Multiple sequence alignment - TraesCS5A01G393400

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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 TraesCS5A01G393400 chr5A 100.000 8114 0 0 1 8114 589234276 589226163 0.000000e+00 14984.0
1 TraesCS5A01G393400 chr5A 79.636 1208 130 57 384 1561 589236279 589237400 0.000000e+00 761.0
2 TraesCS5A01G393400 chr5A 98.182 165 3 0 5078 5242 640948258 640948094 1.030000e-73 289.0
3 TraesCS5A01G393400 chr5A 96.875 64 2 0 7734 7797 11949344 11949281 3.100000e-19 108.0
4 TraesCS5A01G393400 chr5D 94.956 3906 142 20 1 3879 469073420 469069543 0.000000e+00 6071.0
5 TraesCS5A01G393400 chr5D 96.949 2360 50 9 5452 7798 469068257 469065907 0.000000e+00 3940.0
6 TraesCS5A01G393400 chr5D 95.688 1206 51 1 3875 5080 469069486 469068282 0.000000e+00 1938.0
7 TraesCS5A01G393400 chr5D 80.457 875 88 41 719 1561 469075694 469076517 7.010000e-165 592.0
8 TraesCS5A01G393400 chr5D 95.506 267 12 0 7848 8114 469065921 469065655 2.090000e-115 427.0
9 TraesCS5A01G393400 chr5D 94.652 187 8 2 5079 5263 181626112 181626298 1.030000e-73 289.0
10 TraesCS5A01G393400 chr5D 96.023 176 5 2 5068 5242 61715207 61715381 1.330000e-72 285.0
11 TraesCS5A01G393400 chr5D 100.000 43 0 0 5244 5286 469068281 469068239 6.750000e-11 80.5
12 TraesCS5A01G393400 chr5D 87.719 57 7 0 522 578 332443649 332443593 5.260000e-07 67.6
13 TraesCS5A01G393400 chr5D 93.182 44 2 1 2229 2272 235883260 235883302 6.800000e-06 63.9
14 TraesCS5A01G393400 chr5D 91.111 45 4 0 2227 2271 222476987 222476943 2.450000e-05 62.1
15 TraesCS5A01G393400 chr5B 90.193 1448 121 14 2269 3708 575819928 575818494 0.000000e+00 1868.0
16 TraesCS5A01G393400 chr5B 94.301 1123 55 4 6615 7733 575815827 575814710 0.000000e+00 1711.0
17 TraesCS5A01G393400 chr5B 89.856 1045 71 16 5598 6616 575817196 575816161 0.000000e+00 1310.0
18 TraesCS5A01G393400 chr5B 83.894 1279 137 36 71 1330 575822038 575820810 0.000000e+00 1157.0
19 TraesCS5A01G393400 chr5B 84.635 781 66 32 1332 2070 575820693 575819925 0.000000e+00 728.0
20 TraesCS5A01G393400 chr5B 84.040 708 58 28 3875 4572 575818351 575817689 1.490000e-176 630.0
21 TraesCS5A01G393400 chr5B 98.876 178 0 2 5282 5458 163273368 163273192 4.730000e-82 316.0
22 TraesCS5A01G393400 chr5B 93.443 183 11 1 4899 5080 575817630 575817448 3.730000e-68 270.0
23 TraesCS5A01G393400 chr5B 88.288 222 18 1 5452 5673 575817424 575817211 8.080000e-65 259.0
24 TraesCS5A01G393400 chr5B 85.897 156 22 0 2068 2223 91204582 91204427 5.040000e-37 167.0
25 TraesCS5A01G393400 chr5B 93.333 90 5 1 3794 3882 575818492 575818403 1.840000e-26 132.0
26 TraesCS5A01G393400 chr5B 94.915 59 2 1 7792 7850 174867649 174867706 3.120000e-14 91.6
27 TraesCS5A01G393400 chr5B 93.617 47 3 0 2229 2275 269213638 269213592 4.060000e-08 71.3
28 TraesCS5A01G393400 chr7D 80.824 2159 244 76 3 2070 499596615 499598694 0.000000e+00 1537.0
29 TraesCS5A01G393400 chr7D 86.682 871 100 11 2269 3134 499598691 499599550 0.000000e+00 952.0
30 TraesCS5A01G393400 chr7D 96.023 176 6 1 5067 5242 535309679 535309853 1.330000e-72 285.0
31 TraesCS5A01G393400 chr7D 87.333 150 17 1 2067 2216 388997654 388997507 3.890000e-38 171.0
32 TraesCS5A01G393400 chr7D 85.897 156 20 2 2068 2223 62160626 62160473 1.810000e-36 165.0
33 TraesCS5A01G393400 chr7D 93.103 58 3 1 521 578 519616733 519616677 5.220000e-12 84.2
34 TraesCS5A01G393400 chr7D 100.000 39 0 0 2236 2274 550842940 550842902 1.130000e-08 73.1
35 TraesCS5A01G393400 chr7B 80.269 2159 255 71 1 2070 527703244 527705320 0.000000e+00 1469.0
36 TraesCS5A01G393400 chr7B 86.031 766 94 9 2269 3028 527705317 527706075 0.000000e+00 809.0
37 TraesCS5A01G393400 chr7B 99.432 176 0 1 5284 5458 41524880 41525055 1.310000e-82 318.0
38 TraesCS5A01G393400 chr7B 98.870 177 0 2 5283 5458 384200126 384200301 1.700000e-81 315.0
39 TraesCS5A01G393400 chr7B 97.674 172 4 0 5071 5242 92045850 92046021 6.160000e-76 296.0
40 TraesCS5A01G393400 chr7B 85.000 160 23 1 2065 2223 659714196 659714355 2.340000e-35 161.0
41 TraesCS5A01G393400 chr7B 83.333 156 26 0 2068 2223 662668967 662669122 2.360000e-30 145.0
42 TraesCS5A01G393400 chr7B 95.385 65 3 0 7733 7797 35088062 35088126 4.010000e-18 104.0
43 TraesCS5A01G393400 chr7B 96.552 58 2 0 7795 7852 158926509 158926566 6.700000e-16 97.1
44 TraesCS5A01G393400 chr7B 96.429 56 2 0 7795 7850 697097751 697097696 8.670000e-15 93.5
45 TraesCS5A01G393400 chr7B 91.525 59 3 2 521 578 154584107 154584164 6.750000e-11 80.5
46 TraesCS5A01G393400 chr7B 91.379 58 4 1 521 578 553056040 553055984 2.430000e-10 78.7
47 TraesCS5A01G393400 chr7A 79.676 2160 260 100 1 2070 565757247 565759317 0.000000e+00 1391.0
48 TraesCS5A01G393400 chr7A 86.851 616 74 5 2269 2881 565759314 565759925 0.000000e+00 682.0
49 TraesCS5A01G393400 chr7A 99.435 177 0 1 5283 5458 539715125 539714949 3.650000e-83 320.0
50 TraesCS5A01G393400 chr7A 98.870 177 0 2 5283 5458 1755586 1755411 1.700000e-81 315.0
51 TraesCS5A01G393400 chr7A 86.335 161 14 7 2067 2224 195486347 195486192 1.400000e-37 169.0
52 TraesCS5A01G393400 chr7A 96.825 63 2 0 7735 7797 202990062 202990000 1.110000e-18 106.0
53 TraesCS5A01G393400 chrUn 98.870 177 0 2 5283 5458 284001556 284001731 1.700000e-81 315.0
54 TraesCS5A01G393400 chrUn 82.803 157 25 2 2068 2223 17532887 17532732 1.100000e-28 139.0
55 TraesCS5A01G393400 chrUn 95.312 64 3 0 7734 7797 1036847 1036910 1.440000e-17 102.0
56 TraesCS5A01G393400 chrUn 95.312 64 3 0 7734 7797 17583252 17583315 1.440000e-17 102.0
57 TraesCS5A01G393400 chrUn 95.312 64 3 0 7734 7797 31390601 31390664 1.440000e-17 102.0
58 TraesCS5A01G393400 chrUn 95.312 64 3 0 7734 7797 70286990 70287053 1.440000e-17 102.0
59 TraesCS5A01G393400 chrUn 95.312 64 3 0 7734 7797 86973439 86973502 1.440000e-17 102.0
60 TraesCS5A01G393400 chrUn 95.312 64 3 0 7734 7797 87001398 87001335 1.440000e-17 102.0
61 TraesCS5A01G393400 chrUn 95.312 64 3 0 7734 7797 97984992 97985055 1.440000e-17 102.0
62 TraesCS5A01G393400 chrUn 95.312 64 3 0 7734 7797 273672206 273672269 1.440000e-17 102.0
63 TraesCS5A01G393400 chrUn 96.429 56 2 0 7795 7850 348740514 348740569 8.670000e-15 93.5
64 TraesCS5A01G393400 chrUn 96.429 56 2 0 7795 7850 364369466 364369521 8.670000e-15 93.5
65 TraesCS5A01G393400 chrUn 96.429 56 2 0 7795 7850 374196421 374196366 8.670000e-15 93.5
66 TraesCS5A01G393400 chrUn 96.429 56 2 0 7795 7850 374198279 374198224 8.670000e-15 93.5
67 TraesCS5A01G393400 chrUn 96.429 56 2 0 7795 7850 374285582 374285527 8.670000e-15 93.5
68 TraesCS5A01G393400 chrUn 96.364 55 2 0 7796 7850 310883104 310883050 3.120000e-14 91.6
69 TraesCS5A01G393400 chrUn 83.000 100 15 2 2124 2222 234163283 234163381 1.120000e-13 89.8
70 TraesCS5A01G393400 chrUn 94.545 55 3 0 7795 7849 277314049 277314103 1.450000e-12 86.1
71 TraesCS5A01G393400 chrUn 94.643 56 2 1 7795 7850 277315450 277315504 1.450000e-12 86.1
72 TraesCS5A01G393400 chrUn 100.000 46 0 0 7796 7841 292665428 292665383 1.450000e-12 86.1
73 TraesCS5A01G393400 chrUn 94.444 54 3 0 7795 7848 37328491 37328438 5.220000e-12 84.2
74 TraesCS5A01G393400 chrUn 89.831 59 6 0 520 578 101997681 101997623 8.730000e-10 76.8
75 TraesCS5A01G393400 chrUn 100.000 34 0 0 2236 2269 102399041 102399074 6.800000e-06 63.9
76 TraesCS5A01G393400 chrUn 100.000 34 0 0 2236 2269 204194399 204194432 6.800000e-06 63.9
77 TraesCS5A01G393400 chrUn 100.000 34 0 0 2236 2269 480513788 480513821 6.800000e-06 63.9
78 TraesCS5A01G393400 chrUn 97.222 36 1 0 2236 2271 112735266 112735231 2.450000e-05 62.1
79 TraesCS5A01G393400 chrUn 97.222 36 1 0 2236 2271 311337574 311337539 2.450000e-05 62.1
80 TraesCS5A01G393400 chrUn 97.222 36 1 0 2236 2271 338285971 338285936 2.450000e-05 62.1
81 TraesCS5A01G393400 chrUn 85.000 60 7 2 521 578 431971604 431971663 8.790000e-05 60.2
82 TraesCS5A01G393400 chrUn 100.000 30 0 0 535 564 27378837 27378808 1.000000e-03 56.5
83 TraesCS5A01G393400 chr3B 98.870 177 1 1 5283 5458 79949092 79948916 1.700000e-81 315.0
84 TraesCS5A01G393400 chr3B 95.385 65 3 0 7734 7798 411033844 411033908 4.010000e-18 104.0
85 TraesCS5A01G393400 chr3B 96.491 57 2 0 7794 7850 413806583 413806527 2.410000e-15 95.3
86 TraesCS5A01G393400 chr3B 94.915 59 3 0 7792 7850 614894156 614894214 8.670000e-15 93.5
87 TraesCS5A01G393400 chr4A 97.802 182 2 2 5278 5458 134635550 134635730 6.110000e-81 313.0
88 TraesCS5A01G393400 chr4A 96.629 178 6 0 5069 5246 362068085 362067908 6.160000e-76 296.0
89 TraesCS5A01G393400 chr4A 96.875 64 2 0 7734 7797 235659296 235659359 3.100000e-19 108.0
90 TraesCS5A01G393400 chr1B 98.324 179 1 2 5281 5458 410793640 410793817 6.110000e-81 313.0
91 TraesCS5A01G393400 chr2D 95.652 184 6 1 5059 5242 161906834 161907015 2.210000e-75 294.0
92 TraesCS5A01G393400 chr2D 96.610 177 5 1 5069 5245 516708485 516708310 7.960000e-75 292.0
93 TraesCS5A01G393400 chr2D 85.897 156 22 0 2068 2223 428710152 428709997 5.040000e-37 167.0
94 TraesCS5A01G393400 chr2A 97.126 174 5 0 5078 5251 746757155 746756982 2.210000e-75 294.0
95 TraesCS5A01G393400 chr2A 96.875 64 2 0 7734 7797 145444461 145444398 3.100000e-19 108.0
96 TraesCS5A01G393400 chr2A 94.915 59 3 0 7792 7850 445367253 445367311 8.670000e-15 93.5
97 TraesCS5A01G393400 chr2A 96.429 56 2 0 7795 7850 722747258 722747203 8.670000e-15 93.5
98 TraesCS5A01G393400 chr6B 97.093 172 5 0 5071 5242 240047066 240046895 2.860000e-74 291.0
99 TraesCS5A01G393400 chr6B 95.385 65 3 0 7734 7798 126290692 126290756 4.010000e-18 104.0
100 TraesCS5A01G393400 chr4D 96.089 179 6 1 5078 5255 46028536 46028714 2.860000e-74 291.0
101 TraesCS5A01G393400 chr4D 96.875 64 2 0 7734 7797 44384207 44384270 3.100000e-19 108.0
102 TraesCS5A01G393400 chr4D 96.825 63 2 0 7735 7797 259860267 259860329 1.110000e-18 106.0
103 TraesCS5A01G393400 chr4D 92.000 75 6 0 2149 2223 329132393 329132467 1.110000e-18 106.0
104 TraesCS5A01G393400 chr4D 95.455 44 2 0 535 578 49782836 49782793 4.060000e-08 71.3
105 TraesCS5A01G393400 chr4D 97.436 39 1 0 2234 2272 242825853 242825815 5.260000e-07 67.6
106 TraesCS5A01G393400 chr4D 97.297 37 1 0 2236 2272 189937346 189937382 6.800000e-06 63.9
107 TraesCS5A01G393400 chr6A 94.475 181 10 0 5062 5242 183365728 183365908 6.200000e-71 279.0
108 TraesCS5A01G393400 chr6A 85.897 156 22 0 2068 2223 577867687 577867532 5.040000e-37 167.0
109 TraesCS5A01G393400 chr6A 89.831 59 6 0 520 578 34400654 34400596 8.730000e-10 76.8
110 TraesCS5A01G393400 chr6A 93.478 46 3 0 524 569 28646949 28646904 1.460000e-07 69.4
111 TraesCS5A01G393400 chr6A 95.349 43 2 0 2229 2271 500851828 500851870 1.460000e-07 69.4
112 TraesCS5A01G393400 chr6A 90.196 51 3 2 521 569 15880457 15880507 1.890000e-06 65.8
113 TraesCS5A01G393400 chr6A 86.441 59 7 1 521 578 49095269 49095327 6.800000e-06 63.9
114 TraesCS5A01G393400 chr6A 87.719 57 3 4 523 578 596770076 596770129 6.800000e-06 63.9
115 TraesCS5A01G393400 chr3D 87.898 157 18 1 2067 2223 282930812 282930657 5.000000e-42 183.0
116 TraesCS5A01G393400 chr3D 87.586 145 17 1 2062 2206 337302708 337302851 5.040000e-37 167.0
117 TraesCS5A01G393400 chr3D 91.667 60 3 2 521 578 14825965 14825906 1.880000e-11 82.4
118 TraesCS5A01G393400 chr3D 100.000 37 0 0 2236 2272 123417482 123417446 1.460000e-07 69.4
119 TraesCS5A01G393400 chr3D 86.885 61 6 2 3416 3475 481922546 481922605 5.260000e-07 67.6
120 TraesCS5A01G393400 chr3D 91.111 45 4 0 2227 2271 593412086 593412130 2.450000e-05 62.1
121 TraesCS5A01G393400 chr4B 87.179 156 20 0 2068 2223 183524986 183525141 2.330000e-40 178.0
122 TraesCS5A01G393400 chr4B 96.825 63 2 0 7735 7797 260050588 260050650 1.110000e-18 106.0
123 TraesCS5A01G393400 chr4B 96.429 56 2 0 7795 7850 128540852 128540797 8.670000e-15 93.5
124 TraesCS5A01G393400 chr4B 94.915 59 3 0 7792 7850 444048923 444048981 8.670000e-15 93.5
125 TraesCS5A01G393400 chr4B 94.118 51 3 0 528 578 597499683 597499633 2.430000e-10 78.7
126 TraesCS5A01G393400 chr4B 95.556 45 2 0 2227 2271 611145048 611145004 1.130000e-08 73.1
127 TraesCS5A01G393400 chr4B 100.000 38 0 0 2236 2273 654320083 654320046 4.060000e-08 71.3
128 TraesCS5A01G393400 chr4B 93.478 46 3 0 2228 2273 460036525 460036570 1.460000e-07 69.4
129 TraesCS5A01G393400 chr4B 91.489 47 2 2 521 565 112038718 112038672 6.800000e-06 63.9
130 TraesCS5A01G393400 chr4B 100.000 31 0 0 535 565 383651661 383651691 3.160000e-04 58.4
131 TraesCS5A01G393400 chr2B 86.538 156 21 0 2068 2223 273869770 273869925 1.080000e-38 172.0
132 TraesCS5A01G393400 chr2B 91.837 49 4 0 2227 2275 114048 114096 1.460000e-07 69.4
133 TraesCS5A01G393400 chr1D 87.333 150 17 2 2067 2216 147883503 147883356 3.890000e-38 171.0
134 TraesCS5A01G393400 chr1D 85.256 156 23 0 2068 2223 366857401 366857556 2.340000e-35 161.0
135 TraesCS5A01G393400 chr1D 84.713 157 21 3 2068 2223 486683732 486683886 3.920000e-33 154.0
136 TraesCS5A01G393400 chr1D 85.816 141 15 4 2084 2222 111949332 111949195 2.360000e-30 145.0
137 TraesCS5A01G393400 chr1D 82.069 145 22 2 2079 2223 374484904 374485044 3.980000e-23 121.0
138 TraesCS5A01G393400 chr1D 96.429 56 2 0 7794 7849 86918687 86918632 8.670000e-15 93.5
139 TraesCS5A01G393400 chr1D 96.429 56 2 0 7795 7850 277361138 277361193 8.670000e-15 93.5
140 TraesCS5A01G393400 chr1D 83.333 96 16 0 2067 2162 423673586 423673491 1.120000e-13 89.8
141 TraesCS5A01G393400 chr1D 93.478 46 3 0 2227 2272 394838017 394838062 1.460000e-07 69.4
142 TraesCS5A01G393400 chr1D 93.478 46 1 2 2227 2271 196973401 196973357 5.260000e-07 67.6
143 TraesCS5A01G393400 chr1D 87.931 58 5 1 521 576 303079840 303079783 5.260000e-07 67.6
144 TraesCS5A01G393400 chr1D 100.000 36 0 0 2234 2269 348272346 348272381 5.260000e-07 67.6
145 TraesCS5A01G393400 chr1A 85.987 157 19 3 2068 2223 474285398 474285552 1.810000e-36 165.0
146 TraesCS5A01G393400 chr1A 87.143 70 6 2 521 587 432967891 432967822 8.730000e-10 76.8
147 TraesCS5A01G393400 chr1A 87.037 54 7 0 521 574 462803204 462803257 2.450000e-05 62.1
148 TraesCS5A01G393400 chr6D 82.051 156 26 2 2068 2223 388534159 388534006 1.840000e-26 132.0
149 TraesCS5A01G393400 chr6D 96.875 64 2 0 7734 7797 160205555 160205618 3.100000e-19 108.0
150 TraesCS5A01G393400 chr6D 96.429 56 2 0 7795 7850 419274046 419274101 8.670000e-15 93.5
151 TraesCS5A01G393400 chr6D 94.643 56 3 0 7795 7850 95293691 95293746 4.030000e-13 87.9
152 TraesCS5A01G393400 chr6D 100.000 36 0 0 2234 2269 225739311 225739346 5.260000e-07 67.6
153 TraesCS5A01G393400 chr6D 100.000 34 0 0 2236 2269 84431663 84431696 6.800000e-06 63.9
154 TraesCS5A01G393400 chr6D 100.000 34 0 0 2236 2269 93398655 93398622 6.800000e-06 63.9
155 TraesCS5A01G393400 chr6D 100.000 34 0 0 2236 2269 116327852 116327819 6.800000e-06 63.9
156 TraesCS5A01G393400 chr6D 100.000 34 0 0 2236 2269 133534283 133534250 6.800000e-06 63.9
157 TraesCS5A01G393400 chr6D 100.000 34 0 0 2236 2269 136602192 136602225 6.800000e-06 63.9
158 TraesCS5A01G393400 chr6D 97.368 38 0 1 2236 2272 320680032 320680069 6.800000e-06 63.9
159 TraesCS5A01G393400 chr6D 95.000 40 1 1 2234 2272 403473198 403473159 2.450000e-05 62.1
160 TraesCS5A01G393400 chr3A 96.429 56 2 0 7795 7850 724319109 724319054 8.670000e-15 93.5
161 TraesCS5A01G393400 chr3A 87.879 66 6 2 515 578 70934421 70934486 8.730000e-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 TraesCS5A01G393400 chr5A 589226163 589234276 8113 True 14984.000000 14984 100.000000 1 8114 1 chr5A.!!$R2 8113
1 TraesCS5A01G393400 chr5A 589236279 589237400 1121 False 761.000000 761 79.636000 384 1561 1 chr5A.!!$F1 1177
2 TraesCS5A01G393400 chr5D 469065655 469073420 7765 True 2491.300000 6071 96.619800 1 8114 5 chr5D.!!$R3 8113
3 TraesCS5A01G393400 chr5D 469075694 469076517 823 False 592.000000 592 80.457000 719 1561 1 chr5D.!!$F4 842
4 TraesCS5A01G393400 chr5B 575814710 575822038 7328 True 896.111111 1868 89.109222 71 7733 9 chr5B.!!$R4 7662
5 TraesCS5A01G393400 chr7D 499596615 499599550 2935 False 1244.500000 1537 83.753000 3 3134 2 chr7D.!!$F2 3131
6 TraesCS5A01G393400 chr7B 527703244 527706075 2831 False 1139.000000 1469 83.150000 1 3028 2 chr7B.!!$F9 3027
7 TraesCS5A01G393400 chr7A 565757247 565759925 2678 False 1036.500000 1391 83.263500 1 2881 2 chr7A.!!$F1 2880

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
197 210 0.322322 TGACTCGGGCGTTGGTATTT 59.678 50.000 0.00 0.00 0.00 1.40 F
373 397 0.387202 TTTGGTTGTTGGGCATGTCG 59.613 50.000 0.00 0.00 0.00 4.35 F
376 400 0.887933 GGTTGTTGGGCATGTCGATT 59.112 50.000 0.00 0.00 0.00 3.34 F
1366 1576 1.298859 GCCAACCTCCACTGCTAACG 61.299 60.000 0.00 0.00 0.00 3.18 F
2723 3022 0.324275 ACTTGTGTGCCTTGTTGGGT 60.324 50.000 0.00 0.00 36.00 4.51 F
3365 3667 1.133598 CTCATTCGCCACATGTTGCAT 59.866 47.619 20.61 5.89 0.00 3.96 F
4896 5269 0.249699 AAGTTGCACCATCGACGACA 60.250 50.000 0.00 0.00 0.00 4.35 F
5435 5809 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.00 44.78 4.85 F
5455 5829 0.110056 CAGCTTTACCACTGCGCAAG 60.110 55.000 13.05 7.09 43.44 4.01 F
5754 6213 0.179000 GCCCATACCTCCTCAGTGTG 59.821 60.000 0.00 0.00 0.00 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1445 1671 0.618458 ATCACCATACAAGGCGTGGT 59.382 50.000 5.22 0.79 46.72 4.16 R
2260 2548 0.899720 TTTGCTGGGTACTACCTCCG 59.100 55.000 5.19 0.00 38.64 4.63 R
2261 2549 1.209747 CCTTTGCTGGGTACTACCTCC 59.790 57.143 5.19 0.00 38.64 4.30 R
3140 3442 0.175989 GGGTGAGGAAGCTTACTCCG 59.824 60.000 31.49 0.00 37.34 4.63 R
4163 4534 0.242017 GCTTTGCGAGTTCAATGGCT 59.758 50.000 0.00 0.00 0.00 4.75 R
5349 5723 0.177141 GGCTGCGTACAATAGACCCA 59.823 55.000 0.00 0.00 0.00 4.51 R
5754 6213 0.530288 AACTTCTCTCGAGCAGCCTC 59.470 55.000 7.81 0.00 34.66 4.70 R
6427 6910 2.789409 AACTGTAAGGAGGTGGATGC 57.211 50.000 0.00 0.00 39.30 3.91 R
7103 7925 3.373439 CCCTTTCTTGCTTCATTCTCTCG 59.627 47.826 0.00 0.00 0.00 4.04 R
7741 8567 0.110056 CTTGGCACGACAACTCATGC 60.110 55.000 0.00 0.00 37.35 4.06 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 0.600255 GACGACCACCAGAACCACAG 60.600 60.000 0.00 0.00 0.00 3.66
44 45 3.361977 CAACCGCCTTCCAACCCG 61.362 66.667 0.00 0.00 0.00 5.28
63 64 2.412937 GGCACAACAAAGCACGCT 59.587 55.556 0.00 0.00 0.00 5.07
184 194 5.943416 AGAGATAACTATGGGATCTGACTCG 59.057 44.000 1.20 0.00 30.01 4.18
191 204 1.519455 GGATCTGACTCGGGCGTTG 60.519 63.158 0.00 0.00 0.00 4.10
192 205 1.519455 GATCTGACTCGGGCGTTGG 60.519 63.158 0.00 0.00 0.00 3.77
193 206 2.227089 GATCTGACTCGGGCGTTGGT 62.227 60.000 0.00 0.00 0.00 3.67
194 207 0.968901 ATCTGACTCGGGCGTTGGTA 60.969 55.000 0.00 0.00 0.00 3.25
195 208 0.968901 TCTGACTCGGGCGTTGGTAT 60.969 55.000 0.00 0.00 0.00 2.73
197 210 0.322322 TGACTCGGGCGTTGGTATTT 59.678 50.000 0.00 0.00 0.00 1.40
198 211 1.004595 GACTCGGGCGTTGGTATTTC 58.995 55.000 0.00 0.00 0.00 2.17
199 212 0.392060 ACTCGGGCGTTGGTATTTCC 60.392 55.000 0.00 0.00 0.00 3.13
373 397 0.387202 TTTGGTTGTTGGGCATGTCG 59.613 50.000 0.00 0.00 0.00 4.35
376 400 0.887933 GGTTGTTGGGCATGTCGATT 59.112 50.000 0.00 0.00 0.00 3.34
470 496 6.179040 GCCTATCGGAGAAGGTAGACTTATA 58.821 44.000 10.03 0.00 43.58 0.98
617 672 8.601546 AGAGGAGAGAATAGAGTCAATGTTTTT 58.398 33.333 0.00 0.00 0.00 1.94
725 781 5.529791 TCTTTACAAGAGTCTCCTGAAACG 58.470 41.667 5.43 0.00 32.71 3.60
785 847 4.836125 TCTTGCTTTGTTGAGGATGTTC 57.164 40.909 0.00 0.00 0.00 3.18
816 878 9.689976 TTATTCCAAGTGTTCATTTTGTATGTG 57.310 29.630 0.00 0.00 0.00 3.21
934 1001 6.295859 GGAAGATGGAAAACCTTAAAGCCATT 60.296 38.462 0.00 0.00 36.34 3.16
976 1043 3.120060 GCAAAGTGTAGGTGAAGCTCATG 60.120 47.826 0.00 0.00 0.00 3.07
986 1053 2.939103 GTGAAGCTCATGATGTGGTACC 59.061 50.000 4.43 4.43 0.00 3.34
1024 1091 2.554032 CGAGGCAAAAAGGAAGTCATGT 59.446 45.455 0.00 0.00 0.00 3.21
1041 1108 7.259088 AGTCATGTATAGTGAAAAGGAAGGT 57.741 36.000 0.00 0.00 0.00 3.50
1069 1136 5.237344 CACCAAAGAACAGAAACCAGTAGAG 59.763 44.000 0.00 0.00 0.00 2.43
1138 1222 5.466819 ACGTTGATGAAGATCGTAAAGACA 58.533 37.500 0.00 0.00 33.04 3.41
1366 1576 1.298859 GCCAACCTCCACTGCTAACG 61.299 60.000 0.00 0.00 0.00 3.18
1394 1605 6.998968 AAGAGTCTCCATCTAATTTTGCAG 57.001 37.500 0.00 0.00 0.00 4.41
1445 1671 7.665145 TGTTTTTGGTGATAGTGATGAGAATGA 59.335 33.333 0.00 0.00 0.00 2.57
1455 1681 1.667724 GATGAGAATGACCACGCCTTG 59.332 52.381 0.00 0.00 0.00 3.61
1558 1784 9.042008 GTATTTACATTGGTAACTCGACATGAT 57.958 33.333 0.00 0.00 39.14 2.45
1630 1884 9.183368 TGGCAATGACATACAATTTTATCTGTA 57.817 29.630 0.00 0.00 32.79 2.74
1726 1993 5.045869 ACCAGGCTAGACTGTAAAAGCATTA 60.046 40.000 24.14 0.00 36.75 1.90
1727 1994 6.058183 CCAGGCTAGACTGTAAAAGCATTAT 58.942 40.000 24.14 0.00 36.75 1.28
1728 1995 6.017605 CCAGGCTAGACTGTAAAAGCATTATG 60.018 42.308 24.14 0.02 36.75 1.90
1729 1996 6.540189 CAGGCTAGACTGTAAAAGCATTATGT 59.460 38.462 18.20 0.00 36.68 2.29
1730 1997 6.540189 AGGCTAGACTGTAAAAGCATTATGTG 59.460 38.462 0.00 0.00 36.68 3.21
1731 1998 6.538742 GGCTAGACTGTAAAAGCATTATGTGA 59.461 38.462 0.00 0.00 36.68 3.58
1732 1999 7.065803 GGCTAGACTGTAAAAGCATTATGTGAA 59.934 37.037 0.00 0.00 36.68 3.18
1733 2000 8.119226 GCTAGACTGTAAAAGCATTATGTGAAG 58.881 37.037 0.00 0.00 35.05 3.02
1734 2001 7.986085 AGACTGTAAAAGCATTATGTGAAGT 57.014 32.000 0.00 0.00 0.00 3.01
1735 2002 7.810658 AGACTGTAAAAGCATTATGTGAAGTG 58.189 34.615 0.00 0.00 0.00 3.16
1736 2003 7.661437 AGACTGTAAAAGCATTATGTGAAGTGA 59.339 33.333 0.00 0.00 0.00 3.41
1737 2004 8.165239 ACTGTAAAAGCATTATGTGAAGTGAA 57.835 30.769 0.00 0.00 0.00 3.18
1738 2005 8.076178 ACTGTAAAAGCATTATGTGAAGTGAAC 58.924 33.333 0.00 0.00 0.00 3.18
1739 2006 7.367285 TGTAAAAGCATTATGTGAAGTGAACC 58.633 34.615 0.00 0.00 0.00 3.62
1857 2137 9.906660 TGCTATTTTTGTCTAACTTTGTATTGG 57.093 29.630 0.00 0.00 0.00 3.16
1859 2139 9.353999 CTATTTTTGTCTAACTTTGTATTGGGC 57.646 33.333 0.00 0.00 0.00 5.36
1968 2252 2.896044 TGTCCCATATGTTTTGCTTGCA 59.104 40.909 1.24 0.00 0.00 4.08
2054 2342 5.065218 CCATGTATGTTTGTGTAGCCTTCTC 59.935 44.000 0.00 0.00 0.00 2.87
2076 2364 5.084519 TCAACCTGTCAATGTACTACCTCT 58.915 41.667 0.00 0.00 0.00 3.69
2096 2384 2.770232 CTGTCCGGGTTTATTAGTCCCT 59.230 50.000 0.00 0.00 39.10 4.20
2343 2631 1.381327 TACCGAGGGAGAAGGCCAG 60.381 63.158 5.01 0.00 0.00 4.85
2390 2678 4.270325 GGATGTAACTCGTGGCAAAGATAC 59.730 45.833 5.25 8.01 0.00 2.24
2462 2756 2.913617 TGGTTCCACATATACCACCACA 59.086 45.455 0.00 0.00 37.04 4.17
2555 2850 9.507280 CACTTGCGATATCAACTTATCATTTTT 57.493 29.630 3.12 0.00 0.00 1.94
2649 2948 6.903534 AGATAATTCTGGTCTCCACCTTCTAA 59.096 38.462 0.00 0.00 44.17 2.10
2723 3022 0.324275 ACTTGTGTGCCTTGTTGGGT 60.324 50.000 0.00 0.00 36.00 4.51
2731 3030 3.320541 TGTGCCTTGTTGGGTTTTCATAG 59.679 43.478 0.00 0.00 36.00 2.23
2739 3038 5.954757 TGTTGGGTTTTCATAGTCCCTTAA 58.045 37.500 0.00 0.00 40.48 1.85
2992 3293 3.201045 AGGAAAGAGCCCTACTGGATTTC 59.799 47.826 0.00 0.00 35.39 2.17
3002 3304 5.529060 GCCCTACTGGATTTCTTATCAGTTG 59.471 44.000 0.00 0.00 40.45 3.16
3140 3442 7.932491 AGAAGAAGAAAAAGGTACAAGGTAGAC 59.068 37.037 0.00 0.00 0.00 2.59
3247 3549 1.635487 ACAATGTACATGACCAGCCCT 59.365 47.619 9.63 0.00 0.00 5.19
3317 3619 2.925170 AGCAACTCACGGAGCCCT 60.925 61.111 1.36 0.00 32.04 5.19
3365 3667 1.133598 CTCATTCGCCACATGTTGCAT 59.866 47.619 20.61 5.89 0.00 3.96
3431 3733 1.402968 CAATCATTCCGGTGCTTCCAG 59.597 52.381 0.00 0.00 35.57 3.86
3515 3817 2.472695 TAATCACACTGCCTCACCAC 57.527 50.000 0.00 0.00 0.00 4.16
3584 3886 4.579340 CCCAATCTCAGAAGGATCAACATG 59.421 45.833 0.00 0.00 0.00 3.21
3613 3915 3.625313 TGTCGAGCAAAAACACATGAGAA 59.375 39.130 0.00 0.00 0.00 2.87
3751 4053 5.660629 CAAATGAAGAATTTGCAGCACAA 57.339 34.783 0.00 0.00 46.43 3.33
3782 4084 4.751600 CAGCTTTCCCAAATTCTTTTCCAC 59.248 41.667 0.00 0.00 0.00 4.02
3874 4176 1.678728 GCCTCCACCGATGTTGATCAA 60.679 52.381 3.38 3.38 0.00 2.57
3882 4245 2.096496 CCGATGTTGATCAAGGACTTGC 59.904 50.000 8.80 0.00 40.24 4.01
4163 4534 6.959639 AGCATCAGTTTTCTCTAACCAAAA 57.040 33.333 0.00 0.00 0.00 2.44
4173 4544 5.705609 TCTCTAACCAAAAGCCATTGAAC 57.294 39.130 0.85 0.00 31.84 3.18
4215 4586 6.830838 AGAGTTTTCAGATTATGGATCCCAAC 59.169 38.462 9.90 0.00 36.95 3.77
4230 4601 2.107366 CCCAACCCCACCATATTGAAC 58.893 52.381 0.00 0.00 0.00 3.18
4260 4633 2.102252 GCACTCCCATGAAACCAAACAA 59.898 45.455 0.00 0.00 0.00 2.83
4262 4635 4.559153 CACTCCCATGAAACCAAACAATC 58.441 43.478 0.00 0.00 0.00 2.67
4414 4787 1.270550 CATGAGTGGTGCTTTCCAACC 59.729 52.381 0.00 0.00 39.34 3.77
4425 4798 4.393371 GTGCTTTCCAACCTGAGAGATTAC 59.607 45.833 0.00 0.00 0.00 1.89
4537 4910 7.732025 TCCTTTATCTGACAAGAAAGTGTACA 58.268 34.615 0.00 0.00 35.59 2.90
4591 4964 6.206048 CACTGAATGCATGCCTGAAGATATTA 59.794 38.462 16.68 0.00 0.00 0.98
4641 5014 0.450184 GTTAACGGCCGCATGAACAT 59.550 50.000 28.58 0.00 0.00 2.71
4728 5101 6.749036 AAAATTATTGTGTACCCCAAACCA 57.251 33.333 0.00 0.00 0.00 3.67
4749 5122 4.181578 CACAAGTGAGTTTAGGATACCCG 58.818 47.826 0.00 0.00 37.58 5.28
4774 5147 7.053498 GTGGCCAAAATAAATAACATTGGGAT 58.947 34.615 7.24 0.00 40.65 3.85
4781 5154 7.781324 AATAAATAACATTGGGATAGCAGGG 57.219 36.000 0.00 0.00 0.00 4.45
4824 5197 6.771267 TGATGATGAAAGATCATTTCTCCTGG 59.229 38.462 14.59 0.00 46.30 4.45
4825 5198 6.070951 TGATGAAAGATCATTTCTCCTGGT 57.929 37.500 14.59 0.00 46.30 4.00
4848 5221 3.633986 CCCCCATTCACTAAAATCTGAGC 59.366 47.826 0.00 0.00 0.00 4.26
4852 5225 3.695830 TTCACTAAAATCTGAGCGGGT 57.304 42.857 0.00 0.00 0.00 5.28
4860 5233 1.680522 ATCTGAGCGGGTGCAGTAGG 61.681 60.000 0.00 0.00 46.23 3.18
4867 5240 1.605058 CGGGTGCAGTAGGTAGCAGT 61.605 60.000 0.00 0.00 42.14 4.40
4888 5261 2.528564 AGGCACAATAAGTTGCACCAT 58.471 42.857 0.00 0.00 38.96 3.55
4896 5269 0.249699 AAGTTGCACCATCGACGACA 60.250 50.000 0.00 0.00 0.00 4.35
4987 5360 9.872684 ATATCCAATTTGAGAATAATGTGAGGT 57.127 29.630 0.00 0.00 0.00 3.85
5085 5459 7.427989 AAATGCAATTTGATTGATACTCCCT 57.572 32.000 0.00 0.00 46.55 4.20
5086 5460 6.645790 ATGCAATTTGATTGATACTCCCTC 57.354 37.500 0.00 0.00 42.83 4.30
5087 5461 4.889409 TGCAATTTGATTGATACTCCCTCC 59.111 41.667 0.00 0.00 42.83 4.30
5088 5462 4.023707 GCAATTTGATTGATACTCCCTCCG 60.024 45.833 0.00 0.00 42.83 4.63
5089 5463 5.126067 CAATTTGATTGATACTCCCTCCGT 58.874 41.667 0.00 0.00 42.83 4.69
5090 5464 4.837093 TTTGATTGATACTCCCTCCGTT 57.163 40.909 0.00 0.00 0.00 4.44
5091 5465 4.402056 TTGATTGATACTCCCTCCGTTC 57.598 45.455 0.00 0.00 0.00 3.95
5092 5466 2.698797 TGATTGATACTCCCTCCGTTCC 59.301 50.000 0.00 0.00 0.00 3.62
5093 5467 2.544844 TTGATACTCCCTCCGTTCCT 57.455 50.000 0.00 0.00 0.00 3.36
5094 5468 3.675348 TTGATACTCCCTCCGTTCCTA 57.325 47.619 0.00 0.00 0.00 2.94
5095 5469 3.675348 TGATACTCCCTCCGTTCCTAA 57.325 47.619 0.00 0.00 0.00 2.69
5096 5470 3.985127 TGATACTCCCTCCGTTCCTAAA 58.015 45.455 0.00 0.00 0.00 1.85
5097 5471 4.553678 TGATACTCCCTCCGTTCCTAAAT 58.446 43.478 0.00 0.00 0.00 1.40
5098 5472 5.708544 TGATACTCCCTCCGTTCCTAAATA 58.291 41.667 0.00 0.00 0.00 1.40
5099 5473 6.320518 TGATACTCCCTCCGTTCCTAAATAT 58.679 40.000 0.00 0.00 0.00 1.28
5100 5474 6.785963 TGATACTCCCTCCGTTCCTAAATATT 59.214 38.462 0.00 0.00 0.00 1.28
5101 5475 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
5102 5476 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
5103 5477 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
5104 5478 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
5105 5479 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
5106 5480 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
5107 5481 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
5108 5482 7.122204 CCCTCCGTTCCTAAATATTTGTCTTTT 59.878 37.037 11.05 0.00 0.00 2.27
5109 5483 8.520351 CCTCCGTTCCTAAATATTTGTCTTTTT 58.480 33.333 11.05 0.00 0.00 1.94
5126 5500 9.965824 TTGTCTTTTTAGAGATTTCAAATGGAC 57.034 29.630 0.00 0.00 0.00 4.02
5127 5501 9.354673 TGTCTTTTTAGAGATTTCAAATGGACT 57.645 29.630 0.00 0.00 0.00 3.85
5143 5517 3.900971 TGGACTACCACATACGGATGTA 58.099 45.455 14.23 0.00 44.82 2.29
5144 5518 4.476297 TGGACTACCACATACGGATGTAT 58.524 43.478 14.23 7.46 44.82 2.29
5145 5519 5.633117 TGGACTACCACATACGGATGTATA 58.367 41.667 14.23 8.27 44.82 1.47
5146 5520 6.250711 TGGACTACCACATACGGATGTATAT 58.749 40.000 14.23 4.37 44.82 0.86
5147 5521 7.404481 TGGACTACCACATACGGATGTATATA 58.596 38.462 14.23 5.36 44.82 0.86
5148 5522 7.555195 TGGACTACCACATACGGATGTATATAG 59.445 40.741 14.23 16.35 44.82 1.31
5149 5523 7.772292 GGACTACCACATACGGATGTATATAGA 59.228 40.741 22.62 5.04 44.82 1.98
5150 5524 8.503458 ACTACCACATACGGATGTATATAGAC 57.497 38.462 22.62 0.00 44.82 2.59
5151 5525 8.105197 ACTACCACATACGGATGTATATAGACA 58.895 37.037 22.62 2.07 44.82 3.41
5152 5526 7.956328 ACCACATACGGATGTATATAGACAT 57.044 36.000 14.23 12.70 44.82 3.06
5154 5528 9.642343 ACCACATACGGATGTATATAGACATAT 57.358 33.333 14.23 5.08 44.82 1.78
5183 5557 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
5184 5558 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
5185 5559 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
5186 5560 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
5187 5561 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
5188 5562 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
5189 5563 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
5190 5564 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
5191 5565 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
5192 5566 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
5193 5567 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
5194 5568 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
5195 5569 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
5196 5570 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
5197 5571 4.530710 TTTTGCTCCGTATGTAGTCACT 57.469 40.909 0.00 0.00 0.00 3.41
5198 5572 4.530710 TTTGCTCCGTATGTAGTCACTT 57.469 40.909 0.00 0.00 0.00 3.16
5199 5573 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.00 0.00 3.16
5200 5574 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16
5201 5575 3.257375 TGCTCCGTATGTAGTCACTTGTT 59.743 43.478 0.00 0.00 0.00 2.83
5202 5576 3.612860 GCTCCGTATGTAGTCACTTGTTG 59.387 47.826 0.00 0.00 0.00 3.33
5203 5577 4.617530 GCTCCGTATGTAGTCACTTGTTGA 60.618 45.833 0.00 0.00 0.00 3.18
5204 5578 5.456548 TCCGTATGTAGTCACTTGTTGAA 57.543 39.130 0.00 0.00 35.39 2.69
5205 5579 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
5206 5580 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
5207 5581 6.588756 TCCGTATGTAGTCACTTGTTGAAATC 59.411 38.462 0.00 0.00 35.39 2.17
5208 5582 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
5209 5583 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
5210 5584 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
5211 5585 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
5212 5586 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
5213 5587 7.378966 TGTAGTCACTTGTTGAAATCTCTAGG 58.621 38.462 0.00 0.00 35.39 3.02
5214 5588 6.672266 AGTCACTTGTTGAAATCTCTAGGA 57.328 37.500 0.00 0.00 35.39 2.94
5215 5589 7.067496 AGTCACTTGTTGAAATCTCTAGGAA 57.933 36.000 0.00 0.00 35.39 3.36
5216 5590 7.158021 AGTCACTTGTTGAAATCTCTAGGAAG 58.842 38.462 0.00 0.00 35.39 3.46
5217 5591 7.015682 AGTCACTTGTTGAAATCTCTAGGAAGA 59.984 37.037 0.00 0.00 35.39 2.87
5218 5592 7.117092 GTCACTTGTTGAAATCTCTAGGAAGAC 59.883 40.741 0.00 0.00 35.39 3.01
5219 5593 6.931281 CACTTGTTGAAATCTCTAGGAAGACA 59.069 38.462 0.00 0.00 0.00 3.41
5220 5594 7.442364 CACTTGTTGAAATCTCTAGGAAGACAA 59.558 37.037 0.00 0.00 0.00 3.18
5221 5595 7.993183 ACTTGTTGAAATCTCTAGGAAGACAAA 59.007 33.333 0.00 0.00 0.00 2.83
5222 5596 8.924511 TTGTTGAAATCTCTAGGAAGACAAAT 57.075 30.769 0.00 0.00 0.00 2.32
5233 5607 9.250624 CTCTAGGAAGACAAATATTTAGGAACG 57.749 37.037 0.00 0.00 0.00 3.95
5234 5608 8.202137 TCTAGGAAGACAAATATTTAGGAACGG 58.798 37.037 0.00 0.00 0.00 4.44
5235 5609 6.954232 AGGAAGACAAATATTTAGGAACGGA 58.046 36.000 0.00 0.00 0.00 4.69
5236 5610 7.399634 AGGAAGACAAATATTTAGGAACGGAA 58.600 34.615 0.00 0.00 0.00 4.30
5237 5611 7.553044 AGGAAGACAAATATTTAGGAACGGAAG 59.447 37.037 0.00 0.00 0.00 3.46
5238 5612 7.201705 GGAAGACAAATATTTAGGAACGGAAGG 60.202 40.741 0.00 0.00 0.00 3.46
5239 5613 6.954232 AGACAAATATTTAGGAACGGAAGGA 58.046 36.000 0.00 0.00 0.00 3.36
5240 5614 7.048512 AGACAAATATTTAGGAACGGAAGGAG 58.951 38.462 0.00 0.00 0.00 3.69
5241 5615 6.718294 ACAAATATTTAGGAACGGAAGGAGT 58.282 36.000 0.00 0.00 0.00 3.85
5242 5616 6.598064 ACAAATATTTAGGAACGGAAGGAGTG 59.402 38.462 0.00 0.00 0.00 3.51
5289 5663 2.900337 GCGGTCGGCCATAAAGGG 60.900 66.667 6.96 0.00 38.09 3.95
5290 5664 2.203153 CGGTCGGCCATAAAGGGG 60.203 66.667 6.96 0.00 38.09 4.79
5307 5681 2.045045 GCAGCCCCAGTGCATGTA 60.045 61.111 0.00 0.00 40.86 2.29
5308 5682 2.117156 GCAGCCCCAGTGCATGTAG 61.117 63.158 0.00 0.00 40.86 2.74
5309 5683 2.117156 CAGCCCCAGTGCATGTAGC 61.117 63.158 0.00 0.00 45.96 3.58
5310 5684 2.273449 GCCCCAGTGCATGTAGCT 59.727 61.111 0.00 0.00 45.94 3.32
5311 5685 1.821332 GCCCCAGTGCATGTAGCTC 60.821 63.158 0.00 0.00 45.94 4.09
5312 5686 1.153086 CCCCAGTGCATGTAGCTCC 60.153 63.158 0.00 0.00 45.94 4.70
5313 5687 1.153086 CCCAGTGCATGTAGCTCCC 60.153 63.158 0.00 0.00 45.94 4.30
5314 5688 1.522355 CCAGTGCATGTAGCTCCCG 60.522 63.158 0.00 0.00 45.94 5.14
5315 5689 2.176273 CAGTGCATGTAGCTCCCGC 61.176 63.158 0.00 0.00 45.94 6.13
5317 5691 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
5318 5692 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
5319 5693 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
5320 5694 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
5323 5697 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
5335 5709 4.785453 GCGCAGGGTCTGGGGAAG 62.785 72.222 0.30 0.00 43.28 3.46
5336 5710 4.101448 CGCAGGGTCTGGGGAAGG 62.101 72.222 4.35 0.00 40.11 3.46
5337 5711 3.732849 GCAGGGTCTGGGGAAGGG 61.733 72.222 0.00 0.00 31.21 3.95
5338 5712 2.204151 CAGGGTCTGGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
5339 5713 2.125225 AGGGTCTGGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
5340 5714 3.015753 GGGTCTGGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
5341 5715 3.400054 GGTCTGGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
5342 5716 2.284405 GTCTGGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
5343 5717 2.284405 TCTGGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
5344 5718 3.400054 CTGGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
5345 5719 4.257810 TGGGGAAGGGTCCGACCA 62.258 66.667 19.43 0.00 46.04 4.02
5346 5720 3.714001 GGGGAAGGGTCCGACCAC 61.714 72.222 19.43 8.70 46.04 4.16
5347 5721 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
5348 5722 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
5349 5723 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
5350 5724 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
5351 5725 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
5352 5726 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
5353 5727 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
5363 5737 3.934068 ACCACTTTGGGTCTATTGTACG 58.066 45.455 0.00 0.00 43.37 3.67
5364 5738 2.676342 CCACTTTGGGTCTATTGTACGC 59.324 50.000 0.00 0.00 32.67 4.42
5365 5739 3.331150 CACTTTGGGTCTATTGTACGCA 58.669 45.455 0.00 0.00 37.94 5.24
5366 5740 3.370978 CACTTTGGGTCTATTGTACGCAG 59.629 47.826 0.00 0.00 40.36 5.18
5367 5741 2.018542 TTGGGTCTATTGTACGCAGC 57.981 50.000 0.00 0.00 40.36 5.25
5368 5742 0.177141 TGGGTCTATTGTACGCAGCC 59.823 55.000 0.00 0.00 35.18 4.85
5369 5743 0.464452 GGGTCTATTGTACGCAGCCT 59.536 55.000 0.00 0.00 0.00 4.58
5370 5744 1.134491 GGGTCTATTGTACGCAGCCTT 60.134 52.381 0.00 0.00 0.00 4.35
5371 5745 2.629051 GGTCTATTGTACGCAGCCTTT 58.371 47.619 0.00 0.00 0.00 3.11
5372 5746 2.608090 GGTCTATTGTACGCAGCCTTTC 59.392 50.000 0.00 0.00 0.00 2.62
5373 5747 2.608090 GTCTATTGTACGCAGCCTTTCC 59.392 50.000 0.00 0.00 0.00 3.13
5374 5748 1.940613 CTATTGTACGCAGCCTTTCCC 59.059 52.381 0.00 0.00 0.00 3.97
5375 5749 0.328258 ATTGTACGCAGCCTTTCCCT 59.672 50.000 0.00 0.00 0.00 4.20
5376 5750 0.978151 TTGTACGCAGCCTTTCCCTA 59.022 50.000 0.00 0.00 0.00 3.53
5377 5751 0.248289 TGTACGCAGCCTTTCCCTAC 59.752 55.000 0.00 0.00 0.00 3.18
5378 5752 0.248289 GTACGCAGCCTTTCCCTACA 59.752 55.000 0.00 0.00 0.00 2.74
5379 5753 1.134491 GTACGCAGCCTTTCCCTACAT 60.134 52.381 0.00 0.00 0.00 2.29
5380 5754 0.328258 ACGCAGCCTTTCCCTACATT 59.672 50.000 0.00 0.00 0.00 2.71
5381 5755 1.271926 ACGCAGCCTTTCCCTACATTT 60.272 47.619 0.00 0.00 0.00 2.32
5382 5756 1.401905 CGCAGCCTTTCCCTACATTTC 59.598 52.381 0.00 0.00 0.00 2.17
5383 5757 2.728007 GCAGCCTTTCCCTACATTTCT 58.272 47.619 0.00 0.00 0.00 2.52
5384 5758 2.424956 GCAGCCTTTCCCTACATTTCTG 59.575 50.000 0.00 0.00 0.00 3.02
5385 5759 3.690460 CAGCCTTTCCCTACATTTCTGT 58.310 45.455 0.00 0.00 39.49 3.41
5386 5760 4.843728 CAGCCTTTCCCTACATTTCTGTA 58.156 43.478 0.00 0.00 36.79 2.74
5387 5761 5.253330 CAGCCTTTCCCTACATTTCTGTAA 58.747 41.667 0.00 0.00 37.41 2.41
5388 5762 5.355350 CAGCCTTTCCCTACATTTCTGTAAG 59.645 44.000 0.00 0.00 37.41 2.34
5389 5763 5.250774 AGCCTTTCCCTACATTTCTGTAAGA 59.749 40.000 0.00 0.00 44.68 2.10
5401 5775 3.685139 TCTGTAAGAGGCTGTTTCCAG 57.315 47.619 0.90 9.48 38.67 3.86
5402 5776 2.303022 TCTGTAAGAGGCTGTTTCCAGG 59.697 50.000 17.71 5.83 38.67 4.45
5403 5777 2.303022 CTGTAAGAGGCTGTTTCCAGGA 59.697 50.000 0.90 0.00 35.89 3.86
5404 5778 2.038557 TGTAAGAGGCTGTTTCCAGGAC 59.961 50.000 0.90 0.00 39.22 3.85
5405 5779 1.439543 AAGAGGCTGTTTCCAGGACT 58.560 50.000 0.00 0.00 39.22 3.85
5406 5780 1.439543 AGAGGCTGTTTCCAGGACTT 58.560 50.000 0.00 0.00 39.22 3.01
5407 5781 1.072965 AGAGGCTGTTTCCAGGACTTG 59.927 52.381 0.00 0.00 39.22 3.16
5408 5782 1.072331 GAGGCTGTTTCCAGGACTTGA 59.928 52.381 0.00 0.00 39.22 3.02
5409 5783 1.494721 AGGCTGTTTCCAGGACTTGAA 59.505 47.619 0.00 0.00 39.22 2.69
5410 5784 1.609072 GGCTGTTTCCAGGACTTGAAC 59.391 52.381 0.00 0.00 39.22 3.18
5411 5785 1.609072 GCTGTTTCCAGGACTTGAACC 59.391 52.381 0.00 0.00 39.22 3.62
5412 5786 2.230660 CTGTTTCCAGGACTTGAACCC 58.769 52.381 0.00 0.00 34.90 4.11
5413 5787 1.235724 GTTTCCAGGACTTGAACCCG 58.764 55.000 0.00 0.00 0.00 5.28
5414 5788 0.841289 TTTCCAGGACTTGAACCCGT 59.159 50.000 0.00 0.00 0.00 5.28
5415 5789 0.107831 TTCCAGGACTTGAACCCGTG 59.892 55.000 0.00 0.00 0.00 4.94
5416 5790 0.761323 TCCAGGACTTGAACCCGTGA 60.761 55.000 0.00 0.00 0.00 4.35
5417 5791 0.602905 CCAGGACTTGAACCCGTGAC 60.603 60.000 0.00 0.00 0.00 3.67
5418 5792 0.602905 CAGGACTTGAACCCGTGACC 60.603 60.000 0.00 0.00 0.00 4.02
5419 5793 0.763223 AGGACTTGAACCCGTGACCT 60.763 55.000 0.00 0.00 0.00 3.85
5420 5794 0.320508 GGACTTGAACCCGTGACCTC 60.321 60.000 0.00 0.00 0.00 3.85
5421 5795 0.391597 GACTTGAACCCGTGACCTCA 59.608 55.000 0.00 0.00 0.00 3.86
5422 5796 1.002087 GACTTGAACCCGTGACCTCAT 59.998 52.381 0.00 0.00 0.00 2.90
5423 5797 1.270839 ACTTGAACCCGTGACCTCATG 60.271 52.381 0.00 0.00 0.00 3.07
5434 5808 2.154139 ACCTCATGGTCACAAGGCA 58.846 52.632 0.00 0.00 44.78 4.75
5435 5809 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.00 44.78 4.85
5436 5810 1.310933 CCTCATGGTCACAAGGCAGC 61.311 60.000 0.00 0.00 0.00 5.25
5437 5811 0.607217 CTCATGGTCACAAGGCAGCA 60.607 55.000 0.00 0.00 0.00 4.41
5438 5812 0.607217 TCATGGTCACAAGGCAGCAG 60.607 55.000 0.00 0.00 0.00 4.24
5439 5813 1.975407 ATGGTCACAAGGCAGCAGC 60.975 57.895 0.00 0.00 41.10 5.25
5440 5814 2.282040 GGTCACAAGGCAGCAGCT 60.282 61.111 0.00 0.00 41.70 4.24
5441 5815 1.900498 GGTCACAAGGCAGCAGCTT 60.900 57.895 0.00 0.00 41.70 3.74
5442 5816 1.458639 GGTCACAAGGCAGCAGCTTT 61.459 55.000 0.00 0.00 41.17 3.51
5443 5817 1.238439 GTCACAAGGCAGCAGCTTTA 58.762 50.000 0.00 0.00 38.07 1.85
5444 5818 1.068954 GTCACAAGGCAGCAGCTTTAC 60.069 52.381 0.00 0.00 38.07 2.01
5445 5819 0.242017 CACAAGGCAGCAGCTTTACC 59.758 55.000 0.00 0.00 38.07 2.85
5446 5820 0.178992 ACAAGGCAGCAGCTTTACCA 60.179 50.000 0.00 0.00 38.07 3.25
5447 5821 0.242017 CAAGGCAGCAGCTTTACCAC 59.758 55.000 0.00 0.00 38.07 4.16
5448 5822 0.111253 AAGGCAGCAGCTTTACCACT 59.889 50.000 0.00 0.00 38.40 4.00
5449 5823 0.607489 AGGCAGCAGCTTTACCACTG 60.607 55.000 0.00 0.00 41.70 3.66
5453 5827 3.654201 CAGCTTTACCACTGCGCA 58.346 55.556 10.98 10.98 0.00 6.09
5454 5828 1.948508 CAGCTTTACCACTGCGCAA 59.051 52.632 13.05 0.00 0.00 4.85
5455 5829 0.110056 CAGCTTTACCACTGCGCAAG 60.110 55.000 13.05 7.09 43.44 4.01
5456 5830 1.210155 GCTTTACCACTGCGCAAGG 59.790 57.895 22.91 22.91 38.28 3.61
5457 5831 1.210155 CTTTACCACTGCGCAAGGC 59.790 57.895 24.07 0.00 43.96 4.35
5559 5933 2.040178 CAATCTCCTTAGGCGGTAGGT 58.960 52.381 0.00 0.00 33.15 3.08
5681 6137 5.654650 TCCCAACATGATTTATAAAAGCGGT 59.345 36.000 0.00 0.00 0.00 5.68
5753 6212 0.252696 TGCCCATACCTCCTCAGTGT 60.253 55.000 0.00 0.00 0.00 3.55
5754 6213 0.179000 GCCCATACCTCCTCAGTGTG 59.821 60.000 0.00 0.00 0.00 3.82
5764 6223 1.445754 CTCAGTGTGAGGCTGCTCG 60.446 63.158 0.00 0.00 40.71 5.03
5781 6240 5.293079 GCTGCTCGAGAGAAGTTAAATCATT 59.707 40.000 18.75 0.00 41.32 2.57
5835 6294 4.586884 AGTGAAATCTCTGTCATGCACAT 58.413 39.130 0.00 0.00 33.23 3.21
5836 6295 4.634883 AGTGAAATCTCTGTCATGCACATC 59.365 41.667 0.00 0.00 33.23 3.06
5840 6299 1.208776 TCTCTGTCATGCACATCTGGG 59.791 52.381 0.00 0.00 33.23 4.45
5855 6315 8.415553 TGCACATCTGGGAAATATTTTTATGAG 58.584 33.333 1.43 3.22 0.00 2.90
6008 6491 3.489355 ACTTCCAGTGATTGTTGCATGA 58.511 40.909 0.00 0.00 0.00 3.07
6056 6539 7.646314 AGCTTGATTATGTGCATGAGTATTTC 58.354 34.615 0.00 0.00 0.00 2.17
6232 6715 2.158755 ACCGATGAATCTAAGGGCAAGG 60.159 50.000 0.00 0.00 0.00 3.61
6245 6728 2.102578 GGGCAAGGAAAGTGTGCATAT 58.897 47.619 0.00 0.00 40.12 1.78
6427 6910 4.020218 TGTCACCTTTGTCATCTAGGAAGG 60.020 45.833 0.00 0.00 41.98 3.46
6451 6934 4.122337 TCCACCTCCTTACAGTTACAGA 57.878 45.455 0.00 0.00 0.00 3.41
6554 7039 4.550577 TGGAATGCATTGCAGTATTACG 57.449 40.909 27.41 0.00 43.65 3.18
6659 7480 3.270027 TCAGCTTTTACATGGTGATCCG 58.730 45.455 0.00 0.00 36.04 4.18
6919 7740 6.344500 TGTTGTTTGTTTGCACCATTATCTT 58.656 32.000 0.00 0.00 0.00 2.40
7045 7866 6.071320 TCTCATAGCTCATTAACAGCTCCTA 58.929 40.000 12.94 0.00 44.25 2.94
7103 7925 9.423061 GCAAACATGGTATGATAAAAATATCCC 57.577 33.333 0.00 0.00 0.00 3.85
7228 8053 2.501316 TCTGTGATGTGTGTCCCTATGG 59.499 50.000 0.00 0.00 0.00 2.74
7232 8057 3.114606 TGATGTGTGTCCCTATGGTGAT 58.885 45.455 0.00 0.00 0.00 3.06
7741 8567 4.648762 ACTTGAGTGAGGTGGATATCTCTG 59.351 45.833 2.05 0.00 35.01 3.35
7755 8581 2.070262 TCTCTGCATGAGTTGTCGTG 57.930 50.000 0.00 0.00 43.13 4.35
7783 8609 1.274703 ATGGCTTCCATGGTCGACCT 61.275 55.000 33.39 17.38 43.39 3.85
7784 8610 1.153349 GGCTTCCATGGTCGACCTC 60.153 63.158 33.39 10.53 36.82 3.85
7785 8611 1.153349 GCTTCCATGGTCGACCTCC 60.153 63.158 33.39 10.02 36.82 4.30
7786 8612 1.522569 CTTCCATGGTCGACCTCCC 59.477 63.158 33.39 9.62 36.82 4.30
7787 8613 1.229368 TTCCATGGTCGACCTCCCA 60.229 57.895 33.39 15.53 36.82 4.37
7788 8614 1.264749 TTCCATGGTCGACCTCCCAG 61.265 60.000 33.39 17.97 36.82 4.45
7789 8615 2.735772 CCATGGTCGACCTCCCAGG 61.736 68.421 33.39 22.40 42.49 4.45
7790 8616 3.083997 ATGGTCGACCTCCCAGGC 61.084 66.667 33.39 6.69 39.63 4.85
7791 8617 3.924013 ATGGTCGACCTCCCAGGCA 62.924 63.158 33.39 12.74 39.63 4.75
7792 8618 3.083997 GGTCGACCTCCCAGGCAT 61.084 66.667 27.64 0.00 39.63 4.40
7793 8619 2.187946 GTCGACCTCCCAGGCATG 59.812 66.667 3.51 0.00 39.63 4.06
7794 8620 2.038813 TCGACCTCCCAGGCATGA 59.961 61.111 0.00 0.00 39.63 3.07
7795 8621 1.612146 TCGACCTCCCAGGCATGAA 60.612 57.895 0.00 0.00 39.63 2.57
7796 8622 1.198094 TCGACCTCCCAGGCATGAAA 61.198 55.000 0.00 0.00 39.63 2.69
7797 8623 0.322456 CGACCTCCCAGGCATGAAAA 60.322 55.000 0.00 0.00 39.63 2.29
7798 8624 1.467920 GACCTCCCAGGCATGAAAAG 58.532 55.000 0.00 0.00 39.63 2.27
7799 8625 0.040204 ACCTCCCAGGCATGAAAAGG 59.960 55.000 0.00 6.02 39.63 3.11
7800 8626 0.685458 CCTCCCAGGCATGAAAAGGG 60.685 60.000 0.00 1.35 40.98 3.95
7801 8627 1.305213 TCCCAGGCATGAAAAGGGC 60.305 57.895 0.00 0.00 39.42 5.19
7802 8628 1.610086 CCCAGGCATGAAAAGGGCA 60.610 57.895 0.00 0.00 31.81 5.36
7803 8629 1.610554 CCCAGGCATGAAAAGGGCAG 61.611 60.000 0.00 0.00 31.81 4.85
7804 8630 1.217244 CAGGCATGAAAAGGGCAGC 59.783 57.895 0.00 0.00 0.00 5.25
7805 8631 1.986210 AGGCATGAAAAGGGCAGCC 60.986 57.895 1.26 1.26 42.31 4.85
7806 8632 2.580815 GCATGAAAAGGGCAGCCC 59.419 61.111 24.90 24.90 45.90 5.19
7816 8642 4.794648 GGCAGCCCGGTGCATGTA 62.795 66.667 19.47 0.00 45.93 2.29
7817 8643 3.204827 GCAGCCCGGTGCATGTAG 61.205 66.667 13.70 0.91 43.41 2.74
7818 8644 3.204827 CAGCCCGGTGCATGTAGC 61.205 66.667 15.92 2.56 44.83 3.58
7819 8645 3.402681 AGCCCGGTGCATGTAGCT 61.403 61.111 15.92 4.82 45.94 3.32
7820 8646 2.897350 GCCCGGTGCATGTAGCTC 60.897 66.667 11.25 0.00 45.94 4.09
7826 8652 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
7827 8653 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
7828 8654 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
7829 8655 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
7832 8658 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
7877 8703 6.038050 GGCATGAAAACCAAACAGAATTTTGA 59.962 34.615 2.48 0.00 38.54 2.69
7923 8749 7.334171 AGCATTGCTCATTTTAATTTAACCCAC 59.666 33.333 5.03 0.00 30.62 4.61
7925 8751 5.715070 TGCTCATTTTAATTTAACCCACGG 58.285 37.500 0.00 0.00 0.00 4.94
7928 8754 6.570764 GCTCATTTTAATTTAACCCACGGTCA 60.571 38.462 0.00 0.00 33.12 4.02
7997 8823 3.518634 TCCTTTTGCAGTTTTCACCAC 57.481 42.857 0.00 0.00 0.00 4.16
8001 8827 3.883830 TTTGCAGTTTTCACCACATGT 57.116 38.095 0.00 0.00 0.00 3.21
8045 8871 4.351054 AGTGAGGGGGCCAAAGCG 62.351 66.667 4.39 0.00 41.24 4.68
8067 8893 6.588373 AGCGAGTTATCTCTTTCTCTTTCAAC 59.412 38.462 0.00 0.00 38.45 3.18
8071 8897 6.588373 AGTTATCTCTTTCTCTTTCAACGCTC 59.412 38.462 0.00 0.00 0.00 5.03
8078 8904 3.515630 TCTCTTTCAACGCTCTATGCAG 58.484 45.455 0.00 0.00 43.06 4.41
8103 8929 9.436957 AGTGTTAATAGATTTTGTCTAGTGTGG 57.563 33.333 0.00 0.00 42.50 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 4.179579 GAAGGCGGTTGCGATGGC 62.180 66.667 0.00 0.00 44.10 4.40
44 45 2.230264 GCGTGCTTTGTTGTGCCAC 61.230 57.895 0.00 0.00 0.00 5.01
63 64 0.813610 CATGGAGGCGGCGATTGTAA 60.814 55.000 12.98 0.00 0.00 2.41
89 99 5.044179 TCTCACAGGGATGAAATTACCCATT 60.044 40.000 0.00 0.00 45.43 3.16
162 172 5.013547 CCGAGTCAGATCCCATAGTTATCT 58.986 45.833 0.00 0.00 0.00 1.98
165 175 3.497332 CCCGAGTCAGATCCCATAGTTA 58.503 50.000 0.00 0.00 0.00 2.24
184 194 2.795973 GCGGAAATACCAACGCCC 59.204 61.111 0.00 0.00 45.70 6.13
191 204 2.747446 AGTGAACATGTGCGGAAATACC 59.253 45.455 0.00 0.00 0.00 2.73
192 205 3.435327 TGAGTGAACATGTGCGGAAATAC 59.565 43.478 0.00 0.00 0.00 1.89
193 206 3.669536 TGAGTGAACATGTGCGGAAATA 58.330 40.909 0.00 0.00 0.00 1.40
194 207 2.503331 TGAGTGAACATGTGCGGAAAT 58.497 42.857 0.00 0.00 0.00 2.17
195 208 1.960417 TGAGTGAACATGTGCGGAAA 58.040 45.000 0.00 0.00 0.00 3.13
197 210 2.183478 AATGAGTGAACATGTGCGGA 57.817 45.000 0.00 0.00 0.00 5.54
198 211 2.995466 AAATGAGTGAACATGTGCGG 57.005 45.000 0.00 0.00 0.00 5.69
199 212 6.932901 AAATAAAATGAGTGAACATGTGCG 57.067 33.333 0.00 0.00 0.00 5.34
588 619 8.830915 ACATTGACTCTATTCTCTCCTCTTTA 57.169 34.615 0.00 0.00 0.00 1.85
592 623 8.785329 AAAAACATTGACTCTATTCTCTCCTC 57.215 34.615 0.00 0.00 0.00 3.71
623 678 7.928873 TCTATTCACACTATTCTCCCCTTTTT 58.071 34.615 0.00 0.00 0.00 1.94
624 679 7.510675 TCTATTCACACTATTCTCCCCTTTT 57.489 36.000 0.00 0.00 0.00 2.27
725 781 4.631813 CCATTCACTTGGAGTTAGTAGTGC 59.368 45.833 0.00 0.00 39.25 4.40
816 878 5.800941 CGTGTAGATGAGGAGTTTGTAGAAC 59.199 44.000 0.00 0.00 0.00 3.01
856 919 5.570844 GCATTAGAGGGAGTTCACAAGGTTA 60.571 44.000 0.00 0.00 0.00 2.85
857 920 4.807643 GCATTAGAGGGAGTTCACAAGGTT 60.808 45.833 0.00 0.00 0.00 3.50
918 985 4.653801 ACAGACCAATGGCTTTAAGGTTTT 59.346 37.500 0.00 0.00 31.57 2.43
976 1043 2.434336 TGTGATAGCCAGGTACCACATC 59.566 50.000 15.94 9.11 30.67 3.06
986 1053 1.596260 CTCGCATGTTGTGATAGCCAG 59.404 52.381 0.00 0.00 36.18 4.85
1024 1091 6.214615 TGGTGATGACCTTCCTTTTCACTATA 59.785 38.462 2.11 0.00 43.58 1.31
1041 1108 4.531854 TGGTTTCTGTTCTTTGGTGATGA 58.468 39.130 0.00 0.00 0.00 2.92
1069 1136 5.684626 CGAATTCAGAGCCAATAATCTTTGC 59.315 40.000 6.22 0.00 0.00 3.68
1334 1544 5.027460 TGGAGGTTGGCAAAGTAGATACTA 58.973 41.667 0.00 0.00 34.99 1.82
1394 1605 0.886563 AAGAACTTCATGCAGCCTGC 59.113 50.000 10.45 10.45 45.29 4.85
1445 1671 0.618458 ATCACCATACAAGGCGTGGT 59.382 50.000 5.22 0.79 46.72 4.16
1455 1681 5.791336 TGACATCCTCAGTATCACCATAC 57.209 43.478 0.00 0.00 35.90 2.39
1640 1898 5.418840 ACCCGCAGAAAATTATCTTGTTCAT 59.581 36.000 0.00 0.00 0.00 2.57
1726 1993 8.659527 TCCATATATACATGGTTCACTTCACAT 58.340 33.333 9.86 0.00 44.98 3.21
1727 1994 8.028652 TCCATATATACATGGTTCACTTCACA 57.971 34.615 9.86 0.00 44.98 3.58
1728 1995 8.367911 TCTCCATATATACATGGTTCACTTCAC 58.632 37.037 9.86 0.00 44.98 3.18
1729 1996 8.367911 GTCTCCATATATACATGGTTCACTTCA 58.632 37.037 9.86 0.00 44.98 3.02
1730 1997 8.367911 TGTCTCCATATATACATGGTTCACTTC 58.632 37.037 9.86 0.00 44.98 3.01
1731 1998 8.262601 TGTCTCCATATATACATGGTTCACTT 57.737 34.615 9.86 0.00 44.98 3.16
1732 1999 7.855784 TGTCTCCATATATACATGGTTCACT 57.144 36.000 9.86 0.00 44.98 3.41
1914 2198 5.047092 CCATCTCAACCCAAGCAAGTTTAAT 60.047 40.000 0.00 0.00 0.00 1.40
2054 2342 5.171476 CAGAGGTAGTACATTGACAGGTTG 58.829 45.833 2.06 0.00 0.00 3.77
2096 2384 6.876257 GTCAATGTTTGGCCCAAAATACAATA 59.124 34.615 11.20 0.00 35.03 1.90
2260 2548 0.899720 TTTGCTGGGTACTACCTCCG 59.100 55.000 5.19 0.00 38.64 4.63
2261 2549 1.209747 CCTTTGCTGGGTACTACCTCC 59.790 57.143 5.19 0.00 38.64 4.30
2343 2631 6.088883 CCTTTGGTTGTAAAATATTCGCACAC 59.911 38.462 0.00 0.00 0.00 3.82
2390 2678 3.325870 TGTTTGGACTCTTCATAGCACG 58.674 45.455 0.00 0.00 0.00 5.34
2649 2948 4.333690 ACCGAAGATACACTGTGTACTCT 58.666 43.478 21.84 19.90 35.42 3.24
3140 3442 0.175989 GGGTGAGGAAGCTTACTCCG 59.824 60.000 31.49 0.00 37.34 4.63
3247 3549 5.304357 TCTGAATGTGTAACTCTGTTCAGGA 59.696 40.000 11.58 0.00 40.08 3.86
3317 3619 0.321671 GGTGTTCAGCTGGAGCAGTA 59.678 55.000 15.13 0.00 45.16 2.74
3401 3703 2.415893 CCGGAATGATTGTGCCTTCAAC 60.416 50.000 0.00 0.00 0.00 3.18
3515 3817 4.010349 CCACTTTAGGCCTTTTCTGTAGG 58.990 47.826 12.58 0.00 35.80 3.18
3584 3886 5.090083 TGTGTTTTTGCTCGACAAGTTTAC 58.910 37.500 1.72 0.00 40.06 2.01
3748 4050 1.533994 GAAAGCTGGGCCCCTTTGT 60.534 57.895 25.57 7.58 31.85 2.83
3751 4053 3.997952 GGGAAAGCTGGGCCCCTT 61.998 66.667 22.27 13.96 35.76 3.95
3759 4061 4.751600 GTGGAAAAGAATTTGGGAAAGCTG 59.248 41.667 0.00 0.00 39.02 4.24
3782 4084 0.740737 GGGACAATCAGATTTGCCCG 59.259 55.000 12.37 0.00 35.06 6.13
3874 4176 1.757306 CCCTCACAGTGCAAGTCCT 59.243 57.895 0.00 0.00 0.00 3.85
4060 4424 2.791004 GTGTTGCAGTTGAATCTGTTGC 59.209 45.455 0.00 0.00 37.70 4.17
4154 4525 4.475944 CGAGTTCAATGGCTTTTGGTTAG 58.524 43.478 1.83 0.00 0.00 2.34
4163 4534 0.242017 GCTTTGCGAGTTCAATGGCT 59.758 50.000 0.00 0.00 0.00 4.75
4173 4544 0.391661 TCTTAGCTGGGCTTTGCGAG 60.392 55.000 0.00 0.00 40.44 5.03
4230 4601 3.320879 ATGGGAGTGCAGCGACCAG 62.321 63.158 5.70 0.00 34.23 4.00
4260 4633 5.163301 ACATGAGAAGGTAAATAGCACCGAT 60.163 40.000 0.00 0.00 41.21 4.18
4262 4635 4.442706 ACATGAGAAGGTAAATAGCACCG 58.557 43.478 0.00 0.00 41.21 4.94
4380 4753 1.769098 CTCATGAATCGTGCTGGCCG 61.769 60.000 0.00 0.00 0.00 6.13
4414 4787 2.114616 AGGTGGCTGGTAATCTCTCAG 58.885 52.381 0.00 0.00 0.00 3.35
4425 4798 3.452627 ACTCTAACTGATAAGGTGGCTGG 59.547 47.826 0.00 0.00 0.00 4.85
4537 4910 6.240176 GGAAGAGGACATAGAGATAGTCTCCT 60.240 46.154 3.47 0.00 44.42 3.69
4591 4964 4.038402 CCCACTTTGATCAAGCAACTTCTT 59.962 41.667 8.41 0.00 35.65 2.52
4641 5014 2.481289 TTATGCGGACAATGTGGTCA 57.519 45.000 0.00 0.00 39.59 4.02
4713 5086 1.285373 ACTTGTGGTTTGGGGTACACA 59.715 47.619 0.00 0.00 41.59 3.72
4728 5101 3.836562 ACGGGTATCCTAAACTCACTTGT 59.163 43.478 0.00 0.00 0.00 3.16
4749 5122 6.410540 TCCCAATGTTATTTATTTTGGCCAC 58.589 36.000 3.88 0.00 36.37 5.01
4774 5147 1.487976 CTTCATCAAGGCTCCCTGCTA 59.512 52.381 0.00 0.00 42.39 3.49
4781 5154 3.272574 TCATGGACTTCATCAAGGCTC 57.727 47.619 0.00 0.00 37.85 4.70
4824 5197 4.855340 TCAGATTTTAGTGAATGGGGGAC 58.145 43.478 0.00 0.00 0.00 4.46
4825 5198 4.628715 GCTCAGATTTTAGTGAATGGGGGA 60.629 45.833 0.00 0.00 0.00 4.81
4848 5221 1.141881 CTGCTACCTACTGCACCCG 59.858 63.158 0.00 0.00 35.20 5.28
4852 5225 1.112113 GCCTACTGCTACCTACTGCA 58.888 55.000 0.00 0.00 36.87 4.41
4860 5233 4.201822 GCAACTTATTGTGCCTACTGCTAC 60.202 45.833 0.00 0.00 38.17 3.58
4867 5240 3.147553 TGGTGCAACTTATTGTGCCTA 57.852 42.857 2.04 0.00 38.17 3.93
4888 5261 1.067425 CACCCCAGTTTATGTCGTCGA 60.067 52.381 0.00 0.00 0.00 4.20
4896 5269 4.788617 AGATCCTACAACACCCCAGTTTAT 59.211 41.667 0.00 0.00 0.00 1.40
5080 5454 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
5081 5455 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
5082 5456 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
5083 5457 7.625828 AAAGACAAATATTTAGGAACGGAGG 57.374 36.000 0.00 0.00 0.00 4.30
5100 5474 9.965824 GTCCATTTGAAATCTCTAAAAAGACAA 57.034 29.630 0.00 0.00 0.00 3.18
5101 5475 9.354673 AGTCCATTTGAAATCTCTAAAAAGACA 57.645 29.630 0.00 0.00 0.00 3.41
5105 5479 9.581289 TGGTAGTCCATTTGAAATCTCTAAAAA 57.419 29.630 0.00 0.00 39.03 1.94
5106 5480 9.010029 GTGGTAGTCCATTTGAAATCTCTAAAA 57.990 33.333 0.00 0.00 46.20 1.52
5107 5481 8.160765 TGTGGTAGTCCATTTGAAATCTCTAAA 58.839 33.333 0.00 0.00 46.20 1.85
5108 5482 7.685481 TGTGGTAGTCCATTTGAAATCTCTAA 58.315 34.615 0.00 0.00 46.20 2.10
5109 5483 7.252612 TGTGGTAGTCCATTTGAAATCTCTA 57.747 36.000 0.00 0.00 46.20 2.43
5110 5484 6.126863 TGTGGTAGTCCATTTGAAATCTCT 57.873 37.500 0.00 0.00 46.20 3.10
5111 5485 7.254455 CGTATGTGGTAGTCCATTTGAAATCTC 60.254 40.741 0.00 0.00 46.20 2.75
5112 5486 6.538742 CGTATGTGGTAGTCCATTTGAAATCT 59.461 38.462 0.00 0.00 46.20 2.40
5113 5487 6.238374 CCGTATGTGGTAGTCCATTTGAAATC 60.238 42.308 0.00 0.00 46.20 2.17
5114 5488 5.588648 CCGTATGTGGTAGTCCATTTGAAAT 59.411 40.000 0.00 0.00 46.20 2.17
5115 5489 4.938832 CCGTATGTGGTAGTCCATTTGAAA 59.061 41.667 0.00 0.00 46.20 2.69
5116 5490 4.223255 TCCGTATGTGGTAGTCCATTTGAA 59.777 41.667 0.00 0.00 46.20 2.69
5117 5491 3.770388 TCCGTATGTGGTAGTCCATTTGA 59.230 43.478 0.00 0.00 46.20 2.69
5118 5492 4.131649 TCCGTATGTGGTAGTCCATTTG 57.868 45.455 0.00 0.00 46.20 2.32
5119 5493 4.163458 ACATCCGTATGTGGTAGTCCATTT 59.837 41.667 0.00 0.00 44.79 2.32
5120 5494 3.709653 ACATCCGTATGTGGTAGTCCATT 59.290 43.478 0.00 0.00 44.79 3.16
5121 5495 3.305720 ACATCCGTATGTGGTAGTCCAT 58.694 45.455 0.00 0.00 44.79 3.41
5122 5496 2.742348 ACATCCGTATGTGGTAGTCCA 58.258 47.619 0.00 0.00 44.79 4.02
5123 5497 6.770746 ATATACATCCGTATGTGGTAGTCC 57.229 41.667 3.56 0.00 45.99 3.85
5124 5498 8.610896 GTCTATATACATCCGTATGTGGTAGTC 58.389 40.741 3.56 0.00 45.99 2.59
5125 5499 8.105197 TGTCTATATACATCCGTATGTGGTAGT 58.895 37.037 3.56 0.00 45.99 2.73
5126 5500 8.502105 TGTCTATATACATCCGTATGTGGTAG 57.498 38.462 3.56 3.93 45.99 3.18
5128 5502 7.956328 ATGTCTATATACATCCGTATGTGGT 57.044 36.000 3.56 0.00 45.99 4.16
5161 5535 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
5162 5536 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
5163 5537 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
5164 5538 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
5165 5539 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
5166 5540 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
5167 5541 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
5168 5542 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
5169 5543 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
5170 5544 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
5171 5545 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
5172 5546 5.005779 GTGACTACATACGGAGCAAAATGAG 59.994 44.000 0.00 0.00 0.00 2.90
5173 5547 4.868171 GTGACTACATACGGAGCAAAATGA 59.132 41.667 0.00 0.00 0.00 2.57
5174 5548 4.870426 AGTGACTACATACGGAGCAAAATG 59.130 41.667 0.00 0.00 0.00 2.32
5175 5549 5.086104 AGTGACTACATACGGAGCAAAAT 57.914 39.130 0.00 0.00 0.00 1.82
5176 5550 4.530710 AGTGACTACATACGGAGCAAAA 57.469 40.909 0.00 0.00 0.00 2.44
5177 5551 4.242475 CAAGTGACTACATACGGAGCAAA 58.758 43.478 0.00 0.00 0.00 3.68
5178 5552 3.257375 ACAAGTGACTACATACGGAGCAA 59.743 43.478 0.00 0.00 0.00 3.91
5179 5553 2.823747 ACAAGTGACTACATACGGAGCA 59.176 45.455 0.00 0.00 0.00 4.26
5180 5554 3.505464 ACAAGTGACTACATACGGAGC 57.495 47.619 0.00 0.00 0.00 4.70
5181 5555 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
5182 5556 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
5183 5557 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
5184 5558 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
5185 5559 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
5187 5561 8.037758 CCTAGAGATTTCAACAAGTGACTACAT 58.962 37.037 0.00 0.00 35.39 2.29
5188 5562 7.232737 TCCTAGAGATTTCAACAAGTGACTACA 59.767 37.037 0.00 0.00 35.39 2.74
5189 5563 7.603651 TCCTAGAGATTTCAACAAGTGACTAC 58.396 38.462 0.00 0.00 35.39 2.73
5190 5564 7.776618 TCCTAGAGATTTCAACAAGTGACTA 57.223 36.000 0.00 0.00 35.39 2.59
5191 5565 6.672266 TCCTAGAGATTTCAACAAGTGACT 57.328 37.500 0.00 0.00 35.39 3.41
5192 5566 7.117092 GTCTTCCTAGAGATTTCAACAAGTGAC 59.883 40.741 0.00 0.00 35.39 3.67
5193 5567 7.155328 GTCTTCCTAGAGATTTCAACAAGTGA 58.845 38.462 0.00 0.00 0.00 3.41
5194 5568 6.931281 TGTCTTCCTAGAGATTTCAACAAGTG 59.069 38.462 0.00 0.00 0.00 3.16
5195 5569 7.067496 TGTCTTCCTAGAGATTTCAACAAGT 57.933 36.000 0.00 0.00 0.00 3.16
5196 5570 7.969536 TTGTCTTCCTAGAGATTTCAACAAG 57.030 36.000 0.00 0.00 0.00 3.16
5197 5571 8.924511 ATTTGTCTTCCTAGAGATTTCAACAA 57.075 30.769 0.00 0.00 0.00 2.83
5207 5581 9.250624 CGTTCCTAAATATTTGTCTTCCTAGAG 57.749 37.037 11.05 0.00 0.00 2.43
5208 5582 8.202137 CCGTTCCTAAATATTTGTCTTCCTAGA 58.798 37.037 11.05 0.00 0.00 2.43
5209 5583 8.202137 TCCGTTCCTAAATATTTGTCTTCCTAG 58.798 37.037 11.05 0.00 0.00 3.02
5210 5584 8.081517 TCCGTTCCTAAATATTTGTCTTCCTA 57.918 34.615 11.05 0.00 0.00 2.94
5211 5585 6.954232 TCCGTTCCTAAATATTTGTCTTCCT 58.046 36.000 11.05 0.00 0.00 3.36
5212 5586 7.201705 CCTTCCGTTCCTAAATATTTGTCTTCC 60.202 40.741 11.05 0.00 0.00 3.46
5213 5587 7.551617 TCCTTCCGTTCCTAAATATTTGTCTTC 59.448 37.037 11.05 0.00 0.00 2.87
5214 5588 7.399634 TCCTTCCGTTCCTAAATATTTGTCTT 58.600 34.615 11.05 0.00 0.00 3.01
5215 5589 6.954232 TCCTTCCGTTCCTAAATATTTGTCT 58.046 36.000 11.05 0.00 0.00 3.41
5216 5590 6.822170 ACTCCTTCCGTTCCTAAATATTTGTC 59.178 38.462 11.05 0.00 0.00 3.18
5217 5591 6.598064 CACTCCTTCCGTTCCTAAATATTTGT 59.402 38.462 11.05 0.00 0.00 2.83
5218 5592 6.038271 CCACTCCTTCCGTTCCTAAATATTTG 59.962 42.308 11.05 1.40 0.00 2.32
5219 5593 6.069847 TCCACTCCTTCCGTTCCTAAATATTT 60.070 38.462 5.89 5.89 0.00 1.40
5220 5594 5.427481 TCCACTCCTTCCGTTCCTAAATATT 59.573 40.000 0.00 0.00 0.00 1.28
5221 5595 4.966805 TCCACTCCTTCCGTTCCTAAATAT 59.033 41.667 0.00 0.00 0.00 1.28
5222 5596 4.355549 TCCACTCCTTCCGTTCCTAAATA 58.644 43.478 0.00 0.00 0.00 1.40
5223 5597 3.178865 TCCACTCCTTCCGTTCCTAAAT 58.821 45.455 0.00 0.00 0.00 1.40
5224 5598 2.612000 TCCACTCCTTCCGTTCCTAAA 58.388 47.619 0.00 0.00 0.00 1.85
5225 5599 2.314071 TCCACTCCTTCCGTTCCTAA 57.686 50.000 0.00 0.00 0.00 2.69
5226 5600 2.544844 ATCCACTCCTTCCGTTCCTA 57.455 50.000 0.00 0.00 0.00 2.94
5227 5601 2.108970 GTATCCACTCCTTCCGTTCCT 58.891 52.381 0.00 0.00 0.00 3.36
5228 5602 1.138464 GGTATCCACTCCTTCCGTTCC 59.862 57.143 0.00 0.00 0.00 3.62
5229 5603 1.829222 TGGTATCCACTCCTTCCGTTC 59.171 52.381 0.00 0.00 0.00 3.95
5230 5604 1.946984 TGGTATCCACTCCTTCCGTT 58.053 50.000 0.00 0.00 0.00 4.44
5231 5605 1.946984 TTGGTATCCACTCCTTCCGT 58.053 50.000 0.00 0.00 30.78 4.69
5232 5606 3.560636 ATTTGGTATCCACTCCTTCCG 57.439 47.619 0.00 0.00 30.78 4.30
5233 5607 5.377478 CCTAATTTGGTATCCACTCCTTCC 58.623 45.833 0.00 0.00 30.78 3.46
5234 5608 4.822350 GCCTAATTTGGTATCCACTCCTTC 59.178 45.833 7.77 0.00 30.78 3.46
5235 5609 4.229582 TGCCTAATTTGGTATCCACTCCTT 59.770 41.667 7.77 0.00 30.78 3.36
5236 5610 3.785887 TGCCTAATTTGGTATCCACTCCT 59.214 43.478 7.77 0.00 30.78 3.69
5237 5611 4.137543 CTGCCTAATTTGGTATCCACTCC 58.862 47.826 7.77 0.00 30.78 3.85
5238 5612 3.565902 GCTGCCTAATTTGGTATCCACTC 59.434 47.826 7.77 0.00 30.78 3.51
5239 5613 3.053693 TGCTGCCTAATTTGGTATCCACT 60.054 43.478 7.77 0.00 30.78 4.00
5240 5614 3.287222 TGCTGCCTAATTTGGTATCCAC 58.713 45.455 7.77 0.00 30.78 4.02
5241 5615 3.660970 TGCTGCCTAATTTGGTATCCA 57.339 42.857 7.77 1.41 0.00 3.41
5242 5616 3.319122 CCTTGCTGCCTAATTTGGTATCC 59.681 47.826 7.77 0.00 0.00 2.59
5289 5663 3.643595 TACATGCACTGGGGCTGCC 62.644 63.158 11.05 11.05 33.36 4.85
5290 5664 2.045045 TACATGCACTGGGGCTGC 60.045 61.111 0.00 0.00 35.03 5.25
5291 5665 2.117156 GCTACATGCACTGGGGCTG 61.117 63.158 0.00 0.00 42.31 4.85
5292 5666 2.262774 GAGCTACATGCACTGGGGCT 62.263 60.000 13.29 13.29 45.94 5.19
5293 5667 1.821332 GAGCTACATGCACTGGGGC 60.821 63.158 0.00 0.00 45.94 5.80
5294 5668 1.153086 GGAGCTACATGCACTGGGG 60.153 63.158 0.00 0.00 45.94 4.96
5295 5669 1.153086 GGGAGCTACATGCACTGGG 60.153 63.158 0.00 0.00 45.94 4.45
5296 5670 1.522355 CGGGAGCTACATGCACTGG 60.522 63.158 0.00 0.00 45.94 4.00
5297 5671 4.115279 CGGGAGCTACATGCACTG 57.885 61.111 0.00 0.00 45.94 3.66
5318 5692 4.785453 CTTCCCCAGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
5319 5693 4.101448 CCTTCCCCAGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
5320 5694 3.732849 CCCTTCCCCAGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
5321 5695 2.204151 ACCCTTCCCCAGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
5322 5696 2.125225 GACCCTTCCCCAGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
5323 5697 3.015753 GGACCCTTCCCCAGACCC 61.016 72.222 0.00 0.00 35.57 4.46
5324 5698 3.400054 CGGACCCTTCCCCAGACC 61.400 72.222 0.00 0.00 38.99 3.85
5325 5699 2.284405 TCGGACCCTTCCCCAGAC 60.284 66.667 0.00 0.00 38.99 3.51
5326 5700 2.284405 GTCGGACCCTTCCCCAGA 60.284 66.667 0.00 0.00 38.99 3.86
5327 5701 3.400054 GGTCGGACCCTTCCCCAG 61.400 72.222 16.55 0.00 38.99 4.45
5328 5702 4.257810 TGGTCGGACCCTTCCCCA 62.258 66.667 23.81 0.69 38.99 4.96
5329 5703 3.714001 GTGGTCGGACCCTTCCCC 61.714 72.222 23.81 0.00 38.99 4.81
5330 5704 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
5331 5705 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
5332 5706 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
5333 5707 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
5334 5708 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
5335 5709 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
5336 5710 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
5337 5711 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
5342 5716 3.867216 GCGTACAATAGACCCAAAGTGGT 60.867 47.826 0.00 0.00 42.79 4.16
5343 5717 2.676342 GCGTACAATAGACCCAAAGTGG 59.324 50.000 0.00 0.00 37.25 4.00
5344 5718 3.331150 TGCGTACAATAGACCCAAAGTG 58.669 45.455 0.00 0.00 0.00 3.16
5345 5719 3.596214 CTGCGTACAATAGACCCAAAGT 58.404 45.455 0.00 0.00 0.00 2.66
5346 5720 2.351726 GCTGCGTACAATAGACCCAAAG 59.648 50.000 0.00 0.00 0.00 2.77
5347 5721 2.352388 GCTGCGTACAATAGACCCAAA 58.648 47.619 0.00 0.00 0.00 3.28
5348 5722 1.406341 GGCTGCGTACAATAGACCCAA 60.406 52.381 0.00 0.00 0.00 4.12
5349 5723 0.177141 GGCTGCGTACAATAGACCCA 59.823 55.000 0.00 0.00 0.00 4.51
5350 5724 0.464452 AGGCTGCGTACAATAGACCC 59.536 55.000 0.00 0.00 0.00 4.46
5351 5725 2.311124 AAGGCTGCGTACAATAGACC 57.689 50.000 0.00 0.00 0.00 3.85
5352 5726 2.608090 GGAAAGGCTGCGTACAATAGAC 59.392 50.000 0.00 0.00 0.00 2.59
5353 5727 2.419574 GGGAAAGGCTGCGTACAATAGA 60.420 50.000 0.00 0.00 0.00 1.98
5354 5728 1.940613 GGGAAAGGCTGCGTACAATAG 59.059 52.381 0.00 0.00 0.00 1.73
5355 5729 1.557832 AGGGAAAGGCTGCGTACAATA 59.442 47.619 0.00 0.00 0.00 1.90
5356 5730 0.328258 AGGGAAAGGCTGCGTACAAT 59.672 50.000 0.00 0.00 0.00 2.71
5357 5731 0.978151 TAGGGAAAGGCTGCGTACAA 59.022 50.000 0.00 0.00 0.00 2.41
5358 5732 0.248289 GTAGGGAAAGGCTGCGTACA 59.752 55.000 0.00 0.00 36.89 2.90
5359 5733 0.248289 TGTAGGGAAAGGCTGCGTAC 59.752 55.000 0.00 0.00 37.28 3.67
5360 5734 1.200519 ATGTAGGGAAAGGCTGCGTA 58.799 50.000 0.00 0.00 0.00 4.42
5361 5735 0.328258 AATGTAGGGAAAGGCTGCGT 59.672 50.000 0.00 0.00 0.00 5.24
5362 5736 1.401905 GAAATGTAGGGAAAGGCTGCG 59.598 52.381 0.00 0.00 0.00 5.18
5363 5737 2.424956 CAGAAATGTAGGGAAAGGCTGC 59.575 50.000 0.00 0.00 0.00 5.25
5364 5738 3.690460 ACAGAAATGTAGGGAAAGGCTG 58.310 45.455 0.00 0.00 0.00 4.85
5365 5739 5.250774 TCTTACAGAAATGTAGGGAAAGGCT 59.749 40.000 0.00 0.00 0.00 4.58
5366 5740 5.497474 TCTTACAGAAATGTAGGGAAAGGC 58.503 41.667 0.00 0.00 0.00 4.35
5367 5741 6.116126 CCTCTTACAGAAATGTAGGGAAAGG 58.884 44.000 0.00 0.00 0.00 3.11
5368 5742 5.586643 GCCTCTTACAGAAATGTAGGGAAAG 59.413 44.000 0.00 0.00 0.00 2.62
5369 5743 5.250774 AGCCTCTTACAGAAATGTAGGGAAA 59.749 40.000 0.00 0.00 0.00 3.13
5370 5744 4.783227 AGCCTCTTACAGAAATGTAGGGAA 59.217 41.667 0.00 0.00 0.00 3.97
5371 5745 4.162320 CAGCCTCTTACAGAAATGTAGGGA 59.838 45.833 0.00 0.00 0.00 4.20
5372 5746 4.080863 ACAGCCTCTTACAGAAATGTAGGG 60.081 45.833 0.00 0.66 0.00 3.53
5373 5747 5.091261 ACAGCCTCTTACAGAAATGTAGG 57.909 43.478 0.00 0.00 0.00 3.18
5374 5748 6.092807 GGAAACAGCCTCTTACAGAAATGTAG 59.907 42.308 0.00 0.00 0.00 2.74
5375 5749 5.938125 GGAAACAGCCTCTTACAGAAATGTA 59.062 40.000 0.00 0.00 0.00 2.29
5376 5750 4.762251 GGAAACAGCCTCTTACAGAAATGT 59.238 41.667 0.00 0.00 0.00 2.71
5377 5751 4.761739 TGGAAACAGCCTCTTACAGAAATG 59.238 41.667 0.00 0.00 35.01 2.32
5378 5752 4.985538 TGGAAACAGCCTCTTACAGAAAT 58.014 39.130 0.00 0.00 35.01 2.17
5379 5753 4.431416 TGGAAACAGCCTCTTACAGAAA 57.569 40.909 0.00 0.00 35.01 2.52
5393 5767 1.476110 CGGGTTCAAGTCCTGGAAACA 60.476 52.381 0.00 0.00 32.36 2.83
5394 5768 1.235724 CGGGTTCAAGTCCTGGAAAC 58.764 55.000 0.00 0.00 0.00 2.78
5395 5769 0.841289 ACGGGTTCAAGTCCTGGAAA 59.159 50.000 0.00 0.00 35.79 3.13
5396 5770 0.107831 CACGGGTTCAAGTCCTGGAA 59.892 55.000 0.00 0.00 35.79 3.53
5397 5771 0.761323 TCACGGGTTCAAGTCCTGGA 60.761 55.000 0.00 0.00 35.79 3.86
5398 5772 0.602905 GTCACGGGTTCAAGTCCTGG 60.603 60.000 0.00 0.00 35.79 4.45
5399 5773 0.602905 GGTCACGGGTTCAAGTCCTG 60.603 60.000 0.00 0.00 37.36 3.86
5400 5774 0.763223 AGGTCACGGGTTCAAGTCCT 60.763 55.000 0.00 0.00 0.00 3.85
5401 5775 0.320508 GAGGTCACGGGTTCAAGTCC 60.321 60.000 0.00 0.00 0.00 3.85
5402 5776 0.391597 TGAGGTCACGGGTTCAAGTC 59.608 55.000 0.00 0.00 0.00 3.01
5403 5777 1.056660 ATGAGGTCACGGGTTCAAGT 58.943 50.000 0.00 0.00 0.00 3.16
5404 5778 1.442769 CATGAGGTCACGGGTTCAAG 58.557 55.000 0.00 0.00 0.00 3.02
5405 5779 0.036164 CCATGAGGTCACGGGTTCAA 59.964 55.000 0.00 0.00 0.00 2.69
5406 5780 1.676968 CCATGAGGTCACGGGTTCA 59.323 57.895 0.00 0.00 0.00 3.18
5407 5781 4.617875 CCATGAGGTCACGGGTTC 57.382 61.111 0.00 0.00 0.00 3.62
5417 5791 1.310933 GCTGCCTTGTGACCATGAGG 61.311 60.000 0.00 0.00 42.21 3.86
5418 5792 0.607217 TGCTGCCTTGTGACCATGAG 60.607 55.000 0.00 0.00 0.00 2.90
5419 5793 0.607217 CTGCTGCCTTGTGACCATGA 60.607 55.000 0.00 0.00 0.00 3.07
5420 5794 1.880894 CTGCTGCCTTGTGACCATG 59.119 57.895 0.00 0.00 0.00 3.66
5421 5795 1.975407 GCTGCTGCCTTGTGACCAT 60.975 57.895 3.85 0.00 0.00 3.55
5422 5796 2.595463 GCTGCTGCCTTGTGACCA 60.595 61.111 3.85 0.00 0.00 4.02
5423 5797 1.458639 AAAGCTGCTGCCTTGTGACC 61.459 55.000 12.44 0.00 40.80 4.02
5424 5798 1.068954 GTAAAGCTGCTGCCTTGTGAC 60.069 52.381 12.44 0.00 40.80 3.67
5425 5799 1.238439 GTAAAGCTGCTGCCTTGTGA 58.762 50.000 12.44 0.00 40.80 3.58
5426 5800 0.242017 GGTAAAGCTGCTGCCTTGTG 59.758 55.000 12.44 0.00 40.80 3.33
5427 5801 0.178992 TGGTAAAGCTGCTGCCTTGT 60.179 50.000 12.44 0.00 40.80 3.16
5428 5802 0.242017 GTGGTAAAGCTGCTGCCTTG 59.758 55.000 12.44 0.00 40.80 3.61
5429 5803 0.111253 AGTGGTAAAGCTGCTGCCTT 59.889 50.000 12.44 8.34 40.80 4.35
5430 5804 0.607489 CAGTGGTAAAGCTGCTGCCT 60.607 55.000 12.44 2.45 40.80 4.75
5431 5805 1.878775 CAGTGGTAAAGCTGCTGCC 59.121 57.895 12.44 7.07 40.80 4.85
5436 5810 0.110056 CTTGCGCAGTGGTAAAGCTG 60.110 55.000 11.31 0.00 35.93 4.24
5437 5811 1.237285 CCTTGCGCAGTGGTAAAGCT 61.237 55.000 19.40 0.00 0.00 3.74
5438 5812 1.210155 CCTTGCGCAGTGGTAAAGC 59.790 57.895 19.40 0.00 0.00 3.51
5439 5813 1.210155 GCCTTGCGCAGTGGTAAAG 59.790 57.895 25.36 13.32 37.47 1.85
5440 5814 3.350377 GCCTTGCGCAGTGGTAAA 58.650 55.556 25.36 4.62 37.47 2.01
5456 5830 1.063027 GTTAAACTTATGGCCGACCGC 59.937 52.381 0.00 0.00 39.70 5.68
5457 5831 2.348660 TGTTAAACTTATGGCCGACCG 58.651 47.619 0.00 0.00 39.70 4.79
5458 5832 4.769859 TTTGTTAAACTTATGGCCGACC 57.230 40.909 0.00 0.00 0.00 4.79
5459 5833 8.920509 AATAATTTGTTAAACTTATGGCCGAC 57.079 30.769 0.00 0.00 0.00 4.79
5753 6212 0.610509 ACTTCTCTCGAGCAGCCTCA 60.611 55.000 7.81 0.00 38.00 3.86
5754 6213 0.530288 AACTTCTCTCGAGCAGCCTC 59.470 55.000 7.81 0.00 34.66 4.70
5764 6223 6.749923 AGCACCAATGATTTAACTTCTCTC 57.250 37.500 0.00 0.00 0.00 3.20
5781 6240 0.606401 GCCTTTCACAGCTAGCACCA 60.606 55.000 18.83 0.00 0.00 4.17
5835 6294 9.983024 TGGTAACTCATAAAAATATTTCCCAGA 57.017 29.630 0.10 0.00 37.61 3.86
5855 6315 6.422701 GGCAAGAAACCATTAAAGTTGGTAAC 59.577 38.462 0.00 0.00 46.75 2.50
6008 6491 3.248024 TGAGAACCCTGTAACAGTGGAT 58.752 45.455 0.00 0.00 0.00 3.41
6056 6539 6.817765 TTGTATTAGGTGCAGAAAAGAAGG 57.182 37.500 0.00 0.00 0.00 3.46
6141 6624 4.036380 GGATTAATCCCCACGACATTTGAC 59.964 45.833 22.09 0.00 41.20 3.18
6232 6715 5.314923 ACAACATCCATATGCACACTTTC 57.685 39.130 0.00 0.00 36.50 2.62
6366 6849 9.947669 GGAGAAATCACATTCAAAAGATGATAG 57.052 33.333 0.00 0.00 38.03 2.08
6427 6910 2.789409 AACTGTAAGGAGGTGGATGC 57.211 50.000 0.00 0.00 39.30 3.91
6451 6934 3.715628 GTGAGCACCATTCACTTGTTT 57.284 42.857 0.00 0.00 41.29 2.83
6554 7039 9.586435 AATTTGCCAATGTAGATTAGTAAAAGC 57.414 29.630 0.00 0.00 0.00 3.51
6659 7480 6.668323 AGTTGCATACAAACATGAACTGTAC 58.332 36.000 0.00 0.00 36.98 2.90
6919 7740 6.032956 AGGTATTTGTGAGTTACGATGACA 57.967 37.500 0.00 0.00 0.00 3.58
7103 7925 3.373439 CCCTTTCTTGCTTCATTCTCTCG 59.627 47.826 0.00 0.00 0.00 4.04
7228 8053 7.821846 AGTTCAGAACCAGATTAAGAAGATCAC 59.178 37.037 9.85 0.00 0.00 3.06
7232 8057 7.303182 TCAGTTCAGAACCAGATTAAGAAGA 57.697 36.000 9.85 0.00 0.00 2.87
7369 8195 4.159557 AGGTGGGTTTGCACAATAGAATT 58.840 39.130 0.00 0.00 0.00 2.17
7373 8199 5.010617 ACTTAAAGGTGGGTTTGCACAATAG 59.989 40.000 0.00 0.00 0.00 1.73
7454 8280 7.624549 TGCACAATAAGTCTCCTTAATTCTCT 58.375 34.615 0.00 0.00 36.76 3.10
7741 8567 0.110056 CTTGGCACGACAACTCATGC 60.110 55.000 0.00 0.00 37.35 4.06
7783 8609 1.305213 GCCCTTTTCATGCCTGGGA 60.305 57.895 14.30 0.00 40.23 4.37
7784 8610 1.610086 TGCCCTTTTCATGCCTGGG 60.610 57.895 0.00 8.06 40.74 4.45
7785 8611 1.895238 CTGCCCTTTTCATGCCTGG 59.105 57.895 0.00 0.00 0.00 4.45
7786 8612 1.217244 GCTGCCCTTTTCATGCCTG 59.783 57.895 0.00 0.00 0.00 4.85
7787 8613 1.986210 GGCTGCCCTTTTCATGCCT 60.986 57.895 7.66 0.00 37.58 4.75
7788 8614 2.580815 GGCTGCCCTTTTCATGCC 59.419 61.111 7.66 0.00 0.00 4.40
7789 8615 2.580815 GGGCTGCCCTTTTCATGC 59.419 61.111 30.42 0.00 41.34 4.06
7790 8616 2.713967 CCGGGCTGCCCTTTTCATG 61.714 63.158 33.39 16.86 42.67 3.07
7791 8617 2.362889 CCGGGCTGCCCTTTTCAT 60.363 61.111 33.39 0.00 42.67 2.57
7792 8618 3.897122 ACCGGGCTGCCCTTTTCA 61.897 61.111 33.39 0.00 42.67 2.69
7793 8619 3.373565 CACCGGGCTGCCCTTTTC 61.374 66.667 33.39 8.98 42.67 2.29
7799 8625 4.794648 TACATGCACCGGGCTGCC 62.795 66.667 11.05 11.05 45.15 4.85
7800 8626 3.204827 CTACATGCACCGGGCTGC 61.205 66.667 6.32 8.50 45.15 5.25
7801 8627 3.204827 GCTACATGCACCGGGCTG 61.205 66.667 6.32 9.21 45.15 4.85
7802 8628 3.391665 GAGCTACATGCACCGGGCT 62.392 63.158 6.32 0.81 45.94 5.19
7803 8629 2.897350 GAGCTACATGCACCGGGC 60.897 66.667 6.32 7.25 45.94 6.13
7804 8630 2.203070 GGAGCTACATGCACCGGG 60.203 66.667 6.32 0.00 42.21 5.73
7830 8656 3.952628 GACGCTTTCCCGGACCCTG 62.953 68.421 0.73 0.00 0.00 4.45
7831 8657 3.703127 GACGCTTTCCCGGACCCT 61.703 66.667 0.73 0.00 0.00 4.34
7832 8658 4.772687 GGACGCTTTCCCGGACCC 62.773 72.222 0.73 0.00 38.70 4.46
7839 8665 2.044946 ATGCCTGGGACGCTTTCC 60.045 61.111 0.00 0.00 45.00 3.13
7840 8666 0.960364 TTCATGCCTGGGACGCTTTC 60.960 55.000 0.00 0.00 0.00 2.62
7841 8667 0.539438 TTTCATGCCTGGGACGCTTT 60.539 50.000 0.00 0.00 0.00 3.51
7842 8668 0.539438 TTTTCATGCCTGGGACGCTT 60.539 50.000 0.00 0.00 0.00 4.68
7843 8669 1.074775 TTTTCATGCCTGGGACGCT 59.925 52.632 0.00 0.00 0.00 5.07
7844 8670 1.212751 GTTTTCATGCCTGGGACGC 59.787 57.895 0.00 0.00 0.00 5.19
7845 8671 0.893270 TGGTTTTCATGCCTGGGACG 60.893 55.000 0.00 0.00 0.00 4.79
7846 8672 1.337118 TTGGTTTTCATGCCTGGGAC 58.663 50.000 0.00 0.00 0.00 4.46
7877 8703 2.401583 TGGCTTATGACAAGCGTGAT 57.598 45.000 6.65 0.00 43.89 3.06
7923 8749 5.702622 CATGTAATGTAGACTGTTGACCG 57.297 43.478 0.00 0.00 40.20 4.79
8025 8851 4.299796 TTTGGCCCCCTCACTGCC 62.300 66.667 0.00 0.00 45.56 4.85
8045 8871 6.588373 AGCGTTGAAAGAGAAAGAGATAACTC 59.412 38.462 0.00 0.00 42.90 3.01
8078 8904 9.216117 ACCACACTAGACAAAATCTATTAACAC 57.784 33.333 0.00 0.00 39.28 3.32


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

AutoCloner maintained by Alex Coulton.