Multiple sequence alignment - TraesCS3D01G208400

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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 TraesCS3D01G208400 chr3D 100.000 6954 0 0 1 6954 275445211 275452164 0.000000e+00 12842.0
1 TraesCS3D01G208400 chr3D 90.448 1183 75 14 817 1997 146276416 146277562 0.000000e+00 1524.0
2 TraesCS3D01G208400 chr3D 88.861 1185 75 23 817 1997 12135818 12136949 0.000000e+00 1404.0
3 TraesCS3D01G208400 chr3D 92.322 547 22 6 4255 4783 448746196 448746740 0.000000e+00 760.0
4 TraesCS3D01G208400 chr3D 91.137 519 26 8 4249 4747 581001428 581000910 0.000000e+00 686.0
5 TraesCS3D01G208400 chr3D 96.552 290 7 3 4780 5069 29694512 29694798 1.750000e-130 477.0
6 TraesCS3D01G208400 chr3D 95.848 289 10 1 4780 5068 596773416 596773702 3.800000e-127 466.0
7 TraesCS3D01G208400 chr3D 94.613 297 12 1 4780 5076 434914619 434914327 2.290000e-124 457.0
8 TraesCS3D01G208400 chr3A 97.194 1568 41 2 922 2486 596110557 596112124 0.000000e+00 2649.0
9 TraesCS3D01G208400 chr3A 97.036 506 14 1 1 505 596108219 596108724 0.000000e+00 850.0
10 TraesCS3D01G208400 chr3A 96.984 431 11 2 494 923 596109966 596110395 0.000000e+00 723.0
11 TraesCS3D01G208400 chr3A 81.792 346 33 14 5455 5787 719824245 719823917 5.350000e-66 263.0
12 TraesCS3D01G208400 chr2A 96.651 1314 32 4 977 2288 753275510 753276813 0.000000e+00 2172.0
13 TraesCS3D01G208400 chr2A 97.105 1140 30 2 5068 6207 753276814 753277950 0.000000e+00 1919.0
14 TraesCS3D01G208400 chr2A 96.278 994 30 6 1 992 753271250 753272238 0.000000e+00 1624.0
15 TraesCS3D01G208400 chr2A 87.713 1408 115 27 2748 4113 662900549 662899158 0.000000e+00 1589.0
16 TraesCS3D01G208400 chr2A 86.912 1276 111 23 5191 6441 662898826 662897582 0.000000e+00 1380.0
17 TraesCS3D01G208400 chr2A 97.076 513 14 1 6439 6950 753278255 753278767 0.000000e+00 863.0
18 TraesCS3D01G208400 chr2A 86.643 554 35 20 6439 6954 662897552 662897000 1.680000e-160 577.0
19 TraesCS3D01G208400 chr2A 96.727 275 9 0 6167 6441 753277951 753278225 6.360000e-125 459.0
20 TraesCS3D01G208400 chr1D 97.018 1140 33 1 5068 6207 269441525 269440387 0.000000e+00 1916.0
21 TraesCS3D01G208400 chr1D 96.768 1052 32 2 1238 2288 269442576 269441526 0.000000e+00 1753.0
22 TraesCS3D01G208400 chr1D 89.784 1204 87 10 2749 3938 302866564 302867745 0.000000e+00 1509.0
23 TraesCS3D01G208400 chr1D 89.696 1184 75 16 817 1997 46478944 46477805 0.000000e+00 1467.0
24 TraesCS3D01G208400 chr1D 96.629 801 25 2 1 800 269474594 269473795 0.000000e+00 1328.0
25 TraesCS3D01G208400 chr1D 97.872 517 9 2 6439 6954 269440082 269439567 0.000000e+00 893.0
26 TraesCS3D01G208400 chr1D 93.193 617 20 8 4261 4855 16391135 16390519 0.000000e+00 887.0
27 TraesCS3D01G208400 chr1D 84.848 858 69 35 5609 6441 302868884 302869705 0.000000e+00 808.0
28 TraesCS3D01G208400 chr1D 90.792 543 31 5 4260 4783 340669137 340668595 0.000000e+00 708.0
29 TraesCS3D01G208400 chr1D 94.923 453 19 3 794 1243 269457452 269457001 0.000000e+00 706.0
30 TraesCS3D01G208400 chr1D 90.239 543 22 12 4260 4784 268154432 268153903 0.000000e+00 680.0
31 TraesCS3D01G208400 chr1D 88.571 525 42 13 6439 6946 302869734 302870257 7.660000e-174 621.0
32 TraesCS3D01G208400 chr1D 97.091 275 8 0 6167 6441 269440386 269440112 1.370000e-126 464.0
33 TraesCS3D01G208400 chr1D 95.533 291 9 4 4780 5069 268153799 268153512 4.910000e-126 462.0
34 TraesCS3D01G208400 chr5A 88.601 1544 131 17 2748 4262 34843090 34844617 0.000000e+00 1834.0
35 TraesCS3D01G208400 chr5A 89.415 718 51 9 5068 5771 34844617 34845323 0.000000e+00 881.0
36 TraesCS3D01G208400 chr5A 88.012 684 42 15 817 1495 299615913 299616561 0.000000e+00 773.0
37 TraesCS3D01G208400 chr5A 84.799 546 72 10 3491 4031 310184907 310185446 7.940000e-149 538.0
38 TraesCS3D01G208400 chr5A 81.792 346 33 14 5455 5787 310186302 310186630 5.350000e-66 263.0
39 TraesCS3D01G208400 chr4A 88.095 1554 130 25 2748 4262 703280404 703278867 0.000000e+00 1794.0
40 TraesCS3D01G208400 chr4A 86.803 932 71 16 5068 5986 703278867 703277975 0.000000e+00 992.0
41 TraesCS3D01G208400 chr4A 92.818 543 20 5 4260 4783 20639450 20639992 0.000000e+00 769.0
42 TraesCS3D01G208400 chr4A 87.072 526 49 13 6439 6946 703277393 703276869 1.680000e-160 577.0
43 TraesCS3D01G208400 chr4A 87.841 477 34 13 5983 6441 703277892 703277422 7.940000e-149 538.0
44 TraesCS3D01G208400 chr1A 87.819 1568 123 32 2748 4262 2993153 2994705 0.000000e+00 1775.0
45 TraesCS3D01G208400 chr1A 89.276 718 52 9 5068 5771 2994705 2995411 0.000000e+00 876.0
46 TraesCS3D01G208400 chr5B 88.018 1544 127 26 2748 4262 457998111 457999625 0.000000e+00 1773.0
47 TraesCS3D01G208400 chr5B 89.722 1294 111 13 2748 4027 570316832 570315547 0.000000e+00 1633.0
48 TraesCS3D01G208400 chr5B 87.340 1406 101 29 5068 6441 457999625 458000985 0.000000e+00 1539.0
49 TraesCS3D01G208400 chr5B 92.919 805 54 3 1 804 457989109 457989911 0.000000e+00 1168.0
50 TraesCS3D01G208400 chr5B 83.822 989 100 35 6013 6946 570314302 570313319 0.000000e+00 885.0
51 TraesCS3D01G208400 chr5B 85.925 746 63 19 5233 5972 570315022 570314313 0.000000e+00 758.0
52 TraesCS3D01G208400 chr5B 86.270 488 45 14 6439 6910 458001014 458001495 1.730000e-140 510.0
53 TraesCS3D01G208400 chr6A 87.724 1564 128 22 2748 4262 583679810 583678262 0.000000e+00 1766.0
54 TraesCS3D01G208400 chr6A 88.350 721 56 11 5068 5771 583678262 583677553 0.000000e+00 841.0
55 TraesCS3D01G208400 chr6A 85.795 704 75 14 2808 3502 185239718 185240405 0.000000e+00 723.0
56 TraesCS3D01G208400 chr6A 82.081 346 32 14 5455 5787 185242551 185242879 1.150000e-67 268.0
57 TraesCS3D01G208400 chr6A 83.108 296 28 12 5505 5787 530590672 530590386 4.160000e-62 250.0
58 TraesCS3D01G208400 chr6A 91.892 111 6 3 1638 1747 105053769 105053877 1.210000e-32 152.0
59 TraesCS3D01G208400 chr4D 90.541 1184 72 15 817 1997 462820466 462821612 0.000000e+00 1530.0
60 TraesCS3D01G208400 chr4D 90.239 543 34 4 4253 4777 413046402 413045861 0.000000e+00 691.0
61 TraesCS3D01G208400 chr4D 94.667 300 11 4 4780 5076 150905775 150905478 1.770000e-125 460.0
62 TraesCS3D01G208400 chr2D 90.372 1184 70 16 817 1997 36501233 36500091 0.000000e+00 1515.0
63 TraesCS3D01G208400 chr2D 92.989 542 21 3 4259 4783 333497563 333498104 0.000000e+00 774.0
64 TraesCS3D01G208400 chr2D 92.421 541 21 9 4259 4782 620785488 620784951 0.000000e+00 754.0
65 TraesCS3D01G208400 chr2D 90.573 541 33 4 4260 4783 482677209 482676670 0.000000e+00 701.0
66 TraesCS3D01G208400 chr7D 89.949 1184 73 17 817 1997 168797344 168796204 0.000000e+00 1485.0
67 TraesCS3D01G208400 chr7D 89.394 858 53 13 817 1670 32507596 32508419 0.000000e+00 1046.0
68 TraesCS3D01G208400 chr7D 92.579 539 22 5 4262 4783 413996231 413996768 0.000000e+00 758.0
69 TraesCS3D01G208400 chr7D 95.031 483 20 4 4305 4783 618686513 618686031 0.000000e+00 756.0
70 TraesCS3D01G208400 chr7D 91.304 345 25 4 1654 1997 32508741 32509081 3.800000e-127 466.0
71 TraesCS3D01G208400 chrUn 92.112 824 44 6 4262 5065 33248728 33247906 0.000000e+00 1142.0
72 TraesCS3D01G208400 chr7B 88.949 742 65 11 817 1553 330981877 330981148 0.000000e+00 900.0
73 TraesCS3D01G208400 chr7B 87.563 788 61 11 871 1655 700513672 700512919 0.000000e+00 878.0
74 TraesCS3D01G208400 chr7B 92.778 360 22 2 1638 1997 330981172 330980817 1.030000e-142 518.0
75 TraesCS3D01G208400 chr7B 94.318 264 14 1 1392 1655 700522998 700522736 3.020000e-108 403.0
76 TraesCS3D01G208400 chr5D 92.804 542 22 3 4260 4784 401314405 401314946 0.000000e+00 769.0
77 TraesCS3D01G208400 chr5D 92.778 540 21 4 4261 4783 375321472 375320934 0.000000e+00 765.0
78 TraesCS3D01G208400 chr5D 92.066 542 25 3 4260 4783 377727473 377726932 0.000000e+00 747.0
79 TraesCS3D01G208400 chr3B 92.463 544 20 6 4260 4783 423170306 423170848 0.000000e+00 758.0
80 TraesCS3D01G208400 chr7A 87.555 683 47 13 817 1495 46897333 46897981 0.000000e+00 756.0
81 TraesCS3D01G208400 chr7A 82.081 346 32 14 5455 5787 581697835 581698163 1.150000e-67 268.0
82 TraesCS3D01G208400 chr7A 86.429 140 18 1 2000 2139 155949414 155949276 1.210000e-32 152.0
83 TraesCS3D01G208400 chr2B 84.478 670 77 16 2000 2667 800481149 800481793 2.740000e-178 636.0
84 TraesCS3D01G208400 chr2B 96.207 290 9 1 4780 5069 651356237 651355950 2.270000e-129 473.0
85 TraesCS3D01G208400 chr2B 90.852 317 23 3 1290 1603 601336349 601336662 3.000000e-113 420.0
86 TraesCS3D01G208400 chr2B 93.061 245 15 2 580 824 601333721 601333963 2.390000e-94 357.0
87 TraesCS3D01G208400 chr6D 95.033 302 9 3 4780 5079 366975562 366975265 2.940000e-128 470.0
88 TraesCS3D01G208400 chr6D 94.649 299 11 2 4780 5077 172837907 172837613 6.360000e-125 459.0
89 TraesCS3D01G208400 chr6B 86.288 423 42 9 817 1232 157478181 157477768 4.950000e-121 446.0
90 TraesCS3D01G208400 chr6B 91.456 316 22 3 1290 1603 157477767 157477455 4.980000e-116 429.0
91 TraesCS3D01G208400 chr6B 95.041 242 11 1 583 824 157480477 157480237 5.090000e-101 379.0
92 TraesCS3D01G208400 chr6B 82.370 346 30 15 5455 5787 546660516 546660843 8.890000e-69 272.0
93 TraesCS3D01G208400 chr6B 81.214 346 35 14 5455 5787 181125357 181125029 1.160000e-62 252.0
94 TraesCS3D01G208400 chr1B 95.261 211 10 0 1697 1907 12309670 12309460 1.120000e-87 335.0
95 TraesCS3D01G208400 chr4B 84.270 89 10 3 1120 1207 648571378 648571293 4.470000e-12 84.2


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 TraesCS3D01G208400 chr3D 275445211 275452164 6953 False 12842.000000 12842 100.000000 1 6954 1 chr3D.!!$F4 6953
1 TraesCS3D01G208400 chr3D 146276416 146277562 1146 False 1524.000000 1524 90.448000 817 1997 1 chr3D.!!$F3 1180
2 TraesCS3D01G208400 chr3D 12135818 12136949 1131 False 1404.000000 1404 88.861000 817 1997 1 chr3D.!!$F1 1180
3 TraesCS3D01G208400 chr3D 448746196 448746740 544 False 760.000000 760 92.322000 4255 4783 1 chr3D.!!$F5 528
4 TraesCS3D01G208400 chr3D 581000910 581001428 518 True 686.000000 686 91.137000 4249 4747 1 chr3D.!!$R2 498
5 TraesCS3D01G208400 chr3A 596108219 596112124 3905 False 1407.333333 2649 97.071333 1 2486 3 chr3A.!!$F1 2485
6 TraesCS3D01G208400 chr2A 753271250 753278767 7517 False 1407.400000 2172 96.767400 1 6950 5 chr2A.!!$F1 6949
7 TraesCS3D01G208400 chr2A 662897000 662900549 3549 True 1182.000000 1589 87.089333 2748 6954 3 chr2A.!!$R1 4206
8 TraesCS3D01G208400 chr1D 46477805 46478944 1139 True 1467.000000 1467 89.696000 817 1997 1 chr1D.!!$R2 1180
9 TraesCS3D01G208400 chr1D 269473795 269474594 799 True 1328.000000 1328 96.629000 1 800 1 chr1D.!!$R4 799
10 TraesCS3D01G208400 chr1D 269439567 269442576 3009 True 1256.500000 1916 97.187250 1238 6954 4 chr1D.!!$R7 5716
11 TraesCS3D01G208400 chr1D 302866564 302870257 3693 False 979.333333 1509 87.734333 2749 6946 3 chr1D.!!$F1 4197
12 TraesCS3D01G208400 chr1D 16390519 16391135 616 True 887.000000 887 93.193000 4261 4855 1 chr1D.!!$R1 594
13 TraesCS3D01G208400 chr1D 340668595 340669137 542 True 708.000000 708 90.792000 4260 4783 1 chr1D.!!$R5 523
14 TraesCS3D01G208400 chr1D 268153512 268154432 920 True 571.000000 680 92.886000 4260 5069 2 chr1D.!!$R6 809
15 TraesCS3D01G208400 chr5A 34843090 34845323 2233 False 1357.500000 1834 89.008000 2748 5771 2 chr5A.!!$F2 3023
16 TraesCS3D01G208400 chr5A 299615913 299616561 648 False 773.000000 773 88.012000 817 1495 1 chr5A.!!$F1 678
17 TraesCS3D01G208400 chr5A 310184907 310186630 1723 False 400.500000 538 83.295500 3491 5787 2 chr5A.!!$F3 2296
18 TraesCS3D01G208400 chr4A 703276869 703280404 3535 True 975.250000 1794 87.452750 2748 6946 4 chr4A.!!$R1 4198
19 TraesCS3D01G208400 chr4A 20639450 20639992 542 False 769.000000 769 92.818000 4260 4783 1 chr4A.!!$F1 523
20 TraesCS3D01G208400 chr1A 2993153 2995411 2258 False 1325.500000 1775 88.547500 2748 5771 2 chr1A.!!$F1 3023
21 TraesCS3D01G208400 chr5B 457998111 458001495 3384 False 1274.000000 1773 87.209333 2748 6910 3 chr5B.!!$F2 4162
22 TraesCS3D01G208400 chr5B 457989109 457989911 802 False 1168.000000 1168 92.919000 1 804 1 chr5B.!!$F1 803
23 TraesCS3D01G208400 chr5B 570313319 570316832 3513 True 1092.000000 1633 86.489667 2748 6946 3 chr5B.!!$R1 4198
24 TraesCS3D01G208400 chr6A 583677553 583679810 2257 True 1303.500000 1766 88.037000 2748 5771 2 chr6A.!!$R2 3023
25 TraesCS3D01G208400 chr6A 185239718 185242879 3161 False 495.500000 723 83.938000 2808 5787 2 chr6A.!!$F2 2979
26 TraesCS3D01G208400 chr4D 462820466 462821612 1146 False 1530.000000 1530 90.541000 817 1997 1 chr4D.!!$F1 1180
27 TraesCS3D01G208400 chr4D 413045861 413046402 541 True 691.000000 691 90.239000 4253 4777 1 chr4D.!!$R2 524
28 TraesCS3D01G208400 chr2D 36500091 36501233 1142 True 1515.000000 1515 90.372000 817 1997 1 chr2D.!!$R1 1180
29 TraesCS3D01G208400 chr2D 333497563 333498104 541 False 774.000000 774 92.989000 4259 4783 1 chr2D.!!$F1 524
30 TraesCS3D01G208400 chr2D 620784951 620785488 537 True 754.000000 754 92.421000 4259 4782 1 chr2D.!!$R3 523
31 TraesCS3D01G208400 chr2D 482676670 482677209 539 True 701.000000 701 90.573000 4260 4783 1 chr2D.!!$R2 523
32 TraesCS3D01G208400 chr7D 168796204 168797344 1140 True 1485.000000 1485 89.949000 817 1997 1 chr7D.!!$R1 1180
33 TraesCS3D01G208400 chr7D 413996231 413996768 537 False 758.000000 758 92.579000 4262 4783 1 chr7D.!!$F1 521
34 TraesCS3D01G208400 chr7D 32507596 32509081 1485 False 756.000000 1046 90.349000 817 1997 2 chr7D.!!$F2 1180
35 TraesCS3D01G208400 chrUn 33247906 33248728 822 True 1142.000000 1142 92.112000 4262 5065 1 chrUn.!!$R1 803
36 TraesCS3D01G208400 chr7B 700512919 700513672 753 True 878.000000 878 87.563000 871 1655 1 chr7B.!!$R1 784
37 TraesCS3D01G208400 chr7B 330980817 330981877 1060 True 709.000000 900 90.863500 817 1997 2 chr7B.!!$R3 1180
38 TraesCS3D01G208400 chr5D 401314405 401314946 541 False 769.000000 769 92.804000 4260 4784 1 chr5D.!!$F1 524
39 TraesCS3D01G208400 chr5D 375320934 375321472 538 True 765.000000 765 92.778000 4261 4783 1 chr5D.!!$R1 522
40 TraesCS3D01G208400 chr5D 377726932 377727473 541 True 747.000000 747 92.066000 4260 4783 1 chr5D.!!$R2 523
41 TraesCS3D01G208400 chr3B 423170306 423170848 542 False 758.000000 758 92.463000 4260 4783 1 chr3B.!!$F1 523
42 TraesCS3D01G208400 chr7A 46897333 46897981 648 False 756.000000 756 87.555000 817 1495 1 chr7A.!!$F1 678
43 TraesCS3D01G208400 chr2B 800481149 800481793 644 False 636.000000 636 84.478000 2000 2667 1 chr2B.!!$F1 667
44 TraesCS3D01G208400 chr2B 601333721 601336662 2941 False 388.500000 420 91.956500 580 1603 2 chr2B.!!$F2 1023
45 TraesCS3D01G208400 chr6B 157477455 157480477 3022 True 418.000000 446 90.928333 583 1603 3 chr6B.!!$R2 1020

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
497 500 1.064060 GTTGTGCCATTAGCTTAGCCG 59.936 52.381 0.00 0.0 44.23 5.52 F
808 2064 2.396601 TGCGTACTTTGTACCTGTTCG 58.603 47.619 2.76 0.0 0.00 3.95 F
1960 9130 3.892588 TGTGCCGACCTTTTCCTTATTTT 59.107 39.130 0.00 0.0 0.00 1.82 F
2539 9711 0.179018 GGCGGCATATCTTCCCTTGT 60.179 55.000 3.07 0.0 0.00 3.16 F
3110 10292 0.404426 GCCTAGGGGTGGTCAAACTT 59.596 55.000 11.72 0.0 34.45 2.66 F
4236 13107 0.607620 TGATGCACTCGTGGTCATGA 59.392 50.000 0.00 0.0 0.00 3.07 F
5168 14193 1.446907 ACTGAAGCAGCGGATCAAAG 58.553 50.000 0.00 0.0 34.37 2.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2492 9664 1.668419 ATGCCCGAGACATAAGTTGC 58.332 50.000 0.00 0.0 0.00 4.17 R
2518 9690 0.179018 AAGGGAAGATATGCCGCCAC 60.179 55.000 0.00 0.0 45.98 5.01 R
3833 11799 0.740149 TCACTGCACAGCCAAAAGTG 59.260 50.000 0.00 0.0 39.66 3.16 R
4036 12885 1.135402 CAGGCCCAAAAACGCATACTC 60.135 52.381 0.00 0.0 0.00 2.59 R
4792 13803 0.664466 CGCTTTCTCTCACACTCGCA 60.664 55.000 0.00 0.0 0.00 5.10 R
5920 15100 1.831106 TGATCACTAATCAGGCCACGT 59.169 47.619 5.01 0.0 39.52 4.49 R
6766 16143 1.576451 ATCAACGCACGAGCATGCAA 61.576 50.000 21.98 0.0 46.47 4.08 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
179 181 9.243105 GTGCATATAGTTCAATATTATGGGGTT 57.757 33.333 0.00 0.00 0.00 4.11
298 300 4.844349 TGTTTCTCCAATAGCTTAGCCT 57.156 40.909 0.00 0.00 0.00 4.58
331 334 9.436957 TCCTTGAAGTTAATTCTACTGATGAAC 57.563 33.333 0.00 0.00 38.83 3.18
350 353 2.350522 ACCTAATCGAGTTGCTGCTTG 58.649 47.619 0.00 0.00 0.00 4.01
380 383 3.836949 CTTTACCTTCATGCGCAATTGT 58.163 40.909 17.11 10.38 0.00 2.71
497 500 1.064060 GTTGTGCCATTAGCTTAGCCG 59.936 52.381 0.00 0.00 44.23 5.52
545 1801 5.794894 CCAGTGACAGAGTTTAGGTGTTAT 58.205 41.667 0.00 0.00 0.00 1.89
746 2002 8.352201 TCCATTCTTATGCTATATGTTGTTTGC 58.648 33.333 0.00 0.00 0.00 3.68
808 2064 2.396601 TGCGTACTTTGTACCTGTTCG 58.603 47.619 2.76 0.00 0.00 3.95
925 4459 6.830838 TCTCAGTCACATACTCACATCTATGT 59.169 38.462 0.00 0.00 37.73 2.29
988 7811 6.418057 TTTTTGGACATTCATTTACAGCCT 57.582 33.333 0.00 0.00 0.00 4.58
1036 7859 5.011023 GGGAGTTTGAACAATTCACCAAGAT 59.989 40.000 0.00 0.00 39.87 2.40
1037 7860 6.462909 GGGAGTTTGAACAATTCACCAAGATT 60.463 38.462 0.00 0.00 39.87 2.40
1044 7872 6.098124 TGAACAATTCACCAAGATTCCAGTTT 59.902 34.615 0.00 0.00 34.08 2.66
1347 8175 6.347696 TCAAGCCAATTTGTTGACAATCTTT 58.652 32.000 0.00 0.00 35.55 2.52
1875 9045 9.993881 GCTGCTAATAACAAAAATTATATTGCG 57.006 29.630 0.00 0.00 0.00 4.85
1960 9130 3.892588 TGTGCCGACCTTTTCCTTATTTT 59.107 39.130 0.00 0.00 0.00 1.82
2101 9271 7.467811 GCACAGTCTGGTATTCCTTTATTCATG 60.468 40.741 4.53 0.00 34.23 3.07
2150 9321 5.819379 TGCTCTTCTCTTGTGCTTATTATGG 59.181 40.000 0.00 0.00 0.00 2.74
2156 9327 9.118300 CTTCTCTTGTGCTTATTATGGAGATTT 57.882 33.333 0.00 0.00 0.00 2.17
2166 9337 9.688592 GCTTATTATGGAGATTTGATTTTCTGG 57.311 33.333 0.00 0.00 0.00 3.86
2518 9690 4.821805 ACTTATGTCTCGGGCATAATTTGG 59.178 41.667 11.05 4.63 37.92 3.28
2522 9694 0.385390 CTCGGGCATAATTTGGTGGC 59.615 55.000 3.97 3.97 39.89 5.01
2525 9697 1.227234 GGCATAATTTGGTGGCGGC 60.227 57.895 0.00 0.00 0.00 6.53
2528 9700 1.339610 GCATAATTTGGTGGCGGCATA 59.660 47.619 17.19 4.64 0.00 3.14
2530 9702 3.836949 CATAATTTGGTGGCGGCATATC 58.163 45.455 17.19 8.96 0.00 1.63
2539 9711 0.179018 GGCGGCATATCTTCCCTTGT 60.179 55.000 3.07 0.00 0.00 3.16
2541 9713 2.024414 GCGGCATATCTTCCCTTGTTT 58.976 47.619 0.00 0.00 0.00 2.83
2542 9714 2.033424 GCGGCATATCTTCCCTTGTTTC 59.967 50.000 0.00 0.00 0.00 2.78
2546 9718 4.646492 GGCATATCTTCCCTTGTTTCATGT 59.354 41.667 0.00 0.00 0.00 3.21
2547 9719 5.127682 GGCATATCTTCCCTTGTTTCATGTT 59.872 40.000 0.00 0.00 0.00 2.71
2549 9721 7.099120 GCATATCTTCCCTTGTTTCATGTTTT 58.901 34.615 0.00 0.00 0.00 2.43
2550 9722 8.250332 GCATATCTTCCCTTGTTTCATGTTTTA 58.750 33.333 0.00 0.00 0.00 1.52
2553 9725 7.411486 TCTTCCCTTGTTTCATGTTTTAACA 57.589 32.000 0.00 0.00 44.06 2.41
2582 9754 4.777896 AGTTTAGTATTCTGGAGTGGAGCA 59.222 41.667 0.00 0.00 0.00 4.26
2607 9779 7.823745 ACCAAAATGCATATTTAGGAGGTAG 57.176 36.000 0.00 0.00 35.50 3.18
2615 9787 9.950496 ATGCATATTTAGGAGGTAGAATTGTAG 57.050 33.333 0.00 0.00 0.00 2.74
2616 9788 8.375506 TGCATATTTAGGAGGTAGAATTGTAGG 58.624 37.037 0.00 0.00 0.00 3.18
2636 9808 3.119316 AGGCACAACATTTTGTTTGTCGA 60.119 39.130 0.00 0.00 43.89 4.20
2638 9810 4.491763 GGCACAACATTTTGTTTGTCGAAC 60.492 41.667 0.00 0.00 43.89 3.95
2643 9815 2.079941 TTTTGTTTGTCGAACGAGCG 57.920 45.000 0.00 0.00 41.29 5.03
2658 9830 2.381589 CGAGCGACGTGAGCATTATTA 58.618 47.619 14.02 0.00 37.01 0.98
2667 9839 6.637254 CGACGTGAGCATTATTAAGATGTAGT 59.363 38.462 0.00 0.00 0.00 2.73
2668 9840 7.167635 CGACGTGAGCATTATTAAGATGTAGTT 59.832 37.037 0.00 0.00 0.00 2.24
2669 9841 8.718102 ACGTGAGCATTATTAAGATGTAGTTT 57.282 30.769 0.00 0.00 0.00 2.66
2670 9842 8.604035 ACGTGAGCATTATTAAGATGTAGTTTG 58.396 33.333 0.00 0.00 0.00 2.93
2671 9843 8.064222 CGTGAGCATTATTAAGATGTAGTTTGG 58.936 37.037 0.00 0.00 0.00 3.28
2672 9844 9.109393 GTGAGCATTATTAAGATGTAGTTTGGA 57.891 33.333 0.00 0.00 0.00 3.53
2673 9845 9.109393 TGAGCATTATTAAGATGTAGTTTGGAC 57.891 33.333 0.00 0.00 0.00 4.02
2674 9846 9.109393 GAGCATTATTAAGATGTAGTTTGGACA 57.891 33.333 0.00 0.00 0.00 4.02
2675 9847 9.632638 AGCATTATTAAGATGTAGTTTGGACAT 57.367 29.630 0.00 0.00 40.25 3.06
2688 9860 9.877178 TGTAGTTTGGACATTTGTAATTTTGTT 57.123 25.926 0.00 0.00 0.00 2.83
2690 9862 8.785329 AGTTTGGACATTTGTAATTTTGTTGT 57.215 26.923 0.00 0.00 0.00 3.32
2691 9863 9.225436 AGTTTGGACATTTGTAATTTTGTTGTT 57.775 25.926 0.00 0.00 0.00 2.83
2692 9864 9.484326 GTTTGGACATTTGTAATTTTGTTGTTC 57.516 29.630 0.00 0.00 0.00 3.18
2693 9865 9.442047 TTTGGACATTTGTAATTTTGTTGTTCT 57.558 25.926 0.00 0.00 0.00 3.01
2694 9866 9.442047 TTGGACATTTGTAATTTTGTTGTTCTT 57.558 25.926 0.00 0.00 0.00 2.52
2695 9867 9.442047 TGGACATTTGTAATTTTGTTGTTCTTT 57.558 25.926 0.00 0.00 0.00 2.52
2742 9914 6.830114 TTGGTTTTGTAAAATTTGTAGGCG 57.170 33.333 0.00 0.00 0.00 5.52
2743 9915 5.290386 TGGTTTTGTAAAATTTGTAGGCGG 58.710 37.500 0.00 0.00 0.00 6.13
2744 9916 4.150980 GGTTTTGTAAAATTTGTAGGCGGC 59.849 41.667 0.00 0.00 0.00 6.53
2745 9917 3.579335 TTGTAAAATTTGTAGGCGGCC 57.421 42.857 12.11 12.11 0.00 6.13
2746 9918 1.469308 TGTAAAATTTGTAGGCGGCCG 59.531 47.619 24.05 24.05 0.00 6.13
2765 9937 1.597854 TGAACTCGCAGCCACAAGG 60.598 57.895 0.00 0.00 38.23 3.61
2776 9949 3.197265 CAGCCACAAGGTTTCCTTTTTG 58.803 45.455 0.00 0.16 41.69 2.44
2782 9955 6.403049 CCACAAGGTTTCCTTTTTGTTTAGT 58.597 36.000 0.00 0.00 41.69 2.24
2783 9956 6.876789 CCACAAGGTTTCCTTTTTGTTTAGTT 59.123 34.615 0.00 0.00 41.69 2.24
2859 10033 1.197430 AAGGTGGAGTCCCTGCAGAG 61.197 60.000 17.39 0.39 31.31 3.35
2946 10121 3.175109 GGTATCTACCCACGTTTCCAG 57.825 52.381 0.00 0.00 40.53 3.86
2991 10173 6.092807 CCAGAGGACAATAGCTTTGTCTTAAC 59.907 42.308 26.45 19.04 45.88 2.01
2992 10174 6.650807 CAGAGGACAATAGCTTTGTCTTAACA 59.349 38.462 26.45 0.00 45.88 2.41
3052 10234 6.590068 AGTTGAATCTATGAAGACTCCCATG 58.410 40.000 0.00 0.00 33.57 3.66
3110 10292 0.404426 GCCTAGGGGTGGTCAAACTT 59.596 55.000 11.72 0.00 34.45 2.66
3163 10345 4.400884 TGGTAGTGCTGAACATTGTTTTGT 59.599 37.500 3.08 0.00 0.00 2.83
3172 10354 5.884771 TGAACATTGTTTTGTCGTTCATCA 58.115 33.333 3.08 0.00 40.60 3.07
3179 10361 5.645624 TGTTTTGTCGTTCATCAAATGTGT 58.354 33.333 0.00 0.00 34.30 3.72
3204 10386 6.996180 AGTGCTTATAAGGTTATAGCCTCA 57.004 37.500 14.28 0.00 38.03 3.86
3235 10417 6.335777 ACTGAAAATCTATCTGCAATTTGGC 58.664 36.000 0.00 0.00 0.00 4.52
3242 10424 7.592885 ATCTATCTGCAATTTGGCTTTACAT 57.407 32.000 0.00 0.00 34.04 2.29
3244 10426 7.839907 TCTATCTGCAATTTGGCTTTACATTT 58.160 30.769 0.00 0.00 34.04 2.32
3252 10434 9.418045 GCAATTTGGCTTTACATTTTCTAAGTA 57.582 29.630 0.00 0.00 0.00 2.24
3254 10436 9.620660 AATTTGGCTTTACATTTTCTAAGTACG 57.379 29.630 0.00 0.00 0.00 3.67
3262 10444 9.982291 TTTACATTTTCTAAGTACGAATGATGC 57.018 29.630 0.00 0.00 33.24 3.91
3266 10448 7.766219 TTTTCTAAGTACGAATGATGCCTAC 57.234 36.000 0.00 0.00 0.00 3.18
3272 10454 5.428253 AGTACGAATGATGCCTACAATTGT 58.572 37.500 16.68 16.68 0.00 2.71
3275 10457 4.699735 ACGAATGATGCCTACAATTGTTGA 59.300 37.500 17.78 0.00 0.00 3.18
3353 10536 3.241995 GGCGCTGAGTAATTAACTGAACG 60.242 47.826 7.64 0.00 39.07 3.95
3388 10571 1.662517 TCGATTGTGGCATTGCGTAT 58.337 45.000 1.91 0.00 0.00 3.06
3532 11495 6.930667 TTTTTACAAAACCTCTCGTAGCTT 57.069 33.333 0.00 0.00 0.00 3.74
3543 11506 7.166691 ACCTCTCGTAGCTTAGTTGAATTTA 57.833 36.000 0.00 0.00 0.00 1.40
3585 11548 2.369394 AGGAAATTTAGCCTTGCCTCG 58.631 47.619 0.00 0.00 0.00 4.63
3592 11555 1.651987 TAGCCTTGCCTCGAAATTCG 58.348 50.000 9.38 9.38 42.10 3.34
3753 11719 0.660300 GGAGCTGTTTTTCAACCGCG 60.660 55.000 0.00 0.00 45.24 6.46
3759 11725 3.285745 CTGTTTTTCAACCGCGTTAGTC 58.714 45.455 4.92 0.00 31.02 2.59
3769 11735 4.970662 ACCGCGTTAGTCTATACTTTCA 57.029 40.909 4.92 0.00 37.15 2.69
3773 11739 5.681982 CCGCGTTAGTCTATACTTTCAGAAG 59.318 44.000 4.92 0.00 37.15 2.85
3845 11811 5.971763 TGAAAAATGTACACTTTTGGCTGT 58.028 33.333 18.86 0.00 0.00 4.40
3858 11824 2.798976 TGGCTGTGCAGTGATTTTTC 57.201 45.000 0.00 0.00 0.00 2.29
3860 11827 1.340889 GGCTGTGCAGTGATTTTTCCA 59.659 47.619 0.00 0.00 0.00 3.53
3914 11881 8.134202 TCATCTCTGATTAGTGTTGTTCCTAA 57.866 34.615 0.00 0.00 0.00 2.69
3928 11895 6.713450 TGTTGTTCCTAATTCTTGAAGGGTAC 59.287 38.462 0.00 0.00 0.00 3.34
3981 12609 2.380084 TGCAACTTGGAGGTACGATC 57.620 50.000 0.00 0.00 0.00 3.69
4036 12885 3.726486 CGTGTGTTGTGTGTTGTTGGTAG 60.726 47.826 0.00 0.00 0.00 3.18
4044 12893 3.122948 GTGTGTTGTTGGTAGAGTATGCG 59.877 47.826 0.00 0.00 0.00 4.73
4190 13056 5.762711 ACAATTTTTGGGCCTGATTTGTTAC 59.237 36.000 4.53 0.00 34.12 2.50
4236 13107 0.607620 TGATGCACTCGTGGTCATGA 59.392 50.000 0.00 0.00 0.00 3.07
4642 13540 7.120789 TCTTTTAAACCGTAACTCCGATTTC 57.879 36.000 0.00 0.00 0.00 2.17
4768 13670 7.611770 ACTTATAACTATAGCGCATGATCCAA 58.388 34.615 11.47 0.00 0.00 3.53
4773 13675 6.639632 ACTATAGCGCATGATCCAATTTTT 57.360 33.333 11.47 0.00 0.00 1.94
4872 13887 6.832384 AGAGACGTCTTAGGATTAACCACATA 59.168 38.462 21.08 0.00 42.04 2.29
5168 14193 1.446907 ACTGAAGCAGCGGATCAAAG 58.553 50.000 0.00 0.00 34.37 2.77
5463 14580 6.483640 CCTTTAGTTGAGCTGTCTTACTGTTT 59.516 38.462 0.00 0.00 0.00 2.83
5465 14582 5.993106 AGTTGAGCTGTCTTACTGTTTTC 57.007 39.130 0.00 0.00 0.00 2.29
5546 14702 2.992847 TGTCTCTTCCCTGTGACCTA 57.007 50.000 0.00 0.00 31.67 3.08
5738 14914 4.696479 TCTCCTCTGATTATTTCCTGGC 57.304 45.455 0.00 0.00 0.00 4.85
5935 15115 1.602237 CCCACGTGGCCTGATTAGT 59.398 57.895 29.75 0.00 0.00 2.24
5959 15139 6.365247 GTGATCAACCACACGTATGATATACC 59.635 42.308 0.00 0.00 37.04 2.73
6154 15426 5.809562 TGAAACAAACATTTTCTTGCGACAT 59.190 32.000 0.00 0.00 34.58 3.06
6333 15648 7.728847 ATTTGTCCCAAAAGTGAATAAAAGC 57.271 32.000 0.00 0.00 0.00 3.51
6766 16143 5.491982 CTCCAGCTGTTTTATCCAACTAGT 58.508 41.667 13.81 0.00 0.00 2.57
6788 16165 0.998669 CATGCTCGTGCGTTGATACA 59.001 50.000 0.50 0.00 43.34 2.29
6950 16354 2.240279 GGGATGGCAGTAGATAGACGT 58.760 52.381 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
179 181 9.699410 AAGGAAACATATTCATAACATGGAGAA 57.301 29.630 0.00 0.00 0.00 2.87
331 334 2.094894 CACAAGCAGCAACTCGATTAGG 59.905 50.000 0.00 0.00 0.00 2.69
350 353 4.168760 GCATGAAGGTAAAGCAACATCAC 58.831 43.478 0.00 0.00 0.00 3.06
497 500 7.254932 GGCAGAAGATTTACATGGAGTTATCAC 60.255 40.741 0.00 0.00 0.00 3.06
545 1801 7.699812 ACACGTTAATGCGTTAAAAGGTAAAAA 59.300 29.630 12.62 0.00 43.83 1.94
808 2064 8.299570 AGACATTAGACATGAATTGAAACAACC 58.700 33.333 0.00 0.00 0.00 3.77
940 4474 2.923121 TGAGGCTGTAATTGGAGATGC 58.077 47.619 0.00 0.00 0.00 3.91
988 7811 4.953667 GATCTGCACATCCAAGTAGATCA 58.046 43.478 13.25 0.00 46.57 2.92
1036 7859 6.432783 CCCATTCTGTTATACACAAACTGGAA 59.567 38.462 0.00 0.00 33.87 3.53
1037 7860 5.943416 CCCATTCTGTTATACACAAACTGGA 59.057 40.000 0.00 0.00 33.87 3.86
1044 7872 4.780554 TCCTCACCCATTCTGTTATACACA 59.219 41.667 0.00 0.00 0.00 3.72
1347 8175 9.520515 AGAACTAAAATTTTCTTGGCTATGAGA 57.479 29.630 6.72 0.00 0.00 3.27
1407 8238 6.832520 AGCCAACACAAATCATGTAATGTA 57.167 33.333 0.00 0.00 46.80 2.29
1420 8251 5.277586 CGTGAATAAACTGTAGCCAACACAA 60.278 40.000 0.00 0.00 33.45 3.33
1571 8402 8.040132 TGTCTAGTACTCTTCTACTACAAGTCC 58.960 40.741 0.00 0.00 0.00 3.85
1775 8945 3.589881 GTGGATGCAGATGCCGGC 61.590 66.667 22.73 22.73 41.18 6.13
1869 9039 4.188462 ACTTCATGAATCCGAACGCAATA 58.812 39.130 8.96 0.00 0.00 1.90
1875 9045 9.704098 GAAAATAAGTACTTCATGAATCCGAAC 57.296 33.333 12.39 3.51 0.00 3.95
1960 9130 3.865302 GCCACATGCATGATTTTTCACCA 60.865 43.478 32.75 0.00 40.77 4.17
2063 9233 3.129287 CCAGACTGTGCAAAGTTGAAACT 59.871 43.478 11.77 0.00 42.04 2.66
2101 9271 9.478019 CAACATGAACTTTTCACGATCTATAAC 57.522 33.333 0.00 0.00 43.48 1.89
2150 9321 7.636150 TGGATTCTCCAGAAAATCAAATCTC 57.364 36.000 0.00 0.00 42.67 2.75
2492 9664 1.668419 ATGCCCGAGACATAAGTTGC 58.332 50.000 0.00 0.00 0.00 4.17
2496 9668 4.821805 ACCAAATTATGCCCGAGACATAAG 59.178 41.667 9.52 1.65 41.81 1.73
2518 9690 0.179018 AAGGGAAGATATGCCGCCAC 60.179 55.000 0.00 0.00 45.98 5.01
2522 9694 3.278574 TGAAACAAGGGAAGATATGCCG 58.721 45.455 0.00 0.00 45.98 5.69
2528 9700 8.017418 TGTTAAAACATGAAACAAGGGAAGAT 57.983 30.769 0.00 0.00 33.17 2.40
2550 9722 8.543774 ACTCCAGAATACTAAACTCATCATGTT 58.456 33.333 0.00 0.00 0.00 2.71
2551 9723 7.984050 CACTCCAGAATACTAAACTCATCATGT 59.016 37.037 0.00 0.00 0.00 3.21
2552 9724 7.440556 CCACTCCAGAATACTAAACTCATCATG 59.559 40.741 0.00 0.00 0.00 3.07
2553 9725 7.345653 TCCACTCCAGAATACTAAACTCATCAT 59.654 37.037 0.00 0.00 0.00 2.45
2554 9726 6.667848 TCCACTCCAGAATACTAAACTCATCA 59.332 38.462 0.00 0.00 0.00 3.07
2555 9727 7.113658 TCCACTCCAGAATACTAAACTCATC 57.886 40.000 0.00 0.00 0.00 2.92
2556 9728 6.407525 GCTCCACTCCAGAATACTAAACTCAT 60.408 42.308 0.00 0.00 0.00 2.90
2557 9729 5.105310 GCTCCACTCCAGAATACTAAACTCA 60.105 44.000 0.00 0.00 0.00 3.41
2558 9730 5.105310 TGCTCCACTCCAGAATACTAAACTC 60.105 44.000 0.00 0.00 0.00 3.01
2559 9731 4.777896 TGCTCCACTCCAGAATACTAAACT 59.222 41.667 0.00 0.00 0.00 2.66
2560 9732 5.086104 TGCTCCACTCCAGAATACTAAAC 57.914 43.478 0.00 0.00 0.00 2.01
2561 9733 5.488341 GTTGCTCCACTCCAGAATACTAAA 58.512 41.667 0.00 0.00 0.00 1.85
2562 9734 4.081087 GGTTGCTCCACTCCAGAATACTAA 60.081 45.833 0.00 0.00 35.97 2.24
2563 9735 3.451178 GGTTGCTCCACTCCAGAATACTA 59.549 47.826 0.00 0.00 35.97 1.82
2582 9754 8.058847 TCTACCTCCTAAATATGCATTTTGGTT 58.941 33.333 3.54 0.00 43.46 3.67
2621 9793 3.359654 GCTCGTTCGACAAACAAAATGT 58.640 40.909 0.00 0.00 37.77 2.71
2622 9794 2.397154 CGCTCGTTCGACAAACAAAATG 59.603 45.455 0.00 0.00 37.77 2.32
2623 9795 2.285756 TCGCTCGTTCGACAAACAAAAT 59.714 40.909 0.00 0.00 37.77 1.82
2624 9796 1.659601 TCGCTCGTTCGACAAACAAAA 59.340 42.857 0.00 0.00 37.77 2.44
2625 9797 1.279152 TCGCTCGTTCGACAAACAAA 58.721 45.000 0.00 0.00 37.77 2.83
2626 9798 2.960682 TCGCTCGTTCGACAAACAA 58.039 47.368 0.00 0.00 37.77 2.83
2638 9810 1.200483 AATAATGCTCACGTCGCTCG 58.800 50.000 7.74 0.00 46.00 5.03
2643 9815 7.932120 ACTACATCTTAATAATGCTCACGTC 57.068 36.000 0.00 0.00 0.00 4.34
2667 9839 9.442047 AGAACAACAAAATTACAAATGTCCAAA 57.558 25.926 0.00 0.00 0.00 3.28
2668 9840 9.442047 AAGAACAACAAAATTACAAATGTCCAA 57.558 25.926 0.00 0.00 0.00 3.53
2669 9841 9.442047 AAAGAACAACAAAATTACAAATGTCCA 57.558 25.926 0.00 0.00 0.00 4.02
2716 9888 8.338986 CGCCTACAAATTTTACAAAACCAAATT 58.661 29.630 0.00 0.00 32.62 1.82
2717 9889 7.041712 CCGCCTACAAATTTTACAAAACCAAAT 60.042 33.333 0.00 0.00 0.00 2.32
2718 9890 6.258068 CCGCCTACAAATTTTACAAAACCAAA 59.742 34.615 0.00 0.00 0.00 3.28
2719 9891 5.753921 CCGCCTACAAATTTTACAAAACCAA 59.246 36.000 0.00 0.00 0.00 3.67
2720 9892 5.290386 CCGCCTACAAATTTTACAAAACCA 58.710 37.500 0.00 0.00 0.00 3.67
2721 9893 4.150980 GCCGCCTACAAATTTTACAAAACC 59.849 41.667 0.00 0.00 0.00 3.27
2722 9894 4.150980 GGCCGCCTACAAATTTTACAAAAC 59.849 41.667 0.71 0.00 0.00 2.43
2723 9895 4.308265 GGCCGCCTACAAATTTTACAAAA 58.692 39.130 0.71 0.00 0.00 2.44
2724 9896 3.612004 CGGCCGCCTACAAATTTTACAAA 60.612 43.478 14.67 0.00 0.00 2.83
2725 9897 2.095161 CGGCCGCCTACAAATTTTACAA 60.095 45.455 14.67 0.00 0.00 2.41
2726 9898 1.469308 CGGCCGCCTACAAATTTTACA 59.531 47.619 14.67 0.00 0.00 2.41
2727 9899 1.469703 ACGGCCGCCTACAAATTTTAC 59.530 47.619 28.58 0.00 0.00 2.01
2728 9900 1.469308 CACGGCCGCCTACAAATTTTA 59.531 47.619 28.58 0.00 0.00 1.52
2729 9901 0.242555 CACGGCCGCCTACAAATTTT 59.757 50.000 28.58 0.00 0.00 1.82
2730 9902 0.606944 TCACGGCCGCCTACAAATTT 60.607 50.000 28.58 0.00 0.00 1.82
2731 9903 0.606944 TTCACGGCCGCCTACAAATT 60.607 50.000 28.58 0.00 0.00 1.82
2732 9904 1.003112 TTCACGGCCGCCTACAAAT 60.003 52.632 28.58 0.00 0.00 2.32
2733 9905 1.962306 GTTCACGGCCGCCTACAAA 60.962 57.895 28.58 7.73 0.00 2.83
2734 9906 2.357760 GTTCACGGCCGCCTACAA 60.358 61.111 28.58 7.96 0.00 2.41
2735 9907 3.291101 GAGTTCACGGCCGCCTACA 62.291 63.158 28.58 1.22 0.00 2.74
2736 9908 2.508663 GAGTTCACGGCCGCCTAC 60.509 66.667 28.58 20.03 0.00 3.18
2737 9909 4.124351 CGAGTTCACGGCCGCCTA 62.124 66.667 28.58 8.02 0.00 3.93
2744 9916 3.414700 GTGGCTGCGAGTTCACGG 61.415 66.667 0.00 0.00 0.00 4.94
2745 9917 2.162921 CTTGTGGCTGCGAGTTCACG 62.163 60.000 0.00 0.00 33.25 4.35
2746 9918 1.571460 CTTGTGGCTGCGAGTTCAC 59.429 57.895 0.00 0.00 0.00 3.18
2765 9937 9.672086 AAAAGCAAAACTAAACAAAAAGGAAAC 57.328 25.926 0.00 0.00 0.00 2.78
2782 9955 8.939201 TCATCAATTGTAGTTGAAAAGCAAAA 57.061 26.923 5.13 0.00 41.09 2.44
2783 9956 8.939201 TTCATCAATTGTAGTTGAAAAGCAAA 57.061 26.923 5.13 0.00 41.09 3.68
2859 10033 2.359975 CCTTCCGGGTGAACAGCC 60.360 66.667 12.32 12.32 45.13 4.85
2891 10065 1.630878 CTGTTCAAAGGCTAGGGAGGT 59.369 52.381 0.00 0.00 0.00 3.85
2946 10121 4.532834 TGGCCCAAGTGAAAGGATATAAC 58.467 43.478 0.00 0.00 0.00 1.89
3052 10234 1.063174 GAAGACGACATTGCTCCATGC 59.937 52.381 0.00 0.00 43.25 4.06
3110 10292 7.079451 AGTCTGAATCTTCCCTGAACTTTTA 57.921 36.000 0.00 0.00 0.00 1.52
3163 10345 4.754618 AGCACTAACACATTTGATGAACGA 59.245 37.500 0.00 0.00 0.00 3.85
3179 10361 8.486942 TGAGGCTATAACCTTATAAGCACTAA 57.513 34.615 6.99 0.00 41.32 2.24
3204 10386 8.635765 TTGCAGATAGATTTTCAGTTTAACCT 57.364 30.769 0.00 0.00 0.00 3.50
3242 10424 7.324935 TGTAGGCATCATTCGTACTTAGAAAA 58.675 34.615 0.00 0.00 0.00 2.29
3244 10426 6.459670 TGTAGGCATCATTCGTACTTAGAA 57.540 37.500 0.00 0.00 0.00 2.10
3252 10434 4.699735 TCAACAATTGTAGGCATCATTCGT 59.300 37.500 12.39 0.00 0.00 3.85
3253 10435 5.233957 TCAACAATTGTAGGCATCATTCG 57.766 39.130 12.39 0.00 0.00 3.34
3254 10436 6.855836 TCTTCAACAATTGTAGGCATCATTC 58.144 36.000 12.39 0.00 0.00 2.67
3320 10503 2.555199 ACTCAGCGCCAGATAATCAAC 58.445 47.619 2.29 0.00 0.00 3.18
3353 10536 6.307800 CCACAATCGATGAACACCAAAATAAC 59.692 38.462 0.00 0.00 0.00 1.89
3388 10571 7.878127 AGTTTAAACTGAAGCTGTAATAGAGCA 59.122 33.333 19.94 0.00 37.06 4.26
3551 11514 8.799367 GGCTAAATTTCCTTCTACTAAACCAAA 58.201 33.333 0.00 0.00 0.00 3.28
3565 11528 2.026262 TCGAGGCAAGGCTAAATTTCCT 60.026 45.455 0.00 0.00 0.00 3.36
3571 11534 2.418628 CGAATTTCGAGGCAAGGCTAAA 59.581 45.455 13.45 0.00 43.74 1.85
3658 11624 6.622549 ACATTAACACGGTTGAAAAACAGAA 58.377 32.000 0.00 0.00 27.66 3.02
3833 11799 0.740149 TCACTGCACAGCCAAAAGTG 59.260 50.000 0.00 0.00 39.66 3.16
3845 11811 1.999648 AGCCTGGAAAAATCACTGCA 58.000 45.000 0.00 0.00 0.00 4.41
3858 11824 4.647564 ATACATTGGAAGGATAGCCTGG 57.352 45.455 0.00 0.00 46.28 4.45
3860 11827 5.912149 TCAATACATTGGAAGGATAGCCT 57.088 39.130 0.00 0.00 41.41 4.58
3914 11881 5.222130 ACTCAATGGTGTACCCTTCAAGAAT 60.222 40.000 0.00 0.00 34.29 2.40
3981 12609 5.654317 CACTTCATGCTGCTAATCACTAG 57.346 43.478 0.00 0.00 0.00 2.57
4036 12885 1.135402 CAGGCCCAAAAACGCATACTC 60.135 52.381 0.00 0.00 0.00 2.59
4044 12893 1.147473 CGCAATTCAGGCCCAAAAAC 58.853 50.000 0.00 0.00 0.00 2.43
4169 13035 4.263287 GGGTAACAAATCAGGCCCAAAAAT 60.263 41.667 0.00 0.00 36.25 1.82
4175 13041 2.231716 AAGGGTAACAAATCAGGCCC 57.768 50.000 0.00 0.00 39.74 5.80
4773 13675 6.552859 TCGCAATGAGAAATCTGTACAAAA 57.447 33.333 0.00 0.00 0.00 2.44
4792 13803 0.664466 CGCTTTCTCTCACACTCGCA 60.664 55.000 0.00 0.00 0.00 5.10
5095 14116 7.548097 TGCCAACAAATTTCAGTTAACTAACA 58.452 30.769 8.04 0.00 38.62 2.41
5168 14193 9.196552 ACTCAAGAGCTAATTGTTTTTAAATGC 57.803 29.630 10.14 0.00 0.00 3.56
5433 14550 3.648545 AGACAGCTCAACTAAAGGAAGGT 59.351 43.478 0.00 0.00 0.00 3.50
5546 14702 5.690464 ACAAGCAGGAGTAGATGAGAAAT 57.310 39.130 0.00 0.00 0.00 2.17
5738 14914 6.668323 AGTAATCCGAACAATTTCACAAGTG 58.332 36.000 0.00 0.00 34.02 3.16
5920 15100 1.831106 TGATCACTAATCAGGCCACGT 59.169 47.619 5.01 0.00 39.52 4.49
5935 15115 6.452242 GGTATATCATACGTGTGGTTGATCA 58.548 40.000 12.66 0.00 32.45 2.92
5959 15139 9.647679 GTATGTATGATCGACAAGTATATACGG 57.352 37.037 7.23 6.64 0.00 4.02
6154 15426 3.772572 TGGAAGAAGACGGATCCAATACA 59.227 43.478 13.41 0.00 38.95 2.29
6333 15648 3.470709 AGATGGCATACGGTTCTTGATG 58.529 45.455 0.00 0.00 0.00 3.07
6766 16143 1.576451 ATCAACGCACGAGCATGCAA 61.576 50.000 21.98 0.00 46.47 4.08
6788 16165 3.121030 GCACGAGCATTGTCGCCT 61.121 61.111 0.00 0.00 44.06 5.52


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

AutoCloner maintained by Alex Coulton.