCGGATCGTAGCGAGT 61.516 60.000 0.00 0.00 39.91 4.18
2722 2877 4.227134 CTCCCACGGCTCCATCGG 62.227 72.222 0.00 0.00 0.00 4.18
2782 2937 0.880278 GAGTGAGCAACGGACTGCAA 60.880 55.000 8.78 0.00 45.18 4.08
2799 2954 0.108615 ACGCATTCCTCTCCGTTGAG 60.109 55.000 0.00 0.00 40.17 3.02
2802 2957 1.183549 AGTACGCATTCCTCTCCGTT 58.816 50.000 0.00 0.00 35.36 4.44
2907 3062 2.484417 GCTCATGCTTCTTGGCTAGCTA 60.484 50.000 15.72 5.44 38.22 3.32
2996 3151 4.564116 GCGGCGCGAGGTTAGCTA 62.564 66.667 19.09 0.00 0.00 3.32
3015 3837 1.369692 CAACCACTCACACGCCCTA 59.630 57.895 0.00 0.00 0.00 3.53
3022 3844 1.087202 GTCACACGCAACCACTCACA 61.087 55.000 0.00 0.00 0.00 3.58
3036 3858 2.082629 ATCGTGCTGGTCGTGTCACA 62.083 55.000 3.42 0.00 0.00 3.58
3055 3877 1.590932 GTCGATCCTACGCTGACCTA 58.409 55.000 0.00 0.00 0.00 3.08
3065 3887 0.178984 TGGTATGGCCGTCGATCCTA 60.179 55.000 0.00 0.00 41.21 2.94
3070 3892 4.201679 CGCTGGTATGGCCGTCGA 62.202 66.667 0.00 0.00 41.21 4.20
3144 3966 6.877236 TCTACAATGCATGTCTACTTCATCA 58.123 36.000 0.00 0.00 42.70 3.07
3230 5127 0.249120 TCACGCCGGTCATCTTGATT 59.751 50.000 1.90 0.00 0.00 2.57
3354 5254 3.153781 TCTCCATGATCGCCGCCA 61.154 61.111 0.00 0.00 0.00 5.69
3444 5351 9.040259 CAATCCATCTCTATCCCTTCTAACATA 57.960 37.037 0.00 0.00 0.00 2.29
3527 5434 1.338769 CCCTCCGAGTTTTGTACCCAG 60.339 57.143 0.00 0.00 0.00 4.45
3552 5460 4.749048 TCCATCTTATCTCTAGGAGGCA 57.251 45.455 0.00 0.00 0.00 4.75
3699 5607 7.686938 CGAAACATAACCTAAACAAGATCGAAC 59.313 37.037 0.00 0.00 0.00 3.95
3874 5794 0.944386 TGCTTCAAAGACGTCTTGCC 59.056 50.000 30.33 16.64 36.12 4.52
4112 6907 2.286872 GATGTCTGGCTCTCACAATGG 58.713 52.381 0.00 0.00 0.00 3.16
4538 7489 8.144478 CGAAGGATGTTTCTTCAAGATAGGATA 58.856 37.037 0.00 0.00 40.27 2.59
4626 7581 7.254387 CGAGGAAGAAGATGATGAATTTGAGTC 60.254 40.741 0.00 0.00 0.00 3.36
4652 7607 5.845985 TCTTTGACAATTCATCGTCAGAC 57.154 39.130 0.00 0.00 42.73 3.51
4846 7801 2.528127 TCGCCTTCACCCTCCCAA 60.528 61.111 0.00 0.00 0.00 4.12
4847 7802 3.319198 GTCGCCTTCACCCTCCCA 61.319 66.667 0.00 0.00 0.00 4.37
5034 7989 4.641396 TCCCTCAATATGGATTAACTGCG 58.359 43.478 0.00 0.00 0.00 5.18
5040 7995 5.930209 AGGCTTTCCCTCAATATGGATTA 57.070 39.130 0.00 0.00 41.21 1.75
5078 8033 5.568685 TCGTGTCTTTCTTCCTATCTCTG 57.431 43.478 0.00 0.00 0.00 3.35
5098 8053 4.611943 TCTTTTCATCCTCGCTTAGATCG 58.388 43.478 0.00 0.00 0.00 3.69
5210 8165 3.592898 TCTTCGCTGACTTATGCAAGA 57.407 42.857 0.00 0.00 35.60 3.02
5273 8228 2.168313 TGCTTGATCTCTTACCGCATCA 59.832 45.455 0.00 0.00 0.00 3.07
5282 8237 2.039480 TGAGGCAGTTGCTTGATCTCTT 59.961 45.455 3.88 0.00 41.70 2.85
5306 8261 0.178861 TGCCTTCCTCTTCCCTCCTT 60.179 55.000 0.00 0.00 0.00 3.36
5377 8332 1.577328 CGCCTTGCTCGGTCAATGTT 61.577 55.000 0.00 0.00 0.00 2.71
5435 8390 2.014335 TCGTCCATTGAGCAGATGTG 57.986 50.000 0.00 0.00 0.00 3.21
5436 8391 2.744202 GTTTCGTCCATTGAGCAGATGT 59.256 45.455 0.00 0.00 0.00 3.06
5492 8447 0.317479 CGGGTTCTCTTCCAACTCGT 59.683 55.000 0.00 0.00 41.84 4.18
5631 8586 5.535030 TGCTTTAGATTGCGATCTAGGAGTA 59.465 40.000 20.54 18.16 43.76 2.59
5672 8627 5.783100 TTCACGTTGAATTAATACGGTCC 57.217 39.130 12.50 0.00 39.45 4.46
5673 8628 6.520790 GGTTTTCACGTTGAATTAATACGGTC 59.479 38.462 12.50 0.00 36.11 4.79
5693 8648 3.706086 ACTGCCTTTGACTCATTGGTTTT 59.294 39.130 0.00 0.00 0.00 2.43
5777 8732 1.199615 TGATGTAATGTGGCCTCGGA 58.800 50.000 3.32 0.00 0.00 4.55
5801 8757 0.379669 CGGACCAGCGATAACTACGT 59.620 55.000 0.00 0.00 0.00 3.57
5929 8885 0.877071 ATGTTGCCTCTTGCTCGTTG 59.123 50.000 0.00 0.00 42.00 4.10
5930 8886 1.160137 GATGTTGCCTCTTGCTCGTT 58.840 50.000 0.00 0.00 42.00 3.85
6006 8962 1.834996 TGGAGCTGGATCCATGAGC 59.165 57.895 16.63 15.68 44.56 4.26
6523 9479 1.755200 ACACAGGTAAAGGGGGACAT 58.245 50.000 0.00 0.00 0.00 3.06
6585 9541 3.695060 AGCATGCTAGAACTAGTACGTGT 59.305 43.478 21.21 0.00 35.65 4.49
6608 9564 4.840271 AGGAATTTTCGTCGGGTCTTAAT 58.160 39.130 0.00 0.00 0.00 1.40
6678 9634 7.880195 AGTATGTTTCAAGAGACAAGCTAACAT 59.120 33.333 8.68 8.68 38.24 2.71
6701 9657 1.961133 ATTTTGGGACCGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
6702 9658 1.961133 TATTTTGGGACCGAGGGAGT 58.039 50.000 0.00 0.00 0.00 3.85
6703 9659 2.238898 ACTTATTTTGGGACCGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
6704 9660 2.026636 CACTTATTTTGGGACCGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
6705 9661 2.026636 TCACTTATTTTGGGACCGAGGG 60.027 50.000 0.00 0.00 0.00 4.30
6706 9662 3.007635 GTCACTTATTTTGGGACCGAGG 58.992 50.000 0.00 0.00 0.00 4.63
6707 9663 3.933332 GAGTCACTTATTTTGGGACCGAG 59.067 47.826 0.00 0.00 0.00 4.63
6708 9664 3.325425 TGAGTCACTTATTTTGGGACCGA 59.675 43.478 0.00 0.00 0.00 4.69
6709 9665 3.670625 TGAGTCACTTATTTTGGGACCG 58.329 45.455 0.00 0.00 0.00 4.79
6710 9666 6.399639 TTTTGAGTCACTTATTTTGGGACC 57.600 37.500 0.00 0.00 0.00 4.46
6711 9667 8.141268 TCATTTTTGAGTCACTTATTTTGGGAC 58.859 33.333 0.00 0.00 0.00 4.46
6712 9668 8.141268 GTCATTTTTGAGTCACTTATTTTGGGA 58.859 33.333 0.00 0.00 0.00 4.37
6713 9669 8.143835 AGTCATTTTTGAGTCACTTATTTTGGG 58.856 33.333 0.00 0.00 0.00 4.12
6714 9670 9.185192 GAGTCATTTTTGAGTCACTTATTTTGG 57.815 33.333 0.00 0.00 37.98 3.28
6715 9671 9.734620 TGAGTCATTTTTGAGTCACTTATTTTG 57.265 29.630 8.96 0.00 41.68 2.44
6717 9673 9.736023 GTTGAGTCATTTTTGAGTCACTTATTT 57.264 29.630 11.91 0.00 44.92 1.40
6718 9674 8.902806 TGTTGAGTCATTTTTGAGTCACTTATT 58.097 29.630 11.91 0.00 44.92 1.40
6719 9675 8.450578 TGTTGAGTCATTTTTGAGTCACTTAT 57.549 30.769 11.91 0.00 44.92 1.73
6720 9676 7.857734 TGTTGAGTCATTTTTGAGTCACTTA 57.142 32.000 11.91 0.00 44.92 2.24
6721 9677 6.757897 TGTTGAGTCATTTTTGAGTCACTT 57.242 33.333 11.91 0.00 44.92 3.16
6722 9678 6.949352 ATGTTGAGTCATTTTTGAGTCACT 57.051 33.333 11.91 0.00 44.92 3.41
6723 9679 7.195646 TCAATGTTGAGTCATTTTTGAGTCAC 58.804 34.615 11.91 8.77 44.92 3.67
6724 9680 7.332213 TCAATGTTGAGTCATTTTTGAGTCA 57.668 32.000 8.96 8.96 43.96 3.41
6725 9681 7.917505 AGTTCAATGTTGAGTCATTTTTGAGTC 59.082 33.333 0.00 4.26 38.61 3.36
6726 9682 7.775120 AGTTCAATGTTGAGTCATTTTTGAGT 58.225 30.769 0.00 0.00 38.61 3.41
6727 9683 9.734620 TTAGTTCAATGTTGAGTCATTTTTGAG 57.265 29.630 0.00 0.00 38.61 3.02
6728 9684 9.515020 GTTAGTTCAATGTTGAGTCATTTTTGA 57.485 29.630 0.00 1.03 38.61 2.69
6729 9685 9.299963 TGTTAGTTCAATGTTGAGTCATTTTTG 57.700 29.630 0.00 0.00 38.61 2.44
6734 9690 9.507329 ACTAATGTTAGTTCAATGTTGAGTCAT 57.493 29.630 0.00 0.00 40.96 3.06
6735 9691 8.902540 ACTAATGTTAGTTCAATGTTGAGTCA 57.097 30.769 0.00 0.00 40.96 3.41
6737 9693 9.772973 TGTACTAATGTTAGTTCAATGTTGAGT 57.227 29.630 10.40 0.00 40.96 3.41
6746 9702 9.826574 ACTCAACTTTGTACTAATGTTAGTTCA 57.173 29.630 10.40 8.98 40.96 3.18
6748 9704 9.826574 TGACTCAACTTTGTACTAATGTTAGTT 57.173 29.630 10.40 0.00 40.96 2.24
6749 9705 9.257651 GTGACTCAACTTTGTACTAATGTTAGT 57.742 33.333 10.05 10.05 45.39 2.24
6750 9706 9.477484 AGTGACTCAACTTTGTACTAATGTTAG 57.523 33.333 0.00 0.00 36.82 2.34
6751 9707 9.826574 AAGTGACTCAACTTTGTACTAATGTTA 57.173 29.630 0.00 0.00 37.05 2.41
6752 9708 8.732746 AAGTGACTCAACTTTGTACTAATGTT 57.267 30.769 0.00 0.00 37.05 2.71
6753 9709 8.732746 AAAGTGACTCAACTTTGTACTAATGT 57.267 30.769 1.71 0.00 46.16 2.71
6761 9717 8.438047 AGTGACTCAAAAGTGACTCAACTTTGT 61.438 37.037 7.20 0.00 45.46 2.83
6762 9718 6.128172 AGTGACTCAAAAGTGACTCAACTTTG 60.128 38.462 3.28 1.98 45.46 2.77
6763 9719 5.940470 AGTGACTCAAAAGTGACTCAACTTT 59.060 36.000 0.00 0.00 45.46 2.66
6764 9720 5.491982 AGTGACTCAAAAGTGACTCAACTT 58.508 37.500 0.00 0.00 45.46 2.66
6765 9721 5.091261 AGTGACTCAAAAGTGACTCAACT 57.909 39.130 0.00 0.00 45.46 3.16
6771 9727 6.918022 CCCAAAATAAGTGACTCAAAAGTGAC 59.082 38.462 0.00 0.00 39.64 3.67
6772 9728 6.831353 TCCCAAAATAAGTGACTCAAAAGTGA 59.169 34.615 0.00 0.00 35.28 3.41
6773 9729 6.918022 GTCCCAAAATAAGTGACTCAAAAGTG 59.082 38.462 0.00 0.00 35.28 3.16
6774 9730 6.238648 CGTCCCAAAATAAGTGACTCAAAAGT 60.239 38.462 0.00 0.00 38.88 2.66
6775 9731 6.142817 CGTCCCAAAATAAGTGACTCAAAAG 58.857 40.000 0.00 0.00 0.00 2.27
6776 9732 5.009210 CCGTCCCAAAATAAGTGACTCAAAA 59.991 40.000 0.00 0.00 0.00 2.44
6777 9733 4.517453 CCGTCCCAAAATAAGTGACTCAAA 59.483 41.667 0.00 0.00 0.00 2.69
6778 9734 4.069304 CCGTCCCAAAATAAGTGACTCAA 58.931 43.478 0.00 0.00 0.00 3.02
6779 9735 3.325425 TCCGTCCCAAAATAAGTGACTCA 59.675 43.478 0.00 0.00 0.00 3.41
6780 9736 3.933332 CTCCGTCCCAAAATAAGTGACTC 59.067 47.826 0.00 0.00 0.00 3.36
6781 9737 3.307480 CCTCCGTCCCAAAATAAGTGACT 60.307 47.826 0.00 0.00 0.00 3.41
6782 9738 3.007635 CCTCCGTCCCAAAATAAGTGAC 58.992 50.000 0.00 0.00 0.00 3.67
6783 9739 2.907696 TCCTCCGTCCCAAAATAAGTGA 59.092 45.455 0.00 0.00 0.00 3.41
6784 9740 3.343941 TCCTCCGTCCCAAAATAAGTG 57.656 47.619 0.00 0.00 0.00 3.16
6785 9741 3.329814 ACTTCCTCCGTCCCAAAATAAGT 59.670 43.478 0.00 0.00 0.00 2.24
6786 9742 3.951663 ACTTCCTCCGTCCCAAAATAAG 58.048 45.455 0.00 0.00 0.00 1.73
6787 9743 5.703730 ATACTTCCTCCGTCCCAAAATAA 57.296 39.130 0.00 0.00 0.00 1.40
6788 9744 6.328148 ACATATACTTCCTCCGTCCCAAAATA 59.672 38.462 0.00 0.00 0.00 1.40
6789 9745 5.132144 ACATATACTTCCTCCGTCCCAAAAT 59.868 40.000 0.00 0.00 0.00 1.82
6790 9746 4.472108 ACATATACTTCCTCCGTCCCAAAA 59.528 41.667 0.00 0.00 0.00 2.44
6791 9747 4.035112 ACATATACTTCCTCCGTCCCAAA 58.965 43.478 0.00 0.00 0.00 3.28
6792 9748 3.640029 GACATATACTTCCTCCGTCCCAA 59.360 47.826 0.00 0.00 0.00 4.12
6793 9749 3.228453 GACATATACTTCCTCCGTCCCA 58.772 50.000 0.00 0.00 0.00 4.37
6794 9750 3.228453 TGACATATACTTCCTCCGTCCC 58.772 50.000 0.00 0.00 0.00 4.46
6795 9751 4.931661 TTGACATATACTTCCTCCGTCC 57.068 45.455 0.00 0.00 0.00 4.79
6796 9752 4.686554 GCATTGACATATACTTCCTCCGTC 59.313 45.833 0.00 0.00 0.00 4.79
6797 9753 4.100963 TGCATTGACATATACTTCCTCCGT 59.899 41.667 0.00 0.00 0.00 4.69
6798 9754 4.631131 TGCATTGACATATACTTCCTCCG 58.369 43.478 0.00 0.00 0.00 4.63
6799 9755 6.939163 AGAATGCATTGACATATACTTCCTCC 59.061 38.462 18.59 0.00 0.00 4.30
6800 9756 7.976135 AGAATGCATTGACATATACTTCCTC 57.024 36.000 18.59 0.00 0.00 3.71
6801 9757 8.654997 AGTAGAATGCATTGACATATACTTCCT 58.345 33.333 18.59 5.21 32.73 3.36
6802 9758 8.715998 CAGTAGAATGCATTGACATATACTTCC 58.284 37.037 18.59 0.00 33.62 3.46
6803 9759 8.226448 GCAGTAGAATGCATTGACATATACTTC 58.774 37.037 18.59 0.39 45.77 3.01
6804 9760 8.092521 GCAGTAGAATGCATTGACATATACTT 57.907 34.615 18.59 0.00 45.77 2.24
6805 9761 7.664082 GCAGTAGAATGCATTGACATATACT 57.336 36.000 18.59 6.74 45.77 2.12
7074 10030 5.144100 CTGAGATGTACCCCAGATTCTAGT 58.856 45.833 0.00 0.00 0.00 2.57
7179 10137 6.848562 AGAAATGAAGGGGTATCCACTTAT 57.151 37.500 3.10 0.00 38.24 1.73
7203 10161 4.315115 TCTATTTGATTGGATGAGGGGGA 58.685 43.478 0.00 0.00 0.00 4.81
7352 10483 0.471780 TGGGACTGCTCCACTTCAGA 60.472 55.000 0.00 0.00 38.52 3.27
7372 10503 1.457346 CACTTGATTGAGGGCCTGTC 58.543 55.000 12.95 7.03 0.00 3.51
7402 10603 2.611292 CTCGAGGATGAAATGCCAACTC 59.389 50.000 3.91 0.00 33.77 3.01
7485 10686 4.060205 CAATGCTTCAAAGGGTGAAAAGG 58.940 43.478 0.00 0.00 45.67 3.11
7486 10687 4.060205 CCAATGCTTCAAAGGGTGAAAAG 58.940 43.478 0.00 0.00 45.67 2.27
8221 11423 1.370414 CAAAAGCACGCCCAAGACG 60.370 57.895 0.00 0.00 0.00 4.18
8316 11525 4.165950 ACAATTAGGATACCATGACTGCCA 59.834 41.667 0.00 0.00 37.17 4.92
8539 11748 1.215382 CAAGTCATCGGGCGACAGA 59.785 57.895 0.00 0.00 39.42 3.41
8556 11765 3.764434 TGTGCGGGAAAAATAATTAGCCA 59.236 39.130 0.00 0.00 0.00 4.75
8709 11918 7.658575 ACGTCCACAATAACAACACTAATAAGT 59.341 33.333 0.00 0.00 35.91 2.24
8710 11919 8.025243 ACGTCCACAATAACAACACTAATAAG 57.975 34.615 0.00 0.00 0.00 1.73
8711 11920 7.966246 ACGTCCACAATAACAACACTAATAA 57.034 32.000 0.00 0.00 0.00 1.40
8712 11921 7.966246 AACGTCCACAATAACAACACTAATA 57.034 32.000 0.00 0.00 0.00 0.98
8713 11922 6.870971 AACGTCCACAATAACAACACTAAT 57.129 33.333 0.00 0.00 0.00 1.73
8714 11923 6.680874 AAACGTCCACAATAACAACACTAA 57.319 33.333 0.00 0.00 0.00 2.24
8715 11924 6.680874 AAAACGTCCACAATAACAACACTA 57.319 33.333 0.00 0.00 0.00 2.74
8716 11925 5.570234 AAAACGTCCACAATAACAACACT 57.430 34.783 0.00 0.00 0.00 3.55
8978 12197 1.561643 TGATGTCTCCCGAAGCTTCT 58.438 50.000 23.50 2.48 0.00 2.85
8994 12213 3.036429 GCTCGTGGCCCCTCTTGAT 62.036 63.158 0.00 0.00 34.27 2.57
9122 12341 4.393834 TGGAGAAATGACGAATGGTTTCA 58.606 39.130 0.00 0.00 34.02 2.69
9131 12350 6.230472 TCAAATTCTTCTGGAGAAATGACGA 58.770 36.000 1.83 0.00 46.90 4.20


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

AutoCloner maintained by Alex Coulton.