Multiple sequence alignment - TraesCS4A01G480500

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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 TraesCS4A01G480500 chr4A 100.000 5312 0 0 1 5312 736965437 736960126 0.000000e+00 9810.0
1 TraesCS4A01G480500 chr4A 100.000 1567 0 0 1 1567 736992374 736990808 0.000000e+00 2894.0
2 TraesCS4A01G480500 chr4A 89.102 991 97 3 2488 3467 5764762 5765752 0.000000e+00 1221.0
3 TraesCS4A01G480500 chr4A 94.591 758 39 2 590 1346 735894950 735894194 0.000000e+00 1171.0
4 TraesCS4A01G480500 chr4A 94.312 756 41 2 590 1344 735096580 735095826 0.000000e+00 1157.0
5 TraesCS4A01G480500 chr4A 88.633 607 54 10 1371 1965 699044379 699043776 0.000000e+00 725.0
6 TraesCS4A01G480500 chr4A 93.864 440 21 6 3463 3898 701949650 701949213 0.000000e+00 658.0
7 TraesCS4A01G480500 chr4A 93.607 438 25 3 3472 3906 726667865 726668302 0.000000e+00 651.0
8 TraesCS4A01G480500 chr4A 94.299 421 21 2 186 603 735097429 735097009 4.490000e-180 641.0
9 TraesCS4A01G480500 chr4A 94.090 423 20 3 186 603 735897263 735896841 5.800000e-179 638.0
10 TraesCS4A01G480500 chr4A 85.577 520 68 7 4794 5311 735874558 735874044 6.050000e-149 538.0
11 TraesCS4A01G480500 chr4A 97.527 283 6 1 36 317 735097711 735097429 2.880000e-132 483.0
12 TraesCS4A01G480500 chr4A 97.173 283 7 1 36 317 735897545 735897263 1.340000e-130 477.0
13 TraesCS4A01G480500 chr4A 84.928 418 47 11 4086 4493 735893514 735893103 4.950000e-110 409.0
14 TraesCS4A01G480500 chr4A 84.689 418 48 11 4086 4493 735095144 735094733 2.300000e-108 403.0
15 TraesCS4A01G480500 chr4A 86.087 345 21 9 1964 2303 735095658 735095336 3.940000e-91 346.0
16 TraesCS4A01G480500 chr4A 86.087 345 21 9 1964 2303 735894028 735893706 3.940000e-91 346.0
17 TraesCS4A01G480500 chr4A 86.851 289 17 11 4328 4610 735875215 735874942 2.400000e-78 303.0
18 TraesCS4A01G480500 chr4A 88.745 231 17 6 4341 4569 735072088 735071865 1.880000e-69 274.0
19 TraesCS4A01G480500 chr4A 83.884 242 17 14 4381 4618 736312940 736313163 1.500000e-50 211.0
20 TraesCS4A01G480500 chr4A 89.308 159 16 1 4721 4878 736313161 736313319 1.170000e-46 198.0
21 TraesCS4A01G480500 chr4A 92.308 117 9 0 4616 4732 647845686 647845570 3.290000e-37 167.0
22 TraesCS4A01G480500 chr4A 78.109 201 43 1 5113 5312 688445376 688445576 5.580000e-25 126.0
23 TraesCS4A01G480500 chr4A 92.537 67 3 2 2397 2463 735095303 735095239 1.570000e-15 95.3
24 TraesCS4A01G480500 chr4A 92.537 67 3 2 2397 2463 735893673 735893609 1.570000e-15 95.3
25 TraesCS4A01G480500 chr4A 75.622 201 40 9 5064 5260 726314735 726314540 2.040000e-14 91.6
26 TraesCS4A01G480500 chrUn 99.921 2525 2 0 1 2525 335844611 335842087 0.000000e+00 4652.0
27 TraesCS4A01G480500 chrUn 100.000 1567 0 0 1 1567 327027085 327028651 0.000000e+00 2894.0
28 TraesCS4A01G480500 chrUn 99.699 998 3 0 1570 2567 382531064 382530067 0.000000e+00 1827.0
29 TraesCS4A01G480500 chrUn 87.634 372 36 4 1969 2334 89126278 89125911 1.770000e-114 424.0
30 TraesCS4A01G480500 chrUn 87.634 372 36 4 1969 2334 89319872 89319505 1.770000e-114 424.0
31 TraesCS4A01G480500 chrUn 78.043 419 75 13 3899 4300 89125823 89125405 1.140000e-61 248.0
32 TraesCS4A01G480500 chrUn 78.043 419 75 13 3899 4300 89319417 89318999 1.140000e-61 248.0
33 TraesCS4A01G480500 chrUn 88.636 132 14 1 4606 4736 15981943 15981812 5.510000e-35 159.0
34 TraesCS4A01G480500 chrUn 83.436 163 25 2 1806 1966 238124967 238125129 3.310000e-32 150.0
35 TraesCS4A01G480500 chr6B 90.900 989 76 7 2488 3465 641865383 641866368 0.000000e+00 1315.0
36 TraesCS4A01G480500 chr6B 83.855 415 63 3 4898 5311 652636569 652636980 4.990000e-105 392.0
37 TraesCS4A01G480500 chr6B 82.699 289 34 11 1689 1968 691453210 691453491 5.320000e-60 243.0
38 TraesCS4A01G480500 chr6B 82.807 285 33 10 1689 1964 691455137 691455414 1.910000e-59 241.0
39 TraesCS4A01G480500 chr6B 79.599 299 60 1 5013 5311 567710588 567710291 4.170000e-51 213.0
40 TraesCS4A01G480500 chr6B 89.333 150 15 1 1799 1947 4848395 4848544 2.530000e-43 187.0
41 TraesCS4A01G480500 chr6B 87.050 139 14 4 4600 4736 100556374 100556238 2.560000e-33 154.0
42 TraesCS4A01G480500 chr1B 90.799 989 79 6 2488 3465 394217097 394218084 0.000000e+00 1312.0
43 TraesCS4A01G480500 chr1B 90.698 989 80 4 2488 3465 394302165 394303152 0.000000e+00 1306.0
44 TraesCS4A01G480500 chr1B 89.282 989 92 6 2488 3465 493721642 493722627 0.000000e+00 1227.0
45 TraesCS4A01G480500 chr1B 77.376 442 77 14 4877 5312 498040758 498041182 1.910000e-59 241.0
46 TraesCS4A01G480500 chr1B 90.580 138 11 2 1805 1940 395062269 395062132 1.180000e-41 182.0
47 TraesCS4A01G480500 chr1B 85.802 162 20 3 1807 1966 91654861 91654701 9.150000e-38 169.0
48 TraesCS4A01G480500 chr1B 85.455 165 19 5 1807 1968 91656318 91656156 3.290000e-37 167.0
49 TraesCS4A01G480500 chr4B 90.162 986 88 3 2488 3465 670452618 670453602 0.000000e+00 1275.0
50 TraesCS4A01G480500 chr4B 93.394 439 24 5 3463 3899 670453636 670454071 0.000000e+00 645.0
51 TraesCS4A01G480500 chr4B 83.173 208 27 7 4877 5082 447638726 447638927 3.270000e-42 183.0
52 TraesCS4A01G480500 chr4B 95.161 62 3 0 1 62 645453805 645453744 1.220000e-16 99.0
53 TraesCS4A01G480500 chr4B 91.379 58 4 1 5 62 192755375 192755431 1.590000e-10 78.7
54 TraesCS4A01G480500 chr2B 89.767 987 90 5 2488 3465 31508768 31507784 0.000000e+00 1253.0
55 TraesCS4A01G480500 chr2B 94.470 434 21 3 3468 3898 13503557 13503990 0.000000e+00 665.0
56 TraesCS4A01G480500 chr2B 94.444 432 23 1 3468 3898 32135238 32134807 0.000000e+00 664.0
57 TraesCS4A01G480500 chr2B 93.303 433 24 5 3471 3898 228884658 228884226 7.510000e-178 634.0
58 TraesCS4A01G480500 chr2B 75.890 365 69 11 4949 5312 771513679 771513333 9.150000e-38 169.0
59 TraesCS4A01G480500 chr3A 89.225 993 94 7 2488 3468 726546721 726547712 0.000000e+00 1229.0
60 TraesCS4A01G480500 chr3A 82.295 305 48 5 4877 5180 729586512 729586213 5.280000e-65 259.0
61 TraesCS4A01G480500 chr3A 82.524 206 31 4 4874 5076 628158115 628158318 5.470000e-40 176.0
62 TraesCS4A01G480500 chr3A 82.609 184 30 1 4877 5060 7129315 7129496 1.530000e-35 161.0
63 TraesCS4A01G480500 chr3A 84.568 162 18 7 1810 1968 75626096 75625939 2.560000e-33 154.0
64 TraesCS4A01G480500 chr3A 83.636 165 22 4 1805 1966 54310108 54310270 3.310000e-32 150.0
65 TraesCS4A01G480500 chr3A 83.636 165 22 5 1807 1968 722806674 722806836 3.310000e-32 150.0
66 TraesCS4A01G480500 chr2A 88.911 992 95 9 2489 3468 19351075 19352063 0.000000e+00 1208.0
67 TraesCS4A01G480500 chr2A 94.828 58 3 0 5 62 100893303 100893246 2.040000e-14 91.6
68 TraesCS4A01G480500 chr3B 87.479 607 62 8 1371 1968 354954030 354954631 0.000000e+00 688.0
69 TraesCS4A01G480500 chr3B 94.240 434 22 3 3468 3899 56052148 56052580 0.000000e+00 660.0
70 TraesCS4A01G480500 chr3B 93.404 379 19 3 1371 1747 354955426 354955800 1.670000e-154 556.0
71 TraesCS4A01G480500 chr3B 95.370 108 5 0 4616 4723 929000 929107 7.070000e-39 172.0
72 TraesCS4A01G480500 chr3B 93.548 62 4 0 1 62 752881672 752881611 5.660000e-15 93.5
73 TraesCS4A01G480500 chr7B 92.906 437 25 5 3468 3898 536771011 536771447 9.710000e-177 630.0
74 TraesCS4A01G480500 chr7B 89.899 297 27 1 2007 2300 8933372 8933076 3.880000e-101 379.0
75 TraesCS4A01G480500 chr7B 84.462 251 30 5 1724 1966 716499634 716499883 6.880000e-59 239.0
76 TraesCS4A01G480500 chr7B 84.190 253 28 8 1724 1968 716498136 716498384 8.890000e-58 235.0
77 TraesCS4A01G480500 chr7B 89.595 173 13 4 1798 1968 704094105 704094274 1.160000e-51 215.0
78 TraesCS4A01G480500 chr7B 89.349 169 14 3 1798 1964 704095311 704095477 5.390000e-50 209.0
79 TraesCS4A01G480500 chr7B 75.802 405 76 15 3899 4299 8932945 8932559 9.080000e-43 185.0
80 TraesCS4A01G480500 chr7B 91.803 122 9 1 4603 4723 680913483 680913362 9.150000e-38 169.0
81 TraesCS4A01G480500 chr7B 90.323 124 11 1 4602 4725 560803029 560803151 1.530000e-35 161.0
82 TraesCS4A01G480500 chr7B 84.472 161 23 2 1807 1966 193958980 193959139 1.980000e-34 158.0
83 TraesCS4A01G480500 chr4D 93.072 433 27 3 3468 3898 430829209 430829640 9.710000e-177 630.0
84 TraesCS4A01G480500 chr4D 84.459 148 21 2 1805 1951 464719700 464719554 1.540000e-30 145.0
85 TraesCS4A01G480500 chr7A 89.760 459 28 12 2002 2455 6873440 6873884 2.150000e-158 569.0
86 TraesCS4A01G480500 chr7A 87.220 446 47 6 4007 4448 6875967 6876406 2.860000e-137 499.0
87 TraesCS4A01G480500 chr7A 88.079 302 26 7 62 355 6868792 6869091 3.040000e-92 350.0
88 TraesCS4A01G480500 chr7A 85.714 245 19 5 363 599 6869136 6869372 1.480000e-60 244.0
89 TraesCS4A01G480500 chr7A 89.308 159 16 1 4721 4879 6876518 6876675 1.170000e-46 198.0
90 TraesCS4A01G480500 chr7A 88.535 157 9 7 589 740 6872015 6872167 1.180000e-41 182.0
91 TraesCS4A01G480500 chr7A 89.431 123 7 3 822 939 6872516 6872637 3.310000e-32 150.0
92 TraesCS4A01G480500 chr7A 90.476 105 8 1 3912 4014 6873900 6874004 2.580000e-28 137.0
93 TraesCS4A01G480500 chr7A 94.444 36 2 0 2454 2489 128409090 128409055 7.430000e-04 56.5
94 TraesCS4A01G480500 chr5B 88.966 435 33 6 1369 1799 44038557 44038134 1.700000e-144 523.0
95 TraesCS4A01G480500 chr5B 86.525 141 19 0 4600 4740 524744658 524744798 7.120000e-34 156.0
96 TraesCS4A01G480500 chr5B 91.837 49 4 0 1369 1417 439964551 439964503 9.550000e-08 69.4
97 TraesCS4A01G480500 chr5A 85.973 442 55 6 4875 5312 688456401 688455963 2.900000e-127 466.0
98 TraesCS4A01G480500 chr5A 84.568 162 20 5 1810 1968 701185639 701185480 7.120000e-34 156.0
99 TraesCS4A01G480500 chr5A 84.568 162 20 5 1810 1968 701186925 701186766 7.120000e-34 156.0
100 TraesCS4A01G480500 chr5A 93.548 62 4 0 1 62 694917779 694917840 5.660000e-15 93.5
101 TraesCS4A01G480500 chr2D 81.137 387 64 6 4928 5312 544990336 544990715 8.650000e-78 302.0
102 TraesCS4A01G480500 chr2D 83.544 158 22 4 1814 1968 317055603 317055447 1.540000e-30 145.0
103 TraesCS4A01G480500 chr2D 82.645 121 16 5 5192 5309 112693010 112693128 9.410000e-18 102.0
104 TraesCS4A01G480500 chr2D 93.548 62 4 0 1 62 199349355 199349294 5.660000e-15 93.5
105 TraesCS4A01G480500 chr7D 86.420 243 20 8 4381 4618 5420348 5420582 2.460000e-63 254.0
106 TraesCS4A01G480500 chr7D 80.074 271 54 0 4029 4299 66872021 66871751 9.020000e-48 202.0
107 TraesCS4A01G480500 chr7D 96.774 62 2 0 1 62 562105038 562105099 2.620000e-18 104.0
108 TraesCS4A01G480500 chr7D 95.161 62 3 0 1 62 228022177 228022238 1.220000e-16 99.0
109 TraesCS4A01G480500 chr6A 88.000 150 11 4 1805 1947 3461387 3461238 2.540000e-38 171.0
110 TraesCS4A01G480500 chr6A 100.000 30 0 0 2456 2485 276239484 276239513 7.430000e-04 56.5
111 TraesCS4A01G480500 chr5D 93.162 117 5 3 4607 4722 522142256 522142142 9.150000e-38 169.0
112 TraesCS4A01G480500 chr5D 84.211 152 16 5 1713 1858 481253700 481253551 1.990000e-29 141.0
113 TraesCS4A01G480500 chr5D 100.000 36 0 0 2456 2491 406526012 406525977 3.430000e-07 67.6
114 TraesCS4A01G480500 chr5D 97.222 36 1 0 2456 2491 406528403 406528368 1.600000e-05 62.1
115 TraesCS4A01G480500 chr3D 88.806 134 12 3 4604 4736 416187165 416187034 1.530000e-35 161.0
116 TraesCS4A01G480500 chr3D 84.242 165 23 3 1806 1968 608216042 608216205 1.980000e-34 158.0
117 TraesCS4A01G480500 chr3D 82.424 165 25 4 1807 1968 405375868 405376031 1.990000e-29 141.0
118 TraesCS4A01G480500 chr1A 78.049 287 30 25 1700 1968 51690446 51690717 3.310000e-32 150.0
119 TraesCS4A01G480500 chr1D 83.133 166 23 5 1806 1968 13396059 13395896 4.290000e-31 147.0
120 TraesCS4A01G480500 chr1D 83.230 161 25 2 1806 1964 443832521 443832361 4.290000e-31 147.0
121 TraesCS4A01G480500 chr1D 83.333 162 23 4 1810 1968 488644728 488644888 4.290000e-31 147.0
122 TraesCS4A01G480500 chr1D 82.209 163 26 3 1807 1966 2856543 2856381 2.580000e-28 137.0
123 TraesCS4A01G480500 chr1D 82.209 163 25 4 1807 1968 395712960 395713119 2.580000e-28 137.0
124 TraesCS4A01G480500 chr1D 82.390 159 25 3 1807 1964 395713949 395714105 9.280000e-28 135.0
125 TraesCS4A01G480500 chr1D 78.788 165 31 4 1806 1968 413734599 413734761 2.020000e-19 108.0
126 TraesCS4A01G480500 chr1D 91.935 62 4 1 1 62 20654937 20654997 9.480000e-13 86.1
127 TraesCS4A01G480500 chr6D 81.595 163 23 5 1807 1968 136743942 136744098 1.550000e-25 128.0
128 TraesCS4A01G480500 chr6D 81.132 159 24 4 1807 1964 136745273 136745426 7.220000e-24 122.0
129 TraesCS4A01G480500 chr6D 93.103 58 4 0 5 62 161386665 161386608 9.480000e-13 86.1
130 TraesCS4A01G480500 chr6D 88.889 63 6 1 1903 1964 37228308 37228370 5.700000e-10 76.8


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 TraesCS4A01G480500 chr4A 736960126 736965437 5311 True 9810.000000 9810 100.000000 1 5312 1 chr4A.!!$R6 5311
1 TraesCS4A01G480500 chr4A 736990808 736992374 1566 True 2894.000000 2894 100.000000 1 1567 1 chr4A.!!$R7 1566
2 TraesCS4A01G480500 chr4A 5764762 5765752 990 False 1221.000000 1221 89.102000 2488 3467 1 chr4A.!!$F1 979
3 TraesCS4A01G480500 chr4A 699043776 699044379 603 True 725.000000 725 88.633000 1371 1965 1 chr4A.!!$R2 594
4 TraesCS4A01G480500 chr4A 735893103 735897545 4442 True 522.716667 1171 91.567667 36 4493 6 chr4A.!!$R10 4457
5 TraesCS4A01G480500 chr4A 735094733 735097711 2978 True 520.883333 1157 91.575167 36 4493 6 chr4A.!!$R8 4457
6 TraesCS4A01G480500 chr4A 735874044 735875215 1171 True 420.500000 538 86.214000 4328 5311 2 chr4A.!!$R9 983
7 TraesCS4A01G480500 chrUn 335842087 335844611 2524 True 4652.000000 4652 99.921000 1 2525 1 chrUn.!!$R2 2524
8 TraesCS4A01G480500 chrUn 327027085 327028651 1566 False 2894.000000 2894 100.000000 1 1567 1 chrUn.!!$F2 1566
9 TraesCS4A01G480500 chrUn 382530067 382531064 997 True 1827.000000 1827 99.699000 1570 2567 1 chrUn.!!$R3 997
10 TraesCS4A01G480500 chrUn 89125405 89126278 873 True 336.000000 424 82.838500 1969 4300 2 chrUn.!!$R4 2331
11 TraesCS4A01G480500 chrUn 89318999 89319872 873 True 336.000000 424 82.838500 1969 4300 2 chrUn.!!$R5 2331
12 TraesCS4A01G480500 chr6B 641865383 641866368 985 False 1315.000000 1315 90.900000 2488 3465 1 chr6B.!!$F2 977
13 TraesCS4A01G480500 chr6B 691453210 691455414 2204 False 242.000000 243 82.753000 1689 1968 2 chr6B.!!$F4 279
14 TraesCS4A01G480500 chr1B 394217097 394218084 987 False 1312.000000 1312 90.799000 2488 3465 1 chr1B.!!$F1 977
15 TraesCS4A01G480500 chr1B 394302165 394303152 987 False 1306.000000 1306 90.698000 2488 3465 1 chr1B.!!$F2 977
16 TraesCS4A01G480500 chr1B 493721642 493722627 985 False 1227.000000 1227 89.282000 2488 3465 1 chr1B.!!$F3 977
17 TraesCS4A01G480500 chr4B 670452618 670454071 1453 False 960.000000 1275 91.778000 2488 3899 2 chr4B.!!$F3 1411
18 TraesCS4A01G480500 chr2B 31507784 31508768 984 True 1253.000000 1253 89.767000 2488 3465 1 chr2B.!!$R1 977
19 TraesCS4A01G480500 chr3A 726546721 726547712 991 False 1229.000000 1229 89.225000 2488 3468 1 chr3A.!!$F5 980
20 TraesCS4A01G480500 chr2A 19351075 19352063 988 False 1208.000000 1208 88.911000 2489 3468 1 chr2A.!!$F1 979
21 TraesCS4A01G480500 chr3B 354954030 354955800 1770 False 622.000000 688 90.441500 1371 1968 2 chr3B.!!$F3 597
22 TraesCS4A01G480500 chr7B 8932559 8933372 813 True 282.000000 379 82.850500 2007 4299 2 chr7B.!!$R2 2292
23 TraesCS4A01G480500 chr7B 716498136 716499883 1747 False 237.000000 239 84.326000 1724 1968 2 chr7B.!!$F5 244
24 TraesCS4A01G480500 chr7B 704094105 704095477 1372 False 212.000000 215 89.472000 1798 1968 2 chr7B.!!$F4 170
25 TraesCS4A01G480500 chr7A 6868792 6876675 7883 False 291.125000 569 88.565375 62 4879 8 chr7A.!!$F1 4817

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
2837 10256 4.039357 CACCGCGTGTCGACCTCT 62.039 66.667 14.12 0.0 41.67 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
4817 15086 0.396811 ACAGTGTACACAAGAGGCCC 59.603 55.0 27.06 0.0 0.0 5.8 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
2837 10256 4.039357 CACCGCGTGTCGACCTCT 62.039 66.667 14.12 0.00 41.67 3.69
2849 10268 1.807886 GACCTCTCGTGGTATGCGT 59.192 57.895 0.00 0.00 41.00 5.24
2855 10274 1.005512 TCGTGGTATGCGTTGTGCT 60.006 52.632 0.00 0.00 46.63 4.40
2904 10323 2.427905 CGCCGTTCTTCGTCACGA 60.428 61.111 0.00 0.00 38.76 4.35
3177 10600 1.638133 CGTCGTCGAGTCCTTCTCTA 58.362 55.000 0.00 0.00 40.75 2.43
3207 10630 1.014044 TGACTTCTTCGACATGGCGC 61.014 55.000 18.42 0.00 0.00 6.53
3286 10709 3.608662 GTCCACGACGTGTCCCCA 61.609 66.667 25.18 2.36 0.00 4.96
3430 10920 3.867723 CGTCAACAACGTCTCCTCT 57.132 52.632 0.00 0.00 46.42 3.69
3489 11013 3.644399 GACTTCCTCGACACCGGCC 62.644 68.421 0.00 0.00 36.24 6.13
3529 11054 2.690778 GGCATTCTTCGCACGGCTT 61.691 57.895 0.00 0.00 0.00 4.35
3581 11106 1.006832 GCTACATCGACAAACGGCAT 58.993 50.000 0.00 0.00 42.82 4.40
3639 11164 2.140792 ACTCCAGCCACAACTCCGT 61.141 57.895 0.00 0.00 0.00 4.69
3640 11165 0.830444 ACTCCAGCCACAACTCCGTA 60.830 55.000 0.00 0.00 0.00 4.02
3647 11172 1.064060 GCCACAACTCCGTAATGCATC 59.936 52.381 0.00 0.00 0.00 3.91
3651 11176 2.267426 CAACTCCGTAATGCATCGACA 58.733 47.619 9.20 0.00 0.00 4.35
3655 11180 3.129813 ACTCCGTAATGCATCGACAGTTA 59.870 43.478 9.20 0.00 0.00 2.24
3723 11249 4.538283 ATCGTCTGCGTCGCTCCG 62.538 66.667 19.50 16.58 39.49 4.63
3732 11258 2.338984 GTCGCTCCGGTTGTGACT 59.661 61.111 25.17 0.00 40.54 3.41
3737 11263 4.308458 TCCGGTTGTGACTGCGGG 62.308 66.667 0.00 0.00 33.20 6.13
3809 11335 5.346181 AGTTCTGGCTTGTCTTATACTCC 57.654 43.478 0.00 0.00 0.00 3.85
3861 11387 2.076100 CACGAGGCTCAAGCAATACAA 58.924 47.619 15.95 0.00 44.36 2.41
3870 11396 6.030228 GGCTCAAGCAATACAACAACTATTC 58.970 40.000 4.13 0.00 44.36 1.75
3873 11399 6.908825 TCAAGCAATACAACAACTATTCCAC 58.091 36.000 0.00 0.00 0.00 4.02
3877 11403 6.437162 AGCAATACAACAACTATTCCACCAAT 59.563 34.615 0.00 0.00 0.00 3.16
3887 11413 5.284582 ACTATTCCACCAATCCTCTCTCTT 58.715 41.667 0.00 0.00 0.00 2.85
3899 11425 7.365473 CCAATCCTCTCTCTTCCTTCTAACATT 60.365 40.741 0.00 0.00 0.00 2.71
3900 11426 6.783708 TCCTCTCTCTTCCTTCTAACATTC 57.216 41.667 0.00 0.00 0.00 2.67
3901 11427 6.256819 TCCTCTCTCTTCCTTCTAACATTCA 58.743 40.000 0.00 0.00 0.00 2.57
3902 11428 6.153680 TCCTCTCTCTTCCTTCTAACATTCAC 59.846 42.308 0.00 0.00 0.00 3.18
3977 11510 8.103305 ACTCATCGCCCATAATCTACAAATTAT 58.897 33.333 0.00 0.00 33.14 1.28
3999 11532 9.793259 ATTATTAACTTCCAAGACTTCAAGTGA 57.207 29.630 0.00 1.15 0.00 3.41
4000 11533 9.793259 TTATTAACTTCCAAGACTTCAAGTGAT 57.207 29.630 0.00 8.97 0.00 3.06
4001 11534 7.730364 TTAACTTCCAAGACTTCAAGTGATC 57.270 36.000 0.00 0.00 0.00 2.92
4002 11535 4.310769 ACTTCCAAGACTTCAAGTGATCG 58.689 43.478 0.00 0.00 0.00 3.69
4004 12396 4.179926 TCCAAGACTTCAAGTGATCGAG 57.820 45.455 0.00 0.00 0.00 4.04
4005 12397 3.574396 TCCAAGACTTCAAGTGATCGAGT 59.426 43.478 0.00 0.00 0.00 4.18
4015 13520 0.173481 GTGATCGAGTAGCCAGCACA 59.827 55.000 0.00 0.00 0.00 4.57
4018 13523 1.863454 GATCGAGTAGCCAGCACAATG 59.137 52.381 0.00 0.00 0.00 2.82
4021 13526 1.394917 CGAGTAGCCAGCACAATGTTC 59.605 52.381 0.00 0.00 0.00 3.18
4023 13528 3.012518 GAGTAGCCAGCACAATGTTCAT 58.987 45.455 0.00 0.00 0.00 2.57
4046 13595 6.420913 TGTCTAATCCTATCTTTAGGCACC 57.579 41.667 0.00 0.00 44.20 5.01
4047 13596 5.010719 TGTCTAATCCTATCTTTAGGCACCG 59.989 44.000 0.00 0.00 44.20 4.94
4048 13597 5.010820 GTCTAATCCTATCTTTAGGCACCGT 59.989 44.000 0.00 0.00 44.20 4.83
4049 13598 4.772886 AATCCTATCTTTAGGCACCGTT 57.227 40.909 0.00 0.00 44.20 4.44
4050 13599 3.814005 TCCTATCTTTAGGCACCGTTC 57.186 47.619 0.00 0.00 44.20 3.95
4051 13600 3.371965 TCCTATCTTTAGGCACCGTTCT 58.628 45.455 0.00 0.00 44.20 3.01
4052 13601 3.773119 TCCTATCTTTAGGCACCGTTCTT 59.227 43.478 0.00 0.00 44.20 2.52
4053 13602 4.120589 CCTATCTTTAGGCACCGTTCTTC 58.879 47.826 0.00 0.00 38.75 2.87
4054 13603 2.074547 TCTTTAGGCACCGTTCTTCG 57.925 50.000 0.00 0.00 39.52 3.79
4055 13604 1.342174 TCTTTAGGCACCGTTCTTCGT 59.658 47.619 0.00 0.00 37.94 3.85
4056 13605 1.459592 CTTTAGGCACCGTTCTTCGTG 59.540 52.381 0.00 0.00 37.94 4.35
4057 13606 0.320073 TTAGGCACCGTTCTTCGTGG 60.320 55.000 0.00 0.00 37.94 4.94
4058 13607 2.775032 TAGGCACCGTTCTTCGTGGC 62.775 60.000 5.69 5.69 41.87 5.01
4059 13608 3.723348 GCACCGTTCTTCGTGGCC 61.723 66.667 0.00 0.00 37.94 5.36
4060 13609 3.411351 CACCGTTCTTCGTGGCCG 61.411 66.667 0.00 0.00 37.94 6.13
4061 13610 4.675029 ACCGTTCTTCGTGGCCGG 62.675 66.667 0.00 0.00 44.06 6.13
4064 13613 3.723348 GTTCTTCGTGGCCGGCAC 61.723 66.667 30.85 22.29 33.95 5.01
4110 13659 1.226773 GCGCTTCATGCCATTGACC 60.227 57.895 0.00 0.00 38.78 4.02
4119 13668 3.439540 CCATTGACCCCAACGCCG 61.440 66.667 0.00 0.00 34.72 6.46
4218 13767 2.554893 GTGGTTCTTTTCGGGCATTGTA 59.445 45.455 0.00 0.00 0.00 2.41
4284 14232 2.418060 GCAGAGGAAGGAGTTACAGAGC 60.418 54.545 0.00 0.00 0.00 4.09
4287 14235 4.646945 CAGAGGAAGGAGTTACAGAGCATA 59.353 45.833 0.00 0.00 0.00 3.14
4353 14305 7.615403 TGATGTATTATCTATGGCAGAGGAAC 58.385 38.462 9.58 1.93 36.48 3.62
4362 14314 0.954452 GGCAGAGGAACAACTTGGTG 59.046 55.000 0.00 0.00 0.00 4.17
4366 14318 3.077359 CAGAGGAACAACTTGGTGATCC 58.923 50.000 6.84 6.84 40.00 3.36
4370 14322 2.420022 GGAACAACTTGGTGATCCGATG 59.580 50.000 0.00 0.00 31.63 3.84
4371 14323 2.859165 ACAACTTGGTGATCCGATGT 57.141 45.000 0.00 0.00 36.30 3.06
4372 14324 3.973206 ACAACTTGGTGATCCGATGTA 57.027 42.857 0.00 0.00 36.30 2.29
4373 14325 3.596214 ACAACTTGGTGATCCGATGTAC 58.404 45.455 0.00 0.00 36.30 2.90
4374 14326 2.579207 ACTTGGTGATCCGATGTACG 57.421 50.000 0.00 0.00 42.18 3.67
4375 14327 2.097036 ACTTGGTGATCCGATGTACGA 58.903 47.619 0.00 0.00 45.77 3.43
4384 14336 5.049198 GTGATCCGATGTACGAGTATTACCA 60.049 44.000 0.00 0.00 45.77 3.25
4519 14479 1.876156 GGATGTTTGCCTCGGATGATC 59.124 52.381 0.00 0.00 0.00 2.92
4566 14530 4.868314 ATAGCTGTTTATAGGTCCGGAC 57.132 45.455 27.04 27.04 0.00 4.79
4567 14531 2.748388 AGCTGTTTATAGGTCCGGACT 58.252 47.619 32.52 20.76 0.00 3.85
4568 14532 2.694109 AGCTGTTTATAGGTCCGGACTC 59.306 50.000 32.52 22.35 0.00 3.36
4569 14533 2.223994 GCTGTTTATAGGTCCGGACTCC 60.224 54.545 32.52 18.61 0.00 3.85
4570 14534 2.364647 CTGTTTATAGGTCCGGACTCCC 59.635 54.545 32.52 17.83 0.00 4.30
4589 14553 2.485479 CCCGGAATCAGTTGGTAGATGG 60.485 54.545 0.73 0.00 0.00 3.51
4630 14597 3.573110 AGATATTTACTCCCTCCGTTCGG 59.427 47.826 4.74 4.74 0.00 4.30
4631 14598 1.856629 ATTTACTCCCTCCGTTCGGA 58.143 50.000 13.34 13.34 0.00 4.55
4632 14599 1.631405 TTTACTCCCTCCGTTCGGAA 58.369 50.000 14.79 0.04 33.41 4.30
4633 14600 1.856629 TTACTCCCTCCGTTCGGAAT 58.143 50.000 14.79 2.09 33.41 3.01
4634 14601 1.856629 TACTCCCTCCGTTCGGAATT 58.143 50.000 14.79 0.00 33.41 2.17
4636 14603 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
4637 14604 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
4638 14605 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
4639 14606 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
4640 14607 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
4641 14608 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
4642 14609 2.597305 CTCCGTTCGGAATTACTTGTCG 59.403 50.000 14.79 0.00 33.41 4.35
4643 14610 1.060122 CCGTTCGGAATTACTTGTCGC 59.940 52.381 5.19 0.00 0.00 5.19
4644 14611 1.722464 CGTTCGGAATTACTTGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
4645 14612 2.156117 CGTTCGGAATTACTTGTCGCAA 59.844 45.455 0.00 0.00 0.00 4.85
4646 14613 3.363182 CGTTCGGAATTACTTGTCGCAAA 60.363 43.478 0.00 0.00 0.00 3.68
4647 14614 4.529446 GTTCGGAATTACTTGTCGCAAAA 58.471 39.130 0.00 0.00 0.00 2.44
4648 14615 4.815040 TCGGAATTACTTGTCGCAAAAA 57.185 36.364 0.00 0.00 0.00 1.94
4649 14616 5.365403 TCGGAATTACTTGTCGCAAAAAT 57.635 34.783 0.00 0.00 0.00 1.82
4650 14617 6.483385 TCGGAATTACTTGTCGCAAAAATA 57.517 33.333 0.00 0.00 0.00 1.40
4651 14618 6.539324 TCGGAATTACTTGTCGCAAAAATAG 58.461 36.000 0.00 0.00 0.00 1.73
4652 14619 6.369340 TCGGAATTACTTGTCGCAAAAATAGA 59.631 34.615 0.00 0.00 0.00 1.98
4653 14620 7.065324 TCGGAATTACTTGTCGCAAAAATAGAT 59.935 33.333 0.00 0.00 0.00 1.98
4654 14621 7.164171 CGGAATTACTTGTCGCAAAAATAGATG 59.836 37.037 0.00 0.00 0.00 2.90
4655 14622 7.968405 GGAATTACTTGTCGCAAAAATAGATGT 59.032 33.333 0.00 0.00 0.00 3.06
4656 14623 9.982291 GAATTACTTGTCGCAAAAATAGATGTA 57.018 29.630 0.00 0.00 0.00 2.29
4659 14626 7.849804 ACTTGTCGCAAAAATAGATGTATCT 57.150 32.000 0.00 0.00 40.86 1.98
4660 14627 8.942338 ACTTGTCGCAAAAATAGATGTATCTA 57.058 30.769 4.22 4.22 43.00 1.98
4661 14628 9.035607 ACTTGTCGCAAAAATAGATGTATCTAG 57.964 33.333 7.57 0.00 42.20 2.43
4662 14629 9.249457 CTTGTCGCAAAAATAGATGTATCTAGA 57.751 33.333 7.57 0.00 42.20 2.43
4663 14630 8.575565 TGTCGCAAAAATAGATGTATCTAGAC 57.424 34.615 0.00 7.60 42.20 2.59
4664 14631 7.378728 TGTCGCAAAAATAGATGTATCTAGACG 59.621 37.037 0.00 5.27 42.20 4.18
4665 14632 6.362551 TCGCAAAAATAGATGTATCTAGACGC 59.637 38.462 0.00 5.19 42.20 5.19
4666 14633 6.143919 CGCAAAAATAGATGTATCTAGACGCA 59.856 38.462 0.00 0.00 42.20 5.24
4667 14634 7.148738 CGCAAAAATAGATGTATCTAGACGCAT 60.149 37.037 9.78 9.78 42.20 4.73
4668 14635 8.499162 GCAAAAATAGATGTATCTAGACGCATT 58.501 33.333 10.93 5.75 42.20 3.56
4676 14643 9.601217 AGATGTATCTAGACGCATTTTAGTTTT 57.399 29.630 10.93 0.00 34.85 2.43
4707 14674 6.737254 TCCATTTTCGAGACAAGTAATTCC 57.263 37.500 0.00 0.00 0.00 3.01
4708 14675 5.350365 TCCATTTTCGAGACAAGTAATTCCG 59.650 40.000 0.00 0.00 0.00 4.30
4709 14676 5.350365 CCATTTTCGAGACAAGTAATTCCGA 59.650 40.000 0.00 0.00 0.00 4.55
4710 14677 6.128391 CCATTTTCGAGACAAGTAATTCCGAA 60.128 38.462 0.00 0.00 33.57 4.30
4711 14678 5.834239 TTTCGAGACAAGTAATTCCGAAC 57.166 39.130 0.00 0.00 34.86 3.95
4712 14679 4.508461 TCGAGACAAGTAATTCCGAACA 57.492 40.909 0.00 0.00 0.00 3.18
4713 14680 4.482386 TCGAGACAAGTAATTCCGAACAG 58.518 43.478 0.00 0.00 0.00 3.16
4714 14681 4.216902 TCGAGACAAGTAATTCCGAACAGA 59.783 41.667 0.00 0.00 0.00 3.41
4715 14682 4.921515 CGAGACAAGTAATTCCGAACAGAA 59.078 41.667 0.00 0.00 0.00 3.02
4716 14683 5.061064 CGAGACAAGTAATTCCGAACAGAAG 59.939 44.000 0.00 0.00 0.00 2.85
4717 14684 5.238583 AGACAAGTAATTCCGAACAGAAGG 58.761 41.667 0.00 0.00 0.00 3.46
4718 14685 5.011738 AGACAAGTAATTCCGAACAGAAGGA 59.988 40.000 0.00 0.00 34.19 3.36
4719 14686 5.238583 ACAAGTAATTCCGAACAGAAGGAG 58.761 41.667 0.00 0.00 37.88 3.69
4720 14687 5.221661 ACAAGTAATTCCGAACAGAAGGAGT 60.222 40.000 0.00 0.00 37.88 3.85
4721 14688 6.014840 ACAAGTAATTCCGAACAGAAGGAGTA 60.015 38.462 0.00 0.00 37.88 2.59
4722 14689 5.963594 AGTAATTCCGAACAGAAGGAGTAC 58.036 41.667 0.00 0.00 37.88 2.73
4723 14690 4.884668 AATTCCGAACAGAAGGAGTACA 57.115 40.909 0.00 0.00 37.88 2.90
4741 14708 5.715070 AGTACATAACAGAGTGCTTGTCTC 58.285 41.667 0.00 0.00 0.00 3.36
4747 14714 1.542030 CAGAGTGCTTGTCTCGTACCT 59.458 52.381 0.00 0.00 37.07 3.08
4757 14724 4.084265 TCGTACCTCGAAGTGGCA 57.916 55.556 0.00 0.00 46.54 4.92
4826 15095 2.119484 TACGGTGGTTGGGCCTCTTG 62.119 60.000 4.53 0.00 38.35 3.02
4834 15103 1.136828 TTGGGCCTCTTGTGTACACT 58.863 50.000 25.60 0.00 0.00 3.55
4837 15106 1.512926 GGCCTCTTGTGTACACTGTG 58.487 55.000 25.60 17.48 0.00 3.66
4918 15188 5.835280 CCCTTATAACCGGTTAGAGGAGTAA 59.165 44.000 37.29 26.24 35.78 2.24
4928 15198 4.698780 GGTTAGAGGAGTAAAAATGCGGTT 59.301 41.667 0.00 0.00 0.00 4.44
4942 15212 4.820894 ATGCGGTTTTACTCCTCTAACT 57.179 40.909 0.00 0.00 0.00 2.24
4943 15213 3.921677 TGCGGTTTTACTCCTCTAACTG 58.078 45.455 0.00 0.00 0.00 3.16
4964 15234 2.417719 GCACCTAGCCGATCCTTTATG 58.582 52.381 0.00 0.00 37.23 1.90
4967 15237 3.039011 ACCTAGCCGATCCTTTATGTGT 58.961 45.455 0.00 0.00 0.00 3.72
5029 15299 6.401047 TCTCCTTATATTTACTCCACCACG 57.599 41.667 0.00 0.00 0.00 4.94
5031 15301 3.739300 CCTTATATTTACTCCACCACGCG 59.261 47.826 3.53 3.53 0.00 6.01
5033 15303 0.460635 TATTTACTCCACCACGCGGC 60.461 55.000 12.47 0.00 34.57 6.53
5095 15365 3.536917 CCTCCCGTGCCGCATCTA 61.537 66.667 0.00 0.00 0.00 1.98
5096 15366 2.737180 CTCCCGTGCCGCATCTAT 59.263 61.111 0.00 0.00 0.00 1.98
5164 15434 2.038659 GGAAGCTCCATAGTCTCTGCT 58.961 52.381 0.00 0.00 36.28 4.24
5165 15435 2.224018 GGAAGCTCCATAGTCTCTGCTG 60.224 54.545 0.00 0.00 36.28 4.41
5166 15436 0.752054 AGCTCCATAGTCTCTGCTGC 59.248 55.000 0.00 0.00 0.00 5.25
5167 15437 0.752054 GCTCCATAGTCTCTGCTGCT 59.248 55.000 0.00 0.00 0.00 4.24
5168 15438 1.538634 GCTCCATAGTCTCTGCTGCTG 60.539 57.143 0.00 0.00 0.00 4.41
5173 15443 1.930251 TAGTCTCTGCTGCTGTCCTT 58.070 50.000 0.00 0.00 0.00 3.36
5175 15445 1.155042 GTCTCTGCTGCTGTCCTTTG 58.845 55.000 0.00 0.00 0.00 2.77
5180 15450 2.195567 GCTGCTGTCCTTTGCCACA 61.196 57.895 0.00 0.00 0.00 4.17
5203 15473 2.521958 ATTTGTGCCTCCTCGTCCCG 62.522 60.000 0.00 0.00 0.00 5.14
5208 15478 2.361357 CCTCCTCGTCCCGTCACT 60.361 66.667 0.00 0.00 0.00 3.41
5209 15479 1.077930 CCTCCTCGTCCCGTCACTA 60.078 63.158 0.00 0.00 0.00 2.74
5214 15484 2.037913 CTCGTCCCGTCACTAGCGAG 62.038 65.000 0.00 0.00 39.50 5.03
5219 15489 0.802607 CCCGTCACTAGCGAGAAAGC 60.803 60.000 0.00 0.00 37.41 3.51
5220 15490 0.109272 CCGTCACTAGCGAGAAAGCA 60.109 55.000 0.00 0.00 40.15 3.91
5230 15500 1.649664 CGAGAAAGCAGTGGATCTGG 58.350 55.000 0.00 0.00 43.78 3.86
5233 15503 1.000396 AAAGCAGTGGATCTGGGGC 60.000 57.895 0.00 0.00 43.78 5.80
5234 15504 1.504275 AAAGCAGTGGATCTGGGGCT 61.504 55.000 0.00 0.00 43.78 5.19
5265 15535 2.149599 GCCGTATTTGGCGTTTGCG 61.150 57.895 0.00 0.00 46.75 4.85
5306 15576 2.123726 ATGGATTGGCCGGGAAGC 60.124 61.111 2.18 0.00 40.66 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2837 10256 1.005512 AGCACAACGCATACCACGA 60.006 52.632 0.00 0.00 46.13 4.35
2849 10268 1.228245 GCCAAGGGAGACAGCACAA 60.228 57.895 0.00 0.00 0.00 3.33
2892 10311 0.109458 CCCGACATCGTGACGAAGAA 60.109 55.000 17.44 0.00 39.99 2.52
2981 10404 2.742372 GCGGCCAAAGAAGAGCGA 60.742 61.111 2.24 0.00 0.00 4.93
3042 10465 0.039437 GTGCTGGACGAAGACGAAGA 60.039 55.000 0.00 0.00 42.66 2.87
3151 10574 3.584250 GACTCGACGACGGTTGCGA 62.584 63.158 7.55 12.18 40.21 5.10
3177 10600 1.899142 GAAGAAGTCAGAGAGGCCAGT 59.101 52.381 5.01 0.00 0.00 4.00
3422 10912 4.500116 GTGCGCCGGAGAGGAGAC 62.500 72.222 10.31 0.00 43.02 3.36
3429 10919 3.296709 AAGTAGTGGTGCGCCGGAG 62.297 63.158 12.58 1.55 37.67 4.63
3430 10920 3.291101 GAAGTAGTGGTGCGCCGGA 62.291 63.158 12.58 0.00 37.67 5.14
3489 11013 1.153823 GTCGATGTCAGTCGGGGTG 60.154 63.158 0.00 0.00 41.74 4.61
3493 11017 1.514228 CGTGGTCGATGTCAGTCGG 60.514 63.158 0.00 0.00 41.74 4.79
3529 11054 4.671590 TGGAGCCGTGGTCGAGGA 62.672 66.667 0.00 0.00 39.71 3.71
3555 11080 1.460504 TTGTCGATGTAGCCGAGAGT 58.539 50.000 0.00 0.00 36.66 3.24
3556 11081 2.186076 GTTTGTCGATGTAGCCGAGAG 58.814 52.381 0.00 0.00 36.66 3.20
3608 11133 1.673920 GCTGGAGTGAAAACCGACAAA 59.326 47.619 0.00 0.00 0.00 2.83
3610 11135 0.534203 GGCTGGAGTGAAAACCGACA 60.534 55.000 0.00 0.00 0.00 4.35
3614 11139 1.067060 GTTGTGGCTGGAGTGAAAACC 59.933 52.381 0.00 0.00 0.00 3.27
3639 11164 4.102649 CAGTCGTAACTGTCGATGCATTA 58.897 43.478 0.00 0.00 46.52 1.90
3640 11165 2.923655 CAGTCGTAACTGTCGATGCATT 59.076 45.455 0.00 0.00 46.52 3.56
3794 11320 6.818644 TGATCAACTTGGAGTATAAGACAAGC 59.181 38.462 0.00 0.00 42.97 4.01
3840 11366 1.009829 GTATTGCTTGAGCCTCGTGG 58.990 55.000 0.00 0.00 41.18 4.94
3861 11387 4.785376 AGAGAGGATTGGTGGAATAGTTGT 59.215 41.667 0.00 0.00 0.00 3.32
3870 11396 2.476199 AGGAAGAGAGAGGATTGGTGG 58.524 52.381 0.00 0.00 0.00 4.61
3873 11399 5.423610 TGTTAGAAGGAAGAGAGAGGATTGG 59.576 44.000 0.00 0.00 0.00 3.16
3877 11403 6.153680 GTGAATGTTAGAAGGAAGAGAGAGGA 59.846 42.308 0.00 0.00 0.00 3.71
3887 11413 4.508461 TTCGACGTGAATGTTAGAAGGA 57.492 40.909 0.00 0.00 0.00 3.36
3899 11425 5.041287 CCTTTGCTTCTATATTCGACGTGA 58.959 41.667 0.00 0.00 0.00 4.35
3900 11426 5.041287 TCCTTTGCTTCTATATTCGACGTG 58.959 41.667 0.00 0.00 0.00 4.49
3901 11427 5.258456 TCCTTTGCTTCTATATTCGACGT 57.742 39.130 0.00 0.00 0.00 4.34
3902 11428 6.399039 CGATTCCTTTGCTTCTATATTCGACG 60.399 42.308 0.00 0.00 0.00 5.12
3977 11510 6.423905 CGATCACTTGAAGTCTTGGAAGTTAA 59.576 38.462 0.00 0.00 0.00 2.01
3986 11519 4.381079 GGCTACTCGATCACTTGAAGTCTT 60.381 45.833 0.00 0.00 0.00 3.01
3987 11520 3.129638 GGCTACTCGATCACTTGAAGTCT 59.870 47.826 0.00 0.00 0.00 3.24
3988 11521 3.119459 TGGCTACTCGATCACTTGAAGTC 60.119 47.826 0.00 0.00 0.00 3.01
3990 11523 3.443037 CTGGCTACTCGATCACTTGAAG 58.557 50.000 0.00 0.00 0.00 3.02
3991 11524 2.417379 GCTGGCTACTCGATCACTTGAA 60.417 50.000 0.00 0.00 0.00 2.69
3992 11525 1.135139 GCTGGCTACTCGATCACTTGA 59.865 52.381 0.00 0.00 0.00 3.02
3993 11526 1.134995 TGCTGGCTACTCGATCACTTG 60.135 52.381 0.00 0.00 0.00 3.16
3994 11527 1.134965 GTGCTGGCTACTCGATCACTT 60.135 52.381 0.00 0.00 0.00 3.16
3995 11528 0.457851 GTGCTGGCTACTCGATCACT 59.542 55.000 0.00 0.00 0.00 3.41
3997 11530 0.894835 TTGTGCTGGCTACTCGATCA 59.105 50.000 0.00 0.00 0.00 2.92
3999 11532 1.208052 ACATTGTGCTGGCTACTCGAT 59.792 47.619 0.00 0.00 0.00 3.59
4000 11533 0.608130 ACATTGTGCTGGCTACTCGA 59.392 50.000 0.00 0.00 0.00 4.04
4001 11534 1.394917 GAACATTGTGCTGGCTACTCG 59.605 52.381 0.00 0.00 0.00 4.18
4002 11535 2.426522 TGAACATTGTGCTGGCTACTC 58.573 47.619 0.00 0.00 0.00 2.59
4004 12396 2.489329 ACATGAACATTGTGCTGGCTAC 59.511 45.455 0.00 0.00 0.00 3.58
4005 12397 2.749076 GACATGAACATTGTGCTGGCTA 59.251 45.455 0.00 0.00 0.00 3.93
4047 13596 3.723348 GTGCCGGCCACGAAGAAC 61.723 66.667 26.77 9.00 44.60 3.01
4070 13619 4.796231 CCTCCACGAAGGCGGACG 62.796 72.222 2.16 0.00 45.73 4.79
4076 13625 4.785453 GCCTGGCCTCCACGAAGG 62.785 72.222 7.66 0.52 39.62 3.46
4083 13632 4.496336 ATGAAGCGCCTGGCCTCC 62.496 66.667 14.12 0.00 45.17 4.30
4084 13633 3.207669 CATGAAGCGCCTGGCCTC 61.208 66.667 14.12 8.06 45.17 4.70
4099 13648 2.350458 GCGTTGGGGTCAATGGCAT 61.350 57.895 0.00 0.00 39.59 4.40
4110 13659 1.078001 ATAGGTTTCCGGCGTTGGG 60.078 57.895 6.01 0.00 0.00 4.12
4119 13668 2.309764 CTGTGCGCGCATAGGTTTCC 62.310 60.000 39.98 24.88 32.56 3.13
4176 13725 2.168458 TGATCCGGTGTCCCAAGATA 57.832 50.000 0.00 0.00 0.00 1.98
4178 13727 0.541392 CATGATCCGGTGTCCCAAGA 59.459 55.000 0.00 0.00 0.00 3.02
4218 13767 1.156736 CATCGAGCAAAAAGTCGGGT 58.843 50.000 0.00 0.00 36.81 5.28
4307 14255 4.038522 TCAGATGACTACCTAGCATTCAGC 59.961 45.833 0.00 0.00 46.19 4.26
4353 14305 2.603110 CGTACATCGGATCACCAAGTTG 59.397 50.000 0.00 0.00 35.59 3.16
4362 14314 5.618056 TGGTAATACTCGTACATCGGATC 57.382 43.478 0.00 0.00 40.32 3.36
4366 14318 7.081976 TCATGAATGGTAATACTCGTACATCG 58.918 38.462 0.00 0.00 41.41 3.84
4451 14410 9.797556 CCTGGATAAATCATATTTGTATGCATG 57.202 33.333 10.16 0.00 0.00 4.06
4519 14479 7.928103 AGTTGACATACTACACCGTAGATAAG 58.072 38.462 8.11 0.00 0.00 1.73
4547 14509 2.694109 GAGTCCGGACCTATAAACAGCT 59.306 50.000 30.82 7.68 0.00 4.24
4566 14530 2.108168 TCTACCAACTGATTCCGGGAG 58.892 52.381 0.00 0.00 0.00 4.30
4567 14531 2.241281 TCTACCAACTGATTCCGGGA 57.759 50.000 0.00 0.00 0.00 5.14
4568 14532 2.485479 CCATCTACCAACTGATTCCGGG 60.485 54.545 0.00 0.00 0.00 5.73
4569 14533 2.838736 CCATCTACCAACTGATTCCGG 58.161 52.381 0.00 0.00 0.00 5.14
4570 14534 2.158900 AGCCATCTACCAACTGATTCCG 60.159 50.000 0.00 0.00 0.00 4.30
4571 14535 3.567478 AGCCATCTACCAACTGATTCC 57.433 47.619 0.00 0.00 0.00 3.01
4572 14536 7.573968 ATTTTAGCCATCTACCAACTGATTC 57.426 36.000 0.00 0.00 0.00 2.52
4573 14537 8.052748 TGTATTTTAGCCATCTACCAACTGATT 58.947 33.333 0.00 0.00 0.00 2.57
4574 14538 7.573710 TGTATTTTAGCCATCTACCAACTGAT 58.426 34.615 0.00 0.00 0.00 2.90
4577 14541 7.195374 TCTGTATTTTAGCCATCTACCAACT 57.805 36.000 0.00 0.00 0.00 3.16
4618 14585 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
4619 14586 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
4630 14597 8.895932 ACATCTATTTTTGCGACAAGTAATTC 57.104 30.769 0.00 0.00 0.00 2.17
4633 14600 9.378551 AGATACATCTATTTTTGCGACAAGTAA 57.621 29.630 0.00 0.00 34.85 2.24
4634 14601 8.942338 AGATACATCTATTTTTGCGACAAGTA 57.058 30.769 0.00 0.00 34.85 2.24
4636 14603 9.249457 TCTAGATACATCTATTTTTGCGACAAG 57.751 33.333 0.00 0.00 38.60 3.16
4637 14604 9.031360 GTCTAGATACATCTATTTTTGCGACAA 57.969 33.333 0.00 0.00 38.60 3.18
4638 14605 7.378728 CGTCTAGATACATCTATTTTTGCGACA 59.621 37.037 0.00 0.00 38.60 4.35
4639 14606 7.617528 GCGTCTAGATACATCTATTTTTGCGAC 60.618 40.741 0.00 2.21 38.60 5.19
4640 14607 6.362551 GCGTCTAGATACATCTATTTTTGCGA 59.637 38.462 0.00 0.00 38.60 5.10
4641 14608 6.143919 TGCGTCTAGATACATCTATTTTTGCG 59.856 38.462 0.00 0.00 38.60 4.85
4642 14609 7.408132 TGCGTCTAGATACATCTATTTTTGC 57.592 36.000 0.00 2.20 38.60 3.68
4650 14617 9.601217 AAAACTAAAATGCGTCTAGATACATCT 57.399 29.630 10.00 0.00 40.86 2.90
4681 14648 9.057089 GGAATTACTTGTCTCGAAAATGGATAT 57.943 33.333 0.00 0.00 0.00 1.63
4682 14649 7.223971 CGGAATTACTTGTCTCGAAAATGGATA 59.776 37.037 0.00 0.00 0.00 2.59
4683 14650 6.037172 CGGAATTACTTGTCTCGAAAATGGAT 59.963 38.462 0.00 0.00 0.00 3.41
4684 14651 5.350365 CGGAATTACTTGTCTCGAAAATGGA 59.650 40.000 0.00 0.00 0.00 3.41
4685 14652 5.350365 TCGGAATTACTTGTCTCGAAAATGG 59.650 40.000 0.00 0.00 0.00 3.16
4686 14653 6.403333 TCGGAATTACTTGTCTCGAAAATG 57.597 37.500 0.00 0.00 0.00 2.32
4687 14654 6.425721 TGTTCGGAATTACTTGTCTCGAAAAT 59.574 34.615 0.00 0.00 37.00 1.82
4688 14655 5.754406 TGTTCGGAATTACTTGTCTCGAAAA 59.246 36.000 0.00 0.00 37.00 2.29
4689 14656 5.291178 TGTTCGGAATTACTTGTCTCGAAA 58.709 37.500 0.00 0.00 37.00 3.46
4690 14657 4.873817 TGTTCGGAATTACTTGTCTCGAA 58.126 39.130 0.00 0.00 33.66 3.71
4691 14658 4.216902 TCTGTTCGGAATTACTTGTCTCGA 59.783 41.667 0.00 0.00 0.00 4.04
4692 14659 4.482386 TCTGTTCGGAATTACTTGTCTCG 58.518 43.478 0.00 0.00 0.00 4.04
4693 14660 5.348997 CCTTCTGTTCGGAATTACTTGTCTC 59.651 44.000 0.00 0.00 0.00 3.36
4694 14661 5.011738 TCCTTCTGTTCGGAATTACTTGTCT 59.988 40.000 0.00 0.00 0.00 3.41
4695 14662 5.235516 TCCTTCTGTTCGGAATTACTTGTC 58.764 41.667 0.00 0.00 0.00 3.18
4696 14663 5.221661 ACTCCTTCTGTTCGGAATTACTTGT 60.222 40.000 0.00 0.00 0.00 3.16
4697 14664 5.238583 ACTCCTTCTGTTCGGAATTACTTG 58.761 41.667 0.00 0.00 0.00 3.16
4698 14665 5.485209 ACTCCTTCTGTTCGGAATTACTT 57.515 39.130 0.00 0.00 0.00 2.24
4699 14666 5.479375 TGTACTCCTTCTGTTCGGAATTACT 59.521 40.000 0.00 0.00 0.00 2.24
4700 14667 5.717119 TGTACTCCTTCTGTTCGGAATTAC 58.283 41.667 0.00 0.00 0.00 1.89
4701 14668 5.988310 TGTACTCCTTCTGTTCGGAATTA 57.012 39.130 0.00 0.00 0.00 1.40
4702 14669 4.884668 TGTACTCCTTCTGTTCGGAATT 57.115 40.909 0.00 0.00 0.00 2.17
4703 14670 6.070995 TGTTATGTACTCCTTCTGTTCGGAAT 60.071 38.462 0.00 0.00 0.00 3.01
4704 14671 5.244402 TGTTATGTACTCCTTCTGTTCGGAA 59.756 40.000 0.00 0.00 0.00 4.30
4705 14672 4.768448 TGTTATGTACTCCTTCTGTTCGGA 59.232 41.667 0.00 0.00 0.00 4.55
4706 14673 5.068234 TGTTATGTACTCCTTCTGTTCGG 57.932 43.478 0.00 0.00 0.00 4.30
4707 14674 5.950883 TCTGTTATGTACTCCTTCTGTTCG 58.049 41.667 0.00 0.00 0.00 3.95
4708 14675 6.809196 CACTCTGTTATGTACTCCTTCTGTTC 59.191 42.308 0.00 0.00 0.00 3.18
4709 14676 6.692486 CACTCTGTTATGTACTCCTTCTGTT 58.308 40.000 0.00 0.00 0.00 3.16
4710 14677 5.336849 GCACTCTGTTATGTACTCCTTCTGT 60.337 44.000 0.00 0.00 0.00 3.41
4711 14678 5.105554 AGCACTCTGTTATGTACTCCTTCTG 60.106 44.000 0.00 0.00 0.00 3.02
4712 14679 5.020132 AGCACTCTGTTATGTACTCCTTCT 58.980 41.667 0.00 0.00 0.00 2.85
4713 14680 5.331876 AGCACTCTGTTATGTACTCCTTC 57.668 43.478 0.00 0.00 0.00 3.46
4714 14681 5.012148 ACAAGCACTCTGTTATGTACTCCTT 59.988 40.000 0.00 0.00 0.00 3.36
4715 14682 4.528596 ACAAGCACTCTGTTATGTACTCCT 59.471 41.667 0.00 0.00 0.00 3.69
4716 14683 4.822026 ACAAGCACTCTGTTATGTACTCC 58.178 43.478 0.00 0.00 0.00 3.85
4717 14684 5.715070 AGACAAGCACTCTGTTATGTACTC 58.285 41.667 0.00 0.00 0.00 2.59
4718 14685 5.620205 CGAGACAAGCACTCTGTTATGTACT 60.620 44.000 0.00 0.00 32.87 2.73
4719 14686 4.559251 CGAGACAAGCACTCTGTTATGTAC 59.441 45.833 0.00 0.00 32.87 2.90
4720 14687 4.217767 ACGAGACAAGCACTCTGTTATGTA 59.782 41.667 0.00 0.00 32.87 2.29
4721 14688 3.005897 ACGAGACAAGCACTCTGTTATGT 59.994 43.478 0.00 0.00 32.87 2.29
4722 14689 3.579709 ACGAGACAAGCACTCTGTTATG 58.420 45.455 0.00 0.00 32.87 1.90
4723 14690 3.944055 ACGAGACAAGCACTCTGTTAT 57.056 42.857 0.00 0.00 32.87 1.89
4741 14708 0.999406 CATTGCCACTTCGAGGTACG 59.001 55.000 0.00 0.00 44.09 3.67
4757 14724 3.525221 GGCAATACAGGGCGCATT 58.475 55.556 10.83 0.00 0.00 3.56
4817 15086 0.396811 ACAGTGTACACAAGAGGCCC 59.603 55.000 27.06 0.00 0.00 5.80
4826 15095 3.488721 CGAGGTATAGCCACAGTGTACAC 60.489 52.174 18.56 18.56 40.61 2.90
4834 15103 1.458777 CCCCCGAGGTATAGCCACA 60.459 63.158 0.00 0.00 40.61 4.17
4837 15106 1.900545 GATGCCCCCGAGGTATAGCC 61.901 65.000 0.00 0.00 41.77 3.93
4887 15157 1.966354 ACCGGTTATAAGGGATCGGTC 59.034 52.381 0.00 0.00 46.25 4.79
4918 15188 6.002082 AGTTAGAGGAGTAAAACCGCATTTT 58.998 36.000 1.70 1.70 43.18 1.82
4928 15198 3.517612 AGGTGCCAGTTAGAGGAGTAAA 58.482 45.455 0.00 0.00 0.00 2.01
4956 15226 7.692460 TTACTCTCTTACGACACATAAAGGA 57.308 36.000 0.00 0.00 0.00 3.36
4988 15258 9.822727 ATAAGGAGAATTTTGGAAAGGAAGTAA 57.177 29.630 0.00 0.00 0.00 2.24
4990 15260 9.997172 ATATAAGGAGAATTTTGGAAAGGAAGT 57.003 29.630 0.00 0.00 0.00 3.01
5141 15411 0.318275 GAGACTATGGAGCTTCCGCG 60.318 60.000 0.00 0.00 40.17 6.46
5143 15413 1.269517 GCAGAGACTATGGAGCTTCCG 60.270 57.143 0.00 0.00 40.17 4.30
5153 15423 2.157640 AGGACAGCAGCAGAGACTAT 57.842 50.000 0.00 0.00 0.00 2.12
5157 15427 0.604780 GCAAAGGACAGCAGCAGAGA 60.605 55.000 0.00 0.00 0.00 3.10
5161 15431 2.195411 TGGCAAAGGACAGCAGCA 59.805 55.556 0.00 0.00 0.00 4.41
5164 15434 1.236616 CGATGTGGCAAAGGACAGCA 61.237 55.000 0.00 0.00 27.55 4.41
5165 15435 0.955428 TCGATGTGGCAAAGGACAGC 60.955 55.000 0.00 0.00 27.55 4.40
5166 15436 1.742761 ATCGATGTGGCAAAGGACAG 58.257 50.000 0.00 0.00 27.55 3.51
5167 15437 2.198827 AATCGATGTGGCAAAGGACA 57.801 45.000 0.00 0.00 0.00 4.02
5168 15438 2.228822 ACAAATCGATGTGGCAAAGGAC 59.771 45.455 19.65 0.00 30.82 3.85
5180 15450 0.537188 ACGAGGAGGCACAAATCGAT 59.463 50.000 9.56 0.00 37.16 3.59
5203 15473 1.989165 CACTGCTTTCTCGCTAGTGAC 59.011 52.381 0.70 0.00 39.33 3.67
5208 15478 2.103373 AGATCCACTGCTTTCTCGCTA 58.897 47.619 0.00 0.00 0.00 4.26
5209 15479 0.901124 AGATCCACTGCTTTCTCGCT 59.099 50.000 0.00 0.00 0.00 4.93
5214 15484 1.034292 GCCCCAGATCCACTGCTTTC 61.034 60.000 0.00 0.00 44.52 2.62
5219 15489 2.124403 GCAGCCCCAGATCCACTG 60.124 66.667 0.00 0.00 45.36 3.66
5220 15490 2.285969 AGCAGCCCCAGATCCACT 60.286 61.111 0.00 0.00 0.00 4.00
5250 15520 1.070471 CTGCCGCAAACGCCAAATAC 61.070 55.000 0.00 0.00 38.22 1.89
5251 15521 1.211449 CTGCCGCAAACGCCAAATA 59.789 52.632 0.00 0.00 38.22 1.40
5288 15558 2.492773 GCTTCCCGGCCAATCCATG 61.493 63.158 2.24 0.00 34.01 3.66


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

AutoCloner maintained by Alex Coulton.