Multiple sequence alignment - TraesCS3B01G424700

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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 TraesCS3B01G424700 chr3B 100.000 5250 0 0 1 5250 662558252 662553003 0.000000e+00 9696.0
1 TraesCS3B01G424700 chr3B 100.000 2943 0 0 5583 8525 662552670 662549728 0.000000e+00 5435.0
2 TraesCS3B01G424700 chr3B 90.674 890 83 0 6527 7416 662797013 662796124 0.000000e+00 1184.0
3 TraesCS3B01G424700 chr3B 86.757 959 97 20 1084 2027 662798692 662797749 0.000000e+00 1040.0
4 TraesCS3B01G424700 chr3B 89.535 86 7 1 7894 7979 662550315 662550232 3.250000e-19 108.0
5 TraesCS3B01G424700 chr3B 89.535 86 7 1 7938 8021 662550359 662550274 3.250000e-19 108.0
6 TraesCS3B01G424700 chr3B 89.286 84 8 1 5797 5880 477368238 477368320 4.210000e-18 104.0
7 TraesCS3B01G424700 chr3B 92.593 54 1 2 5084 5136 38868819 38868870 3.300000e-09 75.0
8 TraesCS3B01G424700 chr3B 100.000 31 0 0 343 373 772731887 772731857 3.320000e-04 58.4
9 TraesCS3B01G424700 chr3A 94.595 1258 28 6 1113 2355 640632199 640630967 0.000000e+00 1910.0
10 TraesCS3B01G424700 chr3A 94.595 1258 28 6 1113 2355 640702606 640701374 0.000000e+00 1910.0
11 TraesCS3B01G424700 chr3A 90.573 1135 66 21 3399 4519 640629903 640628796 0.000000e+00 1465.0
12 TraesCS3B01G424700 chr3A 92.829 1018 56 4 6516 7532 640626111 640625110 0.000000e+00 1459.0
13 TraesCS3B01G424700 chr3A 92.291 947 58 5 2421 3353 640630840 640629895 0.000000e+00 1330.0
14 TraesCS3B01G424700 chr3A 92.194 948 59 5 2421 3353 640681366 640680419 0.000000e+00 1327.0
15 TraesCS3B01G424700 chr3A 91.869 947 63 7 2421 3353 640701247 640700301 0.000000e+00 1310.0
16 TraesCS3B01G424700 chr3A 89.408 1048 96 9 6501 7533 640749906 640748859 0.000000e+00 1306.0
17 TraesCS3B01G424700 chr3A 91.516 884 75 0 6527 7410 640699821 640698938 0.000000e+00 1218.0
18 TraesCS3B01G424700 chr3A 87.175 1037 90 18 6527 7533 640679939 640678916 0.000000e+00 1138.0
19 TraesCS3B01G424700 chr3A 93.929 593 12 3 1113 1702 640682722 640682151 0.000000e+00 874.0
20 TraesCS3B01G424700 chr3A 89.123 616 58 6 7357 7969 640349993 640350602 0.000000e+00 758.0
21 TraesCS3B01G424700 chr3A 90.106 566 48 6 1505 2063 640751135 640750571 0.000000e+00 728.0
22 TraesCS3B01G424700 chr3A 91.189 488 36 7 3399 3883 640680427 640679944 0.000000e+00 656.0
23 TraesCS3B01G424700 chr3A 90.798 489 36 8 3399 3883 640700309 640699826 0.000000e+00 645.0
24 TraesCS3B01G424700 chr3A 89.849 463 26 7 5871 6320 640627118 640626664 7.420000e-160 575.0
25 TraesCS3B01G424700 chr3A 88.261 460 36 10 7528 7979 640624831 640624382 1.260000e-147 534.0
26 TraesCS3B01G424700 chr3A 87.879 396 35 11 7578 7967 640619180 640618792 3.630000e-123 453.0
27 TraesCS3B01G424700 chr3A 96.610 236 4 2 2120 2355 640681724 640681493 1.040000e-103 388.0
28 TraesCS3B01G424700 chr3A 92.742 248 18 0 1259 1506 640751470 640751223 8.140000e-95 359.0
29 TraesCS3B01G424700 chr3A 89.123 285 11 11 8247 8524 640350895 640351166 3.810000e-88 337.0
30 TraesCS3B01G424700 chr3A 89.552 268 17 8 4712 4977 640627722 640627980 6.380000e-86 329.0
31 TraesCS3B01G424700 chr3A 85.099 302 18 15 8247 8524 640624115 640623817 5.040000e-72 283.0
32 TraesCS3B01G424700 chr3A 88.298 188 20 2 4974 5161 640628041 640628226 3.100000e-54 224.0
33 TraesCS3B01G424700 chr3A 84.699 183 11 10 4522 4700 640627574 640627743 5.290000e-37 167.0
34 TraesCS3B01G424700 chr3A 80.791 177 22 7 5999 6166 726505435 726505608 2.500000e-25 128.0
35 TraesCS3B01G424700 chr3A 97.101 69 0 2 8253 8320 640618497 640618430 1.940000e-21 115.0
36 TraesCS3B01G424700 chr3A 96.154 52 2 0 1021 1072 640632252 640632201 1.520000e-12 86.1
37 TraesCS3B01G424700 chr3A 96.154 52 2 0 1021 1072 640682775 640682724 1.520000e-12 86.1
38 TraesCS3B01G424700 chr3A 96.154 52 2 0 1021 1072 640702659 640702608 1.520000e-12 86.1
39 TraesCS3B01G424700 chr3A 92.308 52 3 1 5086 5137 509854346 509854296 1.190000e-08 73.1
40 TraesCS3B01G424700 chr3D 93.644 1180 74 1 6457 7635 501078438 501077259 0.000000e+00 1762.0
41 TraesCS3B01G424700 chr3D 89.886 1315 73 21 3399 4700 501083860 501082593 0.000000e+00 1637.0
42 TraesCS3B01G424700 chr3D 95.048 1050 24 8 1021 2042 501087131 501086082 0.000000e+00 1626.0
43 TraesCS3B01G424700 chr3D 91.396 953 71 6 6527 7468 501163028 501162076 0.000000e+00 1295.0
44 TraesCS3B01G424700 chr3D 91.853 761 55 6 1282 2036 501164408 501163649 0.000000e+00 1055.0
45 TraesCS3B01G424700 chr3D 91.387 685 37 8 2355 3019 501085457 501084775 0.000000e+00 918.0
46 TraesCS3B01G424700 chr3D 93.660 347 20 2 3009 3353 501084198 501083852 1.270000e-142 518.0
47 TraesCS3B01G424700 chr3D 86.897 435 27 11 5871 6294 501080116 501079701 2.170000e-125 460.0
48 TraesCS3B01G424700 chr3D 92.523 321 14 6 7661 7979 501076634 501076322 1.300000e-122 451.0
49 TraesCS3B01G424700 chr3D 88.095 336 22 9 7920 8246 501076423 501076097 4.830000e-102 383.0
50 TraesCS3B01G424700 chr3D 81.549 439 50 15 7818 8246 501075941 501075524 4.930000e-87 333.0
51 TraesCS3B01G424700 chr3D 94.064 219 9 2 2137 2355 501085722 501085508 6.380000e-86 329.0
52 TraesCS3B01G424700 chr3D 90.984 244 10 4 7736 7979 501075981 501075750 1.380000e-82 318.0
53 TraesCS3B01G424700 chr3D 90.196 204 10 7 4712 4915 501082614 501082421 3.050000e-64 257.0
54 TraesCS3B01G424700 chr3D 93.642 173 6 3 8357 8524 501073663 501073491 3.950000e-63 254.0
55 TraesCS3B01G424700 chr3D 92.135 178 12 1 4973 5150 501080894 501080719 5.110000e-62 250.0
56 TraesCS3B01G424700 chr3D 98.020 101 1 1 2041 2140 501086042 501085942 3.160000e-39 174.0
57 TraesCS3B01G424700 chr3D 81.006 179 21 7 6292 6460 501079447 501079272 6.940000e-26 130.0
58 TraesCS3B01G424700 chr3D 93.421 76 5 0 8246 8321 501073739 501073664 6.990000e-21 113.0
59 TraesCS3B01G424700 chr3D 91.566 83 6 1 5707 5788 538056226 538056144 6.990000e-21 113.0
60 TraesCS3B01G424700 chr3D 85.246 61 8 1 5078 5138 341462439 341462498 2.570000e-05 62.1
61 TraesCS3B01G424700 chrUn 86.204 1022 128 7 1 1018 264909563 264908551 0.000000e+00 1094.0
62 TraesCS3B01G424700 chr7D 87.303 890 109 4 6523 7410 54923180 54922293 0.000000e+00 1014.0
63 TraesCS3B01G424700 chr7D 89.408 557 53 6 1505 2056 54926445 54925890 0.000000e+00 697.0
64 TraesCS3B01G424700 chr7D 82.353 731 111 15 278 1002 577206704 577205986 3.380000e-173 619.0
65 TraesCS3B01G424700 chr7D 91.139 79 6 1 5708 5785 37918713 37918635 1.170000e-18 106.0
66 TraesCS3B01G424700 chr7D 92.453 53 3 1 5086 5138 508318547 508318496 3.300000e-09 75.0
67 TraesCS3B01G424700 chr7D 100.000 31 0 0 5106 5136 58781506 58781536 3.320000e-04 58.4
68 TraesCS3B01G424700 chr7D 94.737 38 1 1 6422 6459 575713511 575713547 3.320000e-04 58.4
69 TraesCS3B01G424700 chr5B 87.774 867 101 4 6536 7398 426559143 426558278 0.000000e+00 1009.0
70 TraesCS3B01G424700 chr5B 87.763 523 63 1 1505 2027 426565689 426565168 2.030000e-170 610.0
71 TraesCS3B01G424700 chr5B 91.949 236 17 2 1278 1511 426566010 426565775 6.380000e-86 329.0
72 TraesCS3B01G424700 chr5B 76.360 478 56 29 5909 6353 232979533 232979080 4.030000e-48 204.0
73 TraesCS3B01G424700 chr5B 84.507 71 8 3 5583 5650 131015861 131015931 5.520000e-07 67.6
74 TraesCS3B01G424700 chr4A 86.869 792 101 3 214 1004 97878821 97878032 0.000000e+00 883.0
75 TraesCS3B01G424700 chr4A 83.562 73 9 2 5583 5652 659453551 659453623 1.990000e-06 65.8
76 TraesCS3B01G424700 chr4A 83.562 73 9 2 5583 5652 659483652 659483724 1.990000e-06 65.8
77 TraesCS3B01G424700 chr4A 83.562 73 9 2 5583 5652 659516230 659516302 1.990000e-06 65.8
78 TraesCS3B01G424700 chr4A 83.562 73 9 2 5583 5652 659545671 659545743 1.990000e-06 65.8
79 TraesCS3B01G424700 chr5D 82.976 793 122 11 213 1002 560210918 560210136 0.000000e+00 704.0
80 TraesCS3B01G424700 chr5D 75.234 428 60 24 5937 6333 311607877 311607465 2.460000e-35 161.0
81 TraesCS3B01G424700 chr5D 84.694 98 13 2 5711 5807 491407395 491407299 7.040000e-16 97.1
82 TraesCS3B01G424700 chr5D 87.143 70 7 1 5083 5150 135705890 135705959 2.550000e-10 78.7
83 TraesCS3B01G424700 chr5D 87.692 65 4 3 5088 5150 393615843 393615781 1.190000e-08 73.1
84 TraesCS3B01G424700 chr5D 90.909 44 4 0 5583 5626 14396924 14396881 9.240000e-05 60.2
85 TraesCS3B01G424700 chr5D 97.143 35 1 0 6426 6460 379133148 379133114 9.240000e-05 60.2
86 TraesCS3B01G424700 chr5D 94.737 38 1 1 5102 5138 393734853 393734816 3.320000e-04 58.4
87 TraesCS3B01G424700 chr7A 90.317 537 47 4 1505 2036 58209001 58209537 0.000000e+00 699.0
88 TraesCS3B01G424700 chr7A 87.500 240 26 3 1283 1520 58208710 58208947 3.030000e-69 274.0
89 TraesCS3B01G424700 chr7A 76.703 455 58 27 5910 6331 444952776 444953215 8.670000e-50 209.0
90 TraesCS3B01G424700 chr7A 93.056 72 2 3 5804 5873 467417260 467417190 1.510000e-17 102.0
91 TraesCS3B01G424700 chr7A 100.000 33 0 0 7821 7853 25861588 25861620 2.570000e-05 62.1
92 TraesCS3B01G424700 chr7A 97.143 35 1 0 6426 6460 53264311 53264277 9.240000e-05 60.2
93 TraesCS3B01G424700 chr4B 84.686 653 98 2 213 864 534575001 534574350 0.000000e+00 651.0
94 TraesCS3B01G424700 chr4B 92.500 40 2 1 6426 6464 668846982 668847021 1.000000e-03 56.5
95 TraesCS3B01G424700 chr2D 82.900 731 110 13 278 1004 613129051 613128332 2.010000e-180 643.0
96 TraesCS3B01G424700 chr2D 81.994 722 114 14 284 1001 357279132 357278423 4.400000e-167 599.0
97 TraesCS3B01G424700 chr2D 87.778 90 10 1 5693 5781 448690510 448690599 4.210000e-18 104.0
98 TraesCS3B01G424700 chr2D 88.372 86 8 2 6247 6331 142776012 142775928 1.510000e-17 102.0
99 TraesCS3B01G424700 chr2D 95.349 43 1 1 6425 6467 170408769 170408728 5.520000e-07 67.6
100 TraesCS3B01G424700 chr2D 95.122 41 1 1 6422 6462 45525085 45525046 7.140000e-06 63.9
101 TraesCS3B01G424700 chr4D 82.280 728 114 13 278 1001 17855876 17856592 4.370000e-172 616.0
102 TraesCS3B01G424700 chr4D 80.609 361 42 10 5999 6332 327385336 327384977 3.950000e-63 254.0
103 TraesCS3B01G424700 chr4D 77.644 331 54 15 5977 6299 425698267 425698585 5.260000e-42 183.0
104 TraesCS3B01G424700 chr4D 96.774 62 2 0 5800 5861 484672337 484672276 4.210000e-18 104.0
105 TraesCS3B01G424700 chr4D 93.023 43 1 2 5110 5150 75761443 75761485 2.570000e-05 62.1
106 TraesCS3B01G424700 chr6A 80.856 794 132 13 213 1002 389465876 389466653 2.630000e-169 606.0
107 TraesCS3B01G424700 chr6A 81.777 664 104 13 343 1001 600692348 600692999 2.710000e-149 540.0
108 TraesCS3B01G424700 chr1D 76.179 403 50 19 5908 6282 212495343 212495727 4.090000e-38 171.0
109 TraesCS3B01G424700 chr1D 98.305 59 1 0 5804 5862 19133267 19133209 4.210000e-18 104.0
110 TraesCS3B01G424700 chr1D 90.123 81 4 2 5797 5873 375354809 375354889 1.510000e-17 102.0
111 TraesCS3B01G424700 chr1D 89.873 79 7 1 5708 5785 373099492 373099570 5.450000e-17 100.0
112 TraesCS3B01G424700 chr1D 97.143 35 1 0 6299 6333 63893667 63893633 9.240000e-05 60.2
113 TraesCS3B01G424700 chr1D 90.698 43 2 2 6426 6468 42271617 42271577 1.000000e-03 56.5
114 TraesCS3B01G424700 chr5A 81.166 223 22 12 5945 6166 560805920 560805717 2.460000e-35 161.0
115 TraesCS3B01G424700 chr5A 84.177 158 23 2 6177 6333 674365054 674365210 1.480000e-32 152.0
116 TraesCS3B01G424700 chr5A 86.813 91 10 2 5709 5798 44401075 44401164 5.450000e-17 100.0
117 TraesCS3B01G424700 chr5A 94.595 37 2 0 6426 6462 475994565 475994601 3.320000e-04 58.4
118 TraesCS3B01G424700 chr5A 88.372 43 5 0 5583 5625 112320723 112320681 1.500000e-02 52.8
119 TraesCS3B01G424700 chr2B 80.488 164 17 9 6248 6398 362524758 362524919 2.520000e-20 111.0
120 TraesCS3B01G424700 chr2B 92.308 78 5 1 5705 5781 682944041 682944118 9.050000e-20 110.0
121 TraesCS3B01G424700 chr2B 74.138 174 37 8 7806 7975 94812012 94811843 1.990000e-06 65.8
122 TraesCS3B01G424700 chr6B 91.250 80 4 2 5797 5873 237350224 237350303 1.170000e-18 106.0
123 TraesCS3B01G424700 chr6D 91.026 78 6 1 5797 5873 437811518 437811595 4.210000e-18 104.0
124 TraesCS3B01G424700 chr6D 91.781 73 4 1 5801 5873 127390496 127390566 5.450000e-17 100.0
125 TraesCS3B01G424700 chr6D 89.873 79 6 2 5797 5873 127468181 127468259 5.450000e-17 100.0
126 TraesCS3B01G424700 chr6D 85.870 92 11 2 5708 5798 256166939 256166849 7.040000e-16 97.1
127 TraesCS3B01G424700 chr1B 85.106 94 13 1 5696 5788 643169371 643169464 2.530000e-15 95.3
128 TraesCS3B01G424700 chr1B 100.000 28 0 0 4489 4516 616083499 616083472 1.500000e-02 52.8
129 TraesCS3B01G424700 chr7B 93.750 48 2 1 5086 5133 536560351 536560305 4.270000e-08 71.3
130 TraesCS3B01G424700 chr1A 97.143 35 0 1 6425 6459 522484590 522484557 3.320000e-04 58.4


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 TraesCS3B01G424700 chr3B 662549728 662558252 8524 True 3836.750000 9696 94.767500 1 8525 4 chr3B.!!$R2 8524
1 TraesCS3B01G424700 chr3B 662796124 662798692 2568 True 1112.000000 1184 88.715500 1084 7416 2 chr3B.!!$R3 6332
2 TraesCS3B01G424700 chr3A 640698938 640702659 3721 True 1033.820000 1910 92.986400 1021 7410 5 chr3A.!!$R5 6389
3 TraesCS3B01G424700 chr3A 640623817 640632252 8435 True 955.262500 1910 91.206375 1021 8524 8 chr3A.!!$R3 7503
4 TraesCS3B01G424700 chr3A 640748859 640751470 2611 True 797.666667 1306 90.752000 1259 7533 3 chr3A.!!$R6 6274
5 TraesCS3B01G424700 chr3A 640678916 640682775 3859 True 744.850000 1327 92.875167 1021 7533 6 chr3A.!!$R4 6512
6 TraesCS3B01G424700 chr3A 640349993 640351166 1173 False 547.500000 758 89.123000 7357 8524 2 chr3A.!!$F2 1167
7 TraesCS3B01G424700 chr3A 640618430 640619180 750 True 284.000000 453 92.490000 7578 8320 2 chr3A.!!$R2 742
8 TraesCS3B01G424700 chr3A 640627574 640628226 652 False 240.000000 329 87.516333 4522 5161 3 chr3A.!!$F3 639
9 TraesCS3B01G424700 chr3D 501162076 501164408 2332 True 1175.000000 1295 91.624500 1282 7468 2 chr3D.!!$R3 6186
10 TraesCS3B01G424700 chr3D 501073491 501087131 13640 True 583.117647 1762 90.950412 1021 8524 17 chr3D.!!$R2 7503
11 TraesCS3B01G424700 chrUn 264908551 264909563 1012 True 1094.000000 1094 86.204000 1 1018 1 chrUn.!!$R1 1017
12 TraesCS3B01G424700 chr7D 54922293 54926445 4152 True 855.500000 1014 88.355500 1505 7410 2 chr7D.!!$R4 5905
13 TraesCS3B01G424700 chr7D 577205986 577206704 718 True 619.000000 619 82.353000 278 1002 1 chr7D.!!$R3 724
14 TraesCS3B01G424700 chr5B 426558278 426559143 865 True 1009.000000 1009 87.774000 6536 7398 1 chr5B.!!$R2 862
15 TraesCS3B01G424700 chr5B 426565168 426566010 842 True 469.500000 610 89.856000 1278 2027 2 chr5B.!!$R3 749
16 TraesCS3B01G424700 chr4A 97878032 97878821 789 True 883.000000 883 86.869000 214 1004 1 chr4A.!!$R1 790
17 TraesCS3B01G424700 chr5D 560210136 560210918 782 True 704.000000 704 82.976000 213 1002 1 chr5D.!!$R7 789
18 TraesCS3B01G424700 chr7A 58208710 58209537 827 False 486.500000 699 88.908500 1283 2036 2 chr7A.!!$F3 753
19 TraesCS3B01G424700 chr4B 534574350 534575001 651 True 651.000000 651 84.686000 213 864 1 chr4B.!!$R1 651
20 TraesCS3B01G424700 chr2D 613128332 613129051 719 True 643.000000 643 82.900000 278 1004 1 chr2D.!!$R5 726
21 TraesCS3B01G424700 chr2D 357278423 357279132 709 True 599.000000 599 81.994000 284 1001 1 chr2D.!!$R4 717
22 TraesCS3B01G424700 chr4D 17855876 17856592 716 False 616.000000 616 82.280000 278 1001 1 chr4D.!!$F1 723
23 TraesCS3B01G424700 chr6A 389465876 389466653 777 False 606.000000 606 80.856000 213 1002 1 chr6A.!!$F1 789
24 TraesCS3B01G424700 chr6A 600692348 600692999 651 False 540.000000 540 81.777000 343 1001 1 chr6A.!!$F2 658

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
302 365 0.320374 TCCTCCGTGAACGCAAATCT 59.680 50.000 0.00 0.00 38.18 2.40 F
1017 1087 0.179097 GGGAAGAGAGACACGCCATC 60.179 60.000 0.00 0.00 0.00 3.51 F
2506 4037 0.515564 ATTTTAGCACGCACGTCACC 59.484 50.000 0.00 0.00 0.00 4.02 F
3123 5318 1.677576 TCGGTGCTAGTATACAACCCG 59.322 52.381 5.50 8.99 35.63 5.28 F
4770 7621 0.548989 TGGTGGCGCAGGGTAATTAT 59.451 50.000 10.83 0.00 0.00 1.28 F
5184 9505 0.322008 GGAGCTATATGCACCCCTGC 60.322 60.000 0.00 0.00 45.00 4.85 F
5847 10168 0.318441 TCTCGCTATATGCAGGGCAC 59.682 55.000 0.00 0.00 43.04 5.01 F
5848 10169 0.671781 CTCGCTATATGCAGGGCACC 60.672 60.000 0.00 0.00 43.04 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1153 1223 0.671251 AACTCCGGCGATCTCTCATC 59.329 55.000 9.30 0.00 0.00 2.92 R
2785 4318 2.551912 GGTGGGCCTGTTGACAACG 61.552 63.158 13.46 8.22 0.00 4.10 R
3312 5508 2.403252 ATTCTAAGCAGTTCCCCACG 57.597 50.000 0.00 0.00 0.00 4.94 R
4984 9304 0.323629 TTGTCTCGAGCCCGGAATTT 59.676 50.000 7.81 0.00 36.24 1.82 R
5806 10127 0.114364 GGTTGGTGGGGAGGACATTT 59.886 55.000 0.00 0.00 0.00 2.32 R
6399 11354 0.248743 CTCGCGGCATGCATTCAATT 60.249 50.000 21.36 0.00 46.97 2.32 R
7105 12909 2.088104 AGAACTCCATCTGCCCGATA 57.912 50.000 0.00 0.00 0.00 2.92 R
7533 13366 2.613026 TTTTCCAGACTGCTGACGAA 57.387 45.000 0.00 0.00 45.17 3.85 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
20 21 1.315257 GGCCCGACACGGTCTAGTTA 61.315 60.000 9.28 0.00 46.80 2.24
30 31 2.754002 ACGGTCTAGTTAGGCAGAGAAC 59.246 50.000 0.00 0.00 0.00 3.01
31 32 2.223294 CGGTCTAGTTAGGCAGAGAACG 60.223 54.545 0.00 0.00 42.14 3.95
32 33 2.754002 GGTCTAGTTAGGCAGAGAACGT 59.246 50.000 0.00 0.00 0.00 3.99
35 36 1.339097 AGTTAGGCAGAGAACGTGGT 58.661 50.000 0.00 0.00 0.00 4.16
41 42 1.673920 GGCAGAGAACGTGGTTTTTGA 59.326 47.619 0.00 0.00 0.00 2.69
44 45 3.558418 GCAGAGAACGTGGTTTTTGACTA 59.442 43.478 0.00 0.00 0.00 2.59
95 96 3.245048 CGCCAAATTTTGAAACAGTCACC 59.755 43.478 10.72 0.00 35.39 4.02
124 125 2.252260 CGCAGAAACGGCAACAGG 59.748 61.111 0.00 0.00 0.00 4.00
125 126 2.250939 CGCAGAAACGGCAACAGGA 61.251 57.895 0.00 0.00 0.00 3.86
128 129 1.522668 CAGAAACGGCAACAGGATCA 58.477 50.000 0.00 0.00 0.00 2.92
135 136 3.157087 ACGGCAACAGGATCAGAAAAAT 58.843 40.909 0.00 0.00 0.00 1.82
151 152 9.865321 ATCAGAAAAATCAATCAACACATTAGG 57.135 29.630 0.00 0.00 0.00 2.69
152 153 8.306038 TCAGAAAAATCAATCAACACATTAGGG 58.694 33.333 0.00 0.00 0.00 3.53
153 154 7.546667 CAGAAAAATCAATCAACACATTAGGGG 59.453 37.037 0.00 0.00 0.00 4.79
154 155 7.454380 AGAAAAATCAATCAACACATTAGGGGA 59.546 33.333 0.00 0.00 0.00 4.81
155 156 7.552050 AAAATCAATCAACACATTAGGGGAA 57.448 32.000 0.00 0.00 0.00 3.97
156 157 7.552050 AAATCAATCAACACATTAGGGGAAA 57.448 32.000 0.00 0.00 0.00 3.13
157 158 5.975693 TCAATCAACACATTAGGGGAAAC 57.024 39.130 0.00 0.00 0.00 2.78
172 173 3.828875 GGAAACCCTAGACTCATCCAG 57.171 52.381 0.00 0.00 0.00 3.86
173 174 3.375699 GGAAACCCTAGACTCATCCAGA 58.624 50.000 0.00 0.00 0.00 3.86
174 175 3.970640 GGAAACCCTAGACTCATCCAGAT 59.029 47.826 0.00 0.00 0.00 2.90
175 176 4.039852 GGAAACCCTAGACTCATCCAGATC 59.960 50.000 0.00 0.00 0.00 2.75
176 177 2.870175 ACCCTAGACTCATCCAGATCG 58.130 52.381 0.00 0.00 0.00 3.69
177 178 2.443632 ACCCTAGACTCATCCAGATCGA 59.556 50.000 0.00 0.00 0.00 3.59
178 179 3.075283 ACCCTAGACTCATCCAGATCGAT 59.925 47.826 0.00 0.00 0.00 3.59
179 180 3.694072 CCCTAGACTCATCCAGATCGATC 59.306 52.174 17.91 17.91 0.00 3.69
180 181 3.373748 CCTAGACTCATCCAGATCGATCG 59.626 52.174 19.33 9.36 0.00 3.69
181 182 3.133141 AGACTCATCCAGATCGATCGA 57.867 47.619 21.86 21.86 0.00 3.59
182 183 2.811431 AGACTCATCCAGATCGATCGAC 59.189 50.000 22.06 14.23 0.00 4.20
183 184 2.811431 GACTCATCCAGATCGATCGACT 59.189 50.000 22.06 16.29 0.00 4.18
184 185 2.811431 ACTCATCCAGATCGATCGACTC 59.189 50.000 22.06 17.89 0.00 3.36
185 186 2.810852 CTCATCCAGATCGATCGACTCA 59.189 50.000 22.06 8.75 0.00 3.41
186 187 3.214328 TCATCCAGATCGATCGACTCAA 58.786 45.455 22.06 9.81 0.00 3.02
187 188 3.003793 TCATCCAGATCGATCGACTCAAC 59.996 47.826 22.06 9.64 0.00 3.18
188 189 2.365582 TCCAGATCGATCGACTCAACA 58.634 47.619 22.06 0.00 0.00 3.33
189 190 2.097629 TCCAGATCGATCGACTCAACAC 59.902 50.000 22.06 6.20 0.00 3.32
190 191 2.455032 CAGATCGATCGACTCAACACC 58.545 52.381 22.06 2.59 0.00 4.16
191 192 2.098280 CAGATCGATCGACTCAACACCT 59.902 50.000 22.06 0.00 0.00 4.00
192 193 2.098280 AGATCGATCGACTCAACACCTG 59.902 50.000 22.06 0.00 0.00 4.00
193 194 1.530323 TCGATCGACTCAACACCTGA 58.470 50.000 15.15 0.00 0.00 3.86
194 195 1.883926 TCGATCGACTCAACACCTGAA 59.116 47.619 15.15 0.00 32.17 3.02
195 196 2.492088 TCGATCGACTCAACACCTGAAT 59.508 45.455 15.15 0.00 32.17 2.57
196 197 3.056821 TCGATCGACTCAACACCTGAATT 60.057 43.478 15.15 0.00 32.17 2.17
197 198 3.304559 CGATCGACTCAACACCTGAATTC 59.695 47.826 10.26 0.00 32.17 2.17
198 199 4.499183 GATCGACTCAACACCTGAATTCT 58.501 43.478 7.05 0.00 32.17 2.40
199 200 4.336889 TCGACTCAACACCTGAATTCTT 57.663 40.909 7.05 0.00 32.17 2.52
200 201 5.462530 TCGACTCAACACCTGAATTCTTA 57.537 39.130 7.05 0.00 32.17 2.10
201 202 5.849510 TCGACTCAACACCTGAATTCTTAA 58.150 37.500 7.05 0.00 32.17 1.85
202 203 5.926542 TCGACTCAACACCTGAATTCTTAAG 59.073 40.000 7.05 0.00 32.17 1.85
203 204 5.389935 CGACTCAACACCTGAATTCTTAAGC 60.390 44.000 7.05 0.00 32.17 3.09
204 205 5.376625 ACTCAACACCTGAATTCTTAAGCA 58.623 37.500 7.05 0.00 32.17 3.91
205 206 5.471456 ACTCAACACCTGAATTCTTAAGCAG 59.529 40.000 7.05 0.00 32.17 4.24
206 207 4.216257 TCAACACCTGAATTCTTAAGCAGC 59.784 41.667 7.05 0.00 0.00 5.25
207 208 3.754965 ACACCTGAATTCTTAAGCAGCA 58.245 40.909 7.05 0.00 0.00 4.41
208 209 3.503748 ACACCTGAATTCTTAAGCAGCAC 59.496 43.478 7.05 0.00 0.00 4.40
209 210 2.744202 ACCTGAATTCTTAAGCAGCACG 59.256 45.455 7.05 0.00 0.00 5.34
210 211 2.476854 CCTGAATTCTTAAGCAGCACGC 60.477 50.000 7.05 0.00 42.91 5.34
245 246 6.350949 CCCTACATTTACCCAAATCAACCAAG 60.351 42.308 0.00 0.00 31.82 3.61
246 247 5.482163 ACATTTACCCAAATCAACCAAGG 57.518 39.130 0.00 0.00 31.82 3.61
247 248 5.151454 ACATTTACCCAAATCAACCAAGGA 58.849 37.500 0.00 0.00 31.82 3.36
253 254 3.387699 CCCAAATCAACCAAGGAAACACT 59.612 43.478 0.00 0.00 0.00 3.55
265 328 4.078639 AGGAAACACTTGAACTCTCCTG 57.921 45.455 0.00 0.00 30.63 3.86
302 365 0.320374 TCCTCCGTGAACGCAAATCT 59.680 50.000 0.00 0.00 38.18 2.40
337 402 3.491267 CGAAATGAAGAGGATAAGCGGAC 59.509 47.826 0.00 0.00 0.00 4.79
341 406 1.001158 GAAGAGGATAAGCGGACCGAG 60.001 57.143 20.50 0.00 0.00 4.63
517 582 2.045926 GGCCTGATGTTGAGCCGT 60.046 61.111 0.00 0.00 35.30 5.68
553 618 0.323302 TGTAGAATGCCCACTTCGCA 59.677 50.000 0.00 0.00 41.28 5.10
570 635 3.474570 AGCCTGCACGGGATCCTC 61.475 66.667 12.58 0.55 0.00 3.71
606 671 0.908198 ATCGCCCAGAAGAGAAGCTT 59.092 50.000 0.00 0.00 40.25 3.74
670 736 1.904144 CGAAATTCGTGTAGCGGAGA 58.096 50.000 7.29 0.00 41.72 3.71
675 741 4.380841 AATTCGTGTAGCGGAGAATGTA 57.619 40.909 0.00 0.00 41.72 2.29
691 759 1.763968 TGTAGAGGTGGATGTCTCCG 58.236 55.000 0.00 0.00 45.37 4.63
750 819 1.745489 GCATTTCCCGTCGAGCCTT 60.745 57.895 0.00 0.00 0.00 4.35
804 874 2.286523 CCTCTGGAAGTGGGAGCGT 61.287 63.158 0.00 0.00 43.75 5.07
826 896 2.048127 GGCTCCGCAACTCGAGTT 60.048 61.111 24.93 24.93 41.67 3.01
951 1021 3.541713 GGAGAGGGCGAGCGGATT 61.542 66.667 0.00 0.00 0.00 3.01
952 1022 2.279784 GAGAGGGCGAGCGGATTG 60.280 66.667 0.00 0.00 0.00 2.67
953 1023 3.798954 GAGAGGGCGAGCGGATTGG 62.799 68.421 0.00 0.00 0.00 3.16
954 1024 4.918201 GAGGGCGAGCGGATTGGG 62.918 72.222 0.00 0.00 0.00 4.12
956 1026 4.256180 GGGCGAGCGGATTGGGAT 62.256 66.667 0.00 0.00 0.00 3.85
957 1027 2.203209 GGCGAGCGGATTGGGATT 60.203 61.111 0.00 0.00 0.00 3.01
958 1028 1.823899 GGCGAGCGGATTGGGATTT 60.824 57.895 0.00 0.00 0.00 2.17
959 1029 1.384222 GGCGAGCGGATTGGGATTTT 61.384 55.000 0.00 0.00 0.00 1.82
960 1030 0.455815 GCGAGCGGATTGGGATTTTT 59.544 50.000 0.00 0.00 0.00 1.94
961 1031 1.798813 GCGAGCGGATTGGGATTTTTG 60.799 52.381 0.00 0.00 0.00 2.44
962 1032 1.472480 CGAGCGGATTGGGATTTTTGT 59.528 47.619 0.00 0.00 0.00 2.83
963 1033 2.477863 CGAGCGGATTGGGATTTTTGTC 60.478 50.000 0.00 0.00 0.00 3.18
964 1034 2.755103 GAGCGGATTGGGATTTTTGTCT 59.245 45.455 0.00 0.00 0.00 3.41
965 1035 2.755103 AGCGGATTGGGATTTTTGTCTC 59.245 45.455 0.00 0.00 0.00 3.36
966 1036 2.491693 GCGGATTGGGATTTTTGTCTCA 59.508 45.455 0.00 0.00 0.00 3.27
967 1037 3.673323 GCGGATTGGGATTTTTGTCTCAC 60.673 47.826 0.00 0.00 0.00 3.51
968 1038 3.758554 CGGATTGGGATTTTTGTCTCACT 59.241 43.478 0.00 0.00 0.00 3.41
969 1039 4.218417 CGGATTGGGATTTTTGTCTCACTT 59.782 41.667 0.00 0.00 0.00 3.16
970 1040 5.278957 CGGATTGGGATTTTTGTCTCACTTT 60.279 40.000 0.00 0.00 0.00 2.66
971 1041 5.928264 GGATTGGGATTTTTGTCTCACTTTG 59.072 40.000 0.00 0.00 0.00 2.77
972 1042 4.320608 TGGGATTTTTGTCTCACTTTGC 57.679 40.909 0.00 0.00 0.00 3.68
973 1043 3.960102 TGGGATTTTTGTCTCACTTTGCT 59.040 39.130 0.00 0.00 0.00 3.91
974 1044 4.037923 TGGGATTTTTGTCTCACTTTGCTC 59.962 41.667 0.00 0.00 0.00 4.26
975 1045 4.279420 GGGATTTTTGTCTCACTTTGCTCT 59.721 41.667 0.00 0.00 0.00 4.09
976 1046 5.456265 GGATTTTTGTCTCACTTTGCTCTC 58.544 41.667 0.00 0.00 0.00 3.20
977 1047 4.536364 TTTTTGTCTCACTTTGCTCTCG 57.464 40.909 0.00 0.00 0.00 4.04
978 1048 2.890808 TTGTCTCACTTTGCTCTCGT 57.109 45.000 0.00 0.00 0.00 4.18
979 1049 2.423926 TGTCTCACTTTGCTCTCGTC 57.576 50.000 0.00 0.00 0.00 4.20
980 1050 1.332178 GTCTCACTTTGCTCTCGTCG 58.668 55.000 0.00 0.00 0.00 5.12
981 1051 0.387367 TCTCACTTTGCTCTCGTCGC 60.387 55.000 0.00 0.00 0.00 5.19
982 1052 1.347817 CTCACTTTGCTCTCGTCGCC 61.348 60.000 0.00 0.00 0.00 5.54
983 1053 2.048127 ACTTTGCTCTCGTCGCCC 60.048 61.111 0.00 0.00 0.00 6.13
984 1054 2.815647 CTTTGCTCTCGTCGCCCC 60.816 66.667 0.00 0.00 0.00 5.80
985 1055 4.735132 TTTGCTCTCGTCGCCCCG 62.735 66.667 0.00 0.00 0.00 5.73
1001 1071 4.089757 CGAGGAAGGGGGAGGGGA 62.090 72.222 0.00 0.00 0.00 4.81
1002 1072 2.459710 GAGGAAGGGGGAGGGGAA 59.540 66.667 0.00 0.00 0.00 3.97
1003 1073 1.694525 GAGGAAGGGGGAGGGGAAG 60.695 68.421 0.00 0.00 0.00 3.46
1004 1074 2.191846 AGGAAGGGGGAGGGGAAGA 61.192 63.158 0.00 0.00 0.00 2.87
1005 1075 1.694525 GGAAGGGGGAGGGGAAGAG 60.695 68.421 0.00 0.00 0.00 2.85
1006 1076 1.396594 GAAGGGGGAGGGGAAGAGA 59.603 63.158 0.00 0.00 0.00 3.10
1007 1077 0.692756 GAAGGGGGAGGGGAAGAGAG 60.693 65.000 0.00 0.00 0.00 3.20
1008 1078 1.162951 AAGGGGGAGGGGAAGAGAGA 61.163 60.000 0.00 0.00 0.00 3.10
1009 1079 1.383386 GGGGGAGGGGAAGAGAGAC 60.383 68.421 0.00 0.00 0.00 3.36
1010 1080 1.392534 GGGGAGGGGAAGAGAGACA 59.607 63.158 0.00 0.00 0.00 3.41
1011 1081 0.978667 GGGGAGGGGAAGAGAGACAC 60.979 65.000 0.00 0.00 0.00 3.67
1012 1082 1.324005 GGGAGGGGAAGAGAGACACG 61.324 65.000 0.00 0.00 0.00 4.49
1013 1083 1.513622 GAGGGGAAGAGAGACACGC 59.486 63.158 0.00 0.00 0.00 5.34
1014 1084 1.950973 GAGGGGAAGAGAGACACGCC 61.951 65.000 0.00 0.00 35.95 5.68
1015 1085 2.283529 GGGGAAGAGAGACACGCCA 61.284 63.158 0.00 0.00 35.81 5.69
1016 1086 1.617947 GGGGAAGAGAGACACGCCAT 61.618 60.000 0.00 0.00 35.81 4.40
1017 1087 0.179097 GGGAAGAGAGACACGCCATC 60.179 60.000 0.00 0.00 0.00 3.51
1018 1088 0.532573 GGAAGAGAGACACGCCATCA 59.467 55.000 0.00 0.00 0.00 3.07
1019 1089 1.137872 GGAAGAGAGACACGCCATCAT 59.862 52.381 0.00 0.00 0.00 2.45
1064 1134 1.811359 CTCTCTTTTGCTTCAGCTGGG 59.189 52.381 15.13 8.53 42.66 4.45
1072 1142 0.668535 GCTTCAGCTGGGTTCGTTTT 59.331 50.000 15.13 0.00 38.21 2.43
1155 1225 4.309347 CGATCGCCGGACGTCGAT 62.309 66.667 23.78 19.82 46.62 3.59
1159 1229 3.872728 CGCCGGACGTCGATGAGA 61.873 66.667 12.58 0.00 42.43 3.27
1567 1895 4.424566 GCGGTGTTCTACGCGGGA 62.425 66.667 12.47 5.36 46.58 5.14
1714 2045 2.678580 TCCATCGTCGTGGGCTCA 60.679 61.111 12.09 0.00 39.80 4.26
1820 2151 3.691342 CCGTCGCCCTGTTCCTCA 61.691 66.667 0.00 0.00 0.00 3.86
1828 2159 2.743718 CTGTTCCTCACCGGCACT 59.256 61.111 0.00 0.00 29.46 4.40
1888 2219 3.706373 ACCAGGATCGCGCAGGTT 61.706 61.111 8.75 0.00 0.00 3.50
2201 2946 2.497675 TCATCCACTCTTCACAGTAGCC 59.502 50.000 0.00 0.00 0.00 3.93
2286 3746 6.349860 CAGATTTGCTGATGAGAATCACCAAA 60.350 38.462 10.14 10.14 38.89 3.28
2287 3747 8.102217 CAGATTTGCTGATGAGAATCACCAAAG 61.102 40.741 12.29 0.56 38.89 2.77
2374 3890 3.954904 TCCTAGATGAGAGTTAGCCACAC 59.045 47.826 0.00 0.00 0.00 3.82
2375 3891 3.957497 CCTAGATGAGAGTTAGCCACACT 59.043 47.826 0.00 0.00 0.00 3.55
2376 3892 4.404073 CCTAGATGAGAGTTAGCCACACTT 59.596 45.833 0.00 0.00 0.00 3.16
2377 3893 4.899352 AGATGAGAGTTAGCCACACTTT 57.101 40.909 0.00 0.00 0.00 2.66
2378 3894 5.234466 AGATGAGAGTTAGCCACACTTTT 57.766 39.130 0.00 0.00 0.00 2.27
2419 3935 2.439156 GATGCTCCCCACTGCCAC 60.439 66.667 0.00 0.00 0.00 5.01
2501 4032 2.176369 CCATGAATTTTAGCACGCACG 58.824 47.619 0.00 0.00 0.00 5.34
2506 4037 0.515564 ATTTTAGCACGCACGTCACC 59.484 50.000 0.00 0.00 0.00 4.02
2522 4053 5.446031 CGTCACCCGTTTAAGTATCTTTC 57.554 43.478 0.00 0.00 0.00 2.62
2578 4110 3.631686 CCTTCGATCCACATTAATTGCCA 59.368 43.478 0.00 0.00 0.00 4.92
2736 4269 9.364989 TCTTTTAGGTGATGTTTTTGTTTTCTG 57.635 29.630 0.00 0.00 0.00 3.02
2743 4276 7.095017 GGTGATGTTTTTGTTTTCTGGTTTCAA 60.095 33.333 0.00 0.00 0.00 2.69
2785 4318 4.078516 CGACCCCCTTCACCCGTC 62.079 72.222 0.00 0.00 0.00 4.79
2803 4336 2.551912 CGTTGTCAACAGGCCCACC 61.552 63.158 15.79 0.00 0.00 4.61
2843 4381 2.933878 TTTGCCACGCGGACAACTCT 62.934 55.000 12.47 0.00 30.96 3.24
2875 4413 1.739608 AATCCAAGCCACCACCCCTT 61.740 55.000 0.00 0.00 0.00 3.95
2876 4414 1.739608 ATCCAAGCCACCACCCCTTT 61.740 55.000 0.00 0.00 0.00 3.11
2942 4480 6.880942 AATTGATTTGGACCCAAACAAATG 57.119 33.333 21.47 0.00 46.80 2.32
3057 5251 4.111375 TCTAAGAGCAACGAACCTCATC 57.889 45.455 0.00 0.00 0.00 2.92
3114 5309 5.531122 AAATGCTAGAATCGGTGCTAGTA 57.469 39.130 12.46 8.31 37.13 1.82
3123 5318 1.677576 TCGGTGCTAGTATACAACCCG 59.322 52.381 5.50 8.99 35.63 5.28
3346 5542 5.425217 TGCTTAGAATAGGACCAATGAGTGA 59.575 40.000 0.00 0.00 0.00 3.41
3348 5544 6.823689 GCTTAGAATAGGACCAATGAGTGAAA 59.176 38.462 0.00 0.00 0.00 2.69
3353 5549 4.494091 AGGACCAATGAGTGAAATCGAT 57.506 40.909 0.00 0.00 0.00 3.59
3354 5550 4.848357 AGGACCAATGAGTGAAATCGATT 58.152 39.130 4.39 4.39 0.00 3.34
3355 5551 5.256474 AGGACCAATGAGTGAAATCGATTT 58.744 37.500 22.93 22.93 0.00 2.17
3356 5552 5.711976 AGGACCAATGAGTGAAATCGATTTT 59.288 36.000 23.49 8.98 0.00 1.82
3357 5553 6.209391 AGGACCAATGAGTGAAATCGATTTTT 59.791 34.615 23.49 12.87 0.00 1.94
3358 5554 7.393234 AGGACCAATGAGTGAAATCGATTTTTA 59.607 33.333 23.49 13.55 0.00 1.52
3359 5555 8.026607 GGACCAATGAGTGAAATCGATTTTTAA 58.973 33.333 23.49 10.64 0.00 1.52
3360 5556 9.573133 GACCAATGAGTGAAATCGATTTTTAAT 57.427 29.630 23.49 15.07 0.00 1.40
3399 5595 6.752335 TTTTTGAAATGAGCGAAACATCTG 57.248 33.333 0.00 0.00 0.00 2.90
3400 5596 5.437289 TTTGAAATGAGCGAAACATCTGT 57.563 34.783 0.00 0.00 0.00 3.41
3401 5597 6.552859 TTTGAAATGAGCGAAACATCTGTA 57.447 33.333 0.00 0.00 0.00 2.74
3402 5598 6.741992 TTGAAATGAGCGAAACATCTGTAT 57.258 33.333 0.00 0.00 0.00 2.29
3403 5599 6.741992 TGAAATGAGCGAAACATCTGTATT 57.258 33.333 0.00 0.00 0.00 1.89
3404 5600 6.775088 TGAAATGAGCGAAACATCTGTATTC 58.225 36.000 0.00 0.00 0.00 1.75
3405 5601 5.395325 AATGAGCGAAACATCTGTATTCG 57.605 39.130 16.29 16.29 46.36 3.34
3406 5602 4.104696 TGAGCGAAACATCTGTATTCGA 57.895 40.909 20.98 0.00 46.50 3.71
3407 5603 4.490743 TGAGCGAAACATCTGTATTCGAA 58.509 39.130 20.98 0.00 46.50 3.71
3429 5625 6.037830 CGAAAAGGAGTGAAGGTTTTAGTGAA 59.962 38.462 0.00 0.00 0.00 3.18
3436 5632 8.360390 GGAGTGAAGGTTTTAGTGAAATTGATT 58.640 33.333 0.00 0.00 0.00 2.57
3450 5646 7.650903 AGTGAAATTGATTTGTTTCAGAAGAGC 59.349 33.333 1.19 0.00 42.91 4.09
3453 5649 5.947228 TTGATTTGTTTCAGAAGAGCGAT 57.053 34.783 0.00 0.00 0.00 4.58
3454 5650 5.947228 TGATTTGTTTCAGAAGAGCGATT 57.053 34.783 0.00 0.00 0.00 3.34
3514 5711 3.769844 ACTACTGAACGGGATGAACTCAT 59.230 43.478 0.00 0.00 39.70 2.90
3516 5713 3.600388 ACTGAACGGGATGAACTCATTC 58.400 45.455 0.00 0.00 36.57 2.67
3541 5738 5.899631 TTTTAAGTGGTGGAGTCTTACCT 57.100 39.130 15.12 2.23 37.84 3.08
3557 5754 8.152023 AGTCTTACCTGGAATAAGTGAAATCT 57.848 34.615 0.00 0.00 32.46 2.40
3622 5820 6.889301 ATGGATGAACTGAATAATTGCGAT 57.111 33.333 0.00 0.00 0.00 4.58
3623 5821 6.698008 TGGATGAACTGAATAATTGCGATT 57.302 33.333 4.21 4.21 0.00 3.34
3624 5822 7.099266 TGGATGAACTGAATAATTGCGATTT 57.901 32.000 4.06 0.00 0.00 2.17
3625 5823 7.546358 TGGATGAACTGAATAATTGCGATTTT 58.454 30.769 4.06 0.00 0.00 1.82
3697 5898 7.961351 TGGTTTGAAATAATTGAAGTGGATGT 58.039 30.769 0.00 0.00 0.00 3.06
4178 6868 9.120538 TGAAATAGGTCTACAATAATTGGAAGC 57.879 33.333 0.00 0.00 34.12 3.86
4179 6869 9.120538 GAAATAGGTCTACAATAATTGGAAGCA 57.879 33.333 0.00 0.00 34.12 3.91
4180 6870 8.682936 AATAGGTCTACAATAATTGGAAGCAG 57.317 34.615 0.00 0.00 34.12 4.24
4181 6871 6.067217 AGGTCTACAATAATTGGAAGCAGT 57.933 37.500 0.00 0.00 34.12 4.40
4182 6872 6.485171 AGGTCTACAATAATTGGAAGCAGTT 58.515 36.000 0.00 0.00 34.12 3.16
4183 6873 6.948309 AGGTCTACAATAATTGGAAGCAGTTT 59.052 34.615 0.00 0.00 34.12 2.66
4184 6874 7.451566 AGGTCTACAATAATTGGAAGCAGTTTT 59.548 33.333 0.00 0.00 34.12 2.43
4185 6875 8.088365 GGTCTACAATAATTGGAAGCAGTTTTT 58.912 33.333 0.00 0.00 34.12 1.94
4186 6876 8.915654 GTCTACAATAATTGGAAGCAGTTTTTG 58.084 33.333 0.00 0.00 34.12 2.44
4187 6877 8.855110 TCTACAATAATTGGAAGCAGTTTTTGA 58.145 29.630 0.00 0.00 34.12 2.69
4188 6878 9.474920 CTACAATAATTGGAAGCAGTTTTTGAA 57.525 29.630 0.00 0.00 34.12 2.69
4189 6879 8.729805 ACAATAATTGGAAGCAGTTTTTGAAA 57.270 26.923 0.00 0.00 34.12 2.69
4190 6880 9.171877 ACAATAATTGGAAGCAGTTTTTGAAAA 57.828 25.926 0.00 0.00 34.12 2.29
4266 6965 8.315391 TCATTCTTGAACTGAGTGAAATAGTG 57.685 34.615 0.00 0.00 29.40 2.74
4366 7065 8.997323 TCAAGTGACAAAAATGTTTTCAAATGT 58.003 25.926 0.00 0.00 0.00 2.71
4367 7066 9.609950 CAAGTGACAAAAATGTTTTCAAATGTT 57.390 25.926 0.00 0.00 0.00 2.71
4391 7090 2.481185 TGAATAAGTCGGTTGAAACGGC 59.519 45.455 0.00 0.00 35.94 5.68
4407 7106 6.513180 TGAAACGGCCAAATTTAAACATGTA 58.487 32.000 2.24 0.00 0.00 2.29
4459 7158 0.955428 GTCTTGGCGCCATGAGTTCA 60.955 55.000 37.19 18.78 32.06 3.18
4576 7289 3.689649 GTGTGAGAGAAGAGAGAGAGGAC 59.310 52.174 0.00 0.00 0.00 3.85
4577 7290 3.329225 TGTGAGAGAAGAGAGAGAGGACA 59.671 47.826 0.00 0.00 0.00 4.02
4578 7291 3.941483 GTGAGAGAAGAGAGAGAGGACAG 59.059 52.174 0.00 0.00 0.00 3.51
4579 7292 3.843619 TGAGAGAAGAGAGAGAGGACAGA 59.156 47.826 0.00 0.00 0.00 3.41
4580 7293 4.080919 TGAGAGAAGAGAGAGAGGACAGAG 60.081 50.000 0.00 0.00 0.00 3.35
4581 7294 4.104086 AGAGAAGAGAGAGAGGACAGAGA 58.896 47.826 0.00 0.00 0.00 3.10
4586 7299 3.723681 AGAGAGAGAGGACAGAGATGGAT 59.276 47.826 0.00 0.00 0.00 3.41
4587 7300 4.168675 AGAGAGAGAGGACAGAGATGGATT 59.831 45.833 0.00 0.00 0.00 3.01
4590 7303 5.363580 AGAGAGAGGACAGAGATGGATTTTC 59.636 44.000 0.00 0.00 0.00 2.29
4591 7304 4.099266 AGAGAGGACAGAGATGGATTTTCG 59.901 45.833 0.00 0.00 0.00 3.46
4616 7386 3.193903 TGTCACATTCCTTCATTGCATGG 59.806 43.478 0.00 0.00 0.00 3.66
4632 7409 5.187621 TGCATGGATGTGGATGATATCAT 57.812 39.130 18.21 18.21 39.70 2.45
4643 7420 3.560025 GGATGATATCATGTGGTGGGTCC 60.560 52.174 22.86 11.20 36.57 4.46
4697 7498 6.311445 CGTGAGAAAACAATGCTACTCTACAT 59.689 38.462 0.00 0.00 0.00 2.29
4699 7500 7.118390 GTGAGAAAACAATGCTACTCTACATGT 59.882 37.037 2.69 2.69 0.00 3.21
4700 7501 7.661437 TGAGAAAACAATGCTACTCTACATGTT 59.339 33.333 2.30 0.00 0.00 2.71
4707 7508 9.319143 ACAATGCTACTCTACATGTTTTATCTC 57.681 33.333 2.30 0.00 0.00 2.75
4708 7509 8.483218 CAATGCTACTCTACATGTTTTATCTCG 58.517 37.037 2.30 0.00 0.00 4.04
4709 7510 5.977725 TGCTACTCTACATGTTTTATCTCGC 59.022 40.000 2.30 0.00 0.00 5.03
4765 7616 4.323477 GTGTGGTGGCGCAGGGTA 62.323 66.667 10.83 0.00 0.00 3.69
4770 7621 0.548989 TGGTGGCGCAGGGTAATTAT 59.451 50.000 10.83 0.00 0.00 1.28
4772 7623 1.202770 GGTGGCGCAGGGTAATTATCT 60.203 52.381 10.83 0.00 0.00 1.98
4775 7626 2.289444 TGGCGCAGGGTAATTATCTAGC 60.289 50.000 10.83 0.00 0.00 3.42
4776 7627 1.993370 GCGCAGGGTAATTATCTAGCG 59.007 52.381 22.29 22.29 45.89 4.26
4777 7628 1.993370 CGCAGGGTAATTATCTAGCGC 59.007 52.381 17.61 0.00 37.43 5.92
4778 7629 1.993370 GCAGGGTAATTATCTAGCGCG 59.007 52.381 0.00 0.00 0.00 6.86
4779 7630 2.607187 CAGGGTAATTATCTAGCGCGG 58.393 52.381 8.83 0.00 0.00 6.46
4832 7683 5.888724 TCACTTTGTGTCTCCAACCAAATTA 59.111 36.000 0.00 0.00 34.79 1.40
4879 7730 0.770557 TGTGGGGTCCAAACTAGCCT 60.771 55.000 0.00 0.00 34.18 4.58
4882 7733 2.241430 GTGGGGTCCAAACTAGCCTAAT 59.759 50.000 0.00 0.00 34.18 1.73
4884 7735 4.080186 GTGGGGTCCAAACTAGCCTAATTA 60.080 45.833 0.00 0.00 34.18 1.40
4885 7736 4.080186 TGGGGTCCAAACTAGCCTAATTAC 60.080 45.833 0.00 0.00 34.83 1.89
4897 7748 3.389656 AGCCTAATTACTGAGAGGGAAGC 59.610 47.826 0.00 0.00 0.00 3.86
4900 7751 4.407296 CCTAATTACTGAGAGGGAAGCACT 59.593 45.833 0.00 0.00 0.00 4.40
4915 7766 9.174166 GAGGGAAGCACTTAGTGAATAAATAAA 57.826 33.333 17.40 0.00 35.23 1.40
4966 9221 5.806955 ACTTCCCCATCCCAAATTACTTA 57.193 39.130 0.00 0.00 0.00 2.24
4971 9226 7.715267 TCCCCATCCCAAATTACTTATCTTA 57.285 36.000 0.00 0.00 0.00 2.10
5000 9320 0.611200 TCAAAATTCCGGGCTCGAGA 59.389 50.000 18.75 0.00 39.00 4.04
5003 9323 0.323629 AAATTCCGGGCTCGAGACAA 59.676 50.000 22.31 6.26 39.00 3.18
5125 9446 3.733443 ACGCAGATGCTCATACATACA 57.267 42.857 2.95 0.00 39.32 2.29
5140 9461 7.836842 TCATACATACACACATACACTCAACT 58.163 34.615 0.00 0.00 0.00 3.16
5150 9471 6.654582 ACACATACACTCAACTATGAATGCAA 59.345 34.615 0.00 0.00 36.26 4.08
5156 9477 4.870426 ACTCAACTATGAATGCAAGTACGG 59.130 41.667 0.00 0.00 34.49 4.02
5161 9482 2.831685 TGAATGCAAGTACGGACACT 57.168 45.000 0.00 0.00 0.00 3.55
5163 9484 1.654105 GAATGCAAGTACGGACACTCG 59.346 52.381 0.00 0.00 0.00 4.18
5164 9485 0.736325 ATGCAAGTACGGACACTCGC 60.736 55.000 0.00 0.00 0.00 5.03
5166 9487 1.800315 CAAGTACGGACACTCGCGG 60.800 63.158 6.13 0.00 0.00 6.46
5168 9489 1.919956 AAGTACGGACACTCGCGGAG 61.920 60.000 6.13 5.03 35.52 4.63
5183 9504 3.944476 GGAGCTATATGCACCCCTG 57.056 57.895 0.00 0.00 45.00 4.45
5184 9505 0.322008 GGAGCTATATGCACCCCTGC 60.322 60.000 0.00 0.00 45.00 4.85
5218 9539 3.173151 CCCCCTCCTTTGCAAATTTAGT 58.827 45.455 13.23 0.00 0.00 2.24
5219 9540 3.055891 CCCCCTCCTTTGCAAATTTAGTG 60.056 47.826 13.23 0.00 0.00 2.74
5220 9541 3.831911 CCCCTCCTTTGCAAATTTAGTGA 59.168 43.478 13.23 2.47 0.00 3.41
5221 9542 4.283212 CCCCTCCTTTGCAAATTTAGTGAA 59.717 41.667 13.23 0.00 0.00 3.18
5222 9543 5.473039 CCCTCCTTTGCAAATTTAGTGAAG 58.527 41.667 13.23 0.00 0.00 3.02
5223 9544 5.243730 CCCTCCTTTGCAAATTTAGTGAAGA 59.756 40.000 13.23 0.00 0.00 2.87
5224 9545 6.071165 CCCTCCTTTGCAAATTTAGTGAAGAT 60.071 38.462 13.23 0.00 0.00 2.40
5225 9546 7.381323 CCTCCTTTGCAAATTTAGTGAAGATT 58.619 34.615 13.23 0.00 0.00 2.40
5226 9547 7.330208 CCTCCTTTGCAAATTTAGTGAAGATTG 59.670 37.037 13.23 0.00 0.00 2.67
5228 9549 8.203485 TCCTTTGCAAATTTAGTGAAGATTGTT 58.797 29.630 13.23 0.00 0.00 2.83
5233 9554 9.809096 TGCAAATTTAGTGAAGATTGTTTTACA 57.191 25.926 0.00 0.00 0.00 2.41
5242 9563 9.566432 AGTGAAGATTGTTTTACAGAGAGATTT 57.434 29.630 0.00 0.00 0.00 2.17
5626 9947 6.173339 AGATTGATAAAATCACCACAGACGT 58.827 36.000 0.00 0.00 39.39 4.34
5650 9971 1.080354 TCCATGGGGACGTCTCCTT 59.920 57.895 33.64 25.54 38.64 3.36
5663 9984 4.282496 ACGTCTCCTTCAACTCATATCCT 58.718 43.478 0.00 0.00 0.00 3.24
5664 9985 4.712337 ACGTCTCCTTCAACTCATATCCTT 59.288 41.667 0.00 0.00 0.00 3.36
5690 10011 2.165030 AGCCTGAATCCAGAAAAATGCG 59.835 45.455 0.00 0.00 43.02 4.73
5692 10013 3.181483 GCCTGAATCCAGAAAAATGCGAT 60.181 43.478 0.00 0.00 43.02 4.58
5721 10042 6.757173 AGTCTAGGACTTAGAGCATCTCTA 57.243 41.667 0.00 0.00 40.21 2.43
5722 10043 6.769512 AGTCTAGGACTTAGAGCATCTCTAG 58.230 44.000 0.00 0.00 40.21 2.43
5724 10045 9.058004 AGTCTAGGACTTAGAGCATCTCTAGCA 62.058 44.444 0.00 0.00 40.21 3.49
5731 10052 1.112315 AGCATCTCTAGCAGACCCCG 61.112 60.000 0.00 0.00 32.26 5.73
5733 10054 1.075970 ATCTCTAGCAGACCCCGCA 60.076 57.895 0.00 0.00 32.26 5.69
5734 10055 0.470833 ATCTCTAGCAGACCCCGCAT 60.471 55.000 0.00 0.00 32.26 4.73
5735 10056 1.109920 TCTCTAGCAGACCCCGCATC 61.110 60.000 0.00 0.00 0.00 3.91
5736 10057 2.093537 CTCTAGCAGACCCCGCATCC 62.094 65.000 0.00 0.00 0.00 3.51
5737 10058 3.161450 TAGCAGACCCCGCATCCC 61.161 66.667 0.00 0.00 0.00 3.85
5756 10077 3.679738 CCGGCCCACAAAACGCAT 61.680 61.111 0.00 0.00 0.00 4.73
5767 10088 2.613164 CAAAACGCATTTGTTGTTCGC 58.387 42.857 6.20 0.00 42.84 4.70
5773 10094 3.561155 GCATTTGTTGTTCGCGAAAAA 57.439 38.095 25.24 22.61 0.00 1.94
5774 10095 3.268498 GCATTTGTTGTTCGCGAAAAAC 58.732 40.909 36.66 36.66 38.64 2.43
5775 10096 3.508133 CATTTGTTGTTCGCGAAAAACG 58.492 40.909 36.53 24.48 40.52 3.60
5776 10097 1.536149 TTGTTGTTCGCGAAAAACGG 58.464 45.000 36.53 0.00 40.52 4.44
5777 10098 0.447011 TGTTGTTCGCGAAAAACGGT 59.553 45.000 36.53 0.00 40.52 4.83
5780 10101 2.259505 TGTTCGCGAAAAACGGTTTT 57.740 40.000 25.24 11.76 42.83 2.43
5781 10102 3.395858 TGTTCGCGAAAAACGGTTTTA 57.604 38.095 25.24 0.73 42.83 1.52
5783 10104 2.002503 TCGCGAAAAACGGTTTTACG 57.997 45.000 21.30 21.30 42.83 3.18
5786 10107 2.036217 GCGAAAAACGGTTTTACGGAC 58.964 47.619 22.61 8.00 42.83 4.79
5789 10110 0.943673 AAAACGGTTTTACGGACCCG 59.056 50.000 16.71 6.94 45.72 5.28
5790 10111 0.884259 AAACGGTTTTACGGACCCGG 60.884 55.000 13.43 0.00 44.57 5.73
5793 10114 2.046023 GTTTTACGGACCCGGGGG 60.046 66.667 27.92 16.32 44.69 5.40
5823 10144 1.075374 CTGAAATGTCCTCCCCACCAA 59.925 52.381 0.00 0.00 0.00 3.67
5826 10147 2.137177 AATGTCCTCCCCACCAACCG 62.137 60.000 0.00 0.00 0.00 4.44
5827 10148 4.717313 GTCCTCCCCACCAACCGC 62.717 72.222 0.00 0.00 0.00 5.68
5830 10151 3.322466 CTCCCCACCAACCGCTCT 61.322 66.667 0.00 0.00 0.00 4.09
5832 10153 4.760047 CCCCACCAACCGCTCTCG 62.760 72.222 0.00 0.00 0.00 4.04
5834 10155 4.379243 CCACCAACCGCTCTCGCT 62.379 66.667 0.00 0.00 0.00 4.93
5835 10156 2.571757 CACCAACCGCTCTCGCTA 59.428 61.111 0.00 0.00 0.00 4.26
5837 10158 0.384309 CACCAACCGCTCTCGCTATA 59.616 55.000 0.00 0.00 0.00 1.31
5838 10159 1.000163 CACCAACCGCTCTCGCTATAT 60.000 52.381 0.00 0.00 0.00 0.86
5839 10160 1.000163 ACCAACCGCTCTCGCTATATG 60.000 52.381 0.00 0.00 0.00 1.78
5840 10161 1.063806 CAACCGCTCTCGCTATATGC 58.936 55.000 0.00 0.00 38.57 3.14
5843 10164 0.457509 CCGCTCTCGCTATATGCAGG 60.458 60.000 0.00 0.00 43.06 4.85
5844 10165 0.457509 CGCTCTCGCTATATGCAGGG 60.458 60.000 0.00 0.00 43.06 4.45
5845 10166 0.739112 GCTCTCGCTATATGCAGGGC 60.739 60.000 0.00 0.00 43.06 5.19
5847 10168 0.318441 TCTCGCTATATGCAGGGCAC 59.682 55.000 0.00 0.00 43.04 5.01
5848 10169 0.671781 CTCGCTATATGCAGGGCACC 60.672 60.000 0.00 0.00 43.04 5.01
5849 10170 2.029288 CGCTATATGCAGGGCACCG 61.029 63.158 0.00 0.00 45.91 4.94
5850 10171 2.434658 CGCTATATGCAGGGCACCGA 62.435 60.000 0.00 0.00 45.91 4.69
5911 10589 5.996513 AGGAATTAGATGTGCAATAGCTCAG 59.003 40.000 0.00 0.00 46.12 3.35
5931 10609 1.668101 GGTGTGCAAAACCCAACCGA 61.668 55.000 8.38 0.00 38.76 4.69
5972 10650 0.673437 AGCCAAACCGAACCAACATG 59.327 50.000 0.00 0.00 0.00 3.21
6007 10685 4.081697 AGGTTTTGGGTTCAGTTTCAGTTG 60.082 41.667 0.00 0.00 0.00 3.16
6153 10842 4.944317 ACTTTCTAGCCCATTTAGTGCTTC 59.056 41.667 0.00 0.00 36.57 3.86
6162 10851 4.271687 CCATTTAGTGCTTCGATTTACGC 58.728 43.478 0.00 0.00 42.26 4.42
6169 10858 1.792949 GCTTCGATTTACGCGATCCAT 59.207 47.619 15.93 0.00 42.26 3.41
6190 10879 8.491045 TCCATTGTTCCTTCTTTATCCTTTTT 57.509 30.769 0.00 0.00 0.00 1.94
6287 10976 5.357314 TCCACGTCAACTTTGGTTAATTTGA 59.643 36.000 0.00 0.00 34.26 2.69
6340 11294 7.008440 GGTTATTACCAAAACCGTATGTCTC 57.992 40.000 0.00 0.00 44.36 3.36
6343 11297 1.003928 ACCAAAACCGTATGTCTCCCC 59.996 52.381 0.00 0.00 0.00 4.81
6347 11301 1.851304 AACCGTATGTCTCCCCGTAA 58.149 50.000 0.00 0.00 0.00 3.18
6352 11306 2.931969 CGTATGTCTCCCCGTAAAAACC 59.068 50.000 0.00 0.00 0.00 3.27
6354 11308 3.512219 ATGTCTCCCCGTAAAAACCAA 57.488 42.857 0.00 0.00 0.00 3.67
6365 11319 8.868103 TCCCCGTAAAAACCAAAGTATAAAAAT 58.132 29.630 0.00 0.00 0.00 1.82
6391 11346 4.568152 AAACCGAACTGAATCAAACTGG 57.432 40.909 0.00 0.00 0.00 4.00
6393 11348 3.815809 ACCGAACTGAATCAAACTGGAA 58.184 40.909 0.00 0.00 0.00 3.53
6394 11349 4.204012 ACCGAACTGAATCAAACTGGAAA 58.796 39.130 0.00 0.00 0.00 3.13
6395 11350 4.642885 ACCGAACTGAATCAAACTGGAAAA 59.357 37.500 0.00 0.00 0.00 2.29
6396 11351 5.126384 ACCGAACTGAATCAAACTGGAAAAA 59.874 36.000 0.00 0.00 0.00 1.94
6435 11390 3.983988 CGCGAGCAATAACACATCTAGAT 59.016 43.478 0.00 0.00 0.00 1.98
6436 11391 5.154222 CGCGAGCAATAACACATCTAGATA 58.846 41.667 4.54 0.00 0.00 1.98
6487 12279 2.642249 TACACGATCGAAGCGGCGAG 62.642 60.000 24.34 0.00 44.26 5.03
6982 12783 1.370051 CACACTCGAAGTCGCACGA 60.370 57.895 0.00 0.00 39.60 4.35
7105 12909 1.890510 GGCGGAGGTGTTCACGTTT 60.891 57.895 0.00 0.00 0.00 3.60
7141 12945 0.975556 TCTTCTATGACCAGGCGCCA 60.976 55.000 31.54 7.75 0.00 5.69
7416 13248 1.227263 GGCGATCACTGTGCCGTAT 60.227 57.895 18.35 2.61 39.30 3.06
7433 13266 3.383825 CCGTATGTGCTAGGGTACTTCTT 59.616 47.826 0.00 0.00 31.84 2.52
7475 13308 0.517316 GGAAAGCTACCTGTGTTGCG 59.483 55.000 0.00 0.00 46.05 4.85
7533 13366 8.833231 TTCAGAATCGTTGATCTAGAAAAAGT 57.167 30.769 0.00 0.00 0.00 2.66
7542 13658 5.538118 TGATCTAGAAAAAGTTCGTCAGCA 58.462 37.500 0.00 0.00 38.90 4.41
7633 13754 1.627864 TGCCTAAAAGCAAGGGGAAC 58.372 50.000 0.00 0.00 40.56 3.62
7634 13755 1.146982 TGCCTAAAAGCAAGGGGAACT 59.853 47.619 0.00 0.00 40.56 3.01
7675 14396 5.573146 GCGAGCATGCTTTTTACTCTTTAT 58.427 37.500 23.61 0.00 0.00 1.40
7676 14397 6.030228 GCGAGCATGCTTTTTACTCTTTATT 58.970 36.000 23.61 0.00 0.00 1.40
7677 14398 7.186804 GCGAGCATGCTTTTTACTCTTTATTA 58.813 34.615 23.61 0.00 0.00 0.98
7972 14701 5.862924 AGGAATTGTTCACTGTGTATTCG 57.137 39.130 7.79 0.00 0.00 3.34
7977 14706 7.646130 GGAATTGTTCACTGTGTATTCGAAAAA 59.354 33.333 0.00 0.00 0.00 1.94
8176 15436 2.015587 GAACAAACCACAACCCGTACA 58.984 47.619 0.00 0.00 0.00 2.90
8208 15494 2.031163 GTCCACCTCGCTTGCAGT 59.969 61.111 0.00 0.00 0.00 4.40
8225 15511 1.691976 CAGTAATCGATGGGCTGGGTA 59.308 52.381 0.00 0.00 0.00 3.69
8324 17405 9.787435 TCAGTTGAACATAAACATATATACCCC 57.213 33.333 0.00 0.00 0.00 4.95
8325 17406 9.793259 CAGTTGAACATAAACATATATACCCCT 57.207 33.333 0.00 0.00 0.00 4.79
8456 17564 6.962311 AGATGGGAGGACTGCTATGATTATTA 59.038 38.462 0.00 0.00 0.00 0.98
8457 17565 6.611613 TGGGAGGACTGCTATGATTATTAG 57.388 41.667 0.00 0.00 0.00 1.73
8524 17634 1.131883 CAGGAATTCGCTTGCTCTTGG 59.868 52.381 0.00 0.00 32.45 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 2.753452 CCACGTTCTCTGCCTAACTAGA 59.247 50.000 0.00 0.00 0.00 2.43
16 17 1.339097 ACCACGTTCTCTGCCTAACT 58.661 50.000 0.00 0.00 0.00 2.24
20 21 1.676006 CAAAAACCACGTTCTCTGCCT 59.324 47.619 0.00 0.00 0.00 4.75
52 53 1.667236 TAGCCTGATGAACAATGCGG 58.333 50.000 0.00 0.00 33.43 5.69
54 55 3.532892 CGATAGCCTGATGAACAATGC 57.467 47.619 0.00 0.00 0.00 3.56
80 81 7.522073 GCATCTAAGATGGTGACTGTTTCAAAA 60.522 37.037 0.00 0.00 35.39 2.44
87 88 2.159043 CGGCATCTAAGATGGTGACTGT 60.159 50.000 0.00 0.00 0.00 3.55
88 89 2.477825 CGGCATCTAAGATGGTGACTG 58.522 52.381 0.00 0.00 0.00 3.51
95 96 2.033407 CGTTTCTGCGGCATCTAAGATG 60.033 50.000 1.75 0.00 0.00 2.90
125 126 9.865321 CCTAATGTGTTGATTGATTTTTCTGAT 57.135 29.630 0.00 0.00 0.00 2.90
128 129 7.454380 TCCCCTAATGTGTTGATTGATTTTTCT 59.546 33.333 0.00 0.00 0.00 2.52
135 136 4.770010 GGTTTCCCCTAATGTGTTGATTGA 59.230 41.667 0.00 0.00 0.00 2.57
151 152 2.436173 CTGGATGAGTCTAGGGTTTCCC 59.564 54.545 0.00 0.00 45.90 3.97
152 153 3.375699 TCTGGATGAGTCTAGGGTTTCC 58.624 50.000 0.00 0.00 34.03 3.13
153 154 4.261825 CGATCTGGATGAGTCTAGGGTTTC 60.262 50.000 0.00 0.00 34.03 2.78
154 155 3.639094 CGATCTGGATGAGTCTAGGGTTT 59.361 47.826 0.00 0.00 34.03 3.27
155 156 3.117474 TCGATCTGGATGAGTCTAGGGTT 60.117 47.826 0.00 0.00 34.03 4.11
156 157 2.443632 TCGATCTGGATGAGTCTAGGGT 59.556 50.000 0.00 0.00 34.03 4.34
157 158 3.147553 TCGATCTGGATGAGTCTAGGG 57.852 52.381 0.00 0.00 34.03 3.53
158 159 3.373748 CGATCGATCTGGATGAGTCTAGG 59.626 52.174 22.43 0.00 34.03 3.02
159 160 4.092821 GTCGATCGATCTGGATGAGTCTAG 59.907 50.000 22.50 3.10 34.50 2.43
160 161 3.997681 GTCGATCGATCTGGATGAGTCTA 59.002 47.826 22.50 0.00 0.00 2.59
161 162 2.811431 GTCGATCGATCTGGATGAGTCT 59.189 50.000 22.50 0.00 0.00 3.24
162 163 2.811431 AGTCGATCGATCTGGATGAGTC 59.189 50.000 22.50 3.39 0.00 3.36
163 164 2.811431 GAGTCGATCGATCTGGATGAGT 59.189 50.000 22.50 14.20 0.00 3.41
164 165 2.810852 TGAGTCGATCGATCTGGATGAG 59.189 50.000 22.50 5.91 0.00 2.90
165 166 2.851195 TGAGTCGATCGATCTGGATGA 58.149 47.619 22.50 9.58 0.00 2.92
166 167 3.243201 TGTTGAGTCGATCGATCTGGATG 60.243 47.826 22.50 7.33 0.00 3.51
167 168 2.952310 TGTTGAGTCGATCGATCTGGAT 59.048 45.455 22.50 6.43 0.00 3.41
168 169 2.097629 GTGTTGAGTCGATCGATCTGGA 59.902 50.000 22.50 11.00 0.00 3.86
169 170 2.455032 GTGTTGAGTCGATCGATCTGG 58.545 52.381 22.50 8.77 0.00 3.86
170 171 2.098280 AGGTGTTGAGTCGATCGATCTG 59.902 50.000 22.50 15.63 0.00 2.90
171 172 2.098280 CAGGTGTTGAGTCGATCGATCT 59.902 50.000 22.50 18.99 0.00 2.75
172 173 2.097629 TCAGGTGTTGAGTCGATCGATC 59.902 50.000 22.50 18.47 0.00 3.69
173 174 2.092323 TCAGGTGTTGAGTCGATCGAT 58.908 47.619 22.50 10.34 0.00 3.59
174 175 1.530323 TCAGGTGTTGAGTCGATCGA 58.470 50.000 15.15 15.15 0.00 3.59
175 176 2.347697 TTCAGGTGTTGAGTCGATCG 57.652 50.000 9.36 9.36 37.07 3.69
176 177 4.499183 AGAATTCAGGTGTTGAGTCGATC 58.501 43.478 8.44 0.00 37.07 3.69
177 178 4.543590 AGAATTCAGGTGTTGAGTCGAT 57.456 40.909 8.44 0.00 37.07 3.59
178 179 4.336889 AAGAATTCAGGTGTTGAGTCGA 57.663 40.909 8.44 0.00 37.07 4.20
179 180 5.389935 GCTTAAGAATTCAGGTGTTGAGTCG 60.390 44.000 6.67 0.00 37.07 4.18
180 181 5.470098 TGCTTAAGAATTCAGGTGTTGAGTC 59.530 40.000 6.67 0.00 37.07 3.36
181 182 5.376625 TGCTTAAGAATTCAGGTGTTGAGT 58.623 37.500 6.67 0.00 37.07 3.41
182 183 5.618640 GCTGCTTAAGAATTCAGGTGTTGAG 60.619 44.000 6.67 0.42 37.07 3.02
183 184 4.216257 GCTGCTTAAGAATTCAGGTGTTGA 59.784 41.667 6.67 0.00 0.00 3.18
184 185 4.022935 TGCTGCTTAAGAATTCAGGTGTTG 60.023 41.667 6.67 0.00 0.00 3.33
185 186 4.022849 GTGCTGCTTAAGAATTCAGGTGTT 60.023 41.667 6.67 0.00 0.00 3.32
186 187 3.503748 GTGCTGCTTAAGAATTCAGGTGT 59.496 43.478 6.67 0.00 0.00 4.16
187 188 3.425359 CGTGCTGCTTAAGAATTCAGGTG 60.425 47.826 6.67 0.00 0.00 4.00
188 189 2.744202 CGTGCTGCTTAAGAATTCAGGT 59.256 45.455 6.67 0.00 0.00 4.00
189 190 2.476854 GCGTGCTGCTTAAGAATTCAGG 60.477 50.000 6.67 4.17 41.73 3.86
190 191 2.778659 GCGTGCTGCTTAAGAATTCAG 58.221 47.619 6.67 5.09 41.73 3.02
191 192 1.128507 CGCGTGCTGCTTAAGAATTCA 59.871 47.619 6.67 0.00 43.27 2.57
192 193 1.393539 TCGCGTGCTGCTTAAGAATTC 59.606 47.619 6.67 0.00 43.27 2.17
193 194 1.394917 CTCGCGTGCTGCTTAAGAATT 59.605 47.619 6.67 0.00 43.27 2.17
194 195 1.002366 CTCGCGTGCTGCTTAAGAAT 58.998 50.000 6.67 0.00 43.27 2.40
195 196 1.014044 CCTCGCGTGCTGCTTAAGAA 61.014 55.000 6.67 0.00 43.27 2.52
196 197 1.446099 CCTCGCGTGCTGCTTAAGA 60.446 57.895 6.67 0.00 43.27 2.10
197 198 2.456119 CCCTCGCGTGCTGCTTAAG 61.456 63.158 5.77 0.00 43.27 1.85
198 199 2.434185 CCCTCGCGTGCTGCTTAA 60.434 61.111 5.77 0.00 43.27 1.85
199 200 4.451150 CCCCTCGCGTGCTGCTTA 62.451 66.667 5.77 0.00 43.27 3.09
203 204 3.423154 GTTTCCCCTCGCGTGCTG 61.423 66.667 5.77 0.00 0.00 4.41
204 205 4.699522 GGTTTCCCCTCGCGTGCT 62.700 66.667 5.77 0.00 0.00 4.40
211 212 9.892755 ATTTGGGTAAATGTAGGGTTTCCCCTC 62.893 44.444 2.94 0.00 45.30 4.30
225 226 5.736951 TCCTTGGTTGATTTGGGTAAATG 57.263 39.130 0.00 0.00 36.66 2.32
245 246 2.550180 GCAGGAGAGTTCAAGTGTTTCC 59.450 50.000 0.00 0.00 0.00 3.13
246 247 2.550180 GGCAGGAGAGTTCAAGTGTTTC 59.450 50.000 0.00 0.00 0.00 2.78
247 248 2.092429 TGGCAGGAGAGTTCAAGTGTTT 60.092 45.455 0.00 0.00 0.00 2.83
302 365 4.986034 TCTTCATTTCGCTCTCGTTTGTTA 59.014 37.500 0.00 0.00 36.96 2.41
337 402 1.043116 TGAGGGAGGTATGCACTCGG 61.043 60.000 0.00 0.00 35.82 4.63
341 406 1.527370 GGGTGAGGGAGGTATGCAC 59.473 63.158 0.00 0.00 0.00 4.57
449 514 2.587889 GGAATTCCTTCCGCCGGA 59.412 61.111 17.73 0.00 41.60 5.14
478 543 2.285368 TCGGTGGAGGGGATTGCT 60.285 61.111 0.00 0.00 0.00 3.91
536 601 0.744414 GCTGCGAAGTGGGCATTCTA 60.744 55.000 0.00 0.00 40.09 2.10
553 618 3.474570 GAGGATCCCGTGCAGGCT 61.475 66.667 8.55 0.00 39.21 4.58
606 671 1.450134 GACGGCTGCATGGATGTGA 60.450 57.895 0.50 0.00 0.00 3.58
750 819 0.109272 GATCGACCACAACTCGCTGA 60.109 55.000 0.00 0.00 0.00 4.26
761 830 3.838271 GCCGCTCCAGATCGACCA 61.838 66.667 0.00 0.00 0.00 4.02
788 858 2.283529 GGACGCTCCCACTTCCAGA 61.284 63.158 0.00 0.00 0.00 3.86
826 896 2.970324 GGTTGACTTGCGCCGACA 60.970 61.111 4.18 0.00 0.00 4.35
840 910 4.011517 ACGGGTTGCGGATCGGTT 62.012 61.111 1.93 0.00 0.00 4.44
843 913 3.186047 GTCACGGGTTGCGGATCG 61.186 66.667 0.00 0.00 0.00 3.69
873 943 3.099905 CTCCACCTACCAACTCTCATGA 58.900 50.000 0.00 0.00 0.00 3.07
909 979 1.002773 ACCCCGCATTAGTTCGAGTTT 59.997 47.619 0.00 0.00 0.00 2.66
951 1021 3.960102 AGCAAAGTGAGACAAAAATCCCA 59.040 39.130 0.00 0.00 0.00 4.37
952 1022 4.279420 AGAGCAAAGTGAGACAAAAATCCC 59.721 41.667 0.00 0.00 0.00 3.85
953 1023 5.444663 AGAGCAAAGTGAGACAAAAATCC 57.555 39.130 0.00 0.00 0.00 3.01
954 1024 5.142962 CGAGAGCAAAGTGAGACAAAAATC 58.857 41.667 0.00 0.00 0.00 2.17
955 1025 4.576463 ACGAGAGCAAAGTGAGACAAAAAT 59.424 37.500 0.00 0.00 0.00 1.82
956 1026 3.938963 ACGAGAGCAAAGTGAGACAAAAA 59.061 39.130 0.00 0.00 0.00 1.94
957 1027 3.531538 ACGAGAGCAAAGTGAGACAAAA 58.468 40.909 0.00 0.00 0.00 2.44
958 1028 3.123804 GACGAGAGCAAAGTGAGACAAA 58.876 45.455 0.00 0.00 0.00 2.83
959 1029 2.743938 GACGAGAGCAAAGTGAGACAA 58.256 47.619 0.00 0.00 0.00 3.18
960 1030 1.335051 CGACGAGAGCAAAGTGAGACA 60.335 52.381 0.00 0.00 0.00 3.41
961 1031 1.332178 CGACGAGAGCAAAGTGAGAC 58.668 55.000 0.00 0.00 0.00 3.36
962 1032 0.387367 GCGACGAGAGCAAAGTGAGA 60.387 55.000 0.00 0.00 34.19 3.27
963 1033 1.347817 GGCGACGAGAGCAAAGTGAG 61.348 60.000 0.00 0.00 36.08 3.51
964 1034 1.372997 GGCGACGAGAGCAAAGTGA 60.373 57.895 0.00 0.00 36.08 3.41
965 1035 2.383527 GGGCGACGAGAGCAAAGTG 61.384 63.158 0.00 0.00 36.08 3.16
966 1036 2.048127 GGGCGACGAGAGCAAAGT 60.048 61.111 0.00 0.00 36.08 2.66
967 1037 2.815647 GGGGCGACGAGAGCAAAG 60.816 66.667 0.00 0.00 36.08 2.77
968 1038 4.735132 CGGGGCGACGAGAGCAAA 62.735 66.667 0.00 0.00 36.08 3.68
984 1054 3.635869 TTCCCCTCCCCCTTCCTCG 62.636 68.421 0.00 0.00 0.00 4.63
985 1055 1.694525 CTTCCCCTCCCCCTTCCTC 60.695 68.421 0.00 0.00 0.00 3.71
986 1056 2.191846 TCTTCCCCTCCCCCTTCCT 61.192 63.158 0.00 0.00 0.00 3.36
987 1057 1.694525 CTCTTCCCCTCCCCCTTCC 60.695 68.421 0.00 0.00 0.00 3.46
988 1058 0.692756 CTCTCTTCCCCTCCCCCTTC 60.693 65.000 0.00 0.00 0.00 3.46
989 1059 1.162951 TCTCTCTTCCCCTCCCCCTT 61.163 60.000 0.00 0.00 0.00 3.95
990 1060 1.550374 TCTCTCTTCCCCTCCCCCT 60.550 63.158 0.00 0.00 0.00 4.79
991 1061 1.383386 GTCTCTCTTCCCCTCCCCC 60.383 68.421 0.00 0.00 0.00 5.40
992 1062 0.978667 GTGTCTCTCTTCCCCTCCCC 60.979 65.000 0.00 0.00 0.00 4.81
993 1063 1.324005 CGTGTCTCTCTTCCCCTCCC 61.324 65.000 0.00 0.00 0.00 4.30
994 1064 1.950973 GCGTGTCTCTCTTCCCCTCC 61.951 65.000 0.00 0.00 0.00 4.30
995 1065 1.513622 GCGTGTCTCTCTTCCCCTC 59.486 63.158 0.00 0.00 0.00 4.30
996 1066 1.985116 GGCGTGTCTCTCTTCCCCT 60.985 63.158 0.00 0.00 0.00 4.79
997 1067 1.617947 ATGGCGTGTCTCTCTTCCCC 61.618 60.000 0.00 0.00 0.00 4.81
998 1068 0.179097 GATGGCGTGTCTCTCTTCCC 60.179 60.000 0.00 0.00 0.00 3.97
999 1069 0.532573 TGATGGCGTGTCTCTCTTCC 59.467 55.000 0.00 0.00 0.00 3.46
1000 1070 2.468831 GATGATGGCGTGTCTCTCTTC 58.531 52.381 0.00 0.00 0.00 2.87
1001 1071 1.137872 GGATGATGGCGTGTCTCTCTT 59.862 52.381 0.00 0.00 0.00 2.85
1002 1072 0.749649 GGATGATGGCGTGTCTCTCT 59.250 55.000 0.00 0.00 0.00 3.10
1003 1073 0.249657 GGGATGATGGCGTGTCTCTC 60.250 60.000 0.00 0.00 0.00 3.20
1004 1074 0.689080 AGGGATGATGGCGTGTCTCT 60.689 55.000 0.00 0.00 0.00 3.10
1005 1075 0.249657 GAGGGATGATGGCGTGTCTC 60.250 60.000 0.00 0.00 0.00 3.36
1006 1076 0.977627 TGAGGGATGATGGCGTGTCT 60.978 55.000 0.00 0.00 0.00 3.41
1007 1077 0.107456 ATGAGGGATGATGGCGTGTC 59.893 55.000 0.00 0.00 0.00 3.67
1008 1078 0.548031 AATGAGGGATGATGGCGTGT 59.452 50.000 0.00 0.00 0.00 4.49
1009 1079 1.233019 GAATGAGGGATGATGGCGTG 58.767 55.000 0.00 0.00 0.00 5.34
1010 1080 0.839277 TGAATGAGGGATGATGGCGT 59.161 50.000 0.00 0.00 0.00 5.68
1011 1081 1.520494 CTGAATGAGGGATGATGGCG 58.480 55.000 0.00 0.00 0.00 5.69
1012 1082 1.906990 CCTGAATGAGGGATGATGGC 58.093 55.000 0.00 0.00 38.36 4.40
1013 1083 1.424302 AGCCTGAATGAGGGATGATGG 59.576 52.381 0.00 0.00 43.07 3.51
1014 1084 2.953284 AGCCTGAATGAGGGATGATG 57.047 50.000 0.00 0.00 43.07 3.07
1015 1085 4.353191 ACATTAGCCTGAATGAGGGATGAT 59.647 41.667 9.82 0.00 43.07 2.45
1016 1086 3.718434 ACATTAGCCTGAATGAGGGATGA 59.282 43.478 9.82 0.00 43.07 2.92
1017 1087 4.096190 ACATTAGCCTGAATGAGGGATG 57.904 45.455 9.82 0.00 43.07 3.51
1018 1088 4.446889 GGAACATTAGCCTGAATGAGGGAT 60.447 45.833 9.82 0.00 43.07 3.85
1019 1089 3.117888 GGAACATTAGCCTGAATGAGGGA 60.118 47.826 9.82 0.00 43.07 4.20
1064 1134 4.686554 ACAGTATCAGCTCTGAAAACGAAC 59.313 41.667 7.12 0.00 43.58 3.95
1072 1142 2.423892 GGTCGAACAGTATCAGCTCTGA 59.576 50.000 7.12 1.67 44.59 3.27
1153 1223 0.671251 AACTCCGGCGATCTCTCATC 59.329 55.000 9.30 0.00 0.00 2.92
1155 1225 1.715862 CGAACTCCGGCGATCTCTCA 61.716 60.000 9.30 0.00 33.91 3.27
1159 1229 2.490217 CACGAACTCCGGCGATCT 59.510 61.111 9.30 0.00 43.93 2.75
1309 1408 1.154169 CGACACGCCGTAGTAAGCA 60.154 57.895 0.00 0.00 0.00 3.91
1567 1895 2.923035 AGCGCCACCAGGTACAGT 60.923 61.111 2.29 0.00 37.19 3.55
2201 2946 7.644986 TTTTAACAAAAGATAATGTTGGGCG 57.355 32.000 1.66 0.00 39.89 6.13
2419 3935 3.980989 TGACGTTGGTCGGGGTCG 61.981 66.667 0.00 0.00 46.49 4.79
2425 3956 3.103911 GGAGCGTGACGTTGGTCG 61.104 66.667 6.91 0.00 46.49 4.79
2501 4032 6.674760 GCATGAAAGATACTTAAACGGGTGAC 60.675 42.308 0.00 0.00 0.00 3.67
2506 4037 5.811399 TGGCATGAAAGATACTTAAACGG 57.189 39.130 0.00 0.00 0.00 4.44
2595 4127 6.533819 TTCGGTATGTGAACAGTAAAGTTG 57.466 37.500 0.00 0.00 0.00 3.16
2598 4130 6.961359 TGATTCGGTATGTGAACAGTAAAG 57.039 37.500 0.00 0.00 0.00 1.85
2612 4145 6.901081 AGATATGAGTGTGATGATTCGGTA 57.099 37.500 0.00 0.00 0.00 4.02
2736 4269 4.152647 AGGGAAGGAAAGTGATTGAAACC 58.847 43.478 0.00 0.00 0.00 3.27
2743 4276 3.359950 GCAATGAGGGAAGGAAAGTGAT 58.640 45.455 0.00 0.00 0.00 3.06
2785 4318 2.551912 GGTGGGCCTGTTGACAACG 61.552 63.158 13.46 8.22 0.00 4.10
2819 4352 4.049640 TCCGCGTGGCAAAATGGC 62.050 61.111 11.05 0.00 44.03 4.40
2875 4413 3.170717 AGTAAAGGGACGGAGACATGAA 58.829 45.455 0.00 0.00 0.00 2.57
2876 4414 2.816411 AGTAAAGGGACGGAGACATGA 58.184 47.619 0.00 0.00 0.00 3.07
3057 5251 3.865164 TGAGCATGCTACAATGACTTACG 59.135 43.478 22.74 0.00 0.00 3.18
3095 5290 5.067954 TGTATACTAGCACCGATTCTAGCA 58.932 41.667 4.17 0.00 36.60 3.49
3108 5303 3.554731 GTCTTTGCGGGTTGTATACTAGC 59.445 47.826 7.83 7.83 0.00 3.42
3114 5309 6.151985 TGAAATAATGTCTTTGCGGGTTGTAT 59.848 34.615 0.00 0.00 0.00 2.29
3197 5393 7.172868 TGACGGTAGGAGTTCAAATATACAA 57.827 36.000 0.00 0.00 0.00 2.41
3216 5412 7.751732 TGATCTTATTTGAAATGTCTTGACGG 58.248 34.615 0.00 0.00 0.00 4.79
3272 5468 7.546667 AGTGAAATATGTGGATTGAAATGTTGC 59.453 33.333 0.00 0.00 0.00 4.17
3312 5508 2.403252 ATTCTAAGCAGTTCCCCACG 57.597 50.000 0.00 0.00 0.00 4.94
3376 5572 6.272318 ACAGATGTTTCGCTCATTTCAAAAA 58.728 32.000 0.00 0.00 0.00 1.94
3377 5573 5.830912 ACAGATGTTTCGCTCATTTCAAAA 58.169 33.333 0.00 0.00 0.00 2.44
3378 5574 5.437289 ACAGATGTTTCGCTCATTTCAAA 57.563 34.783 0.00 0.00 0.00 2.69
3379 5575 6.741992 ATACAGATGTTTCGCTCATTTCAA 57.258 33.333 0.00 0.00 0.00 2.69
3380 5576 6.455513 CGAATACAGATGTTTCGCTCATTTCA 60.456 38.462 13.32 0.00 34.55 2.69
3381 5577 5.898606 CGAATACAGATGTTTCGCTCATTTC 59.101 40.000 13.32 0.00 34.55 2.17
3382 5578 5.580691 TCGAATACAGATGTTTCGCTCATTT 59.419 36.000 17.58 0.00 37.87 2.32
3383 5579 5.109210 TCGAATACAGATGTTTCGCTCATT 58.891 37.500 17.58 1.72 37.87 2.57
3384 5580 4.682787 TCGAATACAGATGTTTCGCTCAT 58.317 39.130 17.58 0.00 37.87 2.90
3385 5581 4.104696 TCGAATACAGATGTTTCGCTCA 57.895 40.909 17.58 6.08 37.87 4.26
3386 5582 5.450376 TTTCGAATACAGATGTTTCGCTC 57.550 39.130 17.58 0.00 37.87 5.03
3387 5583 5.163854 CCTTTTCGAATACAGATGTTTCGCT 60.164 40.000 17.58 0.00 37.87 4.93
3388 5584 5.022021 CCTTTTCGAATACAGATGTTTCGC 58.978 41.667 17.58 0.00 37.87 4.70
3389 5585 6.090898 ACTCCTTTTCGAATACAGATGTTTCG 59.909 38.462 16.86 16.86 38.55 3.46
3390 5586 7.117812 TCACTCCTTTTCGAATACAGATGTTTC 59.882 37.037 0.00 0.00 0.00 2.78
3391 5587 6.934645 TCACTCCTTTTCGAATACAGATGTTT 59.065 34.615 0.00 0.00 0.00 2.83
3392 5588 6.464222 TCACTCCTTTTCGAATACAGATGTT 58.536 36.000 0.00 0.00 0.00 2.71
3393 5589 6.037786 TCACTCCTTTTCGAATACAGATGT 57.962 37.500 0.00 0.00 0.00 3.06
3394 5590 6.036517 CCTTCACTCCTTTTCGAATACAGATG 59.963 42.308 0.00 0.00 0.00 2.90
3395 5591 6.109359 CCTTCACTCCTTTTCGAATACAGAT 58.891 40.000 0.00 0.00 0.00 2.90
3396 5592 5.011738 ACCTTCACTCCTTTTCGAATACAGA 59.988 40.000 0.00 0.00 0.00 3.41
3397 5593 5.238583 ACCTTCACTCCTTTTCGAATACAG 58.761 41.667 0.00 0.00 0.00 2.74
3398 5594 5.223449 ACCTTCACTCCTTTTCGAATACA 57.777 39.130 0.00 0.00 0.00 2.29
3399 5595 6.555812 AAACCTTCACTCCTTTTCGAATAC 57.444 37.500 0.00 0.00 0.00 1.89
3400 5596 7.935210 ACTAAAACCTTCACTCCTTTTCGAATA 59.065 33.333 0.00 0.00 0.00 1.75
3401 5597 6.771267 ACTAAAACCTTCACTCCTTTTCGAAT 59.229 34.615 0.00 0.00 0.00 3.34
3402 5598 6.037830 CACTAAAACCTTCACTCCTTTTCGAA 59.962 38.462 0.00 0.00 0.00 3.71
3403 5599 5.526111 CACTAAAACCTTCACTCCTTTTCGA 59.474 40.000 0.00 0.00 0.00 3.71
3404 5600 5.526111 TCACTAAAACCTTCACTCCTTTTCG 59.474 40.000 0.00 0.00 0.00 3.46
3405 5601 6.937436 TCACTAAAACCTTCACTCCTTTTC 57.063 37.500 0.00 0.00 0.00 2.29
3406 5602 7.712204 TTTCACTAAAACCTTCACTCCTTTT 57.288 32.000 0.00 0.00 0.00 2.27
3407 5603 7.898014 ATTTCACTAAAACCTTCACTCCTTT 57.102 32.000 0.00 0.00 0.00 3.11
3429 5625 6.317789 TCGCTCTTCTGAAACAAATCAATT 57.682 33.333 0.00 0.00 0.00 2.32
3493 5690 3.868757 TGAGTTCATCCCGTTCAGTAG 57.131 47.619 0.00 0.00 0.00 2.57
3497 5694 3.981071 AGAATGAGTTCATCCCGTTCA 57.019 42.857 0.00 0.00 36.79 3.18
3527 5724 4.470304 ACTTATTCCAGGTAAGACTCCACC 59.530 45.833 4.22 0.00 34.17 4.61
3858 6547 2.607499 TGCTTCCACAAATCCACCAAT 58.393 42.857 0.00 0.00 0.00 3.16
3897 6586 7.264373 ACTTTACTCACTTGAACCTGAAATG 57.736 36.000 0.00 0.00 0.00 2.32
3900 6589 7.332557 TGTAACTTTACTCACTTGAACCTGAA 58.667 34.615 1.04 0.00 34.77 3.02
4031 6720 7.974675 TCGAGTTCATCCATTTCAGTTATTTC 58.025 34.615 0.00 0.00 0.00 2.17
4156 6846 7.806180 ACTGCTTCCAATTATTGTAGACCTAT 58.194 34.615 4.15 0.00 0.00 2.57
4158 6848 6.067217 ACTGCTTCCAATTATTGTAGACCT 57.933 37.500 4.15 0.00 0.00 3.85
4160 6850 8.915654 CAAAAACTGCTTCCAATTATTGTAGAC 58.084 33.333 4.15 0.00 0.00 2.59
4161 6851 8.855110 TCAAAAACTGCTTCCAATTATTGTAGA 58.145 29.630 4.15 0.00 0.00 2.59
4162 6852 9.474920 TTCAAAAACTGCTTCCAATTATTGTAG 57.525 29.630 4.15 2.64 0.00 2.74
4163 6853 9.823647 TTTCAAAAACTGCTTCCAATTATTGTA 57.176 25.926 4.15 0.00 0.00 2.41
4241 6931 7.933577 ACACTATTTCACTCAGTTCAAGAATGA 59.066 33.333 0.00 0.00 0.00 2.57
4242 6932 8.092521 ACACTATTTCACTCAGTTCAAGAATG 57.907 34.615 0.00 0.00 0.00 2.67
4266 6965 9.341899 ACAATTATTTCGCAAGTAGATTCAAAC 57.658 29.630 0.00 0.00 39.48 2.93
4332 7031 8.735692 AACATTTTTGTCACTTGAAAATCCAT 57.264 26.923 0.00 0.00 32.35 3.41
4344 7043 8.947304 ACAACATTTGAAAACATTTTTGTCAC 57.053 26.923 0.00 0.00 0.00 3.67
4366 7065 5.503498 CGTTTCAACCGACTTATTCAACAA 58.497 37.500 0.00 0.00 0.00 2.83
4367 7066 4.024725 CCGTTTCAACCGACTTATTCAACA 60.025 41.667 0.00 0.00 0.00 3.33
4407 7106 9.911788 ACAAGACCAATCTTAGATACATTTCAT 57.088 29.630 0.00 0.00 43.69 2.57
4576 7289 3.624410 TGACATGCGAAAATCCATCTCTG 59.376 43.478 0.00 0.00 0.00 3.35
4577 7290 3.624861 GTGACATGCGAAAATCCATCTCT 59.375 43.478 0.00 0.00 0.00 3.10
4578 7291 3.374988 TGTGACATGCGAAAATCCATCTC 59.625 43.478 0.00 0.00 0.00 2.75
4579 7292 3.346315 TGTGACATGCGAAAATCCATCT 58.654 40.909 0.00 0.00 0.00 2.90
4580 7293 3.763097 TGTGACATGCGAAAATCCATC 57.237 42.857 0.00 0.00 0.00 3.51
4581 7294 4.440525 GGAATGTGACATGCGAAAATCCAT 60.441 41.667 0.00 0.00 0.00 3.41
4586 7299 3.567585 TGAAGGAATGTGACATGCGAAAA 59.432 39.130 0.00 0.00 0.00 2.29
4587 7300 3.145286 TGAAGGAATGTGACATGCGAAA 58.855 40.909 0.00 0.00 0.00 3.46
4590 7303 3.431856 CAATGAAGGAATGTGACATGCG 58.568 45.455 0.00 0.00 0.00 4.73
4591 7304 3.184541 GCAATGAAGGAATGTGACATGC 58.815 45.455 0.00 0.00 0.00 4.06
4616 7386 4.698780 CCACCACATGATATCATCCACATC 59.301 45.833 15.49 0.00 33.61 3.06
4632 7409 2.150719 AACATCCGGACCCACCACA 61.151 57.895 6.12 0.00 38.90 4.17
4673 7474 7.118390 ACATGTAGAGTAGCATTGTTTTCTCAC 59.882 37.037 0.00 0.00 0.00 3.51
4717 7568 7.695480 CTCTATACCACATGTAGAGTAGCAT 57.305 40.000 12.57 0.20 41.80 3.79
4725 7576 7.014326 ACACACCATACTCTATACCACATGTAG 59.986 40.741 0.00 0.00 31.61 2.74
4726 7577 6.837048 ACACACCATACTCTATACCACATGTA 59.163 38.462 0.00 0.00 0.00 2.29
4777 7628 1.825191 TACCTACCAGGCGCTACCG 60.825 63.158 7.64 0.00 46.52 4.02
4778 7629 1.738432 GTACCTACCAGGCGCTACC 59.262 63.158 7.64 0.00 39.63 3.18
4779 7630 1.738432 GGTACCTACCAGGCGCTAC 59.262 63.158 7.64 0.00 45.73 3.58
4832 7683 6.014840 TGGTTAACTCTCTTTTACGACCAGAT 60.015 38.462 5.42 0.00 31.56 2.90
4879 7730 6.668283 ACTAAGTGCTTCCCTCTCAGTAATTA 59.332 38.462 0.00 0.00 0.00 1.40
4882 7733 4.220821 CACTAAGTGCTTCCCTCTCAGTAA 59.779 45.833 0.00 0.00 0.00 2.24
4884 7735 2.564947 CACTAAGTGCTTCCCTCTCAGT 59.435 50.000 0.00 0.00 0.00 3.41
4885 7736 2.828520 TCACTAAGTGCTTCCCTCTCAG 59.171 50.000 0.00 0.00 32.98 3.35
4915 7766 5.224441 TCTTAGCCCATGGGTTAGAATAGT 58.776 41.667 31.58 8.07 36.21 2.12
4971 9226 6.946340 AGCCCGGAATTTTGAAAATAAATCT 58.054 32.000 0.73 0.00 0.00 2.40
4984 9304 0.323629 TTGTCTCGAGCCCGGAATTT 59.676 50.000 7.81 0.00 36.24 1.82
4989 9309 0.727398 GATTTTTGTCTCGAGCCCGG 59.273 55.000 7.81 0.00 36.24 5.73
5000 9320 6.490381 GGAAGTAAGACTTGGAGGATTTTTGT 59.510 38.462 0.00 0.00 38.80 2.83
5003 9323 5.246307 CGGAAGTAAGACTTGGAGGATTTT 58.754 41.667 0.00 0.00 38.80 1.82
5044 9365 6.737254 TTCTTAGGCCTTGAGTTAATTTCG 57.263 37.500 12.58 0.00 0.00 3.46
5090 9411 4.310357 TCTGCGTTTGTACTGTGTTAGA 57.690 40.909 0.00 0.00 0.00 2.10
5091 9412 4.666655 GCATCTGCGTTTGTACTGTGTTAG 60.667 45.833 0.00 0.00 0.00 2.34
5125 9446 6.172630 TGCATTCATAGTTGAGTGTATGTGT 58.827 36.000 1.34 0.00 40.63 3.72
5140 9461 4.430007 GAGTGTCCGTACTTGCATTCATA 58.570 43.478 0.00 0.00 0.00 2.15
5150 9471 2.359107 TCCGCGAGTGTCCGTACT 60.359 61.111 8.23 0.00 0.00 2.73
5156 9477 1.970447 CATATAGCTCCGCGAGTGTC 58.030 55.000 8.23 0.00 31.39 3.67
5161 9482 1.289066 GGTGCATATAGCTCCGCGA 59.711 57.895 8.23 0.00 45.89 5.87
5166 9487 0.397941 TGCAGGGGTGCATATAGCTC 59.602 55.000 0.00 0.00 45.94 4.09
5168 9489 0.607489 CCTGCAGGGGTGCATATAGC 60.607 60.000 26.14 0.00 44.47 2.97
5171 9492 3.759750 ACCTGCAGGGGTGCATAT 58.240 55.556 35.42 10.21 44.47 1.78
5198 9519 3.831911 TCACTAAATTTGCAAAGGAGGGG 59.168 43.478 18.19 9.10 0.00 4.79
5199 9520 5.243730 TCTTCACTAAATTTGCAAAGGAGGG 59.756 40.000 18.19 14.50 0.00 4.30
5200 9521 6.331369 TCTTCACTAAATTTGCAAAGGAGG 57.669 37.500 18.19 10.13 0.00 4.30
5201 9522 7.869429 ACAATCTTCACTAAATTTGCAAAGGAG 59.131 33.333 18.19 15.38 0.00 3.69
5202 9523 7.725251 ACAATCTTCACTAAATTTGCAAAGGA 58.275 30.769 18.19 4.29 0.00 3.36
5203 9524 7.951530 ACAATCTTCACTAAATTTGCAAAGG 57.048 32.000 18.19 9.80 0.00 3.11
5207 9528 9.809096 TGTAAAACAATCTTCACTAAATTTGCA 57.191 25.926 0.00 0.00 0.00 4.08
5592 9913 9.894783 GGTGATTTTATCAATCTCAAGATGATG 57.105 33.333 11.77 2.03 41.69 3.07
5598 9919 8.180267 GTCTGTGGTGATTTTATCAATCTCAAG 58.820 37.037 0.00 0.00 41.69 3.02
5650 9971 4.162320 AGGCTTTCGAAGGATATGAGTTGA 59.838 41.667 12.00 0.00 0.00 3.18
5663 9984 3.417069 TTCTGGATTCAGGCTTTCGAA 57.583 42.857 0.00 0.00 41.23 3.71
5664 9985 3.417069 TTTCTGGATTCAGGCTTTCGA 57.583 42.857 0.00 0.00 41.23 3.71
5713 10034 1.365633 CGGGGTCTGCTAGAGATGC 59.634 63.158 0.00 0.00 31.63 3.91
5714 10035 1.365633 GCGGGGTCTGCTAGAGATG 59.634 63.158 0.00 0.00 31.63 2.90
5715 10036 0.470833 ATGCGGGGTCTGCTAGAGAT 60.471 55.000 0.00 0.00 31.63 2.75
5716 10037 1.075970 ATGCGGGGTCTGCTAGAGA 60.076 57.895 0.00 0.00 0.00 3.10
5717 10038 1.365633 GATGCGGGGTCTGCTAGAG 59.634 63.158 0.00 0.00 0.00 2.43
5718 10039 2.134287 GGATGCGGGGTCTGCTAGA 61.134 63.158 0.00 0.00 0.00 2.43
5739 10060 2.707529 AAATGCGTTTTGTGGGCCGG 62.708 55.000 0.00 0.00 0.00 6.13
5740 10061 1.300542 AAATGCGTTTTGTGGGCCG 60.301 52.632 0.00 0.00 0.00 6.13
5741 10062 2.233681 CAAATGCGTTTTGTGGGCC 58.766 52.632 0.00 0.00 39.93 5.80
5749 10070 0.843242 CGCGAACAACAAATGCGTTT 59.157 45.000 0.00 0.00 43.50 3.60
5751 10072 4.203967 CGCGAACAACAAATGCGT 57.796 50.000 0.00 0.00 43.50 5.24
5753 10074 3.268498 GTTTTTCGCGAACAACAAATGC 58.732 40.909 34.07 14.68 32.78 3.56
5755 10076 2.532317 CCGTTTTTCGCGAACAACAAAT 59.468 40.909 35.97 0.00 38.35 2.32
5756 10077 1.912110 CCGTTTTTCGCGAACAACAAA 59.088 42.857 35.97 25.10 38.35 2.83
5759 10080 1.537212 AACCGTTTTTCGCGAACAAC 58.463 45.000 31.12 31.12 38.35 3.32
5760 10081 2.259505 AAACCGTTTTTCGCGAACAA 57.740 40.000 23.33 19.30 38.35 2.83
5762 10083 2.147282 CGTAAAACCGTTTTTCGCGAAC 59.853 45.455 23.33 10.50 36.81 3.95
5763 10084 2.361407 CGTAAAACCGTTTTTCGCGAA 58.639 42.857 19.38 19.38 36.81 4.70
5765 10086 1.036513 CCGTAAAACCGTTTTTCGCG 58.963 50.000 22.89 18.72 40.55 5.87
5766 10087 2.036217 GTCCGTAAAACCGTTTTTCGC 58.964 47.619 22.89 11.70 40.55 4.70
5767 10088 2.601979 GGGTCCGTAAAACCGTTTTTCG 60.602 50.000 21.90 21.90 41.23 3.46
5768 10089 2.601979 CGGGTCCGTAAAACCGTTTTTC 60.602 50.000 14.25 8.67 41.34 2.29
5769 10090 1.333308 CGGGTCCGTAAAACCGTTTTT 59.667 47.619 14.25 0.00 41.34 1.94
5771 10092 0.884259 CCGGGTCCGTAAAACCGTTT 60.884 55.000 8.67 0.00 44.57 3.60
5772 10093 1.301637 CCGGGTCCGTAAAACCGTT 60.302 57.895 8.67 0.00 44.57 4.44
5773 10094 2.343387 CCGGGTCCGTAAAACCGT 59.657 61.111 8.67 0.00 44.57 4.83
5774 10095 2.434709 CCCGGGTCCGTAAAACCG 60.435 66.667 14.18 0.00 45.57 4.44
5775 10096 2.046023 CCCCGGGTCCGTAAAACC 60.046 66.667 21.85 0.00 37.81 3.27
5776 10097 2.046023 CCCCCGGGTCCGTAAAAC 60.046 66.667 21.85 0.00 37.81 2.43
5793 10114 1.303317 ACATTTCAGTCCGTGCCCC 60.303 57.895 0.00 0.00 0.00 5.80
5803 10124 0.698238 TGGTGGGGAGGACATTTCAG 59.302 55.000 0.00 0.00 0.00 3.02
5804 10125 1.153539 TTGGTGGGGAGGACATTTCA 58.846 50.000 0.00 0.00 0.00 2.69
5805 10126 1.545841 GTTGGTGGGGAGGACATTTC 58.454 55.000 0.00 0.00 0.00 2.17
5806 10127 0.114364 GGTTGGTGGGGAGGACATTT 59.886 55.000 0.00 0.00 0.00 2.32
5808 10129 2.602676 CGGTTGGTGGGGAGGACAT 61.603 63.158 0.00 0.00 0.00 3.06
5832 10153 0.951040 GTCGGTGCCCTGCATATAGC 60.951 60.000 0.00 0.00 41.91 2.97
5833 10154 0.667487 CGTCGGTGCCCTGCATATAG 60.667 60.000 0.00 0.00 41.91 1.31
5834 10155 1.365999 CGTCGGTGCCCTGCATATA 59.634 57.895 0.00 0.00 41.91 0.86
5835 10156 2.108976 CGTCGGTGCCCTGCATAT 59.891 61.111 0.00 0.00 41.91 1.78
5857 10178 1.402107 TTCTAATACGCGGGTCCCCC 61.402 60.000 12.47 0.00 41.09 5.40
5859 10180 1.607251 CCATTCTAATACGCGGGTCCC 60.607 57.143 12.47 0.00 0.00 4.46
5861 10182 2.609737 CCTCCATTCTAATACGCGGGTC 60.610 54.545 12.47 0.00 0.00 4.46
5862 10183 1.343465 CCTCCATTCTAATACGCGGGT 59.657 52.381 12.47 10.91 0.00 5.28
5863 10184 1.337823 CCCTCCATTCTAATACGCGGG 60.338 57.143 12.47 0.00 0.00 6.13
5864 10185 1.616865 TCCCTCCATTCTAATACGCGG 59.383 52.381 12.47 0.00 0.00 6.46
5865 10186 2.296471 ACTCCCTCCATTCTAATACGCG 59.704 50.000 3.53 3.53 0.00 6.01
5868 10189 7.800300 ATTCCTACTCCCTCCATTCTAATAC 57.200 40.000 0.00 0.00 0.00 1.89
5925 10603 4.213482 TGGTTTTGTTTTGGTTTTCGGTTG 59.787 37.500 0.00 0.00 0.00 3.77
5983 10661 4.862371 ACTGAAACTGAACCCAAAACCTA 58.138 39.130 0.00 0.00 0.00 3.08
5992 10670 9.797556 ATTTAAAACTACAACTGAAACTGAACC 57.202 29.630 0.00 0.00 0.00 3.62
6153 10842 3.531982 GAACAATGGATCGCGTAAATCG 58.468 45.455 5.77 0.00 43.12 3.34
6162 10851 6.058183 AGGATAAAGAAGGAACAATGGATCG 58.942 40.000 0.00 0.00 0.00 3.69
6218 10907 7.962918 ACTTTTTCACGTGTAAATAGATCATGC 59.037 33.333 19.14 0.00 0.00 4.06
6249 10938 4.196193 TGACGTGGATTTTTGAGTCAACT 58.804 39.130 4.68 0.00 35.94 3.16
6250 10939 4.545823 TGACGTGGATTTTTGAGTCAAC 57.454 40.909 4.68 0.00 35.94 3.18
6287 10976 7.754851 ACTTTCGGTTTGGTTCAGTAATAAT 57.245 32.000 0.00 0.00 0.00 1.28
6295 11240 4.645588 ACCATTTACTTTCGGTTTGGTTCA 59.354 37.500 0.00 0.00 33.60 3.18
6330 11275 2.931969 GTTTTTACGGGGAGACATACGG 59.068 50.000 0.00 0.00 0.00 4.02
6340 11294 9.491675 AATTTTTATACTTTGGTTTTTACGGGG 57.508 29.630 0.00 0.00 0.00 5.73
6365 11319 8.293867 CCAGTTTGATTCAGTTCGGTTTATAAA 58.706 33.333 0.00 0.00 0.00 1.40
6396 11351 1.394227 CGCGGCATGCATTCAATTTTT 59.606 42.857 21.36 0.00 46.97 1.94
6397 11352 1.000884 CGCGGCATGCATTCAATTTT 58.999 45.000 21.36 0.00 46.97 1.82
6399 11354 0.248743 CTCGCGGCATGCATTCAATT 60.249 50.000 21.36 0.00 46.97 2.32
6414 11369 6.454848 GCATATCTAGATGTGTTATTGCTCGC 60.455 42.308 25.01 7.98 33.21 5.03
6415 11370 6.810676 AGCATATCTAGATGTGTTATTGCTCG 59.189 38.462 25.01 2.47 33.21 5.03
6460 11415 4.266976 CCGCTTCGATCGTGTAATACTTTT 59.733 41.667 15.94 0.00 0.00 2.27
6477 12269 2.253414 AAAATTCCGCTCGCCGCTTC 62.253 55.000 0.00 0.00 36.13 3.86
6480 12272 1.297378 GTAAAATTCCGCTCGCCGC 60.297 57.895 0.00 0.00 35.03 6.53
6481 12273 0.444651 TTGTAAAATTCCGCTCGCCG 59.555 50.000 0.00 0.00 0.00 6.46
6487 12279 4.207019 GCATGTAGCATTGTAAAATTCCGC 59.793 41.667 0.00 0.00 44.79 5.54
6967 12768 2.127345 CGTCGTGCGACTTCGAGT 60.127 61.111 20.19 0.00 44.77 4.18
6999 12800 2.340809 CGGTGTAGGTGCCGTGAA 59.659 61.111 0.00 0.00 42.73 3.18
7105 12909 2.088104 AGAACTCCATCTGCCCGATA 57.912 50.000 0.00 0.00 0.00 2.92
7416 13248 4.832248 CATCAAAGAAGTACCCTAGCACA 58.168 43.478 0.00 0.00 0.00 4.57
7433 13266 7.901029 TCCCAATTACAAGTTTATTGCATCAA 58.099 30.769 0.00 0.00 0.00 2.57
7475 13308 3.366781 GCAGAGTTCCTTCAAGATTTGCC 60.367 47.826 0.00 0.00 0.00 4.52
7533 13366 2.613026 TTTTCCAGACTGCTGACGAA 57.387 45.000 0.00 0.00 45.17 3.85
7542 13658 4.279420 GCTGAAACCTGAATTTTCCAGACT 59.721 41.667 0.00 0.00 32.83 3.24
7611 13728 3.748645 TCCCCTTGCTTTTAGGCATTA 57.251 42.857 0.00 0.00 42.09 1.90
7872 14601 6.532365 TGAAAATTTTCATAAAACGCACCC 57.468 33.333 26.01 0.23 41.88 4.61
8088 15347 6.069705 TCCTTTCCGGTTCTTTATATGGTT 57.930 37.500 0.00 0.00 0.00 3.67
8089 15348 5.703730 TCCTTTCCGGTTCTTTATATGGT 57.296 39.130 0.00 0.00 0.00 3.55
8160 15420 1.340795 TGGTTGTACGGGTTGTGGTTT 60.341 47.619 0.00 0.00 0.00 3.27
8176 15436 2.203437 GACCGGCCCAGTTTGGTT 60.203 61.111 0.00 0.00 35.17 3.67
8208 15494 1.348064 CCTACCCAGCCCATCGATTA 58.652 55.000 0.00 0.00 0.00 1.75
8279 17360 4.688419 CTGTTTGCAGCCCGCGTG 62.688 66.667 4.92 0.00 46.97 5.34
8456 17564 7.166851 ACAGTTTTCATGTCAATGATCTCTCT 58.833 34.615 0.00 0.00 42.41 3.10
8457 17565 7.375106 ACAGTTTTCATGTCAATGATCTCTC 57.625 36.000 0.00 0.00 42.41 3.20
8500 17610 1.138247 GCAAGCGAATTCCTGGCAG 59.862 57.895 7.75 7.75 0.00 4.85


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

AutoCloner maintained by Alex Coulton.