Multiple sequence alignment - TraesCS5B01G367500

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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 TraesCS5B01G367500 chr5B 100.000 3826 0 0 1 3826 546076330 546072505 0.000000e+00 7066.0
1 TraesCS5B01G367500 chr5B 94.659 2565 131 5 962 3522 546145995 546143433 0.000000e+00 3973.0
2 TraesCS5B01G367500 chr5B 85.034 2078 300 8 1500 3568 545596663 545594588 0.000000e+00 2104.0
3 TraesCS5B01G367500 chr5B 80.682 2552 418 46 1053 3567 13776131 13773618 0.000000e+00 1912.0
4 TraesCS5B01G367500 chr5B 76.700 2588 478 81 1010 3547 609094639 609097151 0.000000e+00 1323.0
5 TraesCS5B01G367500 chr5B 91.337 658 47 3 1 656 691482174 691482823 0.000000e+00 891.0
6 TraesCS5B01G367500 chr5B 100.000 396 0 0 4155 4550 546072176 546071781 0.000000e+00 732.0
7 TraesCS5B01G367500 chr5B 97.475 396 10 0 4155 4550 563527823 563528218 0.000000e+00 676.0
8 TraesCS5B01G367500 chr5B 97.475 396 10 0 4155 4550 694122916 694122521 0.000000e+00 676.0
9 TraesCS5B01G367500 chr5B 82.733 666 71 17 1 656 708701125 708700494 1.850000e-153 553.0
10 TraesCS5B01G367500 chr5B 96.538 260 9 0 3567 3826 597881172 597881431 9.040000e-117 431.0
11 TraesCS5B01G367500 chr5B 96.094 256 10 0 3570 3825 687672432 687672177 7.040000e-113 418.0
12 TraesCS5B01G367500 chr5B 93.478 92 6 0 874 965 546146379 546146288 2.210000e-28 137.0
13 TraesCS5B01G367500 chr5B 92.857 84 2 1 657 736 546146461 546146378 8.000000e-23 119.0
14 TraesCS5B01G367500 chr5A 83.493 2617 377 36 989 3568 565499192 565496594 0.000000e+00 2388.0
15 TraesCS5B01G367500 chr5A 80.227 2559 436 43 1043 3567 12194224 12191702 0.000000e+00 1858.0
16 TraesCS5B01G367500 chr5A 77.116 2552 465 82 1046 3550 616498342 616500821 0.000000e+00 1367.0
17 TraesCS5B01G367500 chr5D 81.867 2625 407 40 989 3568 447105679 447108279 0.000000e+00 2146.0
18 TraesCS5B01G367500 chr5D 77.095 2554 462 83 1046 3550 493341747 493344226 0.000000e+00 1362.0
19 TraesCS5B01G367500 chr5D 78.761 1356 228 31 1053 2377 18083678 18085004 0.000000e+00 854.0
20 TraesCS5B01G367500 chr5D 86.614 254 34 0 1 254 37696030 37696283 9.640000e-72 281.0
21 TraesCS5B01G367500 chr1D 80.819 2565 417 44 1041 3568 407672554 407670028 0.000000e+00 1941.0
22 TraesCS5B01G367500 chr1D 79.099 2574 449 50 1045 3568 6714616 6712082 0.000000e+00 1690.0
23 TraesCS5B01G367500 chr1D 77.454 2577 466 66 1041 3559 6898445 6900964 0.000000e+00 1434.0
24 TraesCS5B01G367500 chr1D 79.794 678 103 21 1 657 42811706 42812370 3.210000e-126 462.0
25 TraesCS5B01G367500 chr1D 87.281 228 28 1 430 657 4248279 4248505 4.520000e-65 259.0
26 TraesCS5B01G367500 chr1D 85.567 97 13 1 560 656 420084450 420084355 2.900000e-17 100.0
27 TraesCS5B01G367500 chr1B 80.139 2598 436 51 991 3546 10007539 10004980 0.000000e+00 1866.0
28 TraesCS5B01G367500 chr1B 80.321 2551 416 50 1053 3568 548193683 548191184 0.000000e+00 1851.0
29 TraesCS5B01G367500 chr1B 78.118 2550 471 50 1041 3546 9161790 9164296 0.000000e+00 1537.0
30 TraesCS5B01G367500 chr1B 77.860 2570 485 60 1047 3568 8819927 8817394 0.000000e+00 1517.0
31 TraesCS5B01G367500 chr1B 77.642 2545 461 62 1066 3568 8855867 8853389 0.000000e+00 1448.0
32 TraesCS5B01G367500 chr1B 75.854 2224 406 82 1045 3218 9175374 9177516 0.000000e+00 1011.0
33 TraesCS5B01G367500 chr1B 97.475 396 10 0 4155 4550 645781346 645780951 0.000000e+00 676.0
34 TraesCS5B01G367500 chr1B 97.222 396 11 0 4155 4550 409668870 409668475 0.000000e+00 671.0
35 TraesCS5B01G367500 chr1B 79.616 677 92 32 5 656 78821917 78822572 1.160000e-120 444.0
36 TraesCS5B01G367500 chr1B 96.484 256 9 0 3570 3825 628745618 628745873 1.510000e-114 424.0
37 TraesCS5B01G367500 chr1B 96.139 259 9 1 3566 3824 29234697 29234440 5.440000e-114 422.0
38 TraesCS5B01G367500 chr1A 79.371 2574 442 49 1045 3568 8144508 8141974 0.000000e+00 1729.0
39 TraesCS5B01G367500 chr1A 79.061 2555 467 51 1043 3562 7834675 7837196 0.000000e+00 1692.0
40 TraesCS5B01G367500 chr1A 78.688 2576 471 54 1047 3573 8342041 8344587 0.000000e+00 1644.0
41 TraesCS5B01G367500 chr1A 78.113 2554 475 48 1035 3546 8159872 8157361 0.000000e+00 1543.0
42 TraesCS5B01G367500 chr1A 77.525 2327 436 56 1274 3566 7191247 7188974 0.000000e+00 1319.0
43 TraesCS5B01G367500 chr1A 78.136 1363 245 35 1053 2377 8327147 8328494 0.000000e+00 817.0
44 TraesCS5B01G367500 chr1A 82.677 254 32 3 1 254 577580876 577580635 9.910000e-52 215.0
45 TraesCS5B01G367500 chr1A 84.783 138 21 0 1548 1685 7829337 7829474 6.140000e-29 139.0
46 TraesCS5B01G367500 chr4B 78.399 2574 459 56 1041 3565 36635860 36633335 0.000000e+00 1583.0
47 TraesCS5B01G367500 chr4B 87.226 274 24 7 1 267 554988633 554988364 7.400000e-78 302.0
48 TraesCS5B01G367500 chr2D 80.539 2040 352 31 1546 3568 469984543 469986554 0.000000e+00 1526.0
49 TraesCS5B01G367500 chr2D 80.030 2018 362 29 1546 3548 599926929 599928920 0.000000e+00 1456.0
50 TraesCS5B01G367500 chr3B 97.565 657 16 0 1 657 784458518 784457862 0.000000e+00 1125.0
51 TraesCS5B01G367500 chr3B 95.579 656 29 0 1 656 813143421 813144076 0.000000e+00 1051.0
52 TraesCS5B01G367500 chr3B 93.045 647 24 2 8 654 34065097 34064472 0.000000e+00 926.0
53 TraesCS5B01G367500 chr3B 97.222 396 11 0 4155 4550 2967700 2968095 0.000000e+00 671.0
54 TraesCS5B01G367500 chr3B 97.455 393 10 0 4158 4550 766845500 766845892 0.000000e+00 671.0
55 TraesCS5B01G367500 chr3B 85.185 675 70 14 1 656 808524994 808524331 0.000000e+00 665.0
56 TraesCS5B01G367500 chr3B 84.273 674 82 18 1 658 433680650 433681315 1.790000e-178 636.0
57 TraesCS5B01G367500 chr7B 97.475 396 10 0 4155 4550 700955471 700955076 0.000000e+00 676.0
58 TraesCS5B01G367500 chr7B 84.615 663 75 16 5 656 610603557 610604203 6.420000e-178 634.0
59 TraesCS5B01G367500 chr7B 84.006 669 87 19 1 657 449001647 449000987 3.860000e-175 625.0
60 TraesCS5B01G367500 chr7B 96.498 257 9 0 3569 3825 711404641 711404385 4.210000e-115 425.0
61 TraesCS5B01G367500 chr7B 85.417 288 30 10 1 282 10893528 10893247 5.760000e-74 289.0
62 TraesCS5B01G367500 chr4A 97.222 396 11 0 4155 4550 665894348 665894743 0.000000e+00 671.0
63 TraesCS5B01G367500 chr4A 83.584 664 76 19 1 659 721938439 721937804 3.920000e-165 592.0
64 TraesCS5B01G367500 chr4A 80.178 676 103 26 1 656 609313651 609314315 1.150000e-130 477.0
65 TraesCS5B01G367500 chr4A 79.708 685 93 32 1 660 711327503 711326840 1.930000e-123 453.0
66 TraesCS5B01G367500 chr4A 97.297 259 7 0 3566 3824 664288555 664288813 1.500000e-119 440.0
67 TraesCS5B01G367500 chr4A 97.255 255 7 0 3570 3824 665894062 665894316 2.510000e-117 433.0
68 TraesCS5B01G367500 chr4A 96.552 261 8 1 3564 3824 695535096 695535355 9.040000e-117 431.0
69 TraesCS5B01G367500 chr4A 96.887 257 7 1 3570 3826 663519003 663519258 3.250000e-116 429.0
70 TraesCS5B01G367500 chr2B 97.222 396 11 0 4155 4550 644567183 644567578 0.000000e+00 671.0
71 TraesCS5B01G367500 chr6D 84.848 660 69 19 1 656 471176141 471175509 1.790000e-178 636.0
72 TraesCS5B01G367500 chr6D 83.383 668 68 17 1 658 191394038 191394672 3.050000e-161 579.0
73 TraesCS5B01G367500 chr6D 80.531 678 98 26 1 659 22108686 22109348 1.470000e-134 490.0
74 TraesCS5B01G367500 chr6D 85.827 254 36 0 1 254 37229973 37229720 2.090000e-68 270.0
75 TraesCS5B01G367500 chr6D 82.075 106 15 4 520 623 9164432 9164535 2.250000e-13 87.9
76 TraesCS5B01G367500 chr3A 82.934 668 89 20 1 659 736136798 736137449 3.050000e-161 579.0
77 TraesCS5B01G367500 chr7D 82.416 654 76 22 1 650 11949444 11950062 6.700000e-148 534.0
78 TraesCS5B01G367500 chrUn 80.527 683 96 20 5 663 77586400 77585731 1.470000e-134 490.0
79 TraesCS5B01G367500 chrUn 88.158 228 26 1 430 657 108796847 108796621 2.090000e-68 270.0
80 TraesCS5B01G367500 chrUn 88.106 227 26 1 430 656 79943811 79943586 7.500000e-68 268.0
81 TraesCS5B01G367500 chrUn 85.000 240 30 3 1 236 319199391 319199154 5.880000e-59 239.0
82 TraesCS5B01G367500 chrUn 85.000 240 30 3 1 236 347748192 347747955 5.880000e-59 239.0
83 TraesCS5B01G367500 chrUn 85.854 205 29 0 1 205 79622856 79622652 7.660000e-53 219.0
84 TraesCS5B01G367500 chrUn 79.775 89 13 4 1 89 29858872 29858955 4.920000e-05 60.2
85 TraesCS5B01G367500 chrUn 90.698 43 2 2 1 41 80168302 80168260 6.360000e-04 56.5
86 TraesCS5B01G367500 chr2A 80.499 682 88 31 1 657 761170479 761169818 8.850000e-132 481.0
87 TraesCS5B01G367500 chr2A 85.762 302 38 5 1 300 736068548 736068250 9.500000e-82 315.0
88 TraesCS5B01G367500 chr6A 80.029 681 92 31 1 656 494878504 494879165 8.920000e-127 464.0
89 TraesCS5B01G367500 chr6A 85.766 274 28 7 1 267 57421448 57421717 3.470000e-71 279.0
90 TraesCS5B01G367500 chr6A 85.433 254 37 0 1 254 29829836 29829583 9.710000e-67 265.0
91 TraesCS5B01G367500 chr3D 85.526 304 32 8 1 300 34046407 34046112 1.590000e-79 307.0
92 TraesCS5B01G367500 chr3D 73.333 645 94 47 1047 1677 544778578 544779158 2.820000e-37 167.0
93 TraesCS5B01G367500 chr3D 86.458 96 12 1 568 663 572163618 572163524 2.240000e-18 104.0
94 TraesCS5B01G367500 chr4D 79.128 321 49 9 1 321 452394206 452393904 5.970000e-49 206.0
95 TraesCS5B01G367500 chr4D 91.026 78 7 0 573 650 299323306 299323383 6.230000e-19 106.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G367500 chr5B 546071781 546076330 4549 True 3899.000000 7066 100.000000 1 4550 2 chr5B.!!$R6 4549
1 TraesCS5B01G367500 chr5B 545594588 545596663 2075 True 2104.000000 2104 85.034000 1500 3568 1 chr5B.!!$R2 2068
2 TraesCS5B01G367500 chr5B 13773618 13776131 2513 True 1912.000000 1912 80.682000 1053 3567 1 chr5B.!!$R1 2514
3 TraesCS5B01G367500 chr5B 546143433 546146461 3028 True 1409.666667 3973 93.664667 657 3522 3 chr5B.!!$R7 2865
4 TraesCS5B01G367500 chr5B 609094639 609097151 2512 False 1323.000000 1323 76.700000 1010 3547 1 chr5B.!!$F3 2537
5 TraesCS5B01G367500 chr5B 691482174 691482823 649 False 891.000000 891 91.337000 1 656 1 chr5B.!!$F4 655
6 TraesCS5B01G367500 chr5B 708700494 708701125 631 True 553.000000 553 82.733000 1 656 1 chr5B.!!$R5 655
7 TraesCS5B01G367500 chr5A 565496594 565499192 2598 True 2388.000000 2388 83.493000 989 3568 1 chr5A.!!$R2 2579
8 TraesCS5B01G367500 chr5A 12191702 12194224 2522 True 1858.000000 1858 80.227000 1043 3567 1 chr5A.!!$R1 2524
9 TraesCS5B01G367500 chr5A 616498342 616500821 2479 False 1367.000000 1367 77.116000 1046 3550 1 chr5A.!!$F1 2504
10 TraesCS5B01G367500 chr5D 447105679 447108279 2600 False 2146.000000 2146 81.867000 989 3568 1 chr5D.!!$F3 2579
11 TraesCS5B01G367500 chr5D 493341747 493344226 2479 False 1362.000000 1362 77.095000 1046 3550 1 chr5D.!!$F4 2504
12 TraesCS5B01G367500 chr5D 18083678 18085004 1326 False 854.000000 854 78.761000 1053 2377 1 chr5D.!!$F1 1324
13 TraesCS5B01G367500 chr1D 407670028 407672554 2526 True 1941.000000 1941 80.819000 1041 3568 1 chr1D.!!$R2 2527
14 TraesCS5B01G367500 chr1D 6712082 6714616 2534 True 1690.000000 1690 79.099000 1045 3568 1 chr1D.!!$R1 2523
15 TraesCS5B01G367500 chr1D 6898445 6900964 2519 False 1434.000000 1434 77.454000 1041 3559 1 chr1D.!!$F2 2518
16 TraesCS5B01G367500 chr1D 42811706 42812370 664 False 462.000000 462 79.794000 1 657 1 chr1D.!!$F3 656
17 TraesCS5B01G367500 chr1B 10004980 10007539 2559 True 1866.000000 1866 80.139000 991 3546 1 chr1B.!!$R3 2555
18 TraesCS5B01G367500 chr1B 548191184 548193683 2499 True 1851.000000 1851 80.321000 1053 3568 1 chr1B.!!$R6 2515
19 TraesCS5B01G367500 chr1B 9161790 9164296 2506 False 1537.000000 1537 78.118000 1041 3546 1 chr1B.!!$F1 2505
20 TraesCS5B01G367500 chr1B 8817394 8819927 2533 True 1517.000000 1517 77.860000 1047 3568 1 chr1B.!!$R1 2521
21 TraesCS5B01G367500 chr1B 8853389 8855867 2478 True 1448.000000 1448 77.642000 1066 3568 1 chr1B.!!$R2 2502
22 TraesCS5B01G367500 chr1B 9175374 9177516 2142 False 1011.000000 1011 75.854000 1045 3218 1 chr1B.!!$F2 2173
23 TraesCS5B01G367500 chr1B 78821917 78822572 655 False 444.000000 444 79.616000 5 656 1 chr1B.!!$F3 651
24 TraesCS5B01G367500 chr1A 8141974 8144508 2534 True 1729.000000 1729 79.371000 1045 3568 1 chr1A.!!$R2 2523
25 TraesCS5B01G367500 chr1A 7834675 7837196 2521 False 1692.000000 1692 79.061000 1043 3562 1 chr1A.!!$F2 2519
26 TraesCS5B01G367500 chr1A 8342041 8344587 2546 False 1644.000000 1644 78.688000 1047 3573 1 chr1A.!!$F4 2526
27 TraesCS5B01G367500 chr1A 8157361 8159872 2511 True 1543.000000 1543 78.113000 1035 3546 1 chr1A.!!$R3 2511
28 TraesCS5B01G367500 chr1A 7188974 7191247 2273 True 1319.000000 1319 77.525000 1274 3566 1 chr1A.!!$R1 2292
29 TraesCS5B01G367500 chr1A 8327147 8328494 1347 False 817.000000 817 78.136000 1053 2377 1 chr1A.!!$F3 1324
30 TraesCS5B01G367500 chr4B 36633335 36635860 2525 True 1583.000000 1583 78.399000 1041 3565 1 chr4B.!!$R1 2524
31 TraesCS5B01G367500 chr2D 469984543 469986554 2011 False 1526.000000 1526 80.539000 1546 3568 1 chr2D.!!$F1 2022
32 TraesCS5B01G367500 chr2D 599926929 599928920 1991 False 1456.000000 1456 80.030000 1546 3548 1 chr2D.!!$F2 2002
33 TraesCS5B01G367500 chr3B 784457862 784458518 656 True 1125.000000 1125 97.565000 1 657 1 chr3B.!!$R2 656
34 TraesCS5B01G367500 chr3B 813143421 813144076 655 False 1051.000000 1051 95.579000 1 656 1 chr3B.!!$F4 655
35 TraesCS5B01G367500 chr3B 34064472 34065097 625 True 926.000000 926 93.045000 8 654 1 chr3B.!!$R1 646
36 TraesCS5B01G367500 chr3B 808524331 808524994 663 True 665.000000 665 85.185000 1 656 1 chr3B.!!$R3 655
37 TraesCS5B01G367500 chr3B 433680650 433681315 665 False 636.000000 636 84.273000 1 658 1 chr3B.!!$F2 657
38 TraesCS5B01G367500 chr7B 610603557 610604203 646 False 634.000000 634 84.615000 5 656 1 chr7B.!!$F1 651
39 TraesCS5B01G367500 chr7B 449000987 449001647 660 True 625.000000 625 84.006000 1 657 1 chr7B.!!$R2 656
40 TraesCS5B01G367500 chr4A 721937804 721938439 635 True 592.000000 592 83.584000 1 659 1 chr4A.!!$R2 658
41 TraesCS5B01G367500 chr4A 665894062 665894743 681 False 552.000000 671 97.238500 3570 4550 2 chr4A.!!$F5 980
42 TraesCS5B01G367500 chr4A 609313651 609314315 664 False 477.000000 477 80.178000 1 656 1 chr4A.!!$F1 655
43 TraesCS5B01G367500 chr4A 711326840 711327503 663 True 453.000000 453 79.708000 1 660 1 chr4A.!!$R1 659
44 TraesCS5B01G367500 chr6D 471175509 471176141 632 True 636.000000 636 84.848000 1 656 1 chr6D.!!$R2 655
45 TraesCS5B01G367500 chr6D 191394038 191394672 634 False 579.000000 579 83.383000 1 658 1 chr6D.!!$F3 657
46 TraesCS5B01G367500 chr6D 22108686 22109348 662 False 490.000000 490 80.531000 1 659 1 chr6D.!!$F2 658
47 TraesCS5B01G367500 chr3A 736136798 736137449 651 False 579.000000 579 82.934000 1 659 1 chr3A.!!$F1 658
48 TraesCS5B01G367500 chr7D 11949444 11950062 618 False 534.000000 534 82.416000 1 650 1 chr7D.!!$F1 649
49 TraesCS5B01G367500 chrUn 77585731 77586400 669 True 490.000000 490 80.527000 5 663 1 chrUn.!!$R1 658
50 TraesCS5B01G367500 chr2A 761169818 761170479 661 True 481.000000 481 80.499000 1 657 1 chr2A.!!$R2 656
51 TraesCS5B01G367500 chr6A 494878504 494879165 661 False 464.000000 464 80.029000 1 656 1 chr6A.!!$F2 655

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
783 999 0.097674 GTGATGATGCCGTGAGTTGC 59.902 55.000 0.00 0.00 0.00 4.17 F
1321 1899 0.106918 TCCCGGTTTTCACTGTTGCT 60.107 50.000 0.00 0.00 0.00 3.91 F
1446 2025 1.019278 CCTCCACCGAATCCGTTGTG 61.019 60.000 0.00 0.00 0.00 3.33 F
1567 2191 1.694150 TGTGGCAGAGCTTTGACTACT 59.306 47.619 11.98 0.00 0.00 2.57 F
3417 4104 1.270826 GTTTGGAAGAGGCTCAAAGGC 59.729 52.381 18.26 0.53 41.73 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1698 2322 0.036388 GCTCGAGAATGAACCCACCA 60.036 55.000 18.75 0.0 0.00 4.17 R
2656 3318 0.768221 ACCTCCACCCAGCTTCTCAA 60.768 55.000 0.00 0.0 0.00 3.02 R
2916 3581 1.328680 GGCAGCAACATCGTCAGTATG 59.671 52.381 0.00 0.0 37.54 2.39 R
3501 4188 1.064060 GGGCACATCAATCGCTTGTAC 59.936 52.381 0.00 0.0 33.87 2.90 R
4357 5044 1.993370 GTTGTTCGACCAATCTCTCGG 59.007 52.381 0.00 0.0 0.00 4.63 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
339 488 3.823330 CGAGGTAGAGGCGCGGTT 61.823 66.667 8.83 0.00 0.00 4.44
706 922 1.402456 GGAGACTCTCTTGCGCGTTTA 60.402 52.381 8.43 0.00 0.00 2.01
708 924 0.714439 GACTCTCTTGCGCGTTTACC 59.286 55.000 8.43 0.00 0.00 2.85
734 950 2.047939 GCTTTGGGTGCACATGCC 60.048 61.111 20.43 11.50 41.18 4.40
735 951 2.870119 GCTTTGGGTGCACATGCCA 61.870 57.895 20.43 14.23 41.18 4.92
736 952 1.976898 CTTTGGGTGCACATGCCAT 59.023 52.632 20.43 0.00 41.18 4.40
737 953 0.390603 CTTTGGGTGCACATGCCATG 60.391 55.000 20.43 2.40 41.18 3.66
738 954 0.830866 TTTGGGTGCACATGCCATGA 60.831 50.000 20.43 6.19 41.18 3.07
739 955 1.252215 TTGGGTGCACATGCCATGAG 61.252 55.000 20.43 4.49 41.18 2.90
740 956 2.493030 GGTGCACATGCCATGAGC 59.507 61.111 20.43 18.56 45.35 4.26
752 968 2.277969 GCCATGAGCATCGATCATAGG 58.722 52.381 0.00 3.65 36.49 2.57
753 969 2.354503 GCCATGAGCATCGATCATAGGT 60.355 50.000 0.00 0.00 36.49 3.08
754 970 3.519579 CCATGAGCATCGATCATAGGTC 58.480 50.000 0.00 0.00 36.49 3.85
755 971 3.195182 CCATGAGCATCGATCATAGGTCT 59.805 47.826 12.20 0.00 36.49 3.85
756 972 4.322574 CCATGAGCATCGATCATAGGTCTT 60.323 45.833 12.20 5.19 36.49 3.01
757 973 4.944619 TGAGCATCGATCATAGGTCTTT 57.055 40.909 12.20 0.00 38.61 2.52
758 974 5.282055 TGAGCATCGATCATAGGTCTTTT 57.718 39.130 12.20 0.00 38.61 2.27
759 975 5.052481 TGAGCATCGATCATAGGTCTTTTG 58.948 41.667 12.20 0.00 38.61 2.44
760 976 3.812053 AGCATCGATCATAGGTCTTTTGC 59.188 43.478 0.00 0.00 0.00 3.68
761 977 3.812053 GCATCGATCATAGGTCTTTTGCT 59.188 43.478 0.00 0.00 0.00 3.91
762 978 4.274459 GCATCGATCATAGGTCTTTTGCTT 59.726 41.667 0.00 0.00 0.00 3.91
763 979 5.559799 GCATCGATCATAGGTCTTTTGCTTC 60.560 44.000 0.00 0.00 0.00 3.86
764 980 4.112634 TCGATCATAGGTCTTTTGCTTCG 58.887 43.478 0.00 0.00 0.00 3.79
765 981 3.865745 CGATCATAGGTCTTTTGCTTCGT 59.134 43.478 0.00 0.00 0.00 3.85
766 982 4.259970 CGATCATAGGTCTTTTGCTTCGTG 60.260 45.833 0.00 0.00 0.00 4.35
767 983 4.265904 TCATAGGTCTTTTGCTTCGTGA 57.734 40.909 0.00 0.00 0.00 4.35
768 984 4.832248 TCATAGGTCTTTTGCTTCGTGAT 58.168 39.130 0.00 0.00 0.00 3.06
769 985 4.631377 TCATAGGTCTTTTGCTTCGTGATG 59.369 41.667 0.00 0.00 0.00 3.07
770 986 3.126001 AGGTCTTTTGCTTCGTGATGA 57.874 42.857 0.00 0.00 0.00 2.92
771 987 3.679389 AGGTCTTTTGCTTCGTGATGAT 58.321 40.909 0.00 0.00 0.00 2.45
772 988 3.438087 AGGTCTTTTGCTTCGTGATGATG 59.562 43.478 0.00 0.00 0.00 3.07
773 989 3.166657 GTCTTTTGCTTCGTGATGATGC 58.833 45.455 5.66 5.66 45.45 3.91
774 990 2.162208 TCTTTTGCTTCGTGATGATGCC 59.838 45.455 9.65 0.00 44.83 4.40
775 991 0.447406 TTTGCTTCGTGATGATGCCG 59.553 50.000 9.65 0.00 44.83 5.69
776 992 0.673333 TTGCTTCGTGATGATGCCGT 60.673 50.000 9.65 0.00 44.83 5.68
777 993 1.349627 GCTTCGTGATGATGCCGTG 59.650 57.895 1.40 0.00 40.83 4.94
778 994 1.083806 GCTTCGTGATGATGCCGTGA 61.084 55.000 1.40 0.00 40.83 4.35
779 995 0.926155 CTTCGTGATGATGCCGTGAG 59.074 55.000 0.00 0.00 0.00 3.51
780 996 0.246360 TTCGTGATGATGCCGTGAGT 59.754 50.000 0.00 0.00 0.00 3.41
781 997 0.246360 TCGTGATGATGCCGTGAGTT 59.754 50.000 0.00 0.00 0.00 3.01
782 998 0.371301 CGTGATGATGCCGTGAGTTG 59.629 55.000 0.00 0.00 0.00 3.16
783 999 0.097674 GTGATGATGCCGTGAGTTGC 59.902 55.000 0.00 0.00 0.00 4.17
784 1000 0.321475 TGATGATGCCGTGAGTTGCA 60.321 50.000 0.00 0.00 42.52 4.08
788 1004 2.945510 ATGCCGTGAGTTGCATTGA 58.054 47.368 0.00 0.00 45.52 2.57
789 1005 0.806868 ATGCCGTGAGTTGCATTGAG 59.193 50.000 0.00 0.00 45.52 3.02
790 1006 0.534877 TGCCGTGAGTTGCATTGAGT 60.535 50.000 0.00 0.00 31.31 3.41
791 1007 0.593128 GCCGTGAGTTGCATTGAGTT 59.407 50.000 0.00 0.00 0.00 3.01
792 1008 1.664016 GCCGTGAGTTGCATTGAGTTG 60.664 52.381 0.00 0.00 0.00 3.16
793 1009 1.664016 CCGTGAGTTGCATTGAGTTGC 60.664 52.381 0.00 0.00 43.07 4.17
801 1017 2.634982 GCATTGAGTTGCAATTCGGA 57.365 45.000 16.11 8.54 44.68 4.55
802 1018 2.523015 GCATTGAGTTGCAATTCGGAG 58.477 47.619 16.11 9.50 44.68 4.63
803 1019 2.523015 CATTGAGTTGCAATTCGGAGC 58.477 47.619 16.11 0.00 44.68 4.70
804 1020 0.881118 TTGAGTTGCAATTCGGAGCC 59.119 50.000 16.11 0.00 0.00 4.70
805 1021 1.298157 TGAGTTGCAATTCGGAGCCG 61.298 55.000 16.11 1.74 41.35 5.52
814 1030 4.492160 TCGGAGCCGATCACACGC 62.492 66.667 7.66 0.00 44.01 5.34
815 1031 4.498520 CGGAGCCGATCACACGCT 62.499 66.667 2.00 0.00 42.83 5.07
816 1032 2.887568 GGAGCCGATCACACGCTG 60.888 66.667 0.00 0.00 0.00 5.18
817 1033 2.125912 GAGCCGATCACACGCTGT 60.126 61.111 0.00 0.00 0.00 4.40
818 1034 1.138883 GAGCCGATCACACGCTGTA 59.861 57.895 0.00 0.00 0.00 2.74
819 1035 0.457853 GAGCCGATCACACGCTGTAA 60.458 55.000 0.00 0.00 0.00 2.41
820 1036 0.175760 AGCCGATCACACGCTGTAAT 59.824 50.000 0.00 0.00 0.00 1.89
821 1037 1.407618 AGCCGATCACACGCTGTAATA 59.592 47.619 0.00 0.00 0.00 0.98
822 1038 2.159156 AGCCGATCACACGCTGTAATAA 60.159 45.455 0.00 0.00 0.00 1.40
823 1039 2.800544 GCCGATCACACGCTGTAATAAT 59.199 45.455 0.00 0.00 0.00 1.28
824 1040 3.985279 GCCGATCACACGCTGTAATAATA 59.015 43.478 0.00 0.00 0.00 0.98
825 1041 4.090066 GCCGATCACACGCTGTAATAATAG 59.910 45.833 0.00 0.00 0.00 1.73
826 1042 5.458015 CCGATCACACGCTGTAATAATAGA 58.542 41.667 0.00 0.00 0.00 1.98
827 1043 5.569441 CCGATCACACGCTGTAATAATAGAG 59.431 44.000 0.00 0.00 0.00 2.43
828 1044 6.371389 CGATCACACGCTGTAATAATAGAGA 58.629 40.000 0.00 0.00 0.00 3.10
829 1045 6.521477 CGATCACACGCTGTAATAATAGAGAG 59.479 42.308 0.00 0.00 0.00 3.20
830 1046 6.073327 TCACACGCTGTAATAATAGAGAGG 57.927 41.667 0.00 0.00 0.00 3.69
831 1047 4.681942 CACACGCTGTAATAATAGAGAGGC 59.318 45.833 0.00 0.00 0.00 4.70
832 1048 4.341235 ACACGCTGTAATAATAGAGAGGCA 59.659 41.667 0.00 0.00 0.00 4.75
833 1049 4.681942 CACGCTGTAATAATAGAGAGGCAC 59.318 45.833 0.00 0.00 0.00 5.01
834 1050 4.238514 CGCTGTAATAATAGAGAGGCACC 58.761 47.826 0.00 0.00 0.00 5.01
835 1051 4.021894 CGCTGTAATAATAGAGAGGCACCT 60.022 45.833 0.00 0.00 0.00 4.00
836 1052 5.474825 GCTGTAATAATAGAGAGGCACCTC 58.525 45.833 8.74 8.74 43.03 3.85
837 1053 5.567823 GCTGTAATAATAGAGAGGCACCTCC 60.568 48.000 13.15 5.21 43.70 4.30
845 1061 3.580084 AGGCACCTCCTGCTTGAA 58.420 55.556 0.00 0.00 45.54 2.69
846 1062 2.081955 AGGCACCTCCTGCTTGAAT 58.918 52.632 0.00 0.00 45.54 2.57
847 1063 0.407139 AGGCACCTCCTGCTTGAATT 59.593 50.000 0.00 0.00 45.54 2.17
848 1064 0.813821 GGCACCTCCTGCTTGAATTC 59.186 55.000 0.00 0.00 46.25 2.17
849 1065 1.538047 GCACCTCCTGCTTGAATTCA 58.462 50.000 3.38 3.38 43.33 2.57
850 1066 2.097825 GCACCTCCTGCTTGAATTCAT 58.902 47.619 9.40 0.00 43.33 2.57
851 1067 2.494870 GCACCTCCTGCTTGAATTCATT 59.505 45.455 9.40 0.00 43.33 2.57
852 1068 3.056322 GCACCTCCTGCTTGAATTCATTT 60.056 43.478 9.40 0.00 43.33 2.32
853 1069 4.491676 CACCTCCTGCTTGAATTCATTTG 58.508 43.478 9.40 4.27 0.00 2.32
854 1070 4.021719 CACCTCCTGCTTGAATTCATTTGT 60.022 41.667 9.40 0.00 0.00 2.83
855 1071 5.183713 CACCTCCTGCTTGAATTCATTTGTA 59.816 40.000 9.40 2.05 0.00 2.41
856 1072 5.183904 ACCTCCTGCTTGAATTCATTTGTAC 59.816 40.000 9.40 0.00 0.00 2.90
857 1073 5.295431 TCCTGCTTGAATTCATTTGTACG 57.705 39.130 9.40 0.00 0.00 3.67
858 1074 4.759693 TCCTGCTTGAATTCATTTGTACGT 59.240 37.500 9.40 0.00 0.00 3.57
859 1075 4.853196 CCTGCTTGAATTCATTTGTACGTG 59.147 41.667 9.40 0.00 0.00 4.49
860 1076 4.793071 TGCTTGAATTCATTTGTACGTGG 58.207 39.130 9.40 0.00 0.00 4.94
861 1077 4.165779 GCTTGAATTCATTTGTACGTGGG 58.834 43.478 9.40 0.00 0.00 4.61
862 1078 4.732784 CTTGAATTCATTTGTACGTGGGG 58.267 43.478 9.40 0.00 0.00 4.96
863 1079 4.022413 TGAATTCATTTGTACGTGGGGA 57.978 40.909 3.38 0.00 0.00 4.81
864 1080 4.399219 TGAATTCATTTGTACGTGGGGAA 58.601 39.130 3.38 0.00 0.00 3.97
865 1081 5.013547 TGAATTCATTTGTACGTGGGGAAT 58.986 37.500 3.38 0.00 0.00 3.01
866 1082 5.124776 TGAATTCATTTGTACGTGGGGAATC 59.875 40.000 3.38 0.00 0.00 2.52
867 1083 3.704800 TCATTTGTACGTGGGGAATCA 57.295 42.857 0.00 0.00 0.00 2.57
868 1084 4.022413 TCATTTGTACGTGGGGAATCAA 57.978 40.909 0.00 0.00 0.00 2.57
869 1085 4.399219 TCATTTGTACGTGGGGAATCAAA 58.601 39.130 0.00 0.00 0.00 2.69
870 1086 4.827835 TCATTTGTACGTGGGGAATCAAAA 59.172 37.500 0.00 0.00 0.00 2.44
871 1087 5.302059 TCATTTGTACGTGGGGAATCAAAAA 59.698 36.000 0.00 0.00 0.00 1.94
872 1088 4.839668 TTGTACGTGGGGAATCAAAAAG 57.160 40.909 0.00 0.00 0.00 2.27
906 1122 3.944015 AGACTGTGATTCATTGCTAAGGC 59.056 43.478 0.00 0.00 39.26 4.35
907 1123 3.019564 ACTGTGATTCATTGCTAAGGCC 58.980 45.455 0.00 0.00 37.74 5.19
910 1126 0.954452 GATTCATTGCTAAGGCCCCG 59.046 55.000 0.00 0.00 37.74 5.73
987 1499 0.318762 GTTGCCTCGGAAGTGAGACT 59.681 55.000 0.00 0.00 38.28 3.24
1051 1566 3.667497 TCAATCACGCACTTCTTCTCT 57.333 42.857 0.00 0.00 0.00 3.10
1320 1898 0.958822 ATCCCGGTTTTCACTGTTGC 59.041 50.000 0.00 0.00 0.00 4.17
1321 1899 0.106918 TCCCGGTTTTCACTGTTGCT 60.107 50.000 0.00 0.00 0.00 3.91
1357 1935 4.489771 GAGCCCATCACCCACCCG 62.490 72.222 0.00 0.00 0.00 5.28
1393 1972 2.297315 ACAACTCAGATCTCAAGCGACA 59.703 45.455 0.00 0.00 0.00 4.35
1423 2002 5.981088 TGTCATTGTCATAAACCATGCTT 57.019 34.783 0.00 0.00 32.37 3.91
1430 2009 7.801716 TTGTCATAAACCATGCTTATACCTC 57.198 36.000 0.00 0.00 34.35 3.85
1446 2025 1.019278 CCTCCACCGAATCCGTTGTG 61.019 60.000 0.00 0.00 0.00 3.33
1567 2191 1.694150 TGTGGCAGAGCTTTGACTACT 59.306 47.619 11.98 0.00 0.00 2.57
1730 2357 4.012895 CGAGCGCCGCAACAAACT 62.013 61.111 13.36 0.00 0.00 2.66
1885 2515 7.670140 TCCAGGAGGAGTATTATATGTACACTG 59.330 40.741 0.00 0.00 39.61 3.66
2014 2647 3.630769 CCAACCTGATGATCCTTGTGATG 59.369 47.826 0.00 0.00 32.41 3.07
2059 2692 2.093973 ACAGTCTGTATGAGAAAGCCGG 60.094 50.000 2.87 0.00 30.26 6.13
2203 2851 5.547465 TGACAAGTTCAACGGACATATTCT 58.453 37.500 0.00 0.00 0.00 2.40
2359 3017 9.342308 CACTGTATGGAATGGTGAATTACTTAT 57.658 33.333 0.00 0.00 29.40 1.73
2419 3077 3.202829 TGTTCTTTACCTTCGCCTTGT 57.797 42.857 0.00 0.00 0.00 3.16
2449 3107 6.600882 AGATTCATTGCCAAGTTCAAGAAT 57.399 33.333 0.00 0.00 31.02 2.40
2547 3209 6.930667 TGTTGTTACTACTTTGGAGGAAAC 57.069 37.500 0.00 0.00 0.00 2.78
2550 3212 7.393796 TGTTGTTACTACTTTGGAGGAAACAAA 59.606 33.333 11.56 0.00 36.50 2.83
2656 3318 6.038997 AGTTCGTGCTACTAAATCCTTCTT 57.961 37.500 0.00 0.00 0.00 2.52
2698 3360 5.766174 GTGGTTTTGGTTCTGTATACAAGGA 59.234 40.000 7.06 0.00 0.00 3.36
2799 3464 3.054875 TGAGGTGAGATCAATTGGACTGG 60.055 47.826 5.42 0.00 0.00 4.00
2916 3581 6.984474 TGATCGTCATCTATTTAAGGACAACC 59.016 38.462 0.00 0.00 0.00 3.77
3024 3699 3.925379 AGTTGTCGTGAGTGCATCATAA 58.075 40.909 0.00 0.00 40.92 1.90
3040 3715 8.562892 GTGCATCATAAACTGTGATATTAAGCT 58.437 33.333 0.00 0.00 34.68 3.74
3188 3863 2.046314 TGGCTTAGCGGAGTTGCC 60.046 61.111 0.00 0.00 43.49 4.52
3243 3918 3.383620 TGGTGTTGTTGGAAATCATGC 57.616 42.857 0.00 0.00 0.00 4.06
3254 3929 2.092212 GGAAATCATGCCAGGAAGGAGA 60.092 50.000 0.00 0.00 41.22 3.71
3286 3961 6.704493 ACACGTGAAAGTTCATACAACACTAT 59.296 34.615 25.01 0.00 39.73 2.12
3327 4014 7.285401 ACCAGCATGTTAAATATTTCCCTGTAG 59.715 37.037 3.39 0.00 0.00 2.74
3330 4017 8.903820 AGCATGTTAAATATTTCCCTGTAGAAC 58.096 33.333 3.39 1.98 0.00 3.01
3395 4082 3.426615 TCCACGGCTAAATGGTGAATTT 58.573 40.909 0.00 0.00 41.47 1.82
3417 4104 1.270826 GTTTGGAAGAGGCTCAAAGGC 59.729 52.381 18.26 0.53 41.73 4.35
3501 4188 0.037232 GGTCCGAGTTCTTGAGGGTG 60.037 60.000 0.00 0.00 0.00 4.61
3551 4238 3.810310 AGACTACTTGCAGCTATGACC 57.190 47.619 0.00 0.00 0.00 4.02
3562 4249 3.733077 GCAGCTATGACCAAACAATCTGC 60.733 47.826 0.00 0.00 35.37 4.26
3574 4261 3.407424 ACAATCTGCTGCTGTCACTAA 57.593 42.857 0.00 0.00 0.00 2.24
3644 4331 0.037160 TTGAACCGGGACTAAAGGGC 59.963 55.000 6.32 0.00 0.00 5.19
3681 4368 2.190538 CCCCTTTAGTCCCGGTTCTAA 58.809 52.381 0.00 6.10 0.00 2.10
3786 4473 0.804989 CGAGACCAAAAGGCATCCAC 59.195 55.000 0.00 0.00 0.00 4.02
3799 4486 0.247814 CATCCACGCGTCAGCATTTC 60.248 55.000 9.86 0.00 45.49 2.17
4327 5014 4.260985 ACAGAAATTCGTCATGCATACCA 58.739 39.130 0.00 0.00 0.00 3.25
4346 5033 3.181495 ACCAAGAGAAGTGATCGATCGAC 60.181 47.826 22.06 17.58 0.00 4.20
4347 5034 3.066064 CCAAGAGAAGTGATCGATCGACT 59.934 47.826 22.06 19.28 0.00 4.18
4357 5044 3.562141 TGATCGATCGACTTCTCCTTCTC 59.438 47.826 22.06 10.39 0.00 2.87
4385 5072 5.961272 AGATTGGTCGAACAACAAGTTTTT 58.039 33.333 20.01 0.00 41.51 1.94
4410 5097 0.882474 ATCTATCCGACGCTACTGGC 59.118 55.000 0.00 0.00 37.64 4.85
4423 5110 6.192234 ACGCTACTGGCTACATACATATAC 57.808 41.667 0.00 0.00 39.13 1.47
4486 5173 8.681486 ATCAATTTCCACATGATATTCTTCGA 57.319 30.769 0.00 0.00 32.25 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
436 645 5.310594 AGAGCCCAATACATATACATGGTGT 59.689 40.000 0.00 0.00 36.39 4.16
734 950 4.453177 AGACCTATGATCGATGCTCATG 57.547 45.455 0.54 0.00 35.12 3.07
735 951 5.480642 AAAGACCTATGATCGATGCTCAT 57.519 39.130 0.54 3.64 37.18 2.90
736 952 4.944619 AAAGACCTATGATCGATGCTCA 57.055 40.909 0.54 0.00 0.00 4.26
737 953 4.084118 GCAAAAGACCTATGATCGATGCTC 60.084 45.833 0.54 0.00 0.00 4.26
738 954 3.812053 GCAAAAGACCTATGATCGATGCT 59.188 43.478 0.54 0.00 0.00 3.79
739 955 3.812053 AGCAAAAGACCTATGATCGATGC 59.188 43.478 0.54 0.00 0.00 3.91
740 956 5.332883 CGAAGCAAAAGACCTATGATCGATG 60.333 44.000 0.54 0.00 31.11 3.84
741 957 4.747108 CGAAGCAAAAGACCTATGATCGAT 59.253 41.667 0.00 0.00 31.11 3.59
742 958 4.112634 CGAAGCAAAAGACCTATGATCGA 58.887 43.478 0.00 0.00 31.11 3.59
743 959 3.865745 ACGAAGCAAAAGACCTATGATCG 59.134 43.478 0.00 0.00 33.79 3.69
744 960 4.870426 TCACGAAGCAAAAGACCTATGATC 59.130 41.667 0.00 0.00 0.00 2.92
745 961 4.832248 TCACGAAGCAAAAGACCTATGAT 58.168 39.130 0.00 0.00 0.00 2.45
746 962 4.265904 TCACGAAGCAAAAGACCTATGA 57.734 40.909 0.00 0.00 0.00 2.15
747 963 4.631377 TCATCACGAAGCAAAAGACCTATG 59.369 41.667 0.00 0.00 0.00 2.23
748 964 4.832248 TCATCACGAAGCAAAAGACCTAT 58.168 39.130 0.00 0.00 0.00 2.57
749 965 4.265904 TCATCACGAAGCAAAAGACCTA 57.734 40.909 0.00 0.00 0.00 3.08
750 966 3.126001 TCATCACGAAGCAAAAGACCT 57.874 42.857 0.00 0.00 0.00 3.85
751 967 3.751621 CATCATCACGAAGCAAAAGACC 58.248 45.455 0.00 0.00 0.00 3.85
752 968 3.166657 GCATCATCACGAAGCAAAAGAC 58.833 45.455 0.00 0.00 38.25 3.01
753 969 2.162208 GGCATCATCACGAAGCAAAAGA 59.838 45.455 0.00 0.00 40.17 2.52
754 970 2.523015 GGCATCATCACGAAGCAAAAG 58.477 47.619 0.00 0.00 40.17 2.27
755 971 1.135717 CGGCATCATCACGAAGCAAAA 60.136 47.619 0.00 0.00 40.17 2.44
756 972 0.447406 CGGCATCATCACGAAGCAAA 59.553 50.000 0.00 0.00 40.17 3.68
757 973 0.673333 ACGGCATCATCACGAAGCAA 60.673 50.000 0.00 0.00 40.17 3.91
758 974 1.079197 ACGGCATCATCACGAAGCA 60.079 52.632 0.00 0.00 40.17 3.91
759 975 1.083806 TCACGGCATCATCACGAAGC 61.084 55.000 0.00 0.00 37.62 3.86
760 976 0.926155 CTCACGGCATCATCACGAAG 59.074 55.000 0.00 0.00 0.00 3.79
761 977 0.246360 ACTCACGGCATCATCACGAA 59.754 50.000 0.00 0.00 0.00 3.85
762 978 0.246360 AACTCACGGCATCATCACGA 59.754 50.000 0.00 0.00 0.00 4.35
763 979 0.371301 CAACTCACGGCATCATCACG 59.629 55.000 0.00 0.00 0.00 4.35
764 980 0.097674 GCAACTCACGGCATCATCAC 59.902 55.000 0.00 0.00 0.00 3.06
765 981 0.321475 TGCAACTCACGGCATCATCA 60.321 50.000 0.00 0.00 34.58 3.07
766 982 2.470156 TGCAACTCACGGCATCATC 58.530 52.632 0.00 0.00 34.58 2.92
767 983 4.720127 TGCAACTCACGGCATCAT 57.280 50.000 0.00 0.00 34.58 2.45
771 987 0.534877 ACTCAATGCAACTCACGGCA 60.535 50.000 0.00 0.00 45.23 5.69
772 988 0.593128 AACTCAATGCAACTCACGGC 59.407 50.000 0.00 0.00 0.00 5.68
773 989 1.664016 GCAACTCAATGCAACTCACGG 60.664 52.381 0.00 0.00 45.70 4.94
774 990 1.678360 GCAACTCAATGCAACTCACG 58.322 50.000 0.00 0.00 45.70 4.35
782 998 2.523015 CTCCGAATTGCAACTCAATGC 58.477 47.619 8.81 0.00 44.23 3.56
783 999 2.523015 GCTCCGAATTGCAACTCAATG 58.477 47.619 8.81 0.00 44.23 2.82
784 1000 1.474077 GGCTCCGAATTGCAACTCAAT 59.526 47.619 8.81 0.00 46.82 2.57
785 1001 0.881118 GGCTCCGAATTGCAACTCAA 59.119 50.000 8.81 0.00 39.32 3.02
786 1002 1.298157 CGGCTCCGAATTGCAACTCA 61.298 55.000 8.81 0.00 42.83 3.41
787 1003 1.019278 TCGGCTCCGAATTGCAACTC 61.019 55.000 8.76 0.00 46.01 3.01
788 1004 1.003839 TCGGCTCCGAATTGCAACT 60.004 52.632 8.76 0.00 46.01 3.16
789 1005 3.573558 TCGGCTCCGAATTGCAAC 58.426 55.556 8.76 0.00 46.01 4.17
798 1014 4.498520 AGCGTGTGATCGGCTCCG 62.499 66.667 1.14 1.14 41.35 4.63
799 1015 2.279502 TACAGCGTGTGATCGGCTCC 62.280 60.000 1.58 0.00 0.00 4.70
800 1016 0.457853 TTACAGCGTGTGATCGGCTC 60.458 55.000 1.58 0.00 0.00 4.70
801 1017 0.175760 ATTACAGCGTGTGATCGGCT 59.824 50.000 1.58 0.00 0.00 5.52
802 1018 1.847818 TATTACAGCGTGTGATCGGC 58.152 50.000 1.58 0.00 29.09 5.54
803 1019 5.458015 TCTATTATTACAGCGTGTGATCGG 58.542 41.667 1.58 0.00 29.09 4.18
804 1020 6.371389 TCTCTATTATTACAGCGTGTGATCG 58.629 40.000 1.58 0.00 29.09 3.69
805 1021 6.804295 CCTCTCTATTATTACAGCGTGTGATC 59.196 42.308 1.58 0.00 29.09 2.92
806 1022 6.682746 CCTCTCTATTATTACAGCGTGTGAT 58.317 40.000 1.58 1.90 31.27 3.06
807 1023 5.507482 GCCTCTCTATTATTACAGCGTGTGA 60.507 44.000 1.58 0.00 0.00 3.58
808 1024 4.681942 GCCTCTCTATTATTACAGCGTGTG 59.318 45.833 1.58 0.00 0.00 3.82
809 1025 4.341235 TGCCTCTCTATTATTACAGCGTGT 59.659 41.667 0.00 0.00 0.00 4.49
810 1026 4.681942 GTGCCTCTCTATTATTACAGCGTG 59.318 45.833 0.00 0.00 0.00 5.34
811 1027 4.262079 GGTGCCTCTCTATTATTACAGCGT 60.262 45.833 0.00 0.00 0.00 5.07
812 1028 4.021894 AGGTGCCTCTCTATTATTACAGCG 60.022 45.833 0.00 0.00 0.00 5.18
813 1029 5.474825 GAGGTGCCTCTCTATTATTACAGC 58.525 45.833 10.80 0.00 39.80 4.40
814 1030 5.777732 AGGAGGTGCCTCTCTATTATTACAG 59.222 44.000 16.80 0.00 46.97 2.74
815 1031 5.540337 CAGGAGGTGCCTCTCTATTATTACA 59.460 44.000 16.80 0.00 46.97 2.41
816 1032 5.567823 GCAGGAGGTGCCTCTCTATTATTAC 60.568 48.000 16.80 0.00 46.97 1.89
817 1033 4.528596 GCAGGAGGTGCCTCTCTATTATTA 59.471 45.833 16.80 0.00 46.97 0.98
818 1034 3.326297 GCAGGAGGTGCCTCTCTATTATT 59.674 47.826 16.80 0.00 46.97 1.40
819 1035 2.903135 GCAGGAGGTGCCTCTCTATTAT 59.097 50.000 16.80 0.00 46.97 1.28
820 1036 2.320781 GCAGGAGGTGCCTCTCTATTA 58.679 52.381 16.80 0.00 46.97 0.98
821 1037 1.127343 GCAGGAGGTGCCTCTCTATT 58.873 55.000 16.80 0.00 46.97 1.73
822 1038 2.833244 GCAGGAGGTGCCTCTCTAT 58.167 57.895 16.80 0.19 46.97 1.98
823 1039 4.364318 GCAGGAGGTGCCTCTCTA 57.636 61.111 16.80 0.00 46.97 2.43
831 1047 4.021719 ACAAATGAATTCAAGCAGGAGGTG 60.022 41.667 13.09 3.27 0.00 4.00
832 1048 4.154942 ACAAATGAATTCAAGCAGGAGGT 58.845 39.130 13.09 0.23 0.00 3.85
833 1049 4.796038 ACAAATGAATTCAAGCAGGAGG 57.204 40.909 13.09 0.00 0.00 4.30
834 1050 5.106555 ACGTACAAATGAATTCAAGCAGGAG 60.107 40.000 13.09 5.35 0.00 3.69
835 1051 4.759693 ACGTACAAATGAATTCAAGCAGGA 59.240 37.500 13.09 0.00 0.00 3.86
836 1052 4.853196 CACGTACAAATGAATTCAAGCAGG 59.147 41.667 13.09 5.02 0.00 4.85
837 1053 4.853196 CCACGTACAAATGAATTCAAGCAG 59.147 41.667 13.09 5.69 0.00 4.24
838 1054 4.320861 CCCACGTACAAATGAATTCAAGCA 60.321 41.667 13.09 0.00 0.00 3.91
839 1055 4.165779 CCCACGTACAAATGAATTCAAGC 58.834 43.478 13.09 0.00 0.00 4.01
840 1056 4.457603 TCCCCACGTACAAATGAATTCAAG 59.542 41.667 13.09 8.19 0.00 3.02
841 1057 4.399219 TCCCCACGTACAAATGAATTCAA 58.601 39.130 13.09 0.00 0.00 2.69
842 1058 4.022413 TCCCCACGTACAAATGAATTCA 57.978 40.909 11.26 11.26 0.00 2.57
843 1059 5.124776 TGATTCCCCACGTACAAATGAATTC 59.875 40.000 0.00 0.00 0.00 2.17
844 1060 5.013547 TGATTCCCCACGTACAAATGAATT 58.986 37.500 0.00 0.00 0.00 2.17
845 1061 4.594970 TGATTCCCCACGTACAAATGAAT 58.405 39.130 0.00 0.00 0.00 2.57
846 1062 4.022413 TGATTCCCCACGTACAAATGAA 57.978 40.909 0.00 0.00 0.00 2.57
847 1063 3.704800 TGATTCCCCACGTACAAATGA 57.295 42.857 0.00 0.00 0.00 2.57
848 1064 4.775058 TTTGATTCCCCACGTACAAATG 57.225 40.909 0.00 0.00 0.00 2.32
849 1065 5.778862 CTTTTTGATTCCCCACGTACAAAT 58.221 37.500 0.00 0.00 0.00 2.32
850 1066 4.500035 GCTTTTTGATTCCCCACGTACAAA 60.500 41.667 0.00 0.00 0.00 2.83
851 1067 3.004944 GCTTTTTGATTCCCCACGTACAA 59.995 43.478 0.00 0.00 0.00 2.41
852 1068 2.554893 GCTTTTTGATTCCCCACGTACA 59.445 45.455 0.00 0.00 0.00 2.90
853 1069 2.554893 TGCTTTTTGATTCCCCACGTAC 59.445 45.455 0.00 0.00 0.00 3.67
854 1070 2.865079 TGCTTTTTGATTCCCCACGTA 58.135 42.857 0.00 0.00 0.00 3.57
855 1071 1.698506 TGCTTTTTGATTCCCCACGT 58.301 45.000 0.00 0.00 0.00 4.49
856 1072 2.810439 TTGCTTTTTGATTCCCCACG 57.190 45.000 0.00 0.00 0.00 4.94
857 1073 2.807967 GCTTTGCTTTTTGATTCCCCAC 59.192 45.455 0.00 0.00 0.00 4.61
858 1074 2.705127 AGCTTTGCTTTTTGATTCCCCA 59.295 40.909 0.00 0.00 33.89 4.96
859 1075 3.407424 AGCTTTGCTTTTTGATTCCCC 57.593 42.857 0.00 0.00 33.89 4.81
871 1087 1.952296 CACAGTCTGGAAAGCTTTGCT 59.048 47.619 27.85 8.19 42.56 3.91
872 1088 1.949525 TCACAGTCTGGAAAGCTTTGC 59.050 47.619 22.47 22.47 0.00 3.68
882 1098 4.334759 CCTTAGCAATGAATCACAGTCTGG 59.665 45.833 4.53 0.00 0.00 3.86
889 1105 1.683385 GGGGCCTTAGCAATGAATCAC 59.317 52.381 0.84 0.00 42.56 3.06
910 1126 4.221482 ACTTTGAATGAATCTTCCCCAAGC 59.779 41.667 0.00 0.00 0.00 4.01
921 1137 4.326826 TGAGCGGAAGACTTTGAATGAAT 58.673 39.130 0.00 0.00 0.00 2.57
1051 1566 1.223077 AGTATGTGGAGGGGAGGCATA 59.777 52.381 0.00 0.00 0.00 3.14
1133 1660 1.072159 GGCCTGCTGAGAGTGTGTT 59.928 57.895 0.00 0.00 0.00 3.32
1232 1789 4.095483 GGCATTGTTGGATGACTTACTGAG 59.905 45.833 0.00 0.00 32.11 3.35
1357 1935 4.448210 TGAGTTGTGTTAGGTTGAGGTTC 58.552 43.478 0.00 0.00 0.00 3.62
1393 1972 7.950512 TGGTTTATGACAATGACAAGATTGTT 58.049 30.769 0.00 0.00 44.78 2.83
1423 2002 2.369983 ACGGATTCGGTGGAGGTATA 57.630 50.000 0.00 0.00 41.39 1.47
1446 2025 2.254546 TGACAATGTGAGTGGACCAC 57.745 50.000 17.43 17.43 35.23 4.16
1629 2253 4.041444 AGGCTCTTCTTTGAGATGAGTTGT 59.959 41.667 17.08 5.11 44.08 3.32
1698 2322 0.036388 GCTCGAGAATGAACCCACCA 60.036 55.000 18.75 0.00 0.00 4.17
1730 2357 0.536233 ACGCCAATACACCACAAGCA 60.536 50.000 0.00 0.00 0.00 3.91
1796 2423 5.306937 TGAGGTTTTGAATCTAGGAGTGACA 59.693 40.000 0.00 0.00 0.00 3.58
1885 2515 3.340814 AGGCGATGATTCATCCCATAC 57.659 47.619 24.26 11.81 37.57 2.39
2014 2647 3.364441 TCCACATGTTGCAGGCGC 61.364 61.111 0.00 0.00 39.24 6.53
2059 2692 5.047576 ATCCATGCAGTCACATGATGGATC 61.048 45.833 14.16 0.00 46.49 3.36
2203 2851 6.210584 GGAAATTGAACTTGAGAAATGGGGTA 59.789 38.462 0.00 0.00 0.00 3.69
2449 3107 5.819901 CCAACATTTGGTTTTCTTTTGCCTA 59.180 36.000 0.00 0.00 45.93 3.93
2499 3157 5.013704 ACATCATGACTAGTAACCCAAACCA 59.986 40.000 0.00 0.00 0.00 3.67
2547 3209 4.183101 AGCAAACCACACAACTTCATTTG 58.817 39.130 0.00 0.00 0.00 2.32
2550 3212 3.181476 GGAAGCAAACCACACAACTTCAT 60.181 43.478 0.00 0.00 36.18 2.57
2656 3318 0.768221 ACCTCCACCCAGCTTCTCAA 60.768 55.000 0.00 0.00 0.00 3.02
2698 3360 6.998673 ACTAGCCTTTGAGTCACTTAACATTT 59.001 34.615 0.00 0.00 0.00 2.32
2799 3464 5.353394 TGGACTAGGTTGATATGTTGGAC 57.647 43.478 0.00 0.00 0.00 4.02
2916 3581 1.328680 GGCAGCAACATCGTCAGTATG 59.671 52.381 0.00 0.00 37.54 2.39
3040 3715 5.032327 TCCGTCTAGCAGTATGTTCTCTA 57.968 43.478 0.00 0.00 39.31 2.43
3188 3863 3.287312 ACATCAACTTTTGGCGTGATG 57.713 42.857 10.19 10.19 39.05 3.07
3243 3918 3.084786 GTGTGGAATTTCTCCTTCCTGG 58.915 50.000 3.94 0.00 45.64 4.45
3254 3929 4.974368 TGAACTTTCACGTGTGGAATTT 57.026 36.364 16.51 9.40 31.01 1.82
3286 3961 6.707290 ACATGCTGGTAGTTACTATTGTTGA 58.293 36.000 0.00 0.00 0.00 3.18
3327 4014 1.538047 TGAAGCTTGCTGATGGGTTC 58.462 50.000 2.10 0.00 37.78 3.62
3330 4017 1.607628 GCTATGAAGCTTGCTGATGGG 59.392 52.381 2.10 0.00 45.85 4.00
3395 4082 3.810743 GCCTTTGAGCCTCTTCCAAACTA 60.811 47.826 0.00 0.00 0.00 2.24
3501 4188 1.064060 GGGCACATCAATCGCTTGTAC 59.936 52.381 0.00 0.00 33.87 2.90
3551 4238 2.292569 AGTGACAGCAGCAGATTGTTTG 59.707 45.455 0.00 0.00 0.00 2.93
3562 4249 4.878397 CCCCTTTTCTATTAGTGACAGCAG 59.122 45.833 0.00 0.00 0.00 4.24
3574 4261 2.175715 GGACTGATGCCCCCTTTTCTAT 59.824 50.000 0.00 0.00 0.00 1.98
3598 4285 2.172082 GGGACTAAAGGCCCTTACGAAT 59.828 50.000 14.19 0.00 41.31 3.34
3644 4331 1.146263 GGGGAGGCATTAGTCACGG 59.854 63.158 0.00 0.00 0.00 4.94
3681 4368 1.292223 CATCTGTCCCGGTTCGTGT 59.708 57.895 0.00 0.00 0.00 4.49
3769 4456 1.244019 GCGTGGATGCCTTTTGGTCT 61.244 55.000 0.00 0.00 42.99 3.85
3786 4473 1.133253 CCACTGAAATGCTGACGCG 59.867 57.895 3.53 3.53 39.65 6.01
3799 4486 0.174617 AACAAAAACCACGGCCACTG 59.825 50.000 2.24 0.00 0.00 3.66
4327 5014 4.638421 AGAAGTCGATCGATCACTTCTCTT 59.362 41.667 36.13 26.61 43.49 2.85
4346 5033 3.068024 CCAATCTCTCGGAGAAGGAGAAG 59.932 52.174 9.32 0.00 42.27 2.85
4347 5034 3.027412 CCAATCTCTCGGAGAAGGAGAA 58.973 50.000 9.32 0.00 42.27 2.87
4357 5044 1.993370 GTTGTTCGACCAATCTCTCGG 59.007 52.381 0.00 0.00 0.00 4.63
4385 5072 5.353400 CCAGTAGCGTCGGATAGATAATACA 59.647 44.000 0.00 0.00 0.00 2.29
4423 5110 8.557029 GGGGATTGTAAGAGATTTTACGTATTG 58.443 37.037 0.00 0.00 36.54 1.90
4482 5169 4.562082 ACCACGTCATCAATAAAGTCGAA 58.438 39.130 0.00 0.00 0.00 3.71
4483 5170 4.171005 GACCACGTCATCAATAAAGTCGA 58.829 43.478 0.00 0.00 32.09 4.20
4486 5173 5.547465 TCTTGACCACGTCATCAATAAAGT 58.453 37.500 10.59 0.00 42.40 2.66


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

AutoCloner maintained by Alex Coulton.