Multiple sequence alignment - TraesCS3D01G046900

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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 TraesCS3D01G046900 chr3D 100.000 6422 0 0 1 6422 17647451 17641030 0.000000e+00 11860.0
1 TraesCS3D01G046900 chr3D 90.034 1475 133 6 3830 5291 11354285 11355758 0.000000e+00 1897.0
2 TraesCS3D01G046900 chr3D 83.751 1797 225 44 3458 5221 17376002 17377764 0.000000e+00 1639.0
3 TraesCS3D01G046900 chr3D 83.416 1809 223 52 3455 5221 17515375 17513602 0.000000e+00 1607.0
4 TraesCS3D01G046900 chr3D 78.173 2584 313 114 926 3393 17373229 17375677 0.000000e+00 1415.0
5 TraesCS3D01G046900 chr3D 83.135 1684 149 62 1244 2906 11351518 11353087 0.000000e+00 1411.0
6 TraesCS3D01G046900 chr3D 79.854 1504 209 57 1910 3385 17516952 17515515 0.000000e+00 1013.0
7 TraesCS3D01G046900 chr3D 97.270 586 15 1 5626 6210 571936145 571936730 0.000000e+00 992.0
8 TraesCS3D01G046900 chr3D 81.332 1291 147 58 596 1852 18894235 18895465 0.000000e+00 963.0
9 TraesCS3D01G046900 chr3D 82.949 434 45 11 2981 3394 11353209 11353633 1.320000e-96 364.0
10 TraesCS3D01G046900 chr3D 94.949 198 9 1 6226 6422 570852808 570853005 6.250000e-80 309.0
11 TraesCS3D01G046900 chr3D 98.266 173 3 0 5442 5614 610834728 610834900 2.910000e-78 303.0
12 TraesCS3D01G046900 chr3D 83.082 331 39 6 3395 3720 11353920 11354238 1.050000e-72 285.0
13 TraesCS3D01G046900 chr3D 91.463 82 6 1 491 571 18893796 18893877 1.890000e-20 111.0
14 TraesCS3D01G046900 chr3D 77.465 142 19 9 621 755 17372976 17373111 8.930000e-09 73.1
15 TraesCS3D01G046900 chr3A 89.988 1708 136 17 3758 5446 25933959 25932268 0.000000e+00 2174.0
16 TraesCS3D01G046900 chr3A 92.263 1202 85 5 4252 5446 19306922 19308122 0.000000e+00 1698.0
17 TraesCS3D01G046900 chr3A 83.066 1872 230 61 3394 5221 19372932 19374760 0.000000e+00 1620.0
18 TraesCS3D01G046900 chr3A 91.781 1022 52 12 1966 2979 25936352 25935355 0.000000e+00 1393.0
19 TraesCS3D01G046900 chr3A 92.054 969 77 0 4253 5221 19472358 19471390 0.000000e+00 1363.0
20 TraesCS3D01G046900 chr3A 88.317 1147 79 29 1755 2877 19303999 19305114 0.000000e+00 1325.0
21 TraesCS3D01G046900 chr3A 78.237 2325 314 86 922 3167 19475949 19473738 0.000000e+00 1314.0
22 TraesCS3D01G046900 chr3A 82.076 1339 163 44 1910 3221 19371143 19372431 0.000000e+00 1072.0
23 TraesCS3D01G046900 chr3A 88.040 602 55 8 1386 1973 25937418 25936820 0.000000e+00 697.0
24 TraesCS3D01G046900 chr3A 82.616 604 66 13 1084 1684 19303398 19303965 1.240000e-136 497.0
25 TraesCS3D01G046900 chr3A 81.456 577 84 17 1123 1692 26415332 26415892 9.820000e-123 451.0
26 TraesCS3D01G046900 chr3A 77.764 787 112 45 3451 4213 19306091 19306838 5.950000e-115 425.0
27 TraesCS3D01G046900 chr3A 77.091 777 136 32 3451 4213 19473170 19472422 1.670000e-110 411.0
28 TraesCS3D01G046900 chr3A 83.102 432 52 14 2980 3394 25935267 25934840 2.190000e-99 374.0
29 TraesCS3D01G046900 chr3A 89.606 279 27 2 1076 1353 25937690 25937413 2.850000e-93 353.0
30 TraesCS3D01G046900 chr3A 94.054 185 8 3 5447 5630 651132050 651131868 1.760000e-70 278.0
31 TraesCS3D01G046900 chr3A 85.782 211 19 5 2980 3179 19305149 19305359 5.040000e-51 213.0
32 TraesCS3D01G046900 chr3A 87.234 141 6 4 671 810 25938055 25937926 4.010000e-32 150.0
33 TraesCS3D01G046900 chr3A 79.051 253 22 18 621 859 19303002 19303237 1.870000e-30 145.0
34 TraesCS3D01G046900 chr3A 93.548 93 5 1 444 536 25938143 25938052 3.120000e-28 137.0
35 TraesCS3D01G046900 chr3A 76.786 224 43 7 3451 3671 25934292 25934075 4.070000e-22 117.0
36 TraesCS3D01G046900 chr3A 89.474 76 6 1 222 295 111496303 111496228 1.910000e-15 95.3
37 TraesCS3D01G046900 chr3A 89.474 76 6 1 219 292 183556007 183556082 1.910000e-15 95.3
38 TraesCS3D01G046900 chr3A 98.000 50 0 1 343 392 25938209 25938161 1.150000e-12 86.1
39 TraesCS3D01G046900 chrUn 92.838 1494 94 7 3891 5377 354553156 354551669 0.000000e+00 2154.0
40 TraesCS3D01G046900 chrUn 90.402 1021 70 11 1896 2906 37955624 37956626 0.000000e+00 1317.0
41 TraesCS3D01G046900 chrUn 85.790 943 89 22 954 1885 37954387 37955295 0.000000e+00 957.0
42 TraesCS3D01G046900 chrUn 85.790 943 89 22 957 1888 340707542 340706634 0.000000e+00 957.0
43 TraesCS3D01G046900 chrUn 90.935 695 48 4 2221 2909 392408923 392408238 0.000000e+00 920.0
44 TraesCS3D01G046900 chrUn 86.176 774 64 20 5444 6210 401132240 401132977 0.000000e+00 797.0
45 TraesCS3D01G046900 chrUn 90.000 200 19 1 2981 3179 37956769 37956968 2.300000e-64 257.0
46 TraesCS3D01G046900 chrUn 90.000 200 19 1 2981 3179 392408098 392407899 2.300000e-64 257.0
47 TraesCS3D01G046900 chrUn 84.884 172 22 2 3226 3393 37957069 37957240 3.080000e-38 171.0
48 TraesCS3D01G046900 chrUn 84.884 172 22 2 3226 3393 392407798 392407627 3.080000e-38 171.0
49 TraesCS3D01G046900 chrUn 82.979 188 14 9 634 818 37954120 37954292 3.100000e-33 154.0
50 TraesCS3D01G046900 chrUn 82.979 188 14 9 634 818 340707812 340707640 3.100000e-33 154.0
51 TraesCS3D01G046900 chrUn 100.000 30 0 0 830 859 37954321 37954350 8.990000e-04 56.5
52 TraesCS3D01G046900 chrUn 100.000 30 0 0 830 859 340707611 340707582 8.990000e-04 56.5
53 TraesCS3D01G046900 chr3B 86.413 1472 148 27 3762 5221 24943244 24944675 0.000000e+00 1563.0
54 TraesCS3D01G046900 chr3B 82.659 1805 240 45 3455 5221 27518175 27519944 0.000000e+00 1531.0
55 TraesCS3D01G046900 chr3B 81.227 1353 167 45 1910 3221 27516542 27517848 0.000000e+00 1011.0
56 TraesCS3D01G046900 chr3B 87.109 768 52 17 5446 6210 771363895 771363172 0.000000e+00 826.0
57 TraesCS3D01G046900 chr3B 81.161 1051 133 30 2128 3167 24941556 24942552 0.000000e+00 784.0
58 TraesCS3D01G046900 chr3B 84.635 768 50 22 5447 6210 766234752 766234049 0.000000e+00 702.0
59 TraesCS3D01G046900 chr3B 78.737 1124 159 48 922 2004 24940440 24941524 0.000000e+00 678.0
60 TraesCS3D01G046900 chr3B 80.759 738 110 21 2111 2846 30231878 30232585 1.220000e-151 547.0
61 TraesCS3D01G046900 chr3B 79.360 688 112 20 2162 2841 29886203 29886868 2.110000e-124 457.0
62 TraesCS3D01G046900 chr3B 79.215 688 113 20 2162 2841 30271203 30271868 9.820000e-123 451.0
63 TraesCS3D01G046900 chr3B 80.944 572 90 16 1123 1692 29618580 29619134 9.890000e-118 435.0
64 TraesCS3D01G046900 chr3B 81.105 561 90 14 1123 1683 29728700 29729244 9.890000e-118 435.0
65 TraesCS3D01G046900 chr3B 82.783 424 58 9 1257 1680 30506686 30507094 1.320000e-96 364.0
66 TraesCS3D01G046900 chr3B 79.592 343 57 9 2165 2505 29576523 29576192 3.870000e-57 233.0
67 TraesCS3D01G046900 chr3B 83.886 211 32 2 1470 1680 29615657 29615865 3.930000e-47 200.0
68 TraesCS3D01G046900 chr3B 79.221 154 23 5 1702 1848 27516359 27516510 1.470000e-16 99.0
69 TraesCS3D01G046900 chr7D 93.394 772 20 14 5441 6210 605761042 605761784 0.000000e+00 1114.0
70 TraesCS3D01G046900 chr7D 98.824 170 2 0 5445 5614 538513568 538513737 2.910000e-78 303.0
71 TraesCS3D01G046900 chr7D 98.214 168 3 0 5447 5614 158560561 158560728 1.750000e-75 294.0
72 TraesCS3D01G046900 chr7D 93.889 180 9 2 5446 5624 604426634 604426456 2.950000e-68 270.0
73 TraesCS3D01G046900 chr4D 93.333 765 21 11 5447 6210 112198905 112199640 0.000000e+00 1103.0
74 TraesCS3D01G046900 chr4D 93.211 766 19 19 5447 6210 6084580 6085314 0.000000e+00 1096.0
75 TraesCS3D01G046900 chr4D 97.270 586 15 1 5626 6210 503739564 503738979 0.000000e+00 992.0
76 TraesCS3D01G046900 chr4D 88.960 471 44 5 2028 2497 479409539 479409076 5.580000e-160 575.0
77 TraesCS3D01G046900 chr4D 93.909 197 3 2 6227 6422 4410920 4411108 8.150000e-74 289.0
78 TraesCS3D01G046900 chr4D 85.976 164 14 5 343 506 501291326 501291480 3.980000e-37 167.0
79 TraesCS3D01G046900 chr4D 95.000 40 0 2 861 900 123725132 123725095 1.930000e-05 62.1
80 TraesCS3D01G046900 chr1D 93.342 766 19 16 5447 6210 443834529 443835264 0.000000e+00 1103.0
81 TraesCS3D01G046900 chr1D 88.251 766 41 19 5447 6210 436600928 436600210 0.000000e+00 870.0
82 TraesCS3D01G046900 chr1D 93.939 198 3 2 6226 6422 418452272 418452083 2.270000e-74 291.0
83 TraesCS3D01G046900 chr1D 92.893 197 11 3 5447 5642 2852306 2852112 3.790000e-72 283.0
84 TraesCS3D01G046900 chr1D 90.667 75 5 1 219 291 212378672 212378746 1.470000e-16 99.0
85 TraesCS3D01G046900 chr6D 93.203 765 22 11 5447 6210 452381418 452382153 0.000000e+00 1098.0
86 TraesCS3D01G046900 chr6D 97.436 585 14 1 5627 6210 463524198 463523614 0.000000e+00 996.0
87 TraesCS3D01G046900 chr6D 96.023 176 6 1 5439 5614 424805680 424805506 1.050000e-72 285.0
88 TraesCS3D01G046900 chr5D 93.072 765 23 11 5447 6210 291508594 291509329 0.000000e+00 1092.0
89 TraesCS3D01G046900 chr5D 92.969 768 24 4 5444 6210 357367876 357367138 0.000000e+00 1092.0
90 TraesCS3D01G046900 chr5D 91.395 767 32 19 5447 6210 564827737 564827002 0.000000e+00 1020.0
91 TraesCS3D01G046900 chr5D 97.611 586 13 1 5626 6210 334040620 334041205 0.000000e+00 1003.0
92 TraesCS3D01G046900 chr5D 93.434 198 4 2 6226 6422 556366837 556367026 1.050000e-72 285.0
93 TraesCS3D01G046900 chr5D 94.054 185 8 3 5447 5630 511041045 511040863 1.760000e-70 278.0
94 TraesCS3D01G046900 chr5B 90.495 768 38 20 5447 6210 565158206 565158942 0.000000e+00 981.0
95 TraesCS3D01G046900 chr5B 86.460 613 56 18 5617 6210 710558727 710559331 0.000000e+00 647.0
96 TraesCS3D01G046900 chr5B 83.333 210 23 8 342 549 228075516 228075715 3.950000e-42 183.0
97 TraesCS3D01G046900 chr5B 85.897 78 10 1 219 295 124775472 124775395 1.480000e-11 82.4
98 TraesCS3D01G046900 chr4B 90.482 767 38 20 5447 6210 227102934 227102200 0.000000e+00 979.0
99 TraesCS3D01G046900 chr4B 95.000 40 0 2 861 900 209069234 209069271 1.930000e-05 62.1
100 TraesCS3D01G046900 chr7B 89.309 767 46 19 5447 6208 140148485 140147750 0.000000e+00 929.0
101 TraesCS3D01G046900 chr7B 85.807 768 61 18 5447 6210 749070394 749071117 0.000000e+00 771.0
102 TraesCS3D01G046900 chr7B 85.759 639 49 16 5576 6205 381265004 381265609 7.020000e-179 638.0
103 TraesCS3D01G046900 chr7B 95.000 40 0 2 861 900 644476078 644476041 1.930000e-05 62.1
104 TraesCS3D01G046900 chr7B 95.000 40 0 2 861 900 716822579 716822616 1.930000e-05 62.1
105 TraesCS3D01G046900 chr4A 86.068 768 59 17 5447 6210 733387097 733386374 0.000000e+00 782.0
106 TraesCS3D01G046900 chr4A 92.893 197 9 4 6226 6420 699165770 699165577 1.360000e-71 281.0
107 TraesCS3D01G046900 chr4A 85.366 164 15 5 343 506 627931122 627930968 1.850000e-35 161.0
108 TraesCS3D01G046900 chr4A 90.667 75 5 1 219 291 182216746 182216820 1.470000e-16 99.0
109 TraesCS3D01G046900 chr4A 89.333 75 6 1 219 291 97189304 97189378 6.860000e-15 93.5
110 TraesCS3D01G046900 chr2B 84.604 669 56 19 5447 6112 69225287 69225911 7.070000e-174 621.0
111 TraesCS3D01G046900 chr2B 93.956 182 7 4 5447 5624 513615950 513615769 8.200000e-69 272.0
112 TraesCS3D01G046900 chr2D 97.268 183 2 3 6239 6420 20859579 20859399 2.250000e-79 307.0
113 TraesCS3D01G046900 chr2D 98.214 168 3 0 5447 5614 557887847 557888014 1.750000e-75 294.0
114 TraesCS3D01G046900 chr2D 98.204 167 3 0 5447 5613 585544670 585544836 6.300000e-75 292.0
115 TraesCS3D01G046900 chr2D 92.929 198 10 3 6226 6422 10646737 10646543 1.050000e-72 285.0
116 TraesCS3D01G046900 chr2D 91.457 199 12 4 6226 6422 548010735 548010930 1.060000e-67 268.0
117 TraesCS3D01G046900 chr6B 95.000 180 7 2 6245 6422 32274853 32274674 1.360000e-71 281.0
118 TraesCS3D01G046900 chr1B 87.940 199 14 6 352 549 129379259 129379070 6.480000e-55 226.0
119 TraesCS3D01G046900 chr1B 95.000 40 0 2 861 900 77556357 77556394 1.930000e-05 62.1
120 TraesCS3D01G046900 chr1B 95.000 40 0 2 861 900 377812700 377812663 1.930000e-05 62.1
121 TraesCS3D01G046900 chr1B 95.000 40 0 2 861 900 672487777 672487740 1.930000e-05 62.1
122 TraesCS3D01G046900 chr1B 95.000 40 0 2 861 900 672516185 672516148 1.930000e-05 62.1
123 TraesCS3D01G046900 chr6A 85.976 164 14 5 343 506 7547808 7547654 3.980000e-37 167.0
124 TraesCS3D01G046900 chr6A 95.000 40 0 2 861 900 563667725 563667688 1.930000e-05 62.1
125 TraesCS3D01G046900 chr1A 85.366 164 15 5 343 506 380648664 380648510 1.850000e-35 161.0
126 TraesCS3D01G046900 chr1A 84.568 162 16 5 343 504 33192131 33192283 1.120000e-32 152.0
127 TraesCS3D01G046900 chr7A 84.756 164 16 5 343 506 118776116 118776270 8.620000e-34 156.0
128 TraesCS3D01G046900 chr7A 90.000 80 4 3 222 299 156937528 156937451 4.100000e-17 100.0
129 TraesCS3D01G046900 chr5A 91.667 72 4 1 222 291 692064029 692063958 1.470000e-16 99.0
130 TraesCS3D01G046900 chr5A 88.889 72 6 1 222 291 498384042 498383971 3.190000e-13 87.9
131 TraesCS3D01G046900 chr2A 89.333 75 5 2 222 294 52398081 52398008 2.470000e-14 91.6
132 TraesCS3D01G046900 chr2A 86.420 81 9 1 222 300 109182406 109182326 3.190000e-13 87.9


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 TraesCS3D01G046900 chr3D 17641030 17647451 6421 True 11860.000000 11860 100.000000 1 6422 1 chr3D.!!$R1 6421
1 TraesCS3D01G046900 chr3D 17513602 17516952 3350 True 1310.000000 1607 81.635000 1910 5221 2 chr3D.!!$R2 3311
2 TraesCS3D01G046900 chr3D 17372976 17377764 4788 False 1042.366667 1639 79.796333 621 5221 3 chr3D.!!$F5 4600
3 TraesCS3D01G046900 chr3D 571936145 571936730 585 False 992.000000 992 97.270000 5626 6210 1 chr3D.!!$F2 584
4 TraesCS3D01G046900 chr3D 11351518 11355758 4240 False 989.250000 1897 84.800000 1244 5291 4 chr3D.!!$F4 4047
5 TraesCS3D01G046900 chr3D 18893796 18895465 1669 False 537.000000 963 86.397500 491 1852 2 chr3D.!!$F6 1361
6 TraesCS3D01G046900 chr3A 19371143 19374760 3617 False 1346.000000 1620 82.571000 1910 5221 2 chr3A.!!$F4 3311
7 TraesCS3D01G046900 chr3A 19471390 19475949 4559 True 1029.333333 1363 82.460667 922 5221 3 chr3A.!!$R3 4299
8 TraesCS3D01G046900 chr3A 19303002 19308122 5120 False 717.166667 1698 84.298833 621 5446 6 chr3A.!!$F3 4825
9 TraesCS3D01G046900 chr3A 25932268 25938209 5941 True 609.011111 2174 88.676111 343 5446 9 chr3A.!!$R4 5103
10 TraesCS3D01G046900 chr3A 26415332 26415892 560 False 451.000000 451 81.456000 1123 1692 1 chr3A.!!$F1 569
11 TraesCS3D01G046900 chrUn 354551669 354553156 1487 True 2154.000000 2154 92.838000 3891 5377 1 chrUn.!!$R1 1486
12 TraesCS3D01G046900 chrUn 401132240 401132977 737 False 797.000000 797 86.176000 5444 6210 1 chrUn.!!$F1 766
13 TraesCS3D01G046900 chrUn 37954120 37957240 3120 False 485.416667 1317 89.009167 634 3393 6 chrUn.!!$F2 2759
14 TraesCS3D01G046900 chrUn 392407627 392408923 1296 True 449.333333 920 88.606333 2221 3393 3 chrUn.!!$R3 1172
15 TraesCS3D01G046900 chrUn 340706634 340707812 1178 True 389.166667 957 89.589667 634 1888 3 chrUn.!!$R2 1254
16 TraesCS3D01G046900 chr3B 24940440 24944675 4235 False 1008.333333 1563 82.103667 922 5221 3 chr3B.!!$F6 4299
17 TraesCS3D01G046900 chr3B 27516359 27519944 3585 False 880.333333 1531 81.035667 1702 5221 3 chr3B.!!$F7 3519
18 TraesCS3D01G046900 chr3B 771363172 771363895 723 True 826.000000 826 87.109000 5446 6210 1 chr3B.!!$R3 764
19 TraesCS3D01G046900 chr3B 766234049 766234752 703 True 702.000000 702 84.635000 5447 6210 1 chr3B.!!$R2 763
20 TraesCS3D01G046900 chr3B 30231878 30232585 707 False 547.000000 547 80.759000 2111 2846 1 chr3B.!!$F3 735
21 TraesCS3D01G046900 chr3B 29886203 29886868 665 False 457.000000 457 79.360000 2162 2841 1 chr3B.!!$F2 679
22 TraesCS3D01G046900 chr3B 30271203 30271868 665 False 451.000000 451 79.215000 2162 2841 1 chr3B.!!$F4 679
23 TraesCS3D01G046900 chr3B 29728700 29729244 544 False 435.000000 435 81.105000 1123 1683 1 chr3B.!!$F1 560
24 TraesCS3D01G046900 chr3B 29615657 29619134 3477 False 317.500000 435 82.415000 1123 1692 2 chr3B.!!$F8 569
25 TraesCS3D01G046900 chr7D 605761042 605761784 742 False 1114.000000 1114 93.394000 5441 6210 1 chr7D.!!$F3 769
26 TraesCS3D01G046900 chr4D 112198905 112199640 735 False 1103.000000 1103 93.333000 5447 6210 1 chr4D.!!$F3 763
27 TraesCS3D01G046900 chr4D 6084580 6085314 734 False 1096.000000 1096 93.211000 5447 6210 1 chr4D.!!$F2 763
28 TraesCS3D01G046900 chr4D 503738979 503739564 585 True 992.000000 992 97.270000 5626 6210 1 chr4D.!!$R3 584
29 TraesCS3D01G046900 chr1D 443834529 443835264 735 False 1103.000000 1103 93.342000 5447 6210 1 chr1D.!!$F2 763
30 TraesCS3D01G046900 chr1D 436600210 436600928 718 True 870.000000 870 88.251000 5447 6210 1 chr1D.!!$R3 763
31 TraesCS3D01G046900 chr6D 452381418 452382153 735 False 1098.000000 1098 93.203000 5447 6210 1 chr6D.!!$F1 763
32 TraesCS3D01G046900 chr6D 463523614 463524198 584 True 996.000000 996 97.436000 5627 6210 1 chr6D.!!$R2 583
33 TraesCS3D01G046900 chr5D 291508594 291509329 735 False 1092.000000 1092 93.072000 5447 6210 1 chr5D.!!$F1 763
34 TraesCS3D01G046900 chr5D 357367138 357367876 738 True 1092.000000 1092 92.969000 5444 6210 1 chr5D.!!$R1 766
35 TraesCS3D01G046900 chr5D 564827002 564827737 735 True 1020.000000 1020 91.395000 5447 6210 1 chr5D.!!$R3 763
36 TraesCS3D01G046900 chr5D 334040620 334041205 585 False 1003.000000 1003 97.611000 5626 6210 1 chr5D.!!$F2 584
37 TraesCS3D01G046900 chr5B 565158206 565158942 736 False 981.000000 981 90.495000 5447 6210 1 chr5B.!!$F2 763
38 TraesCS3D01G046900 chr5B 710558727 710559331 604 False 647.000000 647 86.460000 5617 6210 1 chr5B.!!$F3 593
39 TraesCS3D01G046900 chr4B 227102200 227102934 734 True 979.000000 979 90.482000 5447 6210 1 chr4B.!!$R1 763
40 TraesCS3D01G046900 chr7B 140147750 140148485 735 True 929.000000 929 89.309000 5447 6208 1 chr7B.!!$R1 761
41 TraesCS3D01G046900 chr7B 749070394 749071117 723 False 771.000000 771 85.807000 5447 6210 1 chr7B.!!$F3 763
42 TraesCS3D01G046900 chr7B 381265004 381265609 605 False 638.000000 638 85.759000 5576 6205 1 chr7B.!!$F1 629
43 TraesCS3D01G046900 chr4A 733386374 733387097 723 True 782.000000 782 86.068000 5447 6210 1 chr4A.!!$R3 763
44 TraesCS3D01G046900 chr2B 69225287 69225911 624 False 621.000000 621 84.604000 5447 6112 1 chr2B.!!$F1 665

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
140 141 0.030101 CCAAATGTGACGCGTGGTTT 59.970 50.0 20.70 9.22 0.00 3.27 F
1521 3335 0.028374 GGAACAACACGTTTGTCCGG 59.972 55.0 13.82 0.00 38.19 5.14 F
1671 3485 0.250081 GCGATGGATTCCTCCTCACC 60.250 60.0 3.95 0.00 42.59 4.02 F
2496 5209 0.250858 TCCTCCACAACTGCACCATG 60.251 55.0 0.00 0.00 0.00 3.66 F
3733 7594 0.243907 GTGAGTAGCTCAAGCGACCA 59.756 55.0 11.02 6.90 45.83 4.02 F
3933 7827 0.304705 GGGCTGTATTCATGTTCGCG 59.695 55.0 0.00 0.00 0.00 5.87 F
4945 8918 0.537188 CTCGGCTATGACACCAACCT 59.463 55.0 0.00 0.00 0.00 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1784 3624 0.534412 TTGCCAACCCGCCATTAATG 59.466 50.000 8.58 8.58 0.00 1.90 R
3098 6000 0.106015 AGAAACCAAGCAAGCACCCT 60.106 50.000 0.00 0.00 0.00 4.34 R
3544 7352 0.240145 CTGTCAGCTTCGACCGTACA 59.760 55.000 2.02 0.00 34.88 2.90 R
3910 7804 0.034574 AACATGAATACAGCCCCGCA 60.035 50.000 0.00 0.00 0.00 5.69 R
5408 9387 0.034089 GCCTGGTTAACCCTGCTCAT 60.034 55.000 21.97 0.00 34.29 2.90 R
5411 9390 0.187361 TTTGCCTGGTTAACCCTGCT 59.813 50.000 26.50 0.00 34.02 4.24 R
5763 9752 2.209758 GAGAGGGGAAAGGGGAAGAAT 58.790 52.381 0.00 0.00 0.00 2.40 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
23 24 1.526917 GCACTGGCCAGCGGATTAT 60.527 57.895 33.06 8.48 0.00 1.28
28 29 2.555547 GGCCAGCGGATTATGGTGC 61.556 63.158 0.00 0.00 38.91 5.01
29 30 1.526917 GCCAGCGGATTATGGTGCT 60.527 57.895 0.00 0.00 38.91 4.40
30 31 1.103398 GCCAGCGGATTATGGTGCTT 61.103 55.000 0.00 0.00 38.91 3.91
31 32 1.392589 CCAGCGGATTATGGTGCTTT 58.607 50.000 0.00 0.00 34.99 3.51
34 35 1.102978 GCGGATTATGGTGCTTTGGT 58.897 50.000 0.00 0.00 0.00 3.67
37 38 3.541632 CGGATTATGGTGCTTTGGTACT 58.458 45.455 0.00 0.00 0.00 2.73
38 39 3.312421 CGGATTATGGTGCTTTGGTACTG 59.688 47.826 0.00 0.00 0.00 2.74
39 40 4.523083 GGATTATGGTGCTTTGGTACTGA 58.477 43.478 0.00 0.00 0.00 3.41
40 41 4.335594 GGATTATGGTGCTTTGGTACTGAC 59.664 45.833 0.00 0.00 0.00 3.51
62 63 1.660575 GTGGTGACCACGAGTGACG 60.661 63.158 20.19 0.00 44.95 4.35
71 72 3.266964 CGAGTGACGGTCGGGTAA 58.733 61.111 3.34 0.00 38.46 2.85
72 73 1.580942 CGAGTGACGGTCGGGTAAA 59.419 57.895 3.34 0.00 38.46 2.01
73 74 0.730494 CGAGTGACGGTCGGGTAAAC 60.730 60.000 3.34 0.00 38.46 2.01
74 75 0.730494 GAGTGACGGTCGGGTAAACG 60.730 60.000 3.34 0.00 0.00 3.60
75 76 1.007387 GTGACGGTCGGGTAAACGT 60.007 57.895 3.34 0.00 42.88 3.99
77 78 1.007387 GACGGTCGGGTAAACGTGT 60.007 57.895 0.00 0.00 39.95 4.49
78 79 0.239879 GACGGTCGGGTAAACGTGTA 59.760 55.000 0.00 0.00 39.95 2.90
79 80 0.240945 ACGGTCGGGTAAACGTGTAG 59.759 55.000 0.00 0.00 38.24 2.74
81 82 1.466950 CGGTCGGGTAAACGTGTAGTA 59.533 52.381 0.00 0.00 34.94 1.82
82 83 2.727916 CGGTCGGGTAAACGTGTAGTAC 60.728 54.545 0.00 0.00 34.94 2.73
83 84 2.415491 GGTCGGGTAAACGTGTAGTACC 60.415 54.545 8.69 8.69 32.03 3.34
84 85 1.466950 TCGGGTAAACGTGTAGTACCG 59.533 52.381 14.25 14.25 33.29 4.02
85 86 1.199097 CGGGTAAACGTGTAGTACCGT 59.801 52.381 12.84 9.99 39.32 4.83
87 88 2.986479 GGGTAAACGTGTAGTACCGTTG 59.014 50.000 21.99 4.21 45.66 4.10
88 89 2.408368 GGTAAACGTGTAGTACCGTTGC 59.592 50.000 21.99 18.26 45.66 4.17
89 90 1.501169 AAACGTGTAGTACCGTTGCC 58.499 50.000 21.99 0.00 45.66 4.52
90 91 0.675633 AACGTGTAGTACCGTTGCCT 59.324 50.000 21.15 5.16 44.79 4.75
91 92 0.038892 ACGTGTAGTACCGTTGCCTG 60.039 55.000 9.99 0.00 32.50 4.85
92 93 0.038892 CGTGTAGTACCGTTGCCTGT 60.039 55.000 0.00 0.00 0.00 4.00
93 94 1.603678 CGTGTAGTACCGTTGCCTGTT 60.604 52.381 0.00 0.00 0.00 3.16
94 95 2.351641 CGTGTAGTACCGTTGCCTGTTA 60.352 50.000 0.00 0.00 0.00 2.41
95 96 2.989166 GTGTAGTACCGTTGCCTGTTAC 59.011 50.000 0.00 0.00 0.00 2.50
97 98 0.322648 AGTACCGTTGCCTGTTACCC 59.677 55.000 0.00 0.00 0.00 3.69
98 99 0.035176 GTACCGTTGCCTGTTACCCA 59.965 55.000 0.00 0.00 0.00 4.51
99 100 0.763652 TACCGTTGCCTGTTACCCAA 59.236 50.000 0.00 0.00 0.00 4.12
100 101 0.106619 ACCGTTGCCTGTTACCCAAA 60.107 50.000 0.00 0.00 0.00 3.28
103 104 1.611491 CGTTGCCTGTTACCCAAATGT 59.389 47.619 0.00 0.00 0.00 2.71
104 105 2.035321 CGTTGCCTGTTACCCAAATGTT 59.965 45.455 0.00 0.00 0.00 2.71
105 106 3.253677 CGTTGCCTGTTACCCAAATGTTA 59.746 43.478 0.00 0.00 0.00 2.41
106 107 4.261656 CGTTGCCTGTTACCCAAATGTTAA 60.262 41.667 0.00 0.00 0.00 2.01
107 108 4.857509 TGCCTGTTACCCAAATGTTAAC 57.142 40.909 0.00 0.00 0.00 2.01
108 109 4.475345 TGCCTGTTACCCAAATGTTAACT 58.525 39.130 7.22 0.00 0.00 2.24
110 111 5.364157 TGCCTGTTACCCAAATGTTAACTTT 59.636 36.000 7.22 3.94 0.00 2.66
112 113 6.201997 GCCTGTTACCCAAATGTTAACTTTTG 59.798 38.462 27.69 27.69 39.36 2.44
113 114 7.493367 CCTGTTACCCAAATGTTAACTTTTGA 58.507 34.615 32.55 19.02 41.01 2.69
115 116 8.068892 TGTTACCCAAATGTTAACTTTTGACT 57.931 30.769 32.55 23.21 41.01 3.41
116 117 7.976734 TGTTACCCAAATGTTAACTTTTGACTG 59.023 33.333 32.55 24.92 41.01 3.51
117 118 6.538945 ACCCAAATGTTAACTTTTGACTGT 57.461 33.333 32.55 25.35 41.01 3.55
118 119 6.941857 ACCCAAATGTTAACTTTTGACTGTT 58.058 32.000 32.55 17.22 41.01 3.16
121 122 7.436970 CCCAAATGTTAACTTTTGACTGTTACC 59.563 37.037 32.55 0.00 41.01 2.85
123 124 7.648039 AATGTTAACTTTTGACTGTTACCCA 57.352 32.000 7.22 0.00 0.00 4.51
124 125 7.648039 ATGTTAACTTTTGACTGTTACCCAA 57.352 32.000 7.22 0.00 0.00 4.12
125 126 7.463961 TGTTAACTTTTGACTGTTACCCAAA 57.536 32.000 7.22 0.00 0.00 3.28
126 127 8.068892 TGTTAACTTTTGACTGTTACCCAAAT 57.931 30.769 7.22 0.00 30.98 2.32
127 128 7.976734 TGTTAACTTTTGACTGTTACCCAAATG 59.023 33.333 7.22 0.00 33.73 2.32
128 129 6.538945 AACTTTTGACTGTTACCCAAATGT 57.461 33.333 0.00 0.00 38.75 2.71
130 131 5.654650 ACTTTTGACTGTTACCCAAATGTGA 59.345 36.000 9.10 0.00 37.04 3.58
131 132 5.508200 TTTGACTGTTACCCAAATGTGAC 57.492 39.130 0.00 0.00 0.00 3.67
134 135 0.869068 TGTTACCCAAATGTGACGCG 59.131 50.000 3.53 3.53 0.00 6.01
135 136 0.869730 GTTACCCAAATGTGACGCGT 59.130 50.000 13.85 13.85 0.00 6.01
138 139 2.258013 CCCAAATGTGACGCGTGGT 61.258 57.895 20.70 0.00 0.00 4.16
139 140 1.652012 CCAAATGTGACGCGTGGTT 59.348 52.632 20.70 2.40 0.00 3.67
140 141 0.030101 CCAAATGTGACGCGTGGTTT 59.970 50.000 20.70 9.22 0.00 3.27
143 144 0.041663 AATGTGACGCGTGGTTTTCG 60.042 50.000 20.70 0.00 0.00 3.46
158 159 5.566395 GTGGTTTTCGCTAATAAAAACTCCG 59.434 40.000 9.70 0.00 42.34 4.63
159 160 5.090757 GGTTTTCGCTAATAAAAACTCCGG 58.909 41.667 0.00 0.00 42.34 5.14
160 161 4.345271 TTTCGCTAATAAAAACTCCGGC 57.655 40.909 0.00 0.00 0.00 6.13
161 162 3.255969 TCGCTAATAAAAACTCCGGCT 57.744 42.857 0.00 0.00 0.00 5.52
162 163 4.389890 TCGCTAATAAAAACTCCGGCTA 57.610 40.909 0.00 0.00 0.00 3.93
164 165 4.807304 TCGCTAATAAAAACTCCGGCTAAG 59.193 41.667 0.00 0.00 0.00 2.18
165 166 4.552184 CGCTAATAAAAACTCCGGCTAAGC 60.552 45.833 0.00 0.00 0.00 3.09
166 167 4.575236 GCTAATAAAAACTCCGGCTAAGCT 59.425 41.667 0.00 0.00 0.00 3.74
167 168 5.066117 GCTAATAAAAACTCCGGCTAAGCTT 59.934 40.000 3.48 3.48 0.00 3.74
168 169 5.977489 AATAAAAACTCCGGCTAAGCTTT 57.023 34.783 3.20 0.00 0.00 3.51
169 170 5.977489 ATAAAAACTCCGGCTAAGCTTTT 57.023 34.783 3.20 2.20 0.00 2.27
170 171 4.665833 AAAAACTCCGGCTAAGCTTTTT 57.334 36.364 3.20 3.21 0.00 1.94
171 172 5.777850 AAAAACTCCGGCTAAGCTTTTTA 57.222 34.783 3.20 0.00 0.00 1.52
172 173 4.761235 AAACTCCGGCTAAGCTTTTTAC 57.239 40.909 3.20 0.00 0.00 2.01
173 174 3.412237 ACTCCGGCTAAGCTTTTTACA 57.588 42.857 3.20 0.00 0.00 2.41
174 175 3.951663 ACTCCGGCTAAGCTTTTTACAT 58.048 40.909 3.20 0.00 0.00 2.29
175 176 3.689649 ACTCCGGCTAAGCTTTTTACATG 59.310 43.478 3.20 0.00 0.00 3.21
176 177 3.681593 TCCGGCTAAGCTTTTTACATGT 58.318 40.909 3.20 2.69 0.00 3.21
177 178 3.438781 TCCGGCTAAGCTTTTTACATGTG 59.561 43.478 9.11 0.00 0.00 3.21
178 179 3.427503 CCGGCTAAGCTTTTTACATGTGG 60.428 47.826 9.11 0.00 0.00 4.17
179 180 3.427503 CGGCTAAGCTTTTTACATGTGGG 60.428 47.826 9.11 0.00 0.00 4.61
181 182 4.402474 GGCTAAGCTTTTTACATGTGGGAT 59.598 41.667 9.11 0.00 0.00 3.85
183 184 5.358160 GCTAAGCTTTTTACATGTGGGATCT 59.642 40.000 9.11 0.00 0.00 2.75
184 185 6.127619 GCTAAGCTTTTTACATGTGGGATCTT 60.128 38.462 9.11 7.35 0.00 2.40
187 188 4.627035 GCTTTTTACATGTGGGATCTTTGC 59.373 41.667 9.11 0.00 0.00 3.68
188 189 5.782047 CTTTTTACATGTGGGATCTTTGCA 58.218 37.500 9.11 0.00 0.00 4.08
189 190 5.389859 TTTTACATGTGGGATCTTTGCAG 57.610 39.130 9.11 0.00 0.00 4.41
191 192 3.719268 ACATGTGGGATCTTTGCAGTA 57.281 42.857 0.00 0.00 0.00 2.74
192 193 4.240881 ACATGTGGGATCTTTGCAGTAT 57.759 40.909 0.00 0.00 0.00 2.12
193 194 3.949754 ACATGTGGGATCTTTGCAGTATG 59.050 43.478 0.00 0.00 40.87 2.39
206 207 1.453155 CAGTATGCTTGTGTCCACCC 58.547 55.000 0.00 0.00 0.00 4.61
208 209 0.037590 GTATGCTTGTGTCCACCCCA 59.962 55.000 0.00 0.00 0.00 4.96
209 210 0.998928 TATGCTTGTGTCCACCCCAT 59.001 50.000 0.00 0.00 0.00 4.00
210 211 0.612732 ATGCTTGTGTCCACCCCATG 60.613 55.000 0.00 0.00 0.00 3.66
211 212 1.228552 GCTTGTGTCCACCCCATGT 60.229 57.895 0.00 0.00 0.00 3.21
212 213 1.526575 GCTTGTGTCCACCCCATGTG 61.527 60.000 0.00 0.00 45.01 3.21
225 226 2.584835 CCATGTGAGGGAGTTCCAAA 57.415 50.000 0.00 0.00 38.24 3.28
226 227 2.875296 CCATGTGAGGGAGTTCCAAAA 58.125 47.619 0.00 0.00 38.24 2.44
229 230 5.203528 CCATGTGAGGGAGTTCCAAAATAT 58.796 41.667 0.00 0.00 38.24 1.28
230 231 6.364701 CCATGTGAGGGAGTTCCAAAATATA 58.635 40.000 0.00 0.00 38.24 0.86
231 232 6.833416 CCATGTGAGGGAGTTCCAAAATATAA 59.167 38.462 0.00 0.00 38.24 0.98
232 233 7.013655 CCATGTGAGGGAGTTCCAAAATATAAG 59.986 40.741 0.00 0.00 38.24 1.73
233 234 7.265599 TGTGAGGGAGTTCCAAAATATAAGA 57.734 36.000 0.00 0.00 38.24 2.10
234 235 7.338710 TGTGAGGGAGTTCCAAAATATAAGAG 58.661 38.462 0.00 0.00 38.24 2.85
235 236 7.037586 TGTGAGGGAGTTCCAAAATATAAGAGT 60.038 37.037 0.00 0.00 38.24 3.24
237 238 8.390921 TGAGGGAGTTCCAAAATATAAGAGTTT 58.609 33.333 0.00 0.00 38.24 2.66
238 239 9.244292 GAGGGAGTTCCAAAATATAAGAGTTTT 57.756 33.333 0.00 0.00 38.24 2.43
239 240 9.601810 AGGGAGTTCCAAAATATAAGAGTTTTT 57.398 29.630 0.00 0.00 38.24 1.94
281 282 9.932207 TCAAAAACGTTCTTATATTCTAGGACA 57.068 29.630 0.00 0.00 0.00 4.02
285 286 7.513371 ACGTTCTTATATTCTAGGACAGAGG 57.487 40.000 0.00 0.00 33.83 3.69
287 288 7.778853 ACGTTCTTATATTCTAGGACAGAGGAA 59.221 37.037 0.00 0.00 33.83 3.36
288 289 8.293867 CGTTCTTATATTCTAGGACAGAGGAAG 58.706 40.741 0.00 0.00 33.83 3.46
289 290 9.138596 GTTCTTATATTCTAGGACAGAGGAAGT 57.861 37.037 0.00 0.00 33.83 3.01
296 297 8.700439 ATTCTAGGACAGAGGAAGTAGTAATC 57.300 38.462 0.00 0.00 33.83 1.75
297 298 7.454553 TCTAGGACAGAGGAAGTAGTAATCT 57.545 40.000 0.00 0.00 0.00 2.40
298 299 8.564364 TCTAGGACAGAGGAAGTAGTAATCTA 57.436 38.462 0.00 0.00 0.00 1.98
299 300 8.653191 TCTAGGACAGAGGAAGTAGTAATCTAG 58.347 40.741 0.00 0.00 0.00 2.43
300 301 7.454553 AGGACAGAGGAAGTAGTAATCTAGA 57.545 40.000 0.00 0.00 0.00 2.43
301 302 7.284820 AGGACAGAGGAAGTAGTAATCTAGAC 58.715 42.308 0.00 0.00 0.00 2.59
303 304 5.528320 ACAGAGGAAGTAGTAATCTAGACGC 59.472 44.000 0.00 0.00 0.00 5.19
304 305 5.761234 CAGAGGAAGTAGTAATCTAGACGCT 59.239 44.000 0.00 0.00 0.00 5.07
307 308 7.339976 AGAGGAAGTAGTAATCTAGACGCTTTT 59.660 37.037 0.00 0.00 0.00 2.27
308 309 8.517062 AGGAAGTAGTAATCTAGACGCTTTTA 57.483 34.615 0.00 0.00 0.00 1.52
309 310 9.134055 AGGAAGTAGTAATCTAGACGCTTTTAT 57.866 33.333 0.00 0.00 0.00 1.40
310 311 9.182933 GGAAGTAGTAATCTAGACGCTTTTATG 57.817 37.037 0.00 0.00 0.00 1.90
311 312 9.733219 GAAGTAGTAATCTAGACGCTTTTATGT 57.267 33.333 0.00 0.00 0.00 2.29
316 317 9.654663 AGTAATCTAGACGCTTTTATGTTTCTT 57.345 29.630 0.00 0.00 0.00 2.52
320 321 8.821147 TCTAGACGCTTTTATGTTTCTTTACA 57.179 30.769 0.00 0.00 0.00 2.41
325 326 7.352739 ACGCTTTTATGTTTCTTTACAGACAG 58.647 34.615 0.00 0.00 0.00 3.51
326 327 7.225931 ACGCTTTTATGTTTCTTTACAGACAGA 59.774 33.333 0.00 0.00 0.00 3.41
327 328 7.742089 CGCTTTTATGTTTCTTTACAGACAGAG 59.258 37.037 0.00 0.00 0.00 3.35
328 329 8.017946 GCTTTTATGTTTCTTTACAGACAGAGG 58.982 37.037 0.00 0.00 0.00 3.69
329 330 9.273016 CTTTTATGTTTCTTTACAGACAGAGGA 57.727 33.333 0.00 0.00 0.00 3.71
330 331 9.621629 TTTTATGTTTCTTTACAGACAGAGGAA 57.378 29.630 0.00 0.00 0.00 3.36
331 332 8.833231 TTATGTTTCTTTACAGACAGAGGAAG 57.167 34.615 0.00 0.00 0.00 3.46
332 333 6.235231 TGTTTCTTTACAGACAGAGGAAGT 57.765 37.500 0.00 0.00 0.00 3.01
333 334 7.356089 TGTTTCTTTACAGACAGAGGAAGTA 57.644 36.000 0.00 0.00 0.00 2.24
335 336 8.429641 TGTTTCTTTACAGACAGAGGAAGTAAT 58.570 33.333 0.00 0.00 0.00 1.89
336 337 9.924650 GTTTCTTTACAGACAGAGGAAGTAATA 57.075 33.333 0.00 0.00 0.00 0.98
339 340 9.475620 TCTTTACAGACAGAGGAAGTAATATGA 57.524 33.333 0.00 0.00 0.00 2.15
340 341 9.743057 CTTTACAGACAGAGGAAGTAATATGAG 57.257 37.037 0.00 0.00 0.00 2.90
342 343 9.916360 TTACAGACAGAGGAAGTAATATGAGTA 57.084 33.333 0.00 0.00 0.00 2.59
344 345 8.275758 ACAGACAGAGGAAGTAATATGAGTAGA 58.724 37.037 0.00 0.00 0.00 2.59
345 346 9.295825 CAGACAGAGGAAGTAATATGAGTAGAT 57.704 37.037 0.00 0.00 0.00 1.98
346 347 9.295825 AGACAGAGGAAGTAATATGAGTAGATG 57.704 37.037 0.00 0.00 0.00 2.90
347 348 7.891561 ACAGAGGAAGTAATATGAGTAGATGC 58.108 38.462 0.00 0.00 0.00 3.91
392 393 3.249080 TGTAAACAAAGAGCGGCAACTAC 59.751 43.478 1.45 0.00 0.00 2.73
393 394 2.256117 AACAAAGAGCGGCAACTACT 57.744 45.000 1.45 0.00 0.00 2.57
394 395 3.396260 AACAAAGAGCGGCAACTACTA 57.604 42.857 1.45 0.00 0.00 1.82
395 396 2.685100 ACAAAGAGCGGCAACTACTAC 58.315 47.619 1.45 0.00 0.00 2.73
396 397 2.036733 ACAAAGAGCGGCAACTACTACA 59.963 45.455 1.45 0.00 0.00 2.74
397 398 2.365408 AAGAGCGGCAACTACTACAC 57.635 50.000 1.45 0.00 0.00 2.90
398 399 1.546961 AGAGCGGCAACTACTACACT 58.453 50.000 1.45 0.00 0.00 3.55
399 400 2.719739 AGAGCGGCAACTACTACACTA 58.280 47.619 1.45 0.00 0.00 2.74
401 402 3.700038 AGAGCGGCAACTACTACACTAAT 59.300 43.478 1.45 0.00 0.00 1.73
402 403 4.159879 AGAGCGGCAACTACTACACTAATT 59.840 41.667 1.45 0.00 0.00 1.40
425 426 9.947669 AATTAATAGTCTAGTACTAGTTGCACG 57.052 33.333 25.58 3.56 43.90 5.34
426 427 8.722480 TTAATAGTCTAGTACTAGTTGCACGA 57.278 34.615 25.58 14.85 43.90 4.35
428 429 5.548706 AGTCTAGTACTAGTTGCACGAAG 57.451 43.478 25.58 3.00 36.36 3.79
429 430 4.097012 GTCTAGTACTAGTTGCACGAAGC 58.903 47.826 25.58 0.00 37.84 3.86
431 432 3.662247 AGTACTAGTTGCACGAAGCTT 57.338 42.857 0.00 0.00 45.94 3.74
432 433 3.576648 AGTACTAGTTGCACGAAGCTTC 58.423 45.455 16.84 16.84 45.94 3.86
433 434 8.522350 TCTAGTACTAGTTGCACGAAGCTTCG 62.522 46.154 39.55 39.55 43.37 3.79
442 443 2.351276 GAAGCTTCGGCCCCTTGA 59.649 61.111 11.40 0.00 43.01 3.02
443 444 1.077429 GAAGCTTCGGCCCCTTGAT 60.077 57.895 11.40 0.00 43.01 2.57
461 462 1.547372 GATGATGTGGCCTGCAAACTT 59.453 47.619 3.32 0.00 0.00 2.66
546 547 6.826741 GTGGAAAGGAAGGCAATATACTACAA 59.173 38.462 0.00 0.00 0.00 2.41
551 552 5.665812 AGGAAGGCAATATACTACAACCAGA 59.334 40.000 0.00 0.00 0.00 3.86
554 555 5.918608 AGGCAATATACTACAACCAGACTG 58.081 41.667 0.00 0.00 0.00 3.51
588 590 3.840890 GACTCGATCGATCAGCCTAAT 57.159 47.619 24.40 5.64 0.00 1.73
589 591 4.167554 GACTCGATCGATCAGCCTAATT 57.832 45.455 24.40 5.02 0.00 1.40
590 592 4.551388 GACTCGATCGATCAGCCTAATTT 58.449 43.478 24.40 4.41 0.00 1.82
591 593 4.302455 ACTCGATCGATCAGCCTAATTTG 58.698 43.478 24.40 4.43 0.00 2.32
592 594 4.038042 ACTCGATCGATCAGCCTAATTTGA 59.962 41.667 24.40 8.81 0.00 2.69
594 596 4.745125 TCGATCGATCAGCCTAATTTGAAC 59.255 41.667 24.40 0.00 0.00 3.18
608 943 6.314896 CCTAATTTGAACTCCAACTAGCTCAG 59.685 42.308 0.00 0.00 33.85 3.35
645 984 2.661566 CCGACAAGAGCGTGCACTG 61.662 63.158 16.19 8.42 0.00 3.66
755 1106 2.892914 CGTGTGTGGACGTTGGCA 60.893 61.111 0.00 0.00 34.56 4.92
756 1107 2.465299 CGTGTGTGGACGTTGGCAA 61.465 57.895 0.00 0.00 34.56 4.52
760 1111 2.517402 GTGGACGTTGGCAACCCA 60.517 61.111 23.68 21.76 40.06 4.51
761 1112 2.517402 TGGACGTTGGCAACCCAC 60.517 61.111 23.68 14.04 41.97 4.61
762 1113 3.292159 GGACGTTGGCAACCCACC 61.292 66.667 23.68 19.00 41.97 4.61
763 1114 3.292159 GACGTTGGCAACCCACCC 61.292 66.667 23.68 5.70 41.97 4.61
764 1115 4.906537 ACGTTGGCAACCCACCCC 62.907 66.667 23.68 0.00 41.97 4.95
767 1118 4.932105 TTGGCAACCCACCCCAGC 62.932 66.667 0.00 0.00 41.97 4.85
804 1155 1.775039 CGGCACACCACTCACACTTG 61.775 60.000 0.00 0.00 34.57 3.16
812 1163 1.233019 CACTCACACTTGGCCAAGAG 58.767 55.000 44.50 38.70 40.79 2.85
828 1205 3.054508 CCAAGAGAAAAGCTCCATCCTCT 60.055 47.826 0.00 0.00 45.10 3.69
859 1243 0.527817 CCCTCGCTCGTACCATGAAC 60.528 60.000 0.00 0.00 0.00 3.18
860 1244 0.527817 CCTCGCTCGTACCATGAACC 60.528 60.000 0.00 0.00 0.00 3.62
862 1246 1.520787 CGCTCGTACCATGAACCCC 60.521 63.158 0.00 0.00 0.00 4.95
863 1247 1.600107 GCTCGTACCATGAACCCCA 59.400 57.895 0.00 0.00 0.00 4.96
864 1248 0.743345 GCTCGTACCATGAACCCCAC 60.743 60.000 0.00 0.00 0.00 4.61
865 1249 0.611200 CTCGTACCATGAACCCCACA 59.389 55.000 0.00 0.00 0.00 4.17
866 1250 0.322322 TCGTACCATGAACCCCACAC 59.678 55.000 0.00 0.00 0.00 3.82
868 1252 1.543650 CGTACCATGAACCCCACACAA 60.544 52.381 0.00 0.00 0.00 3.33
870 1254 0.850100 ACCATGAACCCCACACAAGA 59.150 50.000 0.00 0.00 0.00 3.02
871 1255 1.202927 ACCATGAACCCCACACAAGAG 60.203 52.381 0.00 0.00 0.00 2.85
884 1268 3.601443 CACAAGAGTGCCTACTAGCTT 57.399 47.619 0.00 0.00 39.21 3.74
885 1269 3.257393 CACAAGAGTGCCTACTAGCTTG 58.743 50.000 0.00 0.00 41.22 4.01
886 1270 2.900546 ACAAGAGTGCCTACTAGCTTGT 59.099 45.455 6.00 6.00 42.49 3.16
887 1271 3.056465 ACAAGAGTGCCTACTAGCTTGTC 60.056 47.826 3.45 0.00 43.16 3.18
891 1275 1.201647 GTGCCTACTAGCTTGTCACGA 59.798 52.381 3.45 0.00 0.00 4.35
912 1296 6.956520 CACGATATCGCAGTTCATAGTACTAG 59.043 42.308 24.59 1.34 44.43 2.57
915 1299 4.553756 TCGCAGTTCATAGTACTAGCAG 57.446 45.455 8.85 1.46 0.00 4.24
917 1301 3.243234 CGCAGTTCATAGTACTAGCAGCT 60.243 47.826 8.85 0.00 0.00 4.24
952 1342 7.363705 CCATCCACTTTGTGCCAAAAGATTATA 60.364 37.037 13.48 0.00 39.12 0.98
953 1343 7.716799 TCCACTTTGTGCCAAAAGATTATAT 57.283 32.000 13.48 0.00 39.12 0.86
961 1351 7.520798 TGTGCCAAAAGATTATATCATCCTCT 58.479 34.615 0.00 0.00 0.00 3.69
962 1352 8.000709 TGTGCCAAAAGATTATATCATCCTCTT 58.999 33.333 0.00 0.00 0.00 2.85
964 1354 7.388776 TGCCAAAAGATTATATCATCCTCTTCG 59.611 37.037 0.00 0.00 0.00 3.79
977 1367 2.305052 TCCTCTTCGTCACCAGAGACTA 59.695 50.000 0.77 0.00 39.21 2.59
1005 1431 4.438145 CGGATTCTTCTCTTTCGTATGTCG 59.562 45.833 0.00 0.00 41.41 4.35
1279 3087 0.394565 CCGGATCCTCCACATCTTCC 59.605 60.000 10.75 0.00 35.91 3.46
1443 3257 3.890147 AGAACCTCGTCTTCTACAACTGT 59.110 43.478 0.00 0.00 0.00 3.55
1454 3268 0.682852 TACAACTGTACCAAGCCGCT 59.317 50.000 0.00 0.00 0.00 5.52
1521 3335 0.028374 GGAACAACACGTTTGTCCGG 59.972 55.000 13.82 0.00 38.19 5.14
1642 3456 0.811281 GAATGCCAGCCACTACCAAC 59.189 55.000 0.00 0.00 0.00 3.77
1671 3485 0.250081 GCGATGGATTCCTCCTCACC 60.250 60.000 3.95 0.00 42.59 4.02
1675 3489 0.621571 TGGATTCCTCCTCACCTGGG 60.622 60.000 3.95 0.00 42.59 4.45
2131 4844 3.070576 TGCTGCTGCTCTCCGCTA 61.071 61.111 17.00 0.00 40.48 4.26
2455 5168 2.203070 GGCCCTACACCATCAGCG 60.203 66.667 0.00 0.00 0.00 5.18
2495 5208 0.700564 ATCCTCCACAACTGCACCAT 59.299 50.000 0.00 0.00 0.00 3.55
2496 5209 0.250858 TCCTCCACAACTGCACCATG 60.251 55.000 0.00 0.00 0.00 3.66
2497 5210 1.582968 CTCCACAACTGCACCATGC 59.417 57.895 0.00 0.00 45.29 4.06
2498 5211 1.870055 CTCCACAACTGCACCATGCC 61.870 60.000 0.00 0.00 44.23 4.40
2499 5212 2.256158 CACAACTGCACCATGCCG 59.744 61.111 0.00 0.00 44.23 5.69
2500 5213 3.673484 ACAACTGCACCATGCCGC 61.673 61.111 0.00 0.00 44.23 6.53
2864 5613 3.129502 CTGACAGCGCCACCATGG 61.130 66.667 11.19 11.19 41.55 3.66
2907 5679 4.333926 AGTTCTTTGATCAAGCTAATCCGC 59.666 41.667 8.41 0.00 31.70 5.54
2950 5731 1.620822 ATTTCAAGTGCCAGTGACCC 58.379 50.000 0.00 0.00 0.00 4.46
2955 5736 0.773644 AAGTGCCAGTGACCCATTCT 59.226 50.000 0.00 0.00 0.00 2.40
2999 5873 4.739228 CGTTTTTGATGTTGCATCTGACAA 59.261 37.500 10.02 0.00 0.00 3.18
3017 5891 3.476552 ACAAAGAATCGCTGTCAGGAAA 58.523 40.909 1.14 0.00 0.00 3.13
3054 5935 1.153549 GTCGCTGTTGCTAGGAGGG 60.154 63.158 0.00 0.00 36.97 4.30
3057 5938 0.531532 CGCTGTTGCTAGGAGGGATG 60.532 60.000 0.00 0.00 36.97 3.51
3098 6000 5.872617 CACGGATATTGTGGTTTCAACTCTA 59.127 40.000 2.05 0.00 33.69 2.43
3208 6338 6.373216 TCGGTTCCTAGTCAAAATACATTTGG 59.627 38.462 1.52 0.00 46.85 3.28
3241 6406 3.486841 CAGCATTGTTCTTGGTTTCGTTG 59.513 43.478 0.00 0.00 0.00 4.10
3291 6470 4.575885 TCAATGCGCCTAGTACTTTTCTT 58.424 39.130 4.18 0.00 0.00 2.52
3293 6472 5.472137 TCAATGCGCCTAGTACTTTTCTTTT 59.528 36.000 4.18 0.00 0.00 2.27
3303 6482 3.680777 ACTTTTCTTTTCCCTGGTCCA 57.319 42.857 0.00 0.00 0.00 4.02
3347 6610 6.095300 TGTGGAAGTCAATATATTGCAACTGG 59.905 38.462 18.89 0.00 37.68 4.00
3375 6647 8.832521 TGTTGTTGAATTAGTTAGGTGTGTAAG 58.167 33.333 0.00 0.00 0.00 2.34
3437 7240 6.266330 TGGAGACTGGAGTATGATTATGACTG 59.734 42.308 0.00 0.00 0.00 3.51
3438 7241 6.095432 AGACTGGAGTATGATTATGACTGC 57.905 41.667 0.00 0.00 32.64 4.40
3441 7244 6.987386 ACTGGAGTATGATTATGACTGCTAC 58.013 40.000 0.00 0.00 33.16 3.58
3443 7246 5.048013 TGGAGTATGATTATGACTGCTACGG 60.048 44.000 0.00 0.00 33.16 4.02
3474 7280 5.784398 TCAGGATATATTGCCACCATCAT 57.216 39.130 0.00 0.00 0.00 2.45
3543 7351 6.209391 CCAGTCACAAAAGGGAGTTTGATTAT 59.791 38.462 4.76 0.00 40.29 1.28
3544 7352 7.255942 CCAGTCACAAAAGGGAGTTTGATTATT 60.256 37.037 4.76 0.00 40.29 1.40
3545 7353 7.596248 CAGTCACAAAAGGGAGTTTGATTATTG 59.404 37.037 4.76 0.00 40.29 1.90
3549 7357 7.537306 CACAAAAGGGAGTTTGATTATTGTACG 59.463 37.037 4.76 0.00 40.29 3.67
3552 7360 5.425630 AGGGAGTTTGATTATTGTACGGTC 58.574 41.667 0.00 0.00 0.00 4.79
3569 7377 2.597520 GGTCGAAGCTGACAGAGTTAC 58.402 52.381 6.65 0.00 40.72 2.50
3597 7409 4.580167 ACAATACCAATTCAGCACGCATAT 59.420 37.500 0.00 0.00 0.00 1.78
3599 7411 5.772825 ATACCAATTCAGCACGCATATTT 57.227 34.783 0.00 0.00 0.00 1.40
3615 7428 6.742718 ACGCATATTTTTCTTCTCATTTGTCG 59.257 34.615 0.00 0.00 0.00 4.35
3631 7449 1.998315 TGTCGAGCGACTACTGTACTC 59.002 52.381 21.68 0.00 44.80 2.59
3685 7540 3.369471 CGGAGTCTTCTTATGCAGGGAAA 60.369 47.826 0.00 0.00 0.00 3.13
3686 7541 4.195416 GGAGTCTTCTTATGCAGGGAAAG 58.805 47.826 0.00 0.00 0.00 2.62
3688 7543 3.846588 AGTCTTCTTATGCAGGGAAAGGA 59.153 43.478 0.00 0.00 0.00 3.36
3692 7547 6.153510 GTCTTCTTATGCAGGGAAAGGAAAAT 59.846 38.462 0.00 0.00 0.00 1.82
3702 7563 6.161381 CAGGGAAAGGAAAATCAACAAGATG 58.839 40.000 0.00 0.00 36.96 2.90
3704 7565 5.482006 GGAAAGGAAAATCAACAAGATGGG 58.518 41.667 0.00 0.00 36.96 4.00
3720 7581 7.306013 ACAAGATGGGAGATTATAGGTGAGTA 58.694 38.462 0.00 0.00 0.00 2.59
3723 7584 5.340891 TGGGAGATTATAGGTGAGTAGCT 57.659 43.478 0.00 0.00 38.41 3.32
3724 7585 5.326069 TGGGAGATTATAGGTGAGTAGCTC 58.674 45.833 0.00 0.00 35.90 4.09
3725 7586 5.162980 TGGGAGATTATAGGTGAGTAGCTCA 60.163 44.000 0.00 0.00 38.25 4.26
3727 7588 6.071616 GGGAGATTATAGGTGAGTAGCTCAAG 60.072 46.154 0.00 0.00 42.46 3.02
3729 7590 4.569761 TTATAGGTGAGTAGCTCAAGCG 57.430 45.455 0.00 0.00 42.46 4.68
3732 7593 0.458716 GGTGAGTAGCTCAAGCGACC 60.459 60.000 11.02 4.71 45.83 4.79
3733 7594 0.243907 GTGAGTAGCTCAAGCGACCA 59.756 55.000 11.02 6.90 45.83 4.02
3735 7596 1.550524 TGAGTAGCTCAAGCGACCAAT 59.449 47.619 11.02 0.00 45.83 3.16
3736 7597 2.028112 TGAGTAGCTCAAGCGACCAATT 60.028 45.455 11.02 0.00 45.83 2.32
3745 7606 3.649096 CGACCAATTCGGCACACA 58.351 55.556 0.00 0.00 44.60 3.72
3746 7607 2.170738 CGACCAATTCGGCACACAT 58.829 52.632 0.00 0.00 44.60 3.21
3747 7608 1.364721 CGACCAATTCGGCACACATA 58.635 50.000 0.00 0.00 44.60 2.29
3748 7609 1.939934 CGACCAATTCGGCACACATAT 59.060 47.619 0.00 0.00 44.60 1.78
3749 7610 2.354510 CGACCAATTCGGCACACATATT 59.645 45.455 0.00 0.00 44.60 1.28
3750 7611 3.181501 CGACCAATTCGGCACACATATTT 60.182 43.478 0.00 0.00 44.60 1.40
3751 7612 4.674101 CGACCAATTCGGCACACATATTTT 60.674 41.667 0.00 0.00 44.60 1.82
3752 7613 4.743493 ACCAATTCGGCACACATATTTTC 58.257 39.130 0.00 0.00 39.03 2.29
3753 7614 4.462483 ACCAATTCGGCACACATATTTTCT 59.538 37.500 0.00 0.00 39.03 2.52
3754 7615 5.047377 ACCAATTCGGCACACATATTTTCTT 60.047 36.000 0.00 0.00 39.03 2.52
3755 7616 5.516339 CCAATTCGGCACACATATTTTCTTC 59.484 40.000 0.00 0.00 0.00 2.87
3756 7617 6.324819 CAATTCGGCACACATATTTTCTTCT 58.675 36.000 0.00 0.00 0.00 2.85
3757 7618 5.545658 TTCGGCACACATATTTTCTTCTC 57.454 39.130 0.00 0.00 0.00 2.87
3758 7619 4.574892 TCGGCACACATATTTTCTTCTCA 58.425 39.130 0.00 0.00 0.00 3.27
3759 7620 5.185454 TCGGCACACATATTTTCTTCTCAT 58.815 37.500 0.00 0.00 0.00 2.90
3760 7621 5.647658 TCGGCACACATATTTTCTTCTCATT 59.352 36.000 0.00 0.00 0.00 2.57
3774 7650 8.760980 TTTCTTCTCATTTTCCTTTGGTTCTA 57.239 30.769 0.00 0.00 0.00 2.10
3776 7652 8.166422 TCTTCTCATTTTCCTTTGGTTCTAAC 57.834 34.615 0.00 0.00 0.00 2.34
3827 7712 5.055265 TGGAGAACAAGGTGGTAAAATCA 57.945 39.130 0.00 0.00 0.00 2.57
3837 7722 4.771577 AGGTGGTAAAATCACATGATGCAA 59.228 37.500 0.00 0.00 36.90 4.08
3847 7732 8.470040 AAATCACATGATGCAAAATTAGTCAC 57.530 30.769 0.00 0.00 34.49 3.67
3850 7735 7.604549 TCACATGATGCAAAATTAGTCACATT 58.395 30.769 0.00 0.00 0.00 2.71
3904 7798 2.088423 TGTTGTTGTGGACAGTTGGAC 58.912 47.619 0.00 0.00 39.94 4.02
3910 7804 2.334977 TGTGGACAGTTGGACCAGTAT 58.665 47.619 0.00 0.00 34.21 2.12
3915 7809 0.744414 CAGTTGGACCAGTATGCGGG 60.744 60.000 0.00 0.00 35.99 6.13
3921 7815 1.682451 GACCAGTATGCGGGGCTGTA 61.682 60.000 4.83 0.00 34.93 2.74
3922 7816 1.054406 ACCAGTATGCGGGGCTGTAT 61.054 55.000 4.83 0.00 34.09 2.29
3924 7818 1.512926 CAGTATGCGGGGCTGTATTC 58.487 55.000 0.00 0.00 0.00 1.75
3927 7821 1.806542 GTATGCGGGGCTGTATTCATG 59.193 52.381 0.00 0.00 0.00 3.07
3930 7824 0.663153 GCGGGGCTGTATTCATGTTC 59.337 55.000 0.00 0.00 0.00 3.18
3931 7825 0.937304 CGGGGCTGTATTCATGTTCG 59.063 55.000 0.00 0.00 0.00 3.95
3932 7826 0.663153 GGGGCTGTATTCATGTTCGC 59.337 55.000 0.00 0.00 0.00 4.70
3933 7827 0.304705 GGGCTGTATTCATGTTCGCG 59.695 55.000 0.00 0.00 0.00 5.87
3934 7828 0.304705 GGCTGTATTCATGTTCGCGG 59.695 55.000 6.13 0.00 0.00 6.46
3940 7843 1.234821 ATTCATGTTCGCGGTGTGTT 58.765 45.000 6.13 0.00 0.00 3.32
3941 7844 0.584396 TTCATGTTCGCGGTGTGTTC 59.416 50.000 6.13 0.00 0.00 3.18
3973 7876 1.069227 CCTGGTACAAACGCAAGAAGC 60.069 52.381 0.00 0.00 38.70 3.86
4006 7909 5.122869 GCTGTAGCTTCAAATGAGTTCATGA 59.877 40.000 0.00 0.00 35.88 3.07
4023 7929 5.425196 TCATGAGAAGTGGATCAATGACA 57.575 39.130 0.00 0.00 0.00 3.58
4080 7986 5.300539 TCCTCATATCTTCACTTTCGAGGAG 59.699 44.000 0.00 0.00 42.12 3.69
4088 7994 2.628178 TCACTTTCGAGGAGCTTGAAGA 59.372 45.455 0.00 0.00 35.58 2.87
4159 8065 7.562454 TTTGGAACTGTCTACAAAGGTAAAG 57.438 36.000 0.00 0.00 0.00 1.85
4170 8076 5.337578 ACAAAGGTAAAGCACATGTTTGT 57.662 34.783 0.00 0.00 34.64 2.83
4174 8080 4.072131 AGGTAAAGCACATGTTTGTCGAT 58.928 39.130 0.00 0.00 32.34 3.59
4214 8130 7.609760 TCTTAACACGTCAAATTGCAGATAT 57.390 32.000 0.00 0.00 0.00 1.63
4374 8347 4.288105 AGTTCCTGAATGAGGTTGACATCT 59.712 41.667 0.00 0.00 43.37 2.90
4496 8469 1.811266 CGCAGACCATCTTCACGGG 60.811 63.158 0.00 0.00 0.00 5.28
4604 8577 2.287069 CGTGGAGATCATACACCGAGAC 60.287 54.545 0.00 0.00 0.00 3.36
4900 8873 4.324099 CCTCAACAGGATTCAGAACCATCT 60.324 45.833 5.03 0.00 43.65 2.90
4941 8914 1.676678 GGAGCTCGGCTATGACACCA 61.677 60.000 7.83 0.00 39.88 4.17
4945 8918 0.537188 CTCGGCTATGACACCAACCT 59.463 55.000 0.00 0.00 0.00 3.50
5183 9159 4.527509 ACATAGATTCCATAGCCAGTCG 57.472 45.455 0.00 0.00 0.00 4.18
5227 9205 9.851686 ATCAAATGCTAGTGGATTATCTAACAA 57.148 29.630 0.00 0.00 33.01 2.83
5392 9371 8.190122 CGGATGGAGATGATACAAAAATCAAAA 58.810 33.333 0.00 0.00 39.25 2.44
5616 9602 2.331194 CACGAACCGGTACTAAAGGTG 58.669 52.381 8.00 4.87 38.44 4.00
5617 9603 1.337167 ACGAACCGGTACTAAAGGTGC 60.337 52.381 8.00 0.00 38.44 5.01
5619 9605 2.344025 GAACCGGTACTAAAGGTGCTG 58.656 52.381 8.00 0.00 38.44 4.41
5673 9659 0.544357 AGGATGTTGTCAGTCCGGGA 60.544 55.000 0.00 0.00 37.12 5.14
5763 9752 2.829003 CCACCCGAGCTCGCTCTA 60.829 66.667 30.49 0.00 40.69 2.43
5813 9816 1.754226 CTTCCCCTCTTTCTCTCGAGG 59.246 57.143 13.56 3.44 45.10 4.63
5857 9860 1.533625 TGTCAAGATTTGAAGGCCCG 58.466 50.000 0.00 0.00 42.15 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.149174 CCATAATCCGCTGGCCAGT 59.851 57.895 32.81 16.06 0.00 4.00
12 13 1.066002 CAAAGCACCATAATCCGCTGG 59.934 52.381 0.00 0.00 38.55 4.85
14 15 1.340991 ACCAAAGCACCATAATCCGCT 60.341 47.619 0.00 0.00 35.90 5.52
16 17 3.312421 CAGTACCAAAGCACCATAATCCG 59.688 47.826 0.00 0.00 0.00 4.18
17 18 4.335594 GTCAGTACCAAAGCACCATAATCC 59.664 45.833 0.00 0.00 0.00 3.01
19 20 4.270008 GGTCAGTACCAAAGCACCATAAT 58.730 43.478 0.00 0.00 45.98 1.28
20 21 3.681593 GGTCAGTACCAAAGCACCATAA 58.318 45.455 0.00 0.00 45.98 1.90
21 22 3.343941 GGTCAGTACCAAAGCACCATA 57.656 47.619 0.00 0.00 45.98 2.74
23 24 3.717842 GGTCAGTACCAAAGCACCA 57.282 52.632 0.00 0.00 45.98 4.17
47 48 2.726274 ACCGTCACTCGTGGTCAC 59.274 61.111 0.00 0.00 37.94 3.67
49 50 2.126965 CGACCGTCACTCGTGGTC 60.127 66.667 0.00 0.55 46.91 4.02
50 51 3.667282 CCGACCGTCACTCGTGGT 61.667 66.667 0.00 0.00 39.12 4.16
53 54 1.172180 TTTACCCGACCGTCACTCGT 61.172 55.000 0.00 0.00 37.94 4.18
54 55 0.730494 GTTTACCCGACCGTCACTCG 60.730 60.000 0.00 0.00 39.52 4.18
56 57 1.286880 CGTTTACCCGACCGTCACT 59.713 57.895 0.00 0.00 0.00 3.41
57 58 1.007387 ACGTTTACCCGACCGTCAC 60.007 57.895 0.00 0.00 0.00 3.67
58 59 1.007502 CACGTTTACCCGACCGTCA 60.008 57.895 0.00 0.00 0.00 4.35
60 61 0.240945 CTACACGTTTACCCGACCGT 59.759 55.000 0.00 0.00 0.00 4.83
62 63 2.415491 GGTACTACACGTTTACCCGACC 60.415 54.545 0.00 0.00 30.67 4.79
63 64 2.727916 CGGTACTACACGTTTACCCGAC 60.728 54.545 4.53 0.00 32.96 4.79
65 66 1.199097 ACGGTACTACACGTTTACCCG 59.801 52.381 7.72 7.72 40.99 5.28
72 73 0.038892 CAGGCAACGGTACTACACGT 60.039 55.000 0.00 0.00 46.48 4.49
73 74 0.038892 ACAGGCAACGGTACTACACG 60.039 55.000 0.00 0.00 45.78 4.49
74 75 3.900446 ACAGGCAACGGTACTACAC 57.100 52.632 0.00 0.00 45.78 2.90
82 83 1.067915 CATTTGGGTAACAGGCAACGG 60.068 52.381 0.00 0.00 46.39 4.44
83 84 1.611491 ACATTTGGGTAACAGGCAACG 59.389 47.619 0.00 0.00 46.39 4.10
84 85 3.744238 AACATTTGGGTAACAGGCAAC 57.256 42.857 0.00 0.00 39.74 4.17
85 86 4.896482 AGTTAACATTTGGGTAACAGGCAA 59.104 37.500 8.61 0.00 39.74 4.52
86 87 4.475345 AGTTAACATTTGGGTAACAGGCA 58.525 39.130 8.61 0.00 39.74 4.75
87 88 5.462530 AAGTTAACATTTGGGTAACAGGC 57.537 39.130 8.61 0.00 39.74 4.85
88 89 7.436970 GTCAAAAGTTAACATTTGGGTAACAGG 59.563 37.037 27.07 7.13 35.83 4.00
89 90 8.194769 AGTCAAAAGTTAACATTTGGGTAACAG 58.805 33.333 27.07 7.70 35.83 3.16
90 91 7.976734 CAGTCAAAAGTTAACATTTGGGTAACA 59.023 33.333 27.07 11.13 35.83 2.41
91 92 7.977293 ACAGTCAAAAGTTAACATTTGGGTAAC 59.023 33.333 27.07 20.07 35.83 2.50
92 93 8.068892 ACAGTCAAAAGTTAACATTTGGGTAA 57.931 30.769 27.07 11.99 35.83 2.85
93 94 7.648039 ACAGTCAAAAGTTAACATTTGGGTA 57.352 32.000 27.07 12.28 35.83 3.69
94 95 6.538945 ACAGTCAAAAGTTAACATTTGGGT 57.461 33.333 27.07 21.15 35.83 4.51
95 96 7.436970 GGTAACAGTCAAAAGTTAACATTTGGG 59.563 37.037 27.07 20.69 37.73 4.12
97 98 7.976734 TGGGTAACAGTCAAAAGTTAACATTTG 59.023 33.333 23.73 23.73 39.16 2.32
98 99 8.068892 TGGGTAACAGTCAAAAGTTAACATTT 57.931 30.769 8.61 5.63 39.16 2.32
99 100 7.648039 TGGGTAACAGTCAAAAGTTAACATT 57.352 32.000 8.61 0.00 39.16 2.71
100 101 7.648039 TTGGGTAACAGTCAAAAGTTAACAT 57.352 32.000 8.61 0.00 39.16 2.71
103 104 7.976734 CACATTTGGGTAACAGTCAAAAGTTAA 59.023 33.333 0.00 0.00 32.40 2.01
104 105 7.339721 TCACATTTGGGTAACAGTCAAAAGTTA 59.660 33.333 0.00 0.00 32.40 2.24
105 106 6.153680 TCACATTTGGGTAACAGTCAAAAGTT 59.846 34.615 0.00 0.00 32.40 2.66
106 107 5.654650 TCACATTTGGGTAACAGTCAAAAGT 59.345 36.000 0.00 0.00 34.17 2.66
107 108 5.977129 GTCACATTTGGGTAACAGTCAAAAG 59.023 40.000 0.00 0.00 34.63 2.27
108 109 5.449314 CGTCACATTTGGGTAACAGTCAAAA 60.449 40.000 0.00 0.00 34.63 2.44
110 111 3.562141 CGTCACATTTGGGTAACAGTCAA 59.438 43.478 0.00 0.00 39.74 3.18
112 113 2.095919 GCGTCACATTTGGGTAACAGTC 60.096 50.000 0.00 0.00 39.74 3.51
113 114 1.877443 GCGTCACATTTGGGTAACAGT 59.123 47.619 0.00 0.00 39.74 3.55
115 116 0.869068 CGCGTCACATTTGGGTAACA 59.131 50.000 0.00 0.00 39.74 2.41
116 117 0.869730 ACGCGTCACATTTGGGTAAC 59.130 50.000 5.58 0.00 0.00 2.50
117 118 0.869068 CACGCGTCACATTTGGGTAA 59.131 50.000 9.86 0.00 0.00 2.85
118 119 0.951525 CCACGCGTCACATTTGGGTA 60.952 55.000 9.86 0.00 0.00 3.69
121 122 0.030101 AAACCACGCGTCACATTTGG 59.970 50.000 9.86 8.71 0.00 3.28
123 124 1.595976 CGAAAACCACGCGTCACATTT 60.596 47.619 9.86 8.72 0.00 2.32
124 125 0.041663 CGAAAACCACGCGTCACATT 60.042 50.000 9.86 2.10 0.00 2.71
125 126 1.567537 CGAAAACCACGCGTCACAT 59.432 52.632 9.86 0.00 0.00 3.21
126 127 3.007516 CGAAAACCACGCGTCACA 58.992 55.556 9.86 0.00 0.00 3.58
127 128 2.424640 GCGAAAACCACGCGTCAC 60.425 61.111 9.86 0.00 46.05 3.67
134 135 5.566395 CGGAGTTTTTATTAGCGAAAACCAC 59.434 40.000 7.77 4.05 43.36 4.16
135 136 5.335035 CCGGAGTTTTTATTAGCGAAAACCA 60.335 40.000 0.00 0.00 43.36 3.67
138 139 4.456566 AGCCGGAGTTTTTATTAGCGAAAA 59.543 37.500 5.05 0.00 0.00 2.29
139 140 4.004982 AGCCGGAGTTTTTATTAGCGAAA 58.995 39.130 5.05 0.00 0.00 3.46
140 141 3.602483 AGCCGGAGTTTTTATTAGCGAA 58.398 40.909 5.05 0.00 0.00 4.70
143 144 4.575236 AGCTTAGCCGGAGTTTTTATTAGC 59.425 41.667 5.05 0.00 0.00 3.09
144 145 6.679327 AAGCTTAGCCGGAGTTTTTATTAG 57.321 37.500 5.05 0.00 0.00 1.73
145 146 7.457024 AAAAGCTTAGCCGGAGTTTTTATTA 57.543 32.000 5.05 0.00 36.30 0.98
147 148 5.977489 AAAAGCTTAGCCGGAGTTTTTAT 57.023 34.783 5.05 0.00 36.30 1.40
148 149 5.777850 AAAAAGCTTAGCCGGAGTTTTTA 57.222 34.783 5.05 0.00 36.81 1.52
149 150 4.665833 AAAAAGCTTAGCCGGAGTTTTT 57.334 36.364 5.05 8.06 38.59 1.94
150 151 4.581409 TGTAAAAAGCTTAGCCGGAGTTTT 59.419 37.500 5.05 0.89 0.00 2.43
151 152 4.139038 TGTAAAAAGCTTAGCCGGAGTTT 58.861 39.130 5.05 0.00 0.00 2.66
152 153 3.746940 TGTAAAAAGCTTAGCCGGAGTT 58.253 40.909 5.05 0.00 0.00 3.01
154 155 3.689649 ACATGTAAAAAGCTTAGCCGGAG 59.310 43.478 5.05 0.00 0.00 4.63
155 156 3.438781 CACATGTAAAAAGCTTAGCCGGA 59.561 43.478 5.05 0.00 0.00 5.14
158 159 3.761752 TCCCACATGTAAAAAGCTTAGCC 59.238 43.478 0.00 0.00 0.00 3.93
159 160 5.358160 AGATCCCACATGTAAAAAGCTTAGC 59.642 40.000 0.00 0.00 0.00 3.09
160 161 7.396540 AAGATCCCACATGTAAAAAGCTTAG 57.603 36.000 0.00 0.00 0.00 2.18
161 162 7.601856 CAAAGATCCCACATGTAAAAAGCTTA 58.398 34.615 0.00 0.00 0.00 3.09
162 163 6.458210 CAAAGATCCCACATGTAAAAAGCTT 58.542 36.000 0.00 0.00 0.00 3.74
164 165 4.627035 GCAAAGATCCCACATGTAAAAAGC 59.373 41.667 0.00 0.00 0.00 3.51
165 166 5.782047 TGCAAAGATCCCACATGTAAAAAG 58.218 37.500 0.00 0.00 0.00 2.27
166 167 5.304101 ACTGCAAAGATCCCACATGTAAAAA 59.696 36.000 0.00 0.00 0.00 1.94
167 168 4.832266 ACTGCAAAGATCCCACATGTAAAA 59.168 37.500 0.00 0.00 0.00 1.52
168 169 4.406456 ACTGCAAAGATCCCACATGTAAA 58.594 39.130 0.00 0.00 0.00 2.01
169 170 4.032960 ACTGCAAAGATCCCACATGTAA 57.967 40.909 0.00 0.00 0.00 2.41
170 171 3.719268 ACTGCAAAGATCCCACATGTA 57.281 42.857 0.00 0.00 0.00 2.29
171 172 2.592102 ACTGCAAAGATCCCACATGT 57.408 45.000 0.00 0.00 0.00 3.21
172 173 3.243301 GCATACTGCAAAGATCCCACATG 60.243 47.826 0.00 0.00 44.26 3.21
173 174 2.954318 GCATACTGCAAAGATCCCACAT 59.046 45.455 0.00 0.00 44.26 3.21
174 175 2.368439 GCATACTGCAAAGATCCCACA 58.632 47.619 0.00 0.00 44.26 4.17
187 188 1.453155 GGGTGGACACAAGCATACTG 58.547 55.000 4.69 0.00 0.00 2.74
188 189 0.328258 GGGGTGGACACAAGCATACT 59.672 55.000 4.69 0.00 0.00 2.12
189 190 0.037590 TGGGGTGGACACAAGCATAC 59.962 55.000 4.69 0.00 0.00 2.39
191 192 0.612732 CATGGGGTGGACACAAGCAT 60.613 55.000 4.69 0.00 0.00 3.79
192 193 1.228521 CATGGGGTGGACACAAGCA 60.229 57.895 4.69 0.00 0.00 3.91
193 194 1.228552 ACATGGGGTGGACACAAGC 60.229 57.895 4.69 0.00 0.00 4.01
195 196 4.918592 CACATGGGGTGGACACAA 57.081 55.556 4.69 0.00 44.04 3.33
206 207 2.584835 TTTGGAACTCCCTCACATGG 57.415 50.000 0.00 0.00 35.38 3.66
208 209 7.872138 TCTTATATTTTGGAACTCCCTCACAT 58.128 34.615 0.00 0.00 35.38 3.21
209 210 7.037586 ACTCTTATATTTTGGAACTCCCTCACA 60.038 37.037 0.00 0.00 35.38 3.58
210 211 7.339482 ACTCTTATATTTTGGAACTCCCTCAC 58.661 38.462 0.00 0.00 35.38 3.51
211 212 7.510675 ACTCTTATATTTTGGAACTCCCTCA 57.489 36.000 0.00 0.00 35.38 3.86
212 213 8.809468 AAACTCTTATATTTTGGAACTCCCTC 57.191 34.615 0.00 0.00 35.38 4.30
255 256 9.932207 TGTCCTAGAATATAAGAACGTTTTTGA 57.068 29.630 13.87 2.81 0.00 2.69
259 260 8.414778 CCTCTGTCCTAGAATATAAGAACGTTT 58.585 37.037 0.46 0.00 34.32 3.60
260 261 7.778853 TCCTCTGTCCTAGAATATAAGAACGTT 59.221 37.037 0.00 0.00 34.32 3.99
261 262 7.288560 TCCTCTGTCCTAGAATATAAGAACGT 58.711 38.462 0.00 0.00 34.32 3.99
263 264 9.138596 ACTTCCTCTGTCCTAGAATATAAGAAC 57.861 37.037 0.00 0.00 34.32 3.01
266 267 9.802039 ACTACTTCCTCTGTCCTAGAATATAAG 57.198 37.037 0.00 0.00 34.32 1.73
270 271 9.796180 GATTACTACTTCCTCTGTCCTAGAATA 57.204 37.037 0.00 0.00 34.32 1.75
272 273 7.874252 AGATTACTACTTCCTCTGTCCTAGAA 58.126 38.462 0.00 0.00 34.32 2.10
273 274 7.454553 AGATTACTACTTCCTCTGTCCTAGA 57.545 40.000 0.00 0.00 0.00 2.43
274 275 8.653191 TCTAGATTACTACTTCCTCTGTCCTAG 58.347 40.741 0.00 0.00 0.00 3.02
275 276 8.431222 GTCTAGATTACTACTTCCTCTGTCCTA 58.569 40.741 0.00 0.00 0.00 2.94
276 277 7.284820 GTCTAGATTACTACTTCCTCTGTCCT 58.715 42.308 0.00 0.00 0.00 3.85
278 279 6.293027 GCGTCTAGATTACTACTTCCTCTGTC 60.293 46.154 0.00 0.00 0.00 3.51
279 280 5.528320 GCGTCTAGATTACTACTTCCTCTGT 59.472 44.000 0.00 0.00 0.00 3.41
280 281 5.761234 AGCGTCTAGATTACTACTTCCTCTG 59.239 44.000 0.00 0.00 0.00 3.35
281 282 5.932455 AGCGTCTAGATTACTACTTCCTCT 58.068 41.667 0.00 0.00 0.00 3.69
282 283 6.622833 AAGCGTCTAGATTACTACTTCCTC 57.377 41.667 0.00 0.00 0.00 3.71
283 284 7.407393 AAAAGCGTCTAGATTACTACTTCCT 57.593 36.000 0.00 0.00 0.00 3.36
285 286 9.733219 ACATAAAAGCGTCTAGATTACTACTTC 57.267 33.333 0.00 0.00 0.00 3.01
290 291 9.654663 AAGAAACATAAAAGCGTCTAGATTACT 57.345 29.630 0.00 0.00 0.00 2.24
295 296 8.821147 TGTAAAGAAACATAAAAGCGTCTAGA 57.179 30.769 0.00 0.00 0.00 2.43
296 297 8.922676 TCTGTAAAGAAACATAAAAGCGTCTAG 58.077 33.333 0.00 0.00 0.00 2.43
297 298 8.706035 GTCTGTAAAGAAACATAAAAGCGTCTA 58.294 33.333 0.00 0.00 0.00 2.59
298 299 7.225931 TGTCTGTAAAGAAACATAAAAGCGTCT 59.774 33.333 0.00 0.00 0.00 4.18
299 300 7.349711 TGTCTGTAAAGAAACATAAAAGCGTC 58.650 34.615 0.00 0.00 0.00 5.19
300 301 7.225931 TCTGTCTGTAAAGAAACATAAAAGCGT 59.774 33.333 0.00 0.00 0.00 5.07
301 302 7.572759 TCTGTCTGTAAAGAAACATAAAAGCG 58.427 34.615 0.00 0.00 0.00 4.68
303 304 9.273016 TCCTCTGTCTGTAAAGAAACATAAAAG 57.727 33.333 0.00 0.00 0.00 2.27
304 305 9.621629 TTCCTCTGTCTGTAAAGAAACATAAAA 57.378 29.630 0.00 0.00 0.00 1.52
307 308 7.963532 ACTTCCTCTGTCTGTAAAGAAACATA 58.036 34.615 0.00 0.00 0.00 2.29
308 309 6.831976 ACTTCCTCTGTCTGTAAAGAAACAT 58.168 36.000 0.00 0.00 0.00 2.71
309 310 6.235231 ACTTCCTCTGTCTGTAAAGAAACA 57.765 37.500 0.00 0.00 0.00 2.83
310 311 8.834749 ATTACTTCCTCTGTCTGTAAAGAAAC 57.165 34.615 0.00 0.00 0.00 2.78
314 315 9.743057 CTCATATTACTTCCTCTGTCTGTAAAG 57.257 37.037 0.00 0.00 0.00 1.85
315 316 9.256228 ACTCATATTACTTCCTCTGTCTGTAAA 57.744 33.333 0.00 0.00 0.00 2.01
316 317 8.824756 ACTCATATTACTTCCTCTGTCTGTAA 57.175 34.615 0.00 0.00 0.00 2.41
317 318 9.562408 CTACTCATATTACTTCCTCTGTCTGTA 57.438 37.037 0.00 0.00 0.00 2.74
318 319 8.275758 TCTACTCATATTACTTCCTCTGTCTGT 58.724 37.037 0.00 0.00 0.00 3.41
319 320 8.684386 TCTACTCATATTACTTCCTCTGTCTG 57.316 38.462 0.00 0.00 0.00 3.51
320 321 9.295825 CATCTACTCATATTACTTCCTCTGTCT 57.704 37.037 0.00 0.00 0.00 3.41
325 326 6.626181 CGGGCATCTACTCATATTACTTCCTC 60.626 46.154 0.00 0.00 0.00 3.71
326 327 5.186021 CGGGCATCTACTCATATTACTTCCT 59.814 44.000 0.00 0.00 0.00 3.36
327 328 5.411781 CGGGCATCTACTCATATTACTTCC 58.588 45.833 0.00 0.00 0.00 3.46
328 329 5.411781 CCGGGCATCTACTCATATTACTTC 58.588 45.833 0.00 0.00 0.00 3.01
329 330 4.223032 CCCGGGCATCTACTCATATTACTT 59.777 45.833 8.08 0.00 0.00 2.24
330 331 3.769844 CCCGGGCATCTACTCATATTACT 59.230 47.826 8.08 0.00 0.00 2.24
331 332 3.514309 ACCCGGGCATCTACTCATATTAC 59.486 47.826 24.08 0.00 0.00 1.89
332 333 3.513912 CACCCGGGCATCTACTCATATTA 59.486 47.826 24.08 0.00 0.00 0.98
333 334 2.303022 CACCCGGGCATCTACTCATATT 59.697 50.000 24.08 0.00 0.00 1.28
335 336 1.338107 CACCCGGGCATCTACTCATA 58.662 55.000 24.08 0.00 0.00 2.15
336 337 2.044806 GCACCCGGGCATCTACTCAT 62.045 60.000 24.08 0.00 0.00 2.90
338 339 1.972660 AAGCACCCGGGCATCTACTC 61.973 60.000 24.08 0.21 35.83 2.59
339 340 1.562672 AAAGCACCCGGGCATCTACT 61.563 55.000 24.08 6.00 35.83 2.57
340 341 1.077716 AAAGCACCCGGGCATCTAC 60.078 57.895 24.08 3.33 35.83 2.59
342 343 2.361610 CAAAGCACCCGGGCATCT 60.362 61.111 24.08 12.59 35.83 2.90
344 345 2.990967 CACAAAGCACCCGGGCAT 60.991 61.111 24.08 2.91 35.83 4.40
399 400 9.947669 CGTGCAACTAGTACTAGACTATTAATT 57.052 33.333 31.93 13.26 39.98 1.40
401 402 8.722480 TCGTGCAACTAGTACTAGACTATTAA 57.278 34.615 31.93 12.40 39.98 1.40
402 403 8.722480 TTCGTGCAACTAGTACTAGACTATTA 57.278 34.615 31.93 12.76 39.98 0.98
425 426 1.077429 ATCAAGGGGCCGAAGCTTC 60.077 57.895 16.84 16.84 39.73 3.86
426 427 1.379044 CATCAAGGGGCCGAAGCTT 60.379 57.895 0.00 0.00 39.73 3.74
428 429 1.152881 ATCATCAAGGGGCCGAAGC 60.153 57.895 0.00 0.00 38.76 3.86
429 430 0.107017 ACATCATCAAGGGGCCGAAG 60.107 55.000 0.00 0.00 0.00 3.79
431 432 1.224315 CACATCATCAAGGGGCCGA 59.776 57.895 0.00 0.00 0.00 5.54
432 433 1.825191 CCACATCATCAAGGGGCCG 60.825 63.158 0.00 0.00 0.00 6.13
433 434 2.129785 GCCACATCATCAAGGGGCC 61.130 63.158 0.00 0.00 35.42 5.80
434 435 2.129785 GGCCACATCATCAAGGGGC 61.130 63.158 0.00 0.00 40.63 5.80
435 436 0.754217 CAGGCCACATCATCAAGGGG 60.754 60.000 5.01 0.00 0.00 4.79
436 437 1.389609 GCAGGCCACATCATCAAGGG 61.390 60.000 5.01 0.00 0.00 3.95
437 438 0.681887 TGCAGGCCACATCATCAAGG 60.682 55.000 5.01 0.00 0.00 3.61
438 439 1.179152 TTGCAGGCCACATCATCAAG 58.821 50.000 5.01 0.00 0.00 3.02
440 441 0.889994 GTTTGCAGGCCACATCATCA 59.110 50.000 5.01 0.00 0.00 3.07
442 443 1.636148 AAGTTTGCAGGCCACATCAT 58.364 45.000 5.01 0.00 0.00 2.45
443 444 2.284754 TAAGTTTGCAGGCCACATCA 57.715 45.000 5.01 0.00 0.00 3.07
461 462 2.616524 ACTGCCCACTTGGAGTAGTTA 58.383 47.619 0.00 0.00 37.39 2.24
571 573 4.584327 TCAAATTAGGCTGATCGATCGA 57.416 40.909 21.86 21.86 0.00 3.59
572 574 4.747108 AGTTCAAATTAGGCTGATCGATCG 59.253 41.667 20.03 9.36 0.00 3.69
579 581 4.985538 AGTTGGAGTTCAAATTAGGCTGA 58.014 39.130 0.00 0.00 37.08 4.26
581 583 4.944317 GCTAGTTGGAGTTCAAATTAGGCT 59.056 41.667 0.00 0.00 37.08 4.58
585 587 5.643777 GCTGAGCTAGTTGGAGTTCAAATTA 59.356 40.000 0.00 0.00 36.40 1.40
588 590 3.403038 GCTGAGCTAGTTGGAGTTCAAA 58.597 45.455 0.00 0.00 36.40 2.69
589 591 2.289694 GGCTGAGCTAGTTGGAGTTCAA 60.290 50.000 3.72 0.00 36.40 2.69
590 592 1.276421 GGCTGAGCTAGTTGGAGTTCA 59.724 52.381 3.72 0.00 35.63 3.18
591 593 1.276421 TGGCTGAGCTAGTTGGAGTTC 59.724 52.381 3.72 0.00 0.00 3.01
592 594 1.352083 TGGCTGAGCTAGTTGGAGTT 58.648 50.000 3.72 0.00 0.00 3.01
594 596 1.474677 CCATGGCTGAGCTAGTTGGAG 60.475 57.143 3.72 0.00 0.00 3.86
720 1070 2.029844 GCACGAGAACTCCACCAGC 61.030 63.158 0.00 0.00 0.00 4.85
755 1106 4.603535 GCACAGCTGGGGTGGGTT 62.604 66.667 19.71 0.00 36.75 4.11
760 1111 2.283143 TTTGACTGCACAGCTGGGGT 62.283 55.000 19.71 7.99 0.00 4.95
761 1112 1.529010 TTTGACTGCACAGCTGGGG 60.529 57.895 19.71 10.82 0.00 4.96
762 1113 0.820891 AGTTTGACTGCACAGCTGGG 60.821 55.000 19.93 16.72 0.00 4.45
763 1114 1.027357 AAGTTTGACTGCACAGCTGG 58.973 50.000 19.93 8.27 0.00 4.85
764 1115 2.542411 GGAAAGTTTGACTGCACAGCTG 60.542 50.000 13.48 13.48 0.00 4.24
767 1118 1.002468 CCGGAAAGTTTGACTGCACAG 60.002 52.381 0.00 0.00 0.00 3.66
768 1119 1.021202 CCGGAAAGTTTGACTGCACA 58.979 50.000 0.00 0.00 0.00 4.57
769 1120 0.317854 GCCGGAAAGTTTGACTGCAC 60.318 55.000 5.05 0.00 0.00 4.57
804 1155 1.747924 GATGGAGCTTTTCTCTTGGCC 59.252 52.381 0.00 0.00 41.60 5.36
812 1163 5.431765 TGTGATAAGAGGATGGAGCTTTTC 58.568 41.667 0.00 0.00 0.00 2.29
828 1205 2.492088 CGAGCGAGGGGATATGTGATAA 59.508 50.000 0.00 0.00 0.00 1.75
859 1243 0.321653 GTAGGCACTCTTGTGTGGGG 60.322 60.000 5.22 0.00 45.44 4.96
860 1244 0.687354 AGTAGGCACTCTTGTGTGGG 59.313 55.000 5.22 0.00 45.44 4.61
862 1246 2.232452 AGCTAGTAGGCACTCTTGTGTG 59.768 50.000 0.00 0.00 45.44 3.82
863 1247 2.530701 AGCTAGTAGGCACTCTTGTGT 58.469 47.619 0.00 0.00 45.44 3.72
864 1248 3.257393 CAAGCTAGTAGGCACTCTTGTG 58.743 50.000 0.00 0.00 46.37 3.33
865 1249 2.900546 ACAAGCTAGTAGGCACTCTTGT 59.099 45.455 11.95 11.95 41.49 3.16
866 1250 3.056536 TGACAAGCTAGTAGGCACTCTTG 60.057 47.826 10.98 10.98 40.19 3.02
868 1252 2.494073 GTGACAAGCTAGTAGGCACTCT 59.506 50.000 9.15 0.00 41.75 3.24
870 1254 1.202582 CGTGACAAGCTAGTAGGCACT 59.797 52.381 12.99 0.00 46.37 4.40
871 1255 1.201647 TCGTGACAAGCTAGTAGGCAC 59.798 52.381 0.00 7.01 34.17 5.01
874 1258 4.713806 CGATATCGTGACAAGCTAGTAGG 58.286 47.826 17.06 0.00 34.11 3.18
876 1260 3.562557 TGCGATATCGTGACAAGCTAGTA 59.437 43.478 24.99 0.00 42.22 1.82
878 1262 2.976509 CTGCGATATCGTGACAAGCTAG 59.023 50.000 24.99 7.32 42.22 3.42
879 1263 2.357952 ACTGCGATATCGTGACAAGCTA 59.642 45.455 24.99 2.06 42.22 3.32
881 1265 1.560923 ACTGCGATATCGTGACAAGC 58.439 50.000 24.99 8.13 42.22 4.01
882 1266 3.179048 TGAACTGCGATATCGTGACAAG 58.821 45.455 24.99 16.43 42.22 3.16
883 1267 3.224884 TGAACTGCGATATCGTGACAA 57.775 42.857 24.99 5.82 42.22 3.18
884 1268 2.931512 TGAACTGCGATATCGTGACA 57.068 45.000 24.99 14.13 42.22 3.58
885 1269 4.537965 ACTATGAACTGCGATATCGTGAC 58.462 43.478 24.99 10.27 42.22 3.67
886 1270 4.830826 ACTATGAACTGCGATATCGTGA 57.169 40.909 24.99 12.08 42.22 4.35
887 1271 5.690816 AGTACTATGAACTGCGATATCGTG 58.309 41.667 24.99 19.53 42.22 4.35
891 1275 6.623986 GCTGCTAGTACTATGAACTGCGATAT 60.624 42.308 2.33 0.00 0.00 1.63
912 1296 0.035176 GGATGGAGGAGATGAGCTGC 59.965 60.000 0.00 0.00 34.75 5.25
915 1299 1.422531 AGTGGATGGAGGAGATGAGC 58.577 55.000 0.00 0.00 0.00 4.26
917 1301 3.054875 CACAAAGTGGATGGAGGAGATGA 60.055 47.826 0.00 0.00 0.00 2.92
952 1342 2.692557 CTCTGGTGACGAAGAGGATGAT 59.307 50.000 6.14 0.00 36.98 2.45
953 1343 2.095461 CTCTGGTGACGAAGAGGATGA 58.905 52.381 6.14 0.00 36.98 2.92
961 1351 1.162698 CCGTAGTCTCTGGTGACGAA 58.837 55.000 0.00 0.00 41.47 3.85
962 1352 0.035881 ACCGTAGTCTCTGGTGACGA 59.964 55.000 0.00 0.00 41.47 4.20
964 1354 0.447011 CGACCGTAGTCTCTGGTGAC 59.553 60.000 0.80 0.00 41.16 3.67
977 1367 2.415625 CGAAAGAGAAGAATCCGACCGT 60.416 50.000 0.00 0.00 0.00 4.83
1055 1490 1.153249 GCCGGGATGATCGTGGAAA 60.153 57.895 2.18 0.00 0.00 3.13
1279 3087 2.046892 CAGGGAGCCGTTGTGGAG 60.047 66.667 0.00 0.00 42.00 3.86
1347 3155 1.671054 CGGGACATGGCAACGAGTT 60.671 57.895 9.04 0.00 42.51 3.01
1349 3157 2.100631 GTCGGGACATGGCAACGAG 61.101 63.158 16.63 0.00 42.51 4.18
1350 3158 2.047655 GTCGGGACATGGCAACGA 60.048 61.111 12.85 12.85 42.51 3.85
1352 3160 3.124921 CCGTCGGGACATGGCAAC 61.125 66.667 2.34 0.00 34.06 4.17
1521 3335 1.213799 GTTGTACCGACCTCCCGTC 59.786 63.158 0.00 0.00 38.21 4.79
1530 3344 2.981560 GCCGGACTCGTTGTACCGA 61.982 63.158 5.05 0.00 46.94 4.69
1642 3456 1.799403 GAATCCATCGCTGATGAGCTG 59.201 52.381 16.69 0.00 42.09 4.24
1747 3575 4.590647 CAGATAAGGAACTGAGGCCAGATA 59.409 45.833 5.01 0.00 43.02 1.98
1784 3624 0.534412 TTGCCAACCCGCCATTAATG 59.466 50.000 8.58 8.58 0.00 1.90
1850 3732 1.312371 ATTTGTGGGATGCCGTTCCG 61.312 55.000 0.00 0.00 36.58 4.30
2071 4778 1.049855 GGCATGGATTGGATTGGGCA 61.050 55.000 0.00 0.00 0.00 5.36
2106 4813 4.098722 AGCAGCAGCAGGAGGAGC 62.099 66.667 3.17 0.00 45.49 4.70
2455 5168 2.669240 CACCTCCCGGTTCTTCCC 59.331 66.667 0.00 0.00 42.13 3.97
2476 5189 0.700564 ATGGTGCAGTTGTGGAGGAT 59.299 50.000 0.00 0.00 0.00 3.24
2646 5367 2.045731 TCGCCATCCGGAAAACCC 60.046 61.111 9.01 0.00 37.59 4.11
2809 5558 3.319198 GCACTTCTCGGGGTGGGA 61.319 66.667 0.00 0.00 34.41 4.37
2907 5679 2.173356 TGAGGGGAATGAATACCAGCAG 59.827 50.000 0.00 0.00 0.00 4.24
2969 5751 2.543653 GCAACATCAAAAACGTCAGGCT 60.544 45.455 0.00 0.00 0.00 4.58
2999 5873 4.008074 TCTTTTCCTGACAGCGATTCTT 57.992 40.909 0.00 0.00 0.00 2.52
3013 5887 6.592348 CGTAAAACGCAGTAAATCTTTTCC 57.408 37.500 0.00 0.00 45.00 3.13
3054 5935 4.025396 CGTGTCCAATCAGCATTCTACATC 60.025 45.833 0.00 0.00 0.00 3.06
3057 5938 2.609459 CCGTGTCCAATCAGCATTCTAC 59.391 50.000 0.00 0.00 0.00 2.59
3098 6000 0.106015 AGAAACCAAGCAAGCACCCT 60.106 50.000 0.00 0.00 0.00 4.34
3208 6338 6.583806 CCAAGAACAATGCTGACTAATTCAAC 59.416 38.462 0.00 0.00 32.21 3.18
3241 6406 6.419771 GCGAATACAGGAATAGTTTACTTGC 58.580 40.000 0.00 0.00 0.00 4.01
3278 6453 5.938710 GGACCAGGGAAAAGAAAAGTACTAG 59.061 44.000 0.00 0.00 0.00 2.57
3291 6470 1.422024 TCGAAACATGGACCAGGGAAA 59.578 47.619 11.48 0.00 0.00 3.13
3293 6472 1.060729 TTCGAAACATGGACCAGGGA 58.939 50.000 11.48 0.00 0.00 4.20
3347 6610 7.477494 ACACACCTAACTAATTCAACAACAAC 58.523 34.615 0.00 0.00 0.00 3.32
3375 6647 4.483476 AAGTACAGCGTTCAATTCAACC 57.517 40.909 0.00 0.00 0.00 3.77
3437 7240 3.795623 TCCTGAAGTACATTCCGTAGC 57.204 47.619 0.00 0.00 37.08 3.58
3438 7241 9.574458 CAATATATCCTGAAGTACATTCCGTAG 57.426 37.037 0.00 0.00 37.08 3.51
3441 7244 6.313905 GGCAATATATCCTGAAGTACATTCCG 59.686 42.308 0.00 0.00 37.08 4.30
3443 7246 7.119846 GGTGGCAATATATCCTGAAGTACATTC 59.880 40.741 0.00 0.00 38.50 2.67
3478 7284 8.691797 TCCAGCAAAGGGTAAATTTCATATTAC 58.308 33.333 0.00 0.00 0.00 1.89
3479 7285 8.830915 TCCAGCAAAGGGTAAATTTCATATTA 57.169 30.769 0.00 0.00 0.00 0.98
3483 7289 6.625532 AATCCAGCAAAGGGTAAATTTCAT 57.374 33.333 0.00 0.00 0.00 2.57
3493 7299 2.528564 TGAGGAAAATCCAGCAAAGGG 58.471 47.619 0.00 0.00 39.61 3.95
3495 7301 6.101997 GGTTAATGAGGAAAATCCAGCAAAG 58.898 40.000 0.00 0.00 39.61 2.77
3543 7351 0.669619 TGTCAGCTTCGACCGTACAA 59.330 50.000 2.02 0.00 34.88 2.41
3544 7352 0.240145 CTGTCAGCTTCGACCGTACA 59.760 55.000 2.02 0.00 34.88 2.90
3545 7353 0.520404 TCTGTCAGCTTCGACCGTAC 59.480 55.000 2.02 0.00 34.88 3.67
3549 7357 2.597520 GTAACTCTGTCAGCTTCGACC 58.402 52.381 2.02 0.00 34.88 4.79
3552 7360 2.724977 TGGTAACTCTGTCAGCTTCG 57.275 50.000 0.00 0.00 37.61 3.79
3569 7377 4.675510 GTGCTGAATTGGTATTGTCATGG 58.324 43.478 0.00 0.00 0.00 3.66
3597 7409 4.509970 TCGCTCGACAAATGAGAAGAAAAA 59.490 37.500 0.00 0.00 35.43 1.94
3599 7411 3.428870 GTCGCTCGACAAATGAGAAGAAA 59.571 43.478 16.47 0.00 44.02 2.52
3652 7506 9.042008 GCATAAGAAGACTCCGTAAATATTTCA 57.958 33.333 3.39 0.00 0.00 2.69
3653 7507 9.042008 TGCATAAGAAGACTCCGTAAATATTTC 57.958 33.333 3.39 0.00 0.00 2.17
3664 7519 3.914426 TTCCCTGCATAAGAAGACTCC 57.086 47.619 0.00 0.00 0.00 3.85
3685 7540 5.261040 TCTCCCATCTTGTTGATTTTCCT 57.739 39.130 0.00 0.00 32.05 3.36
3686 7541 6.535963 AATCTCCCATCTTGTTGATTTTCC 57.464 37.500 0.00 0.00 32.05 3.13
3688 7543 9.359653 CCTATAATCTCCCATCTTGTTGATTTT 57.640 33.333 0.00 0.00 32.05 1.82
3692 7547 6.615316 TCACCTATAATCTCCCATCTTGTTGA 59.385 38.462 0.00 0.00 0.00 3.18
3702 7563 5.326069 TGAGCTACTCACCTATAATCTCCC 58.674 45.833 0.00 0.00 35.39 4.30
3704 7565 6.386654 GCTTGAGCTACTCACCTATAATCTC 58.613 44.000 0.00 0.00 40.46 2.75
3720 7581 2.460330 CGAATTGGTCGCTTGAGCT 58.540 52.632 1.07 0.00 44.14 4.09
3729 7590 4.370364 AAATATGTGTGCCGAATTGGTC 57.630 40.909 0.00 0.00 41.21 4.02
3732 7593 6.324819 AGAAGAAAATATGTGTGCCGAATTG 58.675 36.000 0.00 0.00 0.00 2.32
3733 7594 6.150976 TGAGAAGAAAATATGTGTGCCGAATT 59.849 34.615 0.00 0.00 0.00 2.17
3735 7596 5.000591 TGAGAAGAAAATATGTGTGCCGAA 58.999 37.500 0.00 0.00 0.00 4.30
3736 7597 4.574892 TGAGAAGAAAATATGTGTGCCGA 58.425 39.130 0.00 0.00 0.00 5.54
3738 7599 7.276438 GGAAAATGAGAAGAAAATATGTGTGCC 59.724 37.037 0.00 0.00 0.00 5.01
3739 7600 8.031277 AGGAAAATGAGAAGAAAATATGTGTGC 58.969 33.333 0.00 0.00 0.00 4.57
3740 7601 9.918630 AAGGAAAATGAGAAGAAAATATGTGTG 57.081 29.630 0.00 0.00 0.00 3.82
3743 7604 9.933723 CCAAAGGAAAATGAGAAGAAAATATGT 57.066 29.630 0.00 0.00 0.00 2.29
3744 7605 9.933723 ACCAAAGGAAAATGAGAAGAAAATATG 57.066 29.630 0.00 0.00 0.00 1.78
3746 7607 9.981114 GAACCAAAGGAAAATGAGAAGAAAATA 57.019 29.630 0.00 0.00 0.00 1.40
3747 7608 8.708378 AGAACCAAAGGAAAATGAGAAGAAAAT 58.292 29.630 0.00 0.00 0.00 1.82
3748 7609 8.078060 AGAACCAAAGGAAAATGAGAAGAAAA 57.922 30.769 0.00 0.00 0.00 2.29
3749 7610 7.660030 AGAACCAAAGGAAAATGAGAAGAAA 57.340 32.000 0.00 0.00 0.00 2.52
3750 7611 8.630037 GTTAGAACCAAAGGAAAATGAGAAGAA 58.370 33.333 0.00 0.00 0.00 2.52
3751 7612 8.166422 GTTAGAACCAAAGGAAAATGAGAAGA 57.834 34.615 0.00 0.00 0.00 2.87
3774 7650 2.578021 ACAATATGGAGCACTGGAGGTT 59.422 45.455 0.00 0.00 0.00 3.50
3776 7652 3.495100 GGTACAATATGGAGCACTGGAGG 60.495 52.174 0.00 0.00 0.00 4.30
3777 7653 3.134623 TGGTACAATATGGAGCACTGGAG 59.865 47.826 0.00 0.00 33.08 3.86
3781 7657 5.636903 ATTCTGGTACAATATGGAGCACT 57.363 39.130 0.00 0.00 33.08 4.40
3817 7702 9.368674 CTAATTTTGCATCATGTGATTTTACCA 57.631 29.630 0.00 0.00 31.21 3.25
3827 7712 8.308931 AGAAATGTGACTAATTTTGCATCATGT 58.691 29.630 0.00 0.00 0.00 3.21
3837 7722 7.054491 AGCAACCAAGAAATGTGACTAATTT 57.946 32.000 0.00 0.00 0.00 1.82
3847 7732 6.103997 AGCAATATGAAGCAACCAAGAAATG 58.896 36.000 0.00 0.00 0.00 2.32
3850 7735 6.832520 TTAGCAATATGAAGCAACCAAGAA 57.167 33.333 0.00 0.00 0.00 2.52
3904 7798 0.108585 AATACAGCCCCGCATACTGG 59.891 55.000 0.00 0.00 35.70 4.00
3910 7804 0.034574 AACATGAATACAGCCCCGCA 60.035 50.000 0.00 0.00 0.00 5.69
3915 7809 0.304705 CCGCGAACATGAATACAGCC 59.695 55.000 8.23 0.00 0.00 4.85
3921 7815 1.196808 GAACACACCGCGAACATGAAT 59.803 47.619 8.23 0.00 0.00 2.57
3922 7816 0.584396 GAACACACCGCGAACATGAA 59.416 50.000 8.23 0.00 0.00 2.57
3924 7818 1.206578 GGAACACACCGCGAACATG 59.793 57.895 8.23 2.49 0.00 3.21
3933 7827 1.915952 CAAAACAACCGGAACACACC 58.084 50.000 9.46 0.00 0.00 4.16
3934 7828 1.273688 GCAAAACAACCGGAACACAC 58.726 50.000 9.46 0.00 0.00 3.82
3940 7843 0.183014 TACCAGGCAAAACAACCGGA 59.817 50.000 9.46 0.00 0.00 5.14
3941 7844 0.312729 GTACCAGGCAAAACAACCGG 59.687 55.000 0.00 0.00 0.00 5.28
3945 7848 2.735762 GCGTTTGTACCAGGCAAAACAA 60.736 45.455 11.06 3.93 37.54 2.83
4006 7909 6.892485 TGTATGATGTCATTGATCCACTTCT 58.108 36.000 0.19 0.00 37.76 2.85
4023 7929 6.405953 CCAACTCGAGGTCTTTACTGTATGAT 60.406 42.308 18.41 0.00 0.00 2.45
4088 7994 3.264450 AGCACTAAACCCATCAGTAGCTT 59.736 43.478 0.00 0.00 0.00 3.74
4159 8065 3.542712 ACAAGATCGACAAACATGTGC 57.457 42.857 0.00 0.00 0.00 4.57
4170 8076 4.318332 AGATTCACAAGCAACAAGATCGA 58.682 39.130 0.00 0.00 0.00 3.59
4174 8080 6.494842 GTGTTAAGATTCACAAGCAACAAGA 58.505 36.000 0.00 0.00 35.04 3.02
4322 8295 4.282703 ACCCGTCTGTAGTTGTTCTTGTAT 59.717 41.667 0.00 0.00 0.00 2.29
4374 8347 2.280797 GTGGAGCAGGCGTGACAA 60.281 61.111 11.29 0.00 0.00 3.18
4604 8577 4.083324 AGCAATATGTTGGTTGTCTTCACG 60.083 41.667 0.53 0.00 43.08 4.35
4900 8873 3.674997 GGATCAACCAGCTGAACAACTA 58.325 45.455 17.39 0.00 38.79 2.24
4941 8914 1.335689 CGTCCTCTTCGTTTCGAGGTT 60.336 52.381 5.34 0.00 45.57 3.50
4945 8918 1.201998 CGATCGTCCTCTTCGTTTCGA 60.202 52.381 7.03 0.00 37.28 3.71
5213 9189 7.936496 TCAGCATTTGTTGTTAGATAATCCA 57.064 32.000 0.00 0.00 0.00 3.41
5227 9205 3.805971 GCAGCTTTCTTTTCAGCATTTGT 59.194 39.130 0.00 0.00 38.61 2.83
5244 9222 1.188863 CAAAAAGGGCCTATGCAGCT 58.811 50.000 6.41 0.00 40.13 4.24
5401 9380 3.576550 GGTTAACCCTGCTCATGGAAAAA 59.423 43.478 14.16 0.00 0.00 1.94
5406 9385 1.683011 CCTGGTTAACCCTGCTCATGG 60.683 57.143 21.97 7.27 34.29 3.66
5407 9386 1.755179 CCTGGTTAACCCTGCTCATG 58.245 55.000 21.97 0.00 34.29 3.07
5408 9387 0.034089 GCCTGGTTAACCCTGCTCAT 60.034 55.000 21.97 0.00 34.29 2.90
5409 9388 1.378762 GCCTGGTTAACCCTGCTCA 59.621 57.895 21.97 0.89 34.29 4.26
5410 9389 0.251165 TTGCCTGGTTAACCCTGCTC 60.251 55.000 26.50 12.42 34.02 4.26
5411 9390 0.187361 TTTGCCTGGTTAACCCTGCT 59.813 50.000 26.50 0.00 34.02 4.24
5413 9392 1.613437 CTGTTTGCCTGGTTAACCCTG 59.387 52.381 21.97 13.46 34.29 4.45
5421 9406 1.133809 TAGCCTCCTGTTTGCCTGGT 61.134 55.000 0.00 0.00 33.97 4.00
5481 9466 1.269517 GCTCAAAATCAAACCGGCACA 60.270 47.619 0.00 0.00 0.00 4.57
5595 9581 1.273327 ACCTTTAGTACCGGTTCGTGG 59.727 52.381 15.04 12.34 0.00 4.94
5617 9603 4.760047 CCGGTTCGTGCCCTCCAG 62.760 72.222 0.00 0.00 0.00 3.86
5619 9605 3.384532 TACCGGTTCGTGCCCTCC 61.385 66.667 15.04 0.00 0.00 4.30
5620 9606 1.315257 TAGTACCGGTTCGTGCCCTC 61.315 60.000 15.04 0.00 0.00 4.30
5621 9607 0.899717 TTAGTACCGGTTCGTGCCCT 60.900 55.000 15.04 0.13 0.00 5.19
5673 9659 0.475828 ACTAAAGGTGCTGGAGGGGT 60.476 55.000 0.00 0.00 0.00 4.95
5713 9699 2.522185 TGTAGGACGACCTTTAGCACT 58.478 47.619 12.68 0.00 45.36 4.40
5763 9752 2.209758 GAGAGGGGAAAGGGGAAGAAT 58.790 52.381 0.00 0.00 0.00 2.40
5813 9816 3.383620 TTGGGCAAAATGTGTGATGAC 57.616 42.857 0.00 0.00 0.00 3.06
5857 9860 5.522460 CCTTTGTGATCATTTGAATGGATGC 59.478 40.000 0.00 0.00 37.03 3.91
6020 10040 7.119262 ACACCTACATATGCAAACTAAGTGTTC 59.881 37.037 1.58 0.00 38.03 3.18
6305 10351 9.986833 CGATCATTGTCTAACAATTTGACATTA 57.013 29.630 2.79 0.00 45.80 1.90
6306 10352 8.729756 TCGATCATTGTCTAACAATTTGACATT 58.270 29.630 2.79 1.95 45.80 2.71
6307 10353 8.267620 TCGATCATTGTCTAACAATTTGACAT 57.732 30.769 2.79 0.00 45.80 3.06
6308 10354 7.665561 TCGATCATTGTCTAACAATTTGACA 57.334 32.000 2.79 2.37 45.80 3.58
6309 10355 8.177663 ACATCGATCATTGTCTAACAATTTGAC 58.822 33.333 2.79 0.00 45.80 3.18
6310 10356 8.267620 ACATCGATCATTGTCTAACAATTTGA 57.732 30.769 2.79 1.29 45.80 2.69
6311 10357 8.900511 AACATCGATCATTGTCTAACAATTTG 57.099 30.769 0.00 0.00 45.80 2.32


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

AutoCloner maintained by Alex Coulton.