Multiple sequence alignment - TraesCS1D01G078800

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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 TraesCS1D01G078800 chr1D 100.000 9934 0 0 1 9934 60413515 60403582 0.000000e+00 18345.0
1 TraesCS1D01G078800 chr1D 98.266 173 3 0 3574 3746 211684751 211684923 4.510000e-78 303.0
2 TraesCS1D01G078800 chr1D 92.857 168 12 0 6176 6343 175819836 175820003 2.770000e-60 244.0
3 TraesCS1D01G078800 chr1D 91.071 168 14 1 6176 6343 48391463 48391297 1.000000e-54 226.0
4 TraesCS1D01G078800 chr1D 86.420 81 9 2 8374 8454 298568636 298568558 4.940000e-13 87.9
5 TraesCS1D01G078800 chr1D 81.356 118 10 6 2633 2747 127180738 127180630 1.780000e-12 86.1
6 TraesCS1D01G078800 chr1D 84.706 85 13 0 8369 8453 141705976 141706060 1.780000e-12 86.1
7 TraesCS1D01G078800 chr1D 87.324 71 5 3 8374 8442 178463860 178463928 2.970000e-10 78.7
8 TraesCS1D01G078800 chr1A 93.571 5755 233 52 3908 9613 59136142 59130476 0.000000e+00 8451.0
9 TraesCS1D01G078800 chr1A 93.371 2821 101 22 829 3579 59138925 59136121 0.000000e+00 4095.0
10 TraesCS1D01G078800 chr1A 92.373 354 11 2 3576 3913 515551133 515551486 3.220000e-134 490.0
11 TraesCS1D01G078800 chr1A 91.176 238 15 2 9697 9934 59130444 59130213 1.610000e-82 318.0
12 TraesCS1D01G078800 chr1A 94.611 167 9 0 3740 3906 417398704 417398538 9.900000e-65 259.0
13 TraesCS1D01G078800 chr1A 93.413 167 11 0 3740 3906 309622548 309622382 2.140000e-61 248.0
14 TraesCS1D01G078800 chr1A 92.262 168 13 0 6176 6343 218526841 218527008 1.290000e-58 239.0
15 TraesCS1D01G078800 chr1A 82.927 164 21 7 2633 2792 319082231 319082391 3.740000e-29 141.0
16 TraesCS1D01G078800 chr1A 85.542 83 6 5 8374 8453 181775259 181775338 2.300000e-11 82.4
17 TraesCS1D01G078800 chr1A 97.674 43 1 0 2250 2292 578330042 578330084 3.850000e-09 75.0
18 TraesCS1D01G078800 chr1B 97.729 2114 40 7 4026 6135 97373286 97375395 0.000000e+00 3631.0
19 TraesCS1D01G078800 chr1B 95.861 1667 56 6 8278 9934 97377837 97379500 0.000000e+00 2684.0
20 TraesCS1D01G078800 chr1B 97.321 1045 25 2 2706 3748 97372133 97373176 0.000000e+00 1772.0
21 TraesCS1D01G078800 chr1B 97.083 960 17 4 1749 2707 97371096 97372045 0.000000e+00 1607.0
22 TraesCS1D01G078800 chr1B 97.335 938 24 1 6905 7842 97376179 97377115 0.000000e+00 1592.0
23 TraesCS1D01G078800 chr1B 96.255 721 11 6 6188 6908 97375394 97376098 0.000000e+00 1168.0
24 TraesCS1D01G078800 chr1B 87.166 748 82 11 1 739 97365924 97366666 0.000000e+00 837.0
25 TraesCS1D01G078800 chr1B 97.950 439 8 1 7841 8279 97377239 97377676 0.000000e+00 760.0
26 TraesCS1D01G078800 chr1B 93.434 198 8 4 3548 3742 609438076 609437881 1.260000e-73 289.0
27 TraesCS1D01G078800 chr1B 89.062 192 13 4 726 911 97367642 97367831 2.160000e-56 231.0
28 TraesCS1D01G078800 chr1B 77.567 263 58 1 257 519 24939160 24938899 3.710000e-34 158.0
29 TraesCS1D01G078800 chr1B 80.000 200 27 11 2633 2827 518809701 518809892 1.740000e-27 135.0
30 TraesCS1D01G078800 chr1B 77.974 227 34 12 2607 2827 502817822 502817606 2.910000e-25 128.0
31 TraesCS1D01G078800 chr1B 80.233 172 23 9 9764 9934 297441074 297441235 1.750000e-22 119.0
32 TraesCS1D01G078800 chr1B 98.214 56 1 0 3977 4032 97373175 97373230 2.280000e-16 99.0
33 TraesCS1D01G078800 chr1B 86.420 81 10 1 8374 8454 401619032 401618953 4.940000e-13 87.9
34 TraesCS1D01G078800 chr1B 84.706 85 13 0 8369 8453 195591200 195591284 1.780000e-12 86.1
35 TraesCS1D01G078800 chr1B 81.553 103 11 6 8352 8453 308288310 308288405 2.970000e-10 78.7
36 TraesCS1D01G078800 chr6B 88.933 253 27 1 1 253 381363175 381363426 2.690000e-80 311.0
37 TraesCS1D01G078800 chr6B 88.142 253 29 1 1 253 385364649 385364900 5.830000e-77 300.0
38 TraesCS1D01G078800 chr6B 78.571 196 35 7 6528 6720 120647211 120647402 1.350000e-23 122.0
39 TraesCS1D01G078800 chr6D 89.113 248 27 0 1 248 214596407 214596654 9.690000e-80 309.0
40 TraesCS1D01G078800 chr6D 89.113 248 27 0 1 248 255021155 255021402 9.690000e-80 309.0
41 TraesCS1D01G078800 chr6D 89.113 248 23 2 1 248 411816939 411816696 1.250000e-78 305.0
42 TraesCS1D01G078800 chr6D 91.667 168 14 0 6176 6343 304099452 304099285 6.000000e-57 233.0
43 TraesCS1D01G078800 chr6D 86.982 169 20 2 6172 6339 306053149 306053316 1.320000e-43 189.0
44 TraesCS1D01G078800 chr6D 85.965 171 22 2 6175 6343 83053936 83053766 2.200000e-41 182.0
45 TraesCS1D01G078800 chr6D 85.542 83 9 2 8374 8453 24823418 24823336 6.390000e-12 84.2
46 TraesCS1D01G078800 chr6D 78.832 137 17 8 2633 2766 296867469 296867596 2.300000e-11 82.4
47 TraesCS1D01G078800 chr6D 83.133 83 14 0 8370 8452 409834118 409834200 1.070000e-09 76.8
48 TraesCS1D01G078800 chr6D 85.714 70 9 1 8374 8443 263008796 263008864 1.380000e-08 73.1
49 TraesCS1D01G078800 chr6D 90.476 42 4 0 8374 8415 89249139 89249180 1.000000e-03 56.5
50 TraesCS1D01G078800 chr2B 89.113 248 27 0 1 248 641688744 641688991 9.690000e-80 309.0
51 TraesCS1D01G078800 chr2B 93.970 199 7 5 3547 3742 436036121 436035925 7.540000e-76 296.0
52 TraesCS1D01G078800 chr2B 94.565 184 6 3 3740 3923 694263415 694263236 2.110000e-71 281.0
53 TraesCS1D01G078800 chr2B 93.956 182 9 2 3740 3919 525081118 525080937 3.530000e-69 274.0
54 TraesCS1D01G078800 chr2B 80.892 157 23 5 9750 9904 561266137 561265986 6.300000e-22 117.0
55 TraesCS1D01G078800 chr2B 89.888 89 9 0 8366 8454 338733832 338733744 2.270000e-21 115.0
56 TraesCS1D01G078800 chr2B 79.651 172 24 9 9764 9934 695232734 695232895 8.150000e-21 113.0
57 TraesCS1D01G078800 chr7B 88.353 249 28 1 1 249 232058022 232057775 2.100000e-76 298.0
58 TraesCS1D01G078800 chr7B 94.054 185 10 1 3740 3924 55865129 55864946 7.600000e-71 279.0
59 TraesCS1D01G078800 chr7B 91.813 171 14 0 6172 6342 522721309 522721479 1.290000e-58 239.0
60 TraesCS1D01G078800 chr7B 91.018 167 15 0 6176 6342 152467607 152467773 1.000000e-54 226.0
61 TraesCS1D01G078800 chr7B 81.416 226 34 6 9712 9934 203891027 203891247 2.850000e-40 178.0
62 TraesCS1D01G078800 chr2A 88.306 248 29 0 1 248 316555112 316554865 2.100000e-76 298.0
63 TraesCS1D01G078800 chr2A 81.567 217 33 5 9712 9926 14474334 14474545 1.330000e-38 172.0
64 TraesCS1D01G078800 chr2A 81.714 175 22 9 2636 2807 37264946 37264779 4.840000e-28 137.0
65 TraesCS1D01G078800 chr2A 84.043 94 14 1 8374 8466 67713356 67713263 1.370000e-13 89.8
66 TraesCS1D01G078800 chr2A 82.979 94 15 1 8374 8466 67978664 67978571 6.390000e-12 84.2
67 TraesCS1D01G078800 chr2A 80.374 107 14 4 2968 3070 717574126 717574023 3.850000e-09 75.0
68 TraesCS1D01G078800 chr2A 83.607 61 8 2 2390 2449 37261237 37261178 1.000000e-03 56.5
69 TraesCS1D01G078800 chr4A 95.187 187 7 2 3556 3742 420020576 420020392 2.710000e-75 294.0
70 TraesCS1D01G078800 chr4A 93.000 200 11 3 3546 3742 283419903 283420102 1.260000e-73 289.0
71 TraesCS1D01G078800 chr4A 83.333 66 7 3 2418 2480 724577550 724577614 3.880000e-04 58.4
72 TraesCS1D01G078800 chr4A 86.000 50 6 1 2398 2446 345965418 345965467 1.800000e-02 52.8
73 TraesCS1D01G078800 chr5A 95.187 187 5 3 3558 3742 464473666 464473850 9.760000e-75 292.0
74 TraesCS1D01G078800 chr5A 93.194 191 9 4 3740 3926 464473700 464473890 2.730000e-70 278.0
75 TraesCS1D01G078800 chr5A 95.429 175 7 1 3740 3913 664552859 664553033 2.730000e-70 278.0
76 TraesCS1D01G078800 chr5A 90.860 186 13 4 3718 3901 536448716 536448533 7.710000e-61 246.0
77 TraesCS1D01G078800 chr5A 86.000 50 6 1 2398 2446 546408850 546408899 1.800000e-02 52.8
78 TraesCS1D01G078800 chr5B 92.929 198 9 5 3546 3742 267758013 267758206 5.870000e-72 283.0
79 TraesCS1D01G078800 chr5B 89.820 167 16 1 6177 6342 478484541 478484375 7.820000e-51 213.0
80 TraesCS1D01G078800 chr5B 80.233 172 23 9 9764 9934 46549064 46548903 1.750000e-22 119.0
81 TraesCS1D01G078800 chr5B 80.233 172 23 9 9764 9934 427836217 427836056 1.750000e-22 119.0
82 TraesCS1D01G078800 chr5B 79.651 172 24 9 9764 9934 497237187 497237026 8.150000e-21 113.0
83 TraesCS1D01G078800 chr4B 91.707 205 16 1 3539 3742 255382994 255383198 5.870000e-72 283.0
84 TraesCS1D01G078800 chr4B 97.024 168 5 0 3740 3907 344467440 344467273 5.870000e-72 283.0
85 TraesCS1D01G078800 chr4B 88.950 181 19 1 6174 6353 553252856 553252676 1.300000e-53 222.0
86 TraesCS1D01G078800 chr4B 80.808 198 26 9 2633 2827 54029446 54029634 2.890000e-30 145.0
87 TraesCS1D01G078800 chr4B 79.695 197 30 9 2633 2827 581291072 581291260 6.260000e-27 134.0
88 TraesCS1D01G078800 chr4B 79.167 168 26 7 2635 2799 49751814 49751975 3.790000e-19 108.0
89 TraesCS1D01G078800 chr4B 82.524 103 11 7 8354 8450 19727502 19727401 6.390000e-12 84.2
90 TraesCS1D01G078800 chr4B 84.906 53 7 1 2398 2449 224893025 224892973 1.800000e-02 52.8
91 TraesCS1D01G078800 chr3B 95.906 171 7 0 3740 3910 394754748 394754918 2.730000e-70 278.0
92 TraesCS1D01G078800 chr3B 93.370 181 10 2 3725 3904 91430885 91431064 5.920000e-67 267.0
93 TraesCS1D01G078800 chr3B 92.442 172 12 1 6171 6342 42630814 42630984 2.770000e-60 244.0
94 TraesCS1D01G078800 chr3B 82.383 193 27 5 9717 9907 710596261 710596448 2.870000e-35 161.0
95 TraesCS1D01G078800 chr3B 79.386 228 41 5 9708 9934 179200594 179200816 1.340000e-33 156.0
96 TraesCS1D01G078800 chr3B 80.303 198 32 5 9712 9907 711066653 711066461 1.040000e-29 143.0
97 TraesCS1D01G078800 chr3B 77.674 215 41 5 9712 9924 710933046 710932837 3.770000e-24 124.0
98 TraesCS1D01G078800 chr3B 85.882 85 12 0 8369 8453 157247177 157247093 3.820000e-14 91.6
99 TraesCS1D01G078800 chr7A 95.266 169 8 0 3740 3908 271626666 271626498 1.640000e-67 268.0
100 TraesCS1D01G078800 chr7A 92.513 187 12 2 3725 3910 645084272 645084457 5.920000e-67 267.0
101 TraesCS1D01G078800 chr7A 78.443 167 31 5 6528 6692 73807901 73808064 4.910000e-18 104.0
102 TraesCS1D01G078800 chr7A 92.157 51 4 0 2186 2236 106243113 106243063 1.380000e-08 73.1
103 TraesCS1D01G078800 chr3D 91.848 184 13 2 3725 3907 536878624 536878806 1.280000e-63 255.0
104 TraesCS1D01G078800 chr3D 93.413 167 11 0 6176 6342 426451859 426452025 2.140000e-61 248.0
105 TraesCS1D01G078800 chr3D 91.111 180 14 2 6171 6349 71517672 71517850 9.970000e-60 243.0
106 TraesCS1D01G078800 chr3D 90.857 175 12 3 6171 6342 25132931 25133104 2.160000e-56 231.0
107 TraesCS1D01G078800 chr3D 84.127 63 7 3 2390 2450 497512262 497512201 3.880000e-04 58.4
108 TraesCS1D01G078800 chr3A 91.099 191 14 3 3718 3907 361622490 361622678 1.280000e-63 255.0
109 TraesCS1D01G078800 chr3A 93.023 172 11 1 6171 6342 34532445 34532615 5.960000e-62 250.0
110 TraesCS1D01G078800 chr3A 76.803 319 68 5 331 647 102230385 102230071 3.690000e-39 174.0
111 TraesCS1D01G078800 chr3A 78.756 193 34 5 9708 9898 672591005 672591192 1.350000e-23 122.0
112 TraesCS1D01G078800 chr3A 79.348 92 9 10 2398 2484 661658362 661658276 1.000000e-03 56.5
113 TraesCS1D01G078800 chr6A 92.727 165 12 0 3740 3904 163132136 163131972 1.290000e-58 239.0
114 TraesCS1D01G078800 chr6A 78.571 196 35 7 6528 6720 64259322 64259513 1.350000e-23 122.0
115 TraesCS1D01G078800 chr6A 88.406 69 8 0 8374 8442 14350993 14351061 6.390000e-12 84.2
116 TraesCS1D01G078800 chr6A 84.091 88 12 2 8351 8438 605337449 605337364 6.390000e-12 84.2
117 TraesCS1D01G078800 chr2D 76.559 465 83 21 2626 3078 317590793 317590343 2.160000e-56 231.0
118 TraesCS1D01G078800 chr2D 89.474 171 15 1 6176 6343 12567072 12567242 7.820000e-51 213.0
119 TraesCS1D01G078800 chr2D 91.011 89 8 0 8366 8454 249879539 249879451 4.870000e-23 121.0
120 TraesCS1D01G078800 chr2D 80.137 146 23 5 9790 9934 61340365 61340225 4.910000e-18 104.0
121 TraesCS1D01G078800 chr2D 89.333 75 8 0 8374 8448 175825105 175825031 2.950000e-15 95.3
122 TraesCS1D01G078800 chr7D 90.643 171 15 1 6172 6342 494749781 494749950 1.000000e-54 226.0
123 TraesCS1D01G078800 chr7D 78.979 333 61 7 256 584 154595415 154595088 1.680000e-52 219.0
124 TraesCS1D01G078800 chr7D 79.710 207 31 6 9713 9915 485314330 485314529 1.350000e-28 139.0
125 TraesCS1D01G078800 chr7D 78.238 193 34 8 6533 6723 66825329 66825143 6.300000e-22 117.0
126 TraesCS1D01G078800 chr7D 84.706 85 13 0 8369 8453 401536687 401536771 1.780000e-12 86.1
127 TraesCS1D01G078800 chr5D 90.964 166 15 0 6177 6342 93062263 93062098 3.610000e-54 224.0
128 TraesCS1D01G078800 chr5D 89.222 167 17 1 6176 6342 498719008 498718843 3.640000e-49 207.0
129 TraesCS1D01G078800 chr5D 77.126 341 58 16 315 647 507164763 507165091 7.930000e-41 180.0
130 TraesCS1D01G078800 chr5D 73.057 579 93 39 2638 3189 335221864 335221322 8.040000e-31 147.0
131 TraesCS1D01G078800 chr5D 86.726 113 11 4 2182 2293 442206503 442206612 1.350000e-23 122.0
132 TraesCS1D01G078800 chr5D 83.478 115 14 5 2626 2737 173751988 173752100 1.770000e-17 102.0
133 TraesCS1D01G078800 chr5D 77.401 177 31 8 2633 2807 14120155 14120324 8.210000e-16 97.1
134 TraesCS1D01G078800 chr5D 89.231 65 7 0 8374 8438 115410290 115410354 2.300000e-11 82.4
135 TraesCS1D01G078800 chr5D 84.706 85 9 3 8360 8443 319256429 319256348 2.300000e-11 82.4
136 TraesCS1D01G078800 chr5D 88.406 69 7 1 8374 8442 541908721 541908788 2.300000e-11 82.4
137 TraesCS1D01G078800 chr4D 88.398 181 20 1 6174 6353 443728443 443728263 6.040000e-52 217.0
138 TraesCS1D01G078800 chr4D 86.857 175 20 3 6172 6343 293386045 293386219 1.020000e-44 193.0
139 TraesCS1D01G078800 chr4D 83.240 179 24 6 2633 2807 37041893 37042069 1.030000e-34 159.0
140 TraesCS1D01G078800 chr4D 80.588 170 24 7 2633 2799 34704146 34704309 1.350000e-23 122.0
141 TraesCS1D01G078800 chr4D 81.553 103 12 7 8354 8450 10243425 10243324 2.970000e-10 78.7
142 TraesCS1D01G078800 chr4D 97.619 42 1 0 8369 8410 507683367 507683408 1.380000e-08 73.1
143 TraesCS1D01G078800 chr4D 82.500 80 14 0 8375 8454 482160667 482160746 4.980000e-08 71.3
144 TraesCS1D01G078800 chrUn 85.955 178 21 4 6175 6351 48495524 48495350 4.740000e-43 187.0
145 TraesCS1D01G078800 chrUn 85.955 178 21 4 6175 6351 235110847 235110673 4.740000e-43 187.0
146 TraesCS1D01G078800 chrUn 85.955 178 21 4 6175 6351 386426510 386426336 4.740000e-43 187.0
147 TraesCS1D01G078800 chrUn 86.747 166 21 1 6176 6340 75470690 75470855 6.130000e-42 183.0
148 TraesCS1D01G078800 chrUn 86.391 169 22 1 6176 6343 112608420 112608252 6.130000e-42 183.0
149 TraesCS1D01G078800 chrUn 85.965 171 22 2 6175 6344 237212710 237212879 2.200000e-41 182.0
150 TraesCS1D01G078800 chrUn 86.145 166 22 1 6176 6340 10129707 10129542 2.850000e-40 178.0
151 TraesCS1D01G078800 chrUn 83.648 159 24 2 6176 6333 306320427 306320584 2.240000e-31 148.0
152 TraesCS1D01G078800 chrUn 83.648 159 24 2 6176 6333 358359622 358359779 2.240000e-31 148.0
153 TraesCS1D01G078800 chrUn 74.780 341 71 13 317 647 68820943 68821278 1.350000e-28 139.0
154 TraesCS1D01G078800 chrUn 84.348 115 14 4 2622 2735 19232859 19232970 1.050000e-19 110.0
155 TraesCS1D01G078800 chrUn 90.000 60 5 1 8379 8438 288819387 288819329 1.070000e-09 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 TraesCS1D01G078800 chr1D 60403582 60413515 9933 True 18345.0 18345 100.0000 1 9934 1 chr1D.!!$R2 9933
1 TraesCS1D01G078800 chr1A 59130213 59138925 8712 True 4288.0 8451 92.7060 829 9934 3 chr1A.!!$R3 9105
2 TraesCS1D01G078800 chr1B 97365924 97379500 13576 False 1438.1 3631 95.3976 1 9934 10 chr1B.!!$F5 9933

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
609 619 0.178932 TAGTCAGGAGCTGGTGTGGT 60.179 55.000 0.00 0.00 31.51 4.16 F
649 659 0.178990 AGCCCACCACTTTGTCTTCC 60.179 55.000 0.00 0.00 0.00 3.46 F
1050 2085 0.458025 GATGGTTCTCGTCCGACACC 60.458 60.000 0.00 6.42 0.00 4.16 F
1277 2312 0.618968 CCCTCACCCTACCTGCTTCT 60.619 60.000 0.00 0.00 0.00 2.85 F
1280 2315 2.183679 CTCACCCTACCTGCTTCTTCT 58.816 52.381 0.00 0.00 0.00 2.85 F
3148 6726 2.590575 CTGCCGGACACCAACGTT 60.591 61.111 5.05 0.00 0.00 3.99 F
3784 7362 0.036164 CCATGAGGTCACGGGTTCAA 59.964 55.000 0.00 0.00 0.00 2.69 F
3788 7366 0.320508 GAGGTCACGGGTTCAAGTCC 60.321 60.000 0.00 0.00 0.00 3.85 F
3796 7374 0.476771 GGGTTCAAGTCCTGGGAACA 59.523 55.000 13.25 0.00 41.98 3.18 F
3897 7475 1.077930 AGCTACATGCACCAGGCTG 60.078 57.895 7.75 7.75 45.94 4.85 F
3899 7477 2.045045 TACATGCACCAGGCTGCC 60.045 61.111 11.65 11.65 45.15 4.85 F
3905 7483 2.510551 GCACCAGGCTGCCCTTTTT 61.511 57.895 16.57 0.00 40.33 1.94 F
6184 9883 3.835978 TCGGTCTCCAAATAAAGGACAGA 59.164 43.478 0.00 0.00 0.00 3.41 F
6531 10232 0.616395 TCCTAGATGCGGTGGTGGAA 60.616 55.000 0.00 0.00 0.00 3.53 F
6857 10559 1.595311 ACCTATCCAATGCCCTCACA 58.405 50.000 0.00 0.00 0.00 3.58 F
8723 12800 2.289195 ACCTGCTTGCACAATTTCCATG 60.289 45.455 0.00 0.00 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2355 5830 0.480252 GGATGGAGGGCTTTAGGCAT 59.520 55.000 5.63 0.0 44.01 4.40 R
2613 6089 5.535753 AGGATAAAATACTTGGCCATTGC 57.464 39.130 6.09 0.0 0.00 3.56 R
2703 6181 0.548031 CCACATATGGGCAGGAGTGT 59.452 55.000 7.80 0.0 43.04 3.55 R
3209 6787 1.484653 TCACTAGCATAATGCCCGTGT 59.515 47.619 0.59 0.0 46.52 4.49 R
3315 6893 6.465894 GCCACAGAGGGTCCACTAATATTTAT 60.466 42.308 0.00 0.0 38.09 1.40 R
4835 8479 3.008704 GCACCTAAACCAAGTAGGAAGGA 59.991 47.826 4.52 0.0 40.67 3.36 R
5744 9389 2.093500 ACGCAAGGAGCACATAAGATGA 60.093 45.455 0.00 0.0 46.13 2.92 R
6147 9846 4.585162 GGAGACCGAATCTATTCCTCAAGA 59.415 45.833 8.66 0.0 38.00 3.02 R
6150 9849 3.910989 TGGAGACCGAATCTATTCCTCA 58.089 45.455 8.66 0.0 38.00 3.86 R
6183 9882 0.035915 GGAGCTTCTGGAACTGGGTC 60.036 60.000 0.00 0.0 0.00 4.46 R
6185 9884 0.401738 TTGGAGCTTCTGGAACTGGG 59.598 55.000 0.00 0.0 0.00 4.45 R
6186 9885 1.202806 TGTTGGAGCTTCTGGAACTGG 60.203 52.381 0.00 0.0 0.00 4.00 R
7740 11527 1.544691 GCAGAAGGTAGACGGTGAAGA 59.455 52.381 0.00 0.0 0.00 2.87 R
8229 12144 1.615392 CCTGCCACTTTCCTTTCCAAG 59.385 52.381 0.00 0.0 0.00 3.61 R
8923 13010 1.024271 GCACAGCAGTCAGTTTTCCA 58.976 50.000 0.00 0.0 0.00 3.53 R
9614 13731 2.184565 AGGGATAGGGGCCTCTTTGATA 59.815 50.000 12.52 0.0 0.00 2.15 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
40 41 8.168725 AGAAACATTTATCATATGAGGCCATCT 58.831 33.333 11.78 4.75 34.31 2.90
42 43 8.716674 AACATTTATCATATGAGGCCATCTTT 57.283 30.769 11.78 0.00 34.31 2.52
56 57 4.050852 CCATCTTTGAGGCTTAATTGGC 57.949 45.455 0.00 0.00 0.00 4.52
108 109 6.246163 AGTACTTTAAGCATAGTTTTGGCCT 58.754 36.000 3.32 0.00 0.00 5.19
113 114 4.953940 AAGCATAGTTTTGGCCTTTGAA 57.046 36.364 3.32 0.00 0.00 2.69
120 121 5.813513 AGTTTTGGCCTTTGAAATGAGAT 57.186 34.783 3.32 0.00 0.00 2.75
123 124 2.368439 TGGCCTTTGAAATGAGATCGG 58.632 47.619 3.32 0.00 0.00 4.18
150 151 3.674138 CGATGGCCCAAACTTCAAAGATG 60.674 47.826 0.00 0.00 0.00 2.90
153 154 3.454082 TGGCCCAAACTTCAAAGATGTTT 59.546 39.130 0.00 5.51 39.40 2.83
157 158 6.223120 GCCCAAACTTCAAAGATGTTTATGT 58.777 36.000 9.68 0.00 37.66 2.29
161 162 7.323656 CCAAACTTCAAAGATGTTTATGTCGAC 59.676 37.037 9.11 9.11 37.66 4.20
167 168 7.671827 TCAAAGATGTTTATGTCGACAATACG 58.328 34.615 24.13 7.09 0.00 3.06
173 174 7.410800 TGTTTATGTCGACAATACGAAACTT 57.589 32.000 24.13 4.15 43.75 2.66
176 177 8.824779 GTTTATGTCGACAATACGAAACTTTTC 58.175 33.333 24.13 3.03 43.75 2.29
177 178 5.333046 TGTCGACAATACGAAACTTTTCC 57.667 39.130 17.62 0.00 43.75 3.13
178 179 4.084952 TGTCGACAATACGAAACTTTTCCG 60.085 41.667 17.62 0.00 43.75 4.30
180 181 4.084952 TCGACAATACGAAACTTTTCCGTG 60.085 41.667 0.00 0.84 39.34 4.94
228 229 9.140286 GCCATCTTAATTAAGTTTTTGACCTTC 57.860 33.333 21.69 1.17 34.93 3.46
243 244 3.049912 GACCTTCGCAAAATTTGGTGTC 58.950 45.455 7.89 4.12 0.00 3.67
259 260 1.052617 TGTCAACACGATGAGGGGAA 58.947 50.000 0.00 0.00 0.00 3.97
270 271 1.355718 TGAGGGGAAGGGGATGATGC 61.356 60.000 0.00 0.00 0.00 3.91
328 329 1.156736 CATCCCTTAAATAGCCGCGG 58.843 55.000 24.05 24.05 0.00 6.46
374 375 4.759096 GCTTCAACGCGGCGCAAT 62.759 61.111 32.61 16.81 0.00 3.56
389 390 1.001815 CGCAATGGTCGAAGTTGGTTT 60.002 47.619 7.51 0.00 0.00 3.27
392 393 3.609409 GCAATGGTCGAAGTTGGTTTCTC 60.609 47.826 7.51 0.00 0.00 2.87
397 398 1.145803 CGAAGTTGGTTTCTCGGGAC 58.854 55.000 0.00 0.00 0.00 4.46
398 399 1.539496 CGAAGTTGGTTTCTCGGGACA 60.539 52.381 0.00 0.00 0.00 4.02
416 417 1.393539 ACACGACGTATGCATTGAAGC 59.606 47.619 3.54 0.00 0.00 3.86
423 424 4.061949 TGCATTGAAGCAGCGACA 57.938 50.000 0.00 0.00 40.11 4.35
425 426 1.165284 TGCATTGAAGCAGCGACACA 61.165 50.000 0.00 0.00 40.11 3.72
440 441 0.818445 ACACACGAGAGGTCACGTCT 60.818 55.000 0.00 0.00 40.95 4.18
446 447 1.240256 GAGAGGTCACGTCTGTCTGT 58.760 55.000 4.32 0.00 0.00 3.41
470 471 0.949105 CCCTTCCGTCCAGTCAAACG 60.949 60.000 0.00 0.00 38.58 3.60
474 484 3.411351 CGTCCAGTCAAACGGCGG 61.411 66.667 13.24 0.00 35.32 6.13
493 503 0.729116 GGCATCAATGTCGTCCACTG 59.271 55.000 0.00 0.00 0.00 3.66
500 510 0.321919 ATGTCGTCCACTGCATGCTT 60.322 50.000 20.33 2.49 0.00 3.91
508 518 0.242825 CACTGCATGCTTTGGACCAG 59.757 55.000 20.33 7.56 0.00 4.00
517 527 1.547372 GCTTTGGACCAGCATGAATGT 59.453 47.619 0.00 0.00 39.69 2.71
524 534 1.138036 CAGCATGAATGTGGTGCGG 59.862 57.895 0.00 0.00 43.37 5.69
554 564 3.052036 GCATGTGTTTGATGAAAAGCGT 58.948 40.909 0.00 0.00 0.00 5.07
567 577 0.905337 AAAGCGTGGGAGAGGCTAGT 60.905 55.000 0.00 0.00 45.18 2.57
585 595 3.515602 AGTGAGATTTTTGAGTGGGCT 57.484 42.857 0.00 0.00 0.00 5.19
588 598 3.691609 GTGAGATTTTTGAGTGGGCTAGG 59.308 47.826 0.00 0.00 0.00 3.02
589 599 3.282885 GAGATTTTTGAGTGGGCTAGGG 58.717 50.000 0.00 0.00 0.00 3.53
604 614 1.008403 TAGGGTAGTCAGGAGCTGGT 58.992 55.000 0.00 0.00 31.51 4.00
609 619 0.178932 TAGTCAGGAGCTGGTGTGGT 60.179 55.000 0.00 0.00 31.51 4.16
612 622 0.904865 TCAGGAGCTGGTGTGGTAGG 60.905 60.000 0.00 0.00 31.51 3.18
618 628 2.605295 TGGTGTGGTAGGGGTCCG 60.605 66.667 0.00 0.00 0.00 4.79
619 629 3.396570 GGTGTGGTAGGGGTCCGG 61.397 72.222 0.00 0.00 0.00 5.14
620 630 3.396570 GTGTGGTAGGGGTCCGGG 61.397 72.222 0.00 0.00 0.00 5.73
626 636 3.352748 TAGGGGTCCGGGCTCTCA 61.353 66.667 5.57 0.00 0.00 3.27
631 641 1.376037 GGTCCGGGCTCTCACAAAG 60.376 63.158 5.77 0.00 0.00 2.77
649 659 0.178990 AGCCCACCACTTTGTCTTCC 60.179 55.000 0.00 0.00 0.00 3.46
650 660 1.179174 GCCCACCACTTTGTCTTCCC 61.179 60.000 0.00 0.00 0.00 3.97
655 665 3.244911 CCACCACTTTGTCTTCCCTATGT 60.245 47.826 0.00 0.00 0.00 2.29
670 680 5.481105 TCCCTATGTCGAAATTAACACGTT 58.519 37.500 0.00 0.00 0.00 3.99
671 681 5.349270 TCCCTATGTCGAAATTAACACGTTG 59.651 40.000 0.00 0.00 0.00 4.10
681 691 3.367992 TTAACACGTTGAGACCGCTTA 57.632 42.857 0.00 0.00 0.00 3.09
682 692 2.450609 AACACGTTGAGACCGCTTAT 57.549 45.000 0.00 0.00 0.00 1.73
684 694 1.271379 ACACGTTGAGACCGCTTATCA 59.729 47.619 0.00 0.00 0.00 2.15
697 707 3.191581 CCGCTTATCAGACCGATACAGAT 59.808 47.826 0.00 0.00 36.29 2.90
700 710 4.673061 GCTTATCAGACCGATACAGATCCG 60.673 50.000 0.00 0.00 36.29 4.18
702 712 3.480505 TCAGACCGATACAGATCCGTA 57.519 47.619 0.00 0.00 0.00 4.02
752 1751 2.911928 TGGGACAGTTTGCGGTCA 59.088 55.556 0.00 0.00 40.75 4.02
826 1831 8.620116 TTCATTTGATGTGAGTGTCAGATTTA 57.380 30.769 0.00 0.00 29.83 1.40
1050 2085 0.458025 GATGGTTCTCGTCCGACACC 60.458 60.000 0.00 6.42 0.00 4.16
1271 2306 2.369001 GCTCCCCTCACCCTACCT 59.631 66.667 0.00 0.00 0.00 3.08
1273 2308 2.040606 TCCCCTCACCCTACCTGC 59.959 66.667 0.00 0.00 0.00 4.85
1277 2312 0.618968 CCCTCACCCTACCTGCTTCT 60.619 60.000 0.00 0.00 0.00 2.85
1280 2315 2.183679 CTCACCCTACCTGCTTCTTCT 58.816 52.381 0.00 0.00 0.00 2.85
1283 2318 3.008049 TCACCCTACCTGCTTCTTCTTTC 59.992 47.826 0.00 0.00 0.00 2.62
1463 2689 5.071250 TCCCTATGTTTGTGTCTACACTGTT 59.929 40.000 13.95 0.00 46.55 3.16
1506 2742 3.782046 GCCAGACGCTTCAGAAATAGTA 58.218 45.455 0.00 0.00 0.00 1.82
1519 2755 7.561021 TCAGAAATAGTACTAGCTGAGACAG 57.439 40.000 20.34 0.00 34.12 3.51
1533 2769 6.471146 AGCTGAGACAGATTAAATCAGTGTT 58.529 36.000 2.81 0.00 39.63 3.32
1540 2776 9.778741 AGACAGATTAAATCAGTGTTTGTTCTA 57.221 29.630 0.00 0.00 0.00 2.10
1683 3611 3.008594 TGTTTGATTCCTCCCGCTTAAGA 59.991 43.478 6.67 0.00 0.00 2.10
1688 3616 5.261216 TGATTCCTCCCGCTTAAGAAATTT 58.739 37.500 6.67 0.00 0.00 1.82
2129 5603 6.106673 CACCCAGTTGTAGTGTCCTAATAAG 58.893 44.000 0.00 0.00 0.00 1.73
2130 5604 5.783875 ACCCAGTTGTAGTGTCCTAATAAGT 59.216 40.000 0.00 0.00 0.00 2.24
2131 5605 6.955851 ACCCAGTTGTAGTGTCCTAATAAGTA 59.044 38.462 0.00 0.00 0.00 2.24
2132 5606 7.455638 ACCCAGTTGTAGTGTCCTAATAAGTAA 59.544 37.037 0.00 0.00 0.00 2.24
2133 5607 8.483758 CCCAGTTGTAGTGTCCTAATAAGTAAT 58.516 37.037 0.00 0.00 0.00 1.89
2163 5637 5.124776 AGGATTTCTCTACAAGTCTGACTCG 59.875 44.000 11.31 1.83 0.00 4.18
2273 5747 7.562135 AGATTTGCCATGCTTAAAAATCTGAT 58.438 30.769 13.71 0.00 42.84 2.90
2613 6089 6.037610 GTGGCTGATTGATCAACCTTTACTAG 59.962 42.308 11.07 0.00 42.22 2.57
2742 6309 4.762251 GTGGACTAGCAACCTTCAAAAGAT 59.238 41.667 0.00 0.00 0.00 2.40
2819 6397 8.813643 ATAAATATGCTACGGACTACTTTCAC 57.186 34.615 0.00 0.00 0.00 3.18
3148 6726 2.590575 CTGCCGGACACCAACGTT 60.591 61.111 5.05 0.00 0.00 3.99
3624 7202 0.321919 GCTGCCTTGTGACCATGAGA 60.322 55.000 0.00 0.00 0.00 3.27
3670 7248 4.162320 CAGCCTCTTACAGAAATGTAGGGA 59.838 45.833 0.00 0.00 0.00 4.20
3705 7283 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
3706 7284 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
3707 7285 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
3708 7286 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
3709 7287 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
3710 7288 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
3711 7289 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
3712 7290 2.606826 GTGGTCGGACCCTTCCCT 60.607 66.667 23.81 0.00 38.99 4.20
3713 7291 2.606519 TGGTCGGACCCTTCCCTG 60.607 66.667 23.81 0.00 38.99 4.45
3714 7292 3.400054 GGTCGGACCCTTCCCTGG 61.400 72.222 16.55 0.00 38.99 4.45
3715 7293 2.284405 GTCGGACCCTTCCCTGGA 60.284 66.667 0.00 0.00 38.99 3.86
3716 7294 2.284405 TCGGACCCTTCCCTGGAC 60.284 66.667 0.00 0.00 38.99 4.02
3717 7295 3.400054 CGGACCCTTCCCTGGACC 61.400 72.222 0.00 0.00 38.99 4.46
3718 7296 3.015753 GGACCCTTCCCTGGACCC 61.016 72.222 0.00 0.00 35.57 4.46
3719 7297 2.125225 GACCCTTCCCTGGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
3720 7298 2.204151 ACCCTTCCCTGGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
3721 7299 3.732849 CCCTTCCCTGGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
3722 7300 4.101448 CCTTCCCTGGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
3723 7301 4.785453 CTTCCCTGGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
3744 7322 4.115279 CGGGAGCTACATGCAGTG 57.885 61.111 0.00 0.00 45.94 3.66
3745 7323 1.522355 CGGGAGCTACATGCAGTGG 60.522 63.158 0.00 0.00 45.94 4.00
3746 7324 1.604378 GGGAGCTACATGCAGTGGT 59.396 57.895 0.00 0.00 45.94 4.16
3747 7325 0.830648 GGGAGCTACATGCAGTGGTA 59.169 55.000 0.00 0.00 45.94 3.25
3748 7326 1.209504 GGGAGCTACATGCAGTGGTAA 59.790 52.381 0.00 0.00 45.94 2.85
3749 7327 2.355716 GGGAGCTACATGCAGTGGTAAA 60.356 50.000 0.00 0.00 45.94 2.01
3750 7328 2.939103 GGAGCTACATGCAGTGGTAAAG 59.061 50.000 0.00 0.00 45.94 1.85
3751 7329 3.600388 GAGCTACATGCAGTGGTAAAGT 58.400 45.455 0.00 0.00 45.94 2.66
3752 7330 4.003648 GAGCTACATGCAGTGGTAAAGTT 58.996 43.478 0.00 0.00 45.94 2.66
3753 7331 3.753272 AGCTACATGCAGTGGTAAAGTTG 59.247 43.478 0.00 0.00 45.94 3.16
3754 7332 3.670627 GCTACATGCAGTGGTAAAGTTGC 60.671 47.826 0.00 0.00 42.31 4.17
3755 7333 2.586425 ACATGCAGTGGTAAAGTTGCT 58.414 42.857 0.00 0.00 37.45 3.91
3756 7334 2.294233 ACATGCAGTGGTAAAGTTGCTG 59.706 45.455 0.00 0.00 37.45 4.41
3757 7335 3.479255 GCAGTGGTAAAGTTGCTGC 57.521 52.632 0.00 0.00 44.24 5.25
3758 7336 0.954452 GCAGTGGTAAAGTTGCTGCT 59.046 50.000 0.00 0.00 46.20 4.24
3759 7337 1.338020 GCAGTGGTAAAGTTGCTGCTT 59.662 47.619 0.00 0.00 46.20 3.91
3760 7338 2.223805 GCAGTGGTAAAGTTGCTGCTTT 60.224 45.455 0.00 10.09 46.20 3.51
3761 7339 3.374745 CAGTGGTAAAGTTGCTGCTTTG 58.625 45.455 13.66 0.00 38.89 2.77
3762 7340 3.023832 AGTGGTAAAGTTGCTGCTTTGT 58.976 40.909 13.66 0.00 38.89 2.83
3763 7341 3.115554 GTGGTAAAGTTGCTGCTTTGTG 58.884 45.455 13.66 0.00 38.89 3.33
3764 7342 3.020274 TGGTAAAGTTGCTGCTTTGTGA 58.980 40.909 13.66 0.00 38.89 3.58
3765 7343 3.181491 TGGTAAAGTTGCTGCTTTGTGAC 60.181 43.478 13.66 6.45 38.89 3.67
3766 7344 2.584492 AAAGTTGCTGCTTTGTGACC 57.416 45.000 0.00 0.00 37.31 4.02
3767 7345 1.473258 AAGTTGCTGCTTTGTGACCA 58.527 45.000 0.00 0.00 0.00 4.02
3768 7346 1.696063 AGTTGCTGCTTTGTGACCAT 58.304 45.000 0.00 0.00 0.00 3.55
3769 7347 1.338973 AGTTGCTGCTTTGTGACCATG 59.661 47.619 0.00 0.00 0.00 3.66
3770 7348 1.337703 GTTGCTGCTTTGTGACCATGA 59.662 47.619 0.00 0.00 0.00 3.07
3771 7349 1.241165 TGCTGCTTTGTGACCATGAG 58.759 50.000 0.00 0.00 0.00 2.90
3772 7350 0.524862 GCTGCTTTGTGACCATGAGG 59.475 55.000 0.00 0.00 42.21 3.86
3782 7360 4.617875 CCATGAGGTCACGGGTTC 57.382 61.111 0.00 0.00 0.00 3.62
3783 7361 1.676968 CCATGAGGTCACGGGTTCA 59.323 57.895 0.00 0.00 0.00 3.18
3784 7362 0.036164 CCATGAGGTCACGGGTTCAA 59.964 55.000 0.00 0.00 0.00 2.69
3785 7363 1.442769 CATGAGGTCACGGGTTCAAG 58.557 55.000 0.00 0.00 0.00 3.02
3786 7364 1.056660 ATGAGGTCACGGGTTCAAGT 58.943 50.000 0.00 0.00 0.00 3.16
3787 7365 0.391597 TGAGGTCACGGGTTCAAGTC 59.608 55.000 0.00 0.00 0.00 3.01
3788 7366 0.320508 GAGGTCACGGGTTCAAGTCC 60.321 60.000 0.00 0.00 0.00 3.85
3789 7367 0.763223 AGGTCACGGGTTCAAGTCCT 60.763 55.000 0.00 0.00 0.00 3.85
3790 7368 0.602905 GGTCACGGGTTCAAGTCCTG 60.603 60.000 0.00 0.00 37.36 3.86
3791 7369 0.602905 GTCACGGGTTCAAGTCCTGG 60.603 60.000 0.00 0.00 35.79 4.45
3792 7370 1.302511 CACGGGTTCAAGTCCTGGG 60.303 63.158 0.00 0.00 35.79 4.45
3793 7371 1.460689 ACGGGTTCAAGTCCTGGGA 60.461 57.895 0.00 0.00 35.79 4.37
3794 7372 1.057851 ACGGGTTCAAGTCCTGGGAA 61.058 55.000 0.00 0.00 35.79 3.97
3795 7373 0.605589 CGGGTTCAAGTCCTGGGAAC 60.606 60.000 5.34 5.34 40.04 3.62
3796 7374 0.476771 GGGTTCAAGTCCTGGGAACA 59.523 55.000 13.25 0.00 41.98 3.18
3808 7386 2.024176 TGGGAACAGCCTCTTACAGA 57.976 50.000 0.00 0.00 36.66 3.41
3809 7387 2.334977 TGGGAACAGCCTCTTACAGAA 58.665 47.619 0.00 0.00 36.66 3.02
3810 7388 2.708861 TGGGAACAGCCTCTTACAGAAA 59.291 45.455 0.00 0.00 36.66 2.52
3811 7389 3.330701 TGGGAACAGCCTCTTACAGAAAT 59.669 43.478 0.00 0.00 36.66 2.17
3812 7390 3.691609 GGGAACAGCCTCTTACAGAAATG 59.308 47.826 0.00 0.00 36.66 2.32
3813 7391 4.327680 GGAACAGCCTCTTACAGAAATGT 58.672 43.478 0.00 0.00 0.00 2.71
3814 7392 5.488341 GGAACAGCCTCTTACAGAAATGTA 58.512 41.667 0.00 0.00 0.00 2.29
3815 7393 5.582665 GGAACAGCCTCTTACAGAAATGTAG 59.417 44.000 0.00 0.00 0.00 2.74
3816 7394 5.091261 ACAGCCTCTTACAGAAATGTAGG 57.909 43.478 0.00 0.00 0.00 3.18
3817 7395 4.080863 ACAGCCTCTTACAGAAATGTAGGG 60.081 45.833 0.00 0.66 0.00 3.53
3818 7396 4.162320 CAGCCTCTTACAGAAATGTAGGGA 59.838 45.833 0.00 0.00 0.00 4.20
3819 7397 4.783227 AGCCTCTTACAGAAATGTAGGGAA 59.217 41.667 0.00 0.00 0.00 3.97
3820 7398 5.250774 AGCCTCTTACAGAAATGTAGGGAAA 59.749 40.000 0.00 0.00 0.00 3.13
3821 7399 5.586643 GCCTCTTACAGAAATGTAGGGAAAG 59.413 44.000 0.00 0.00 0.00 2.62
3822 7400 6.576442 GCCTCTTACAGAAATGTAGGGAAAGA 60.576 42.308 0.00 0.00 0.00 2.52
3823 7401 6.819146 CCTCTTACAGAAATGTAGGGAAAGAC 59.181 42.308 0.00 0.00 0.00 3.01
3824 7402 7.310734 CCTCTTACAGAAATGTAGGGAAAGACT 60.311 40.741 0.00 0.00 0.00 3.24
3825 7403 7.386851 TCTTACAGAAATGTAGGGAAAGACTG 58.613 38.462 0.00 0.00 0.00 3.51
3826 7404 4.327680 ACAGAAATGTAGGGAAAGACTGC 58.672 43.478 0.00 0.00 0.00 4.40
3827 7405 3.372206 CAGAAATGTAGGGAAAGACTGCG 59.628 47.826 0.00 0.00 0.00 5.18
3828 7406 3.008049 AGAAATGTAGGGAAAGACTGCGT 59.992 43.478 0.00 0.00 0.00 5.24
3829 7407 4.222145 AGAAATGTAGGGAAAGACTGCGTA 59.778 41.667 0.00 0.00 0.00 4.42
3830 7408 3.521947 ATGTAGGGAAAGACTGCGTAC 57.478 47.619 0.00 0.00 37.28 3.67
3831 7409 2.241160 TGTAGGGAAAGACTGCGTACA 58.759 47.619 0.00 0.00 42.31 2.90
3832 7410 2.629137 TGTAGGGAAAGACTGCGTACAA 59.371 45.455 0.00 0.00 41.82 2.41
3833 7411 3.259876 TGTAGGGAAAGACTGCGTACAAT 59.740 43.478 0.00 0.00 41.82 2.71
3834 7412 4.463539 TGTAGGGAAAGACTGCGTACAATA 59.536 41.667 0.00 0.00 41.82 1.90
3835 7413 4.124851 AGGGAAAGACTGCGTACAATAG 57.875 45.455 0.00 0.00 0.00 1.73
3836 7414 3.767673 AGGGAAAGACTGCGTACAATAGA 59.232 43.478 0.00 0.00 0.00 1.98
3837 7415 3.864003 GGGAAAGACTGCGTACAATAGAC 59.136 47.826 0.00 0.00 0.00 2.59
3838 7416 3.864003 GGAAAGACTGCGTACAATAGACC 59.136 47.826 0.00 0.00 0.00 3.85
3839 7417 3.521947 AAGACTGCGTACAATAGACCC 57.478 47.619 0.00 0.00 0.00 4.46
3840 7418 2.453521 AGACTGCGTACAATAGACCCA 58.546 47.619 0.00 0.00 0.00 4.51
3841 7419 2.829720 AGACTGCGTACAATAGACCCAA 59.170 45.455 0.00 0.00 0.00 4.12
3842 7420 3.259876 AGACTGCGTACAATAGACCCAAA 59.740 43.478 0.00 0.00 0.00 3.28
3843 7421 3.596214 ACTGCGTACAATAGACCCAAAG 58.404 45.455 0.00 0.00 0.00 2.77
3844 7422 3.007614 ACTGCGTACAATAGACCCAAAGT 59.992 43.478 0.00 0.00 0.00 2.66
3845 7423 3.331150 TGCGTACAATAGACCCAAAGTG 58.669 45.455 0.00 0.00 0.00 3.16
3846 7424 2.676342 GCGTACAATAGACCCAAAGTGG 59.324 50.000 0.00 0.00 37.25 4.00
3847 7425 3.867216 GCGTACAATAGACCCAAAGTGGT 60.867 47.826 0.00 0.00 42.79 4.16
3852 7430 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
3895 7473 3.819188 GAGCTACATGCACCAGGC 58.181 61.111 0.00 0.00 45.94 4.85
3896 7474 1.222936 GAGCTACATGCACCAGGCT 59.777 57.895 5.89 5.89 45.94 4.58
3897 7475 1.077930 AGCTACATGCACCAGGCTG 60.078 57.895 7.75 7.75 45.94 4.85
3898 7476 2.768492 GCTACATGCACCAGGCTGC 61.768 63.158 9.56 0.00 45.15 5.25
3899 7477 2.045045 TACATGCACCAGGCTGCC 60.045 61.111 11.65 11.65 45.15 4.85
3900 7478 3.643595 TACATGCACCAGGCTGCCC 62.644 63.158 16.57 0.00 45.15 5.36
3901 7479 4.753662 CATGCACCAGGCTGCCCT 62.754 66.667 16.57 0.00 45.15 5.19
3902 7480 3.988678 ATGCACCAGGCTGCCCTT 61.989 61.111 16.57 0.00 45.15 3.95
3903 7481 3.534704 ATGCACCAGGCTGCCCTTT 62.535 57.895 16.57 0.00 45.15 3.11
3904 7482 2.919328 GCACCAGGCTGCCCTTTT 60.919 61.111 16.57 0.00 40.33 2.27
3905 7483 2.510551 GCACCAGGCTGCCCTTTTT 61.511 57.895 16.57 0.00 40.33 1.94
3964 7542 9.299963 CAACATGTTTCTTCACAAGTTAATCAA 57.700 29.630 8.77 0.00 36.65 2.57
4498 8139 4.698780 CCCCACTTCATGCTATATGTGATG 59.301 45.833 0.00 0.00 0.00 3.07
4978 8622 5.036737 GGTGAATGTGCTATGTATTTGTGC 58.963 41.667 0.00 0.00 0.00 4.57
5013 8657 7.693969 ACTTGAATATTACTGCTTTTGAGCT 57.306 32.000 0.00 0.00 35.49 4.09
5296 8940 5.521735 CAGAAGCTGGCACTTATGTACTTAG 59.478 44.000 12.97 0.00 34.83 2.18
5689 9334 3.943381 CTCAGCTTGCATTGATGGTAAGA 59.057 43.478 5.80 0.00 30.66 2.10
5694 9339 4.096833 GCTTGCATTGATGGTAAGATCACA 59.903 41.667 0.00 0.00 31.92 3.58
5728 9373 9.956720 TGTTTAAAGTAGTACAGTAGTCAACTC 57.043 33.333 2.52 0.00 35.76 3.01
5744 9389 6.719301 AGTCAACTCCTGATCATGATTTCTT 58.281 36.000 10.14 0.00 36.14 2.52
6139 9838 6.484818 AAAACTTTGGTCATATGCATTTGC 57.515 33.333 3.54 3.86 42.50 3.68
6168 9867 6.546428 TTTCTTGAGGAATAGATTCGGTCT 57.454 37.500 0.00 0.00 41.11 3.85
6169 9868 5.776173 TCTTGAGGAATAGATTCGGTCTC 57.224 43.478 0.00 0.00 38.42 3.36
6170 9869 4.585162 TCTTGAGGAATAGATTCGGTCTCC 59.415 45.833 0.00 0.00 38.42 3.71
6171 9870 3.910989 TGAGGAATAGATTCGGTCTCCA 58.089 45.455 0.00 0.00 38.42 3.86
6172 9871 4.286707 TGAGGAATAGATTCGGTCTCCAA 58.713 43.478 0.00 0.00 38.42 3.53
6173 9872 4.714802 TGAGGAATAGATTCGGTCTCCAAA 59.285 41.667 0.00 0.00 38.42 3.28
6174 9873 5.366768 TGAGGAATAGATTCGGTCTCCAAAT 59.633 40.000 0.00 0.00 38.42 2.32
6175 9874 6.553476 TGAGGAATAGATTCGGTCTCCAAATA 59.447 38.462 0.00 0.00 38.42 1.40
6176 9875 7.070696 TGAGGAATAGATTCGGTCTCCAAATAA 59.929 37.037 0.00 0.00 38.42 1.40
6177 9876 7.802117 AGGAATAGATTCGGTCTCCAAATAAA 58.198 34.615 0.00 0.00 38.42 1.40
6178 9877 7.934120 AGGAATAGATTCGGTCTCCAAATAAAG 59.066 37.037 0.00 0.00 38.42 1.85
6179 9878 7.173390 GGAATAGATTCGGTCTCCAAATAAAGG 59.827 40.741 0.00 0.00 38.42 3.11
6180 9879 5.693769 AGATTCGGTCTCCAAATAAAGGA 57.306 39.130 0.00 0.00 28.45 3.36
6181 9880 5.429130 AGATTCGGTCTCCAAATAAAGGAC 58.571 41.667 0.00 0.00 28.45 3.85
6182 9881 4.627284 TTCGGTCTCCAAATAAAGGACA 57.373 40.909 0.00 0.00 0.00 4.02
6183 9882 4.202245 TCGGTCTCCAAATAAAGGACAG 57.798 45.455 0.00 0.00 0.00 3.51
6184 9883 3.835978 TCGGTCTCCAAATAAAGGACAGA 59.164 43.478 0.00 0.00 0.00 3.41
6185 9884 3.933332 CGGTCTCCAAATAAAGGACAGAC 59.067 47.826 0.00 0.00 32.48 3.51
6186 9885 4.262617 GGTCTCCAAATAAAGGACAGACC 58.737 47.826 0.00 0.00 40.86 3.85
6187 9886 4.262617 GTCTCCAAATAAAGGACAGACCC 58.737 47.826 0.00 0.00 40.05 4.46
6188 9887 3.913799 TCTCCAAATAAAGGACAGACCCA 59.086 43.478 0.00 0.00 40.05 4.51
6531 10232 0.616395 TCCTAGATGCGGTGGTGGAA 60.616 55.000 0.00 0.00 0.00 3.53
6618 10319 2.644151 AGAACATAGGTTGGGGAAGGT 58.356 47.619 0.00 0.00 37.36 3.50
6779 10481 5.262804 ACCGTGACTCTATCTTCCTAGTTT 58.737 41.667 0.00 0.00 0.00 2.66
6807 10509 9.892130 ATTGGACTGTTCCTAATTTAACTAGAG 57.108 33.333 0.00 0.00 43.31 2.43
6857 10559 1.595311 ACCTATCCAATGCCCTCACA 58.405 50.000 0.00 0.00 0.00 3.58
6937 10723 5.142806 ACTTGGCATATATGGGGTTTTCT 57.857 39.130 14.51 0.00 0.00 2.52
7033 10819 5.770162 CCACAAACTGTCCCTCTATTTTCTT 59.230 40.000 0.00 0.00 0.00 2.52
7046 10832 8.619546 CCCTCTATTTTCTTGAATGATCAACTC 58.380 37.037 0.00 0.00 40.59 3.01
7316 11102 9.979270 CAATTTATCAGTGACAACTATCAGTTC 57.021 33.333 0.00 0.00 36.03 3.01
7469 11255 6.442112 ACTGCTTCTAGAAGTTTTCATTTGC 58.558 36.000 28.72 14.72 40.45 3.68
8243 12158 8.768501 AGTATTTCTTTCTTGGAAAGGAAAGT 57.231 30.769 15.02 5.51 41.86 2.66
8554 12631 6.929049 TGATACTCAGAACATCTCAAAACGTT 59.071 34.615 0.00 0.00 0.00 3.99
8686 12763 8.677148 ACAATTTATTAGTACTTGATGCCGAT 57.323 30.769 0.00 0.00 0.00 4.18
8690 12767 8.500753 TTTATTAGTACTTGATGCCGATGTTT 57.499 30.769 0.00 0.00 0.00 2.83
8723 12800 2.289195 ACCTGCTTGCACAATTTCCATG 60.289 45.455 0.00 0.00 0.00 3.66
8923 13010 1.275066 GCGCGATACTCGAGTACGT 59.725 57.895 30.08 18.97 43.74 3.57
9006 13093 9.866238 TACTACTCAGTCATACCTGCACAAGGA 62.866 44.444 0.00 0.00 41.50 3.36
9039 13126 1.200252 CTGACCTCGAACGAGTGATGT 59.800 52.381 20.09 12.07 40.44 3.06
9243 13355 6.750039 ACAGTTACAAACTTGCAATGTGTTAC 59.250 34.615 13.21 13.64 40.46 2.50
9272 13384 2.099921 TGGCGCTCAACTATCTCTCTTC 59.900 50.000 7.64 0.00 0.00 2.87
9337 13449 7.062138 GTCGTGGTTATTACGTGTCAGAATTTA 59.938 37.037 0.00 0.00 41.91 1.40
9425 13537 9.799106 ATGCTACTTATAGTATTTGCCTCATTT 57.201 29.630 0.00 0.00 30.18 2.32
9475 13592 7.840931 AGATTTCAGTGGATTGTAAAATTCCC 58.159 34.615 0.00 0.00 0.00 3.97
9481 13598 6.152661 CAGTGGATTGTAAAATTCCCTTGCTA 59.847 38.462 0.00 0.00 0.00 3.49
9649 13767 4.073293 CTATCCCTTTTGATAGGCGTGT 57.927 45.455 0.00 0.00 40.26 4.49
9665 13783 2.097629 GCGTGTCATCTAGCAGTGAGTA 59.902 50.000 0.00 0.00 0.00 2.59
9852 13970 2.366266 CCCTATTTGCATGTGGAATGGG 59.634 50.000 4.01 4.01 32.89 4.00
9863 13981 5.069516 GCATGTGGAATGGGAAGATAAACAT 59.930 40.000 0.00 0.00 0.00 2.71
9885 14003 2.971330 CAATCAGATCCCTAGTCTGGCT 59.029 50.000 8.53 0.00 42.58 4.75
9918 14036 9.702494 CTAGCTCATGTATTGTTGATGATTCTA 57.298 33.333 0.00 0.00 0.00 2.10
9931 14049 9.527157 TGTTGATGATTCTATTTTCCTAAACCA 57.473 29.630 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 4.810033 GCCTCAAAGATGGCCTCATATGAT 60.810 45.833 5.72 0.00 43.11 2.45
56 57 8.504005 AGTTTTTGTATTCAGAGTATTGTTCGG 58.496 33.333 0.00 0.00 0.00 4.30
102 103 2.754552 CCGATCTCATTTCAAAGGCCAA 59.245 45.455 5.01 0.00 0.00 4.52
103 104 2.026356 TCCGATCTCATTTCAAAGGCCA 60.026 45.455 5.01 0.00 0.00 5.36
108 109 2.613595 CGCCATCCGATCTCATTTCAAA 59.386 45.455 0.00 0.00 40.02 2.69
150 151 8.703823 AAAAGTTTCGTATTGTCGACATAAAC 57.296 30.769 20.80 20.97 39.58 2.01
153 154 6.183360 CGGAAAAGTTTCGTATTGTCGACATA 60.183 38.462 20.80 10.84 39.58 2.29
157 158 4.050553 ACGGAAAAGTTTCGTATTGTCGA 58.949 39.130 0.87 0.00 38.06 4.20
161 162 6.456447 TCTACACGGAAAAGTTTCGTATTG 57.544 37.500 2.44 0.00 38.06 1.90
180 181 5.295540 GGCTTCAAATGGAGAAGTGATCTAC 59.704 44.000 0.00 0.00 43.36 2.59
228 229 2.035009 CGTGTTGACACCAAATTTTGCG 60.035 45.455 8.56 0.10 43.66 4.85
243 244 0.392998 CCCTTCCCCTCATCGTGTTG 60.393 60.000 0.00 0.00 0.00 3.33
249 250 1.353694 CATCATCCCCTTCCCCTCATC 59.646 57.143 0.00 0.00 0.00 2.92
250 251 1.453633 CATCATCCCCTTCCCCTCAT 58.546 55.000 0.00 0.00 0.00 2.90
288 289 2.202388 CGGCGATGCACAAAGCTG 60.202 61.111 0.00 0.00 45.94 4.24
307 308 0.517316 GCGGCTATTTAAGGGATGCG 59.483 55.000 0.00 0.00 0.00 4.73
311 312 0.105408 GACCGCGGCTATTTAAGGGA 59.895 55.000 28.58 0.00 0.00 4.20
313 314 1.217882 CTGACCGCGGCTATTTAAGG 58.782 55.000 28.58 0.00 0.00 2.69
328 329 4.785453 CCCTTCGCCTGGCCTGAC 62.785 72.222 14.12 0.00 0.00 3.51
374 375 1.539496 CCGAGAAACCAACTTCGACCA 60.539 52.381 0.00 0.00 0.00 4.02
377 378 1.042229 TCCCGAGAAACCAACTTCGA 58.958 50.000 0.00 0.00 0.00 3.71
378 379 1.145803 GTCCCGAGAAACCAACTTCG 58.854 55.000 0.00 0.00 0.00 3.79
392 393 0.804544 AATGCATACGTCGTGTCCCG 60.805 55.000 8.47 0.00 38.13 5.14
397 398 1.393196 TGCTTCAATGCATACGTCGTG 59.607 47.619 8.47 0.00 38.12 4.35
398 399 1.660607 CTGCTTCAATGCATACGTCGT 59.339 47.619 0.00 2.21 42.48 4.34
416 417 1.442857 GACCTCTCGTGTGTCGCTG 60.443 63.158 0.00 0.00 39.67 5.18
423 424 0.818445 ACAGACGTGACCTCTCGTGT 60.818 55.000 7.11 0.79 44.60 4.49
425 426 0.250381 AGACAGACGTGACCTCTCGT 60.250 55.000 0.00 2.22 46.77 4.18
440 441 4.329545 GGAAGGGCGGCACAGACA 62.330 66.667 12.47 0.00 0.00 3.41
462 463 2.746277 GATGCCCGCCGTTTGACT 60.746 61.111 0.00 0.00 0.00 3.41
470 471 2.823829 GACGACATTGATGCCCGCC 61.824 63.158 0.00 0.00 32.74 6.13
474 484 0.729116 CAGTGGACGACATTGATGCC 59.271 55.000 0.00 0.00 38.97 4.40
493 503 3.368822 TGCTGGTCCAAAGCATGC 58.631 55.556 10.51 10.51 45.50 4.06
500 510 1.203038 ACCACATTCATGCTGGTCCAA 60.203 47.619 0.00 0.00 37.52 3.53
508 518 2.202650 GCCGCACCACATTCATGC 60.203 61.111 0.00 0.00 35.96 4.06
531 541 3.121261 CGCTTTTCATCAAACACATGCAC 60.121 43.478 0.00 0.00 0.00 4.57
535 545 3.552684 CCCACGCTTTTCATCAAACACAT 60.553 43.478 0.00 0.00 0.00 3.21
536 546 2.223688 CCCACGCTTTTCATCAAACACA 60.224 45.455 0.00 0.00 0.00 3.72
538 548 2.293122 CTCCCACGCTTTTCATCAAACA 59.707 45.455 0.00 0.00 0.00 2.83
539 549 2.552315 TCTCCCACGCTTTTCATCAAAC 59.448 45.455 0.00 0.00 0.00 2.93
554 564 2.856760 AATCTCACTAGCCTCTCCCA 57.143 50.000 0.00 0.00 0.00 4.37
564 574 4.640771 AGCCCACTCAAAAATCTCACTA 57.359 40.909 0.00 0.00 0.00 2.74
567 577 3.308402 CCCTAGCCCACTCAAAAATCTCA 60.308 47.826 0.00 0.00 0.00 3.27
585 595 1.008403 ACCAGCTCCTGACTACCCTA 58.992 55.000 0.00 0.00 32.44 3.53
588 598 0.247736 CACACCAGCTCCTGACTACC 59.752 60.000 0.00 0.00 32.44 3.18
589 599 0.247736 CCACACCAGCTCCTGACTAC 59.752 60.000 0.00 0.00 32.44 2.73
609 619 3.352748 TGAGAGCCCGGACCCCTA 61.353 66.667 0.73 0.00 0.00 3.53
612 622 2.804828 CTTTGTGAGAGCCCGGACCC 62.805 65.000 0.73 0.00 0.00 4.46
620 630 1.228245 TGGTGGGCTTTGTGAGAGC 60.228 57.895 0.00 0.00 39.41 4.09
622 632 0.550914 AAGTGGTGGGCTTTGTGAGA 59.449 50.000 0.00 0.00 0.00 3.27
631 641 1.179174 GGGAAGACAAAGTGGTGGGC 61.179 60.000 0.00 0.00 0.00 5.36
636 646 3.056107 TCGACATAGGGAAGACAAAGTGG 60.056 47.826 0.00 0.00 0.00 4.00
649 659 6.309494 TCTCAACGTGTTAATTTCGACATAGG 59.691 38.462 0.00 0.00 0.00 2.57
650 660 7.164858 GTCTCAACGTGTTAATTTCGACATAG 58.835 38.462 0.00 0.00 0.00 2.23
655 665 3.426191 CGGTCTCAACGTGTTAATTTCGA 59.574 43.478 0.00 0.00 0.00 3.71
670 680 0.738975 CGGTCTGATAAGCGGTCTCA 59.261 55.000 0.00 0.00 36.55 3.27
671 681 1.022735 TCGGTCTGATAAGCGGTCTC 58.977 55.000 0.00 0.00 40.39 3.36
681 691 2.865079 ACGGATCTGTATCGGTCTGAT 58.135 47.619 5.05 0.00 40.54 2.90
682 692 2.343484 ACGGATCTGTATCGGTCTGA 57.657 50.000 5.05 0.00 40.54 3.27
684 694 3.506455 CCAATACGGATCTGTATCGGTCT 59.494 47.826 24.24 8.53 42.71 3.85
700 710 3.603857 GCGCGTGTTGTATCATCCAATAC 60.604 47.826 8.43 0.00 32.53 1.89
702 712 1.330521 GCGCGTGTTGTATCATCCAAT 59.669 47.619 8.43 0.00 0.00 3.16
732 1731 1.280710 TGACCGCAAACTGTCCCATAT 59.719 47.619 0.00 0.00 0.00 1.78
743 1742 0.452184 TTTTCAACGCTGACCGCAAA 59.548 45.000 0.00 0.00 41.76 3.68
744 1743 0.665835 ATTTTCAACGCTGACCGCAA 59.334 45.000 0.00 0.00 41.76 4.85
750 1749 1.327303 AAGGGCATTTTCAACGCTGA 58.673 45.000 0.00 0.00 0.00 4.26
752 1751 2.514803 ACTAAGGGCATTTTCAACGCT 58.485 42.857 0.00 0.00 0.00 5.07
759 1759 8.644374 TGTAAATCAGTTACTAAGGGCATTTT 57.356 30.769 0.00 0.00 42.36 1.82
796 1801 7.118245 TCTGACACTCACATCAAATGAATACAC 59.882 37.037 0.00 0.00 0.00 2.90
797 1802 7.160726 TCTGACACTCACATCAAATGAATACA 58.839 34.615 0.00 0.00 0.00 2.29
849 1854 6.519761 CGGTTCATCAGTTCATTTACGAAAAG 59.480 38.462 0.00 0.00 0.00 2.27
1029 2064 1.872679 GTCGGACGAGAACCATCGC 60.873 63.158 0.00 0.00 46.60 4.58
1271 2306 3.329386 CGATGTCAGGAAAGAAGAAGCA 58.671 45.455 0.00 0.00 0.00 3.91
1273 2308 3.329386 TGCGATGTCAGGAAAGAAGAAG 58.671 45.455 0.00 0.00 0.00 2.85
1277 2312 3.411446 ACATTGCGATGTCAGGAAAGAA 58.589 40.909 14.16 0.00 42.83 2.52
1280 2315 4.155826 CCTTTACATTGCGATGTCAGGAAA 59.844 41.667 27.61 19.60 42.83 3.13
1283 2318 3.270027 TCCTTTACATTGCGATGTCAGG 58.730 45.455 26.53 26.53 42.83 3.86
1351 2386 1.024579 CGTTCAGCCCCGTAGCAAAT 61.025 55.000 0.00 0.00 34.23 2.32
1463 2689 7.619050 TGGCTTTGAATTAATGGCTTTGATTA 58.381 30.769 3.59 0.00 39.05 1.75
1504 2740 8.410141 ACTGATTTAATCTGTCTCAGCTAGTAC 58.590 37.037 10.92 0.00 36.88 2.73
1506 2742 7.093552 ACACTGATTTAATCTGTCTCAGCTAGT 60.094 37.037 13.30 4.98 39.09 2.57
1533 2769 5.529430 TGGTTTCGCAAAGAGAATAGAACAA 59.471 36.000 0.00 0.00 0.00 2.83
1540 2776 3.499918 CAGACTGGTTTCGCAAAGAGAAT 59.500 43.478 0.00 0.00 0.00 2.40
1634 2871 7.493320 TCTGGTGTAAAACATTATACCGACATC 59.507 37.037 9.13 0.00 40.32 3.06
1648 2885 6.981722 AGGAATCAAACATCTGGTGTAAAAC 58.018 36.000 0.00 0.00 41.14 2.43
1830 5292 7.860872 CCTACATGTAAAAGAAAAACCTGTCAC 59.139 37.037 7.06 0.00 0.00 3.67
2134 5608 9.660180 GTCAGACTTGTAGAGAAATCCTTATTT 57.340 33.333 0.00 0.00 38.03 1.40
2135 5609 9.041354 AGTCAGACTTGTAGAGAAATCCTTATT 57.959 33.333 0.00 0.00 0.00 1.40
2154 5628 5.447818 CCATGCTTAAAAATCCGAGTCAGAC 60.448 44.000 0.00 0.00 0.00 3.51
2163 5637 6.778108 CAAGATTTGCCATGCTTAAAAATCC 58.222 36.000 0.00 0.00 37.76 3.01
2297 5771 7.254932 GGACAGCTCGCTCAATCTTATTTATTT 60.255 37.037 0.00 0.00 0.00 1.40
2355 5830 0.480252 GGATGGAGGGCTTTAGGCAT 59.520 55.000 5.63 0.00 44.01 4.40
2613 6089 5.535753 AGGATAAAATACTTGGCCATTGC 57.464 39.130 6.09 0.00 0.00 3.56
2703 6181 0.548031 CCACATATGGGCAGGAGTGT 59.452 55.000 7.80 0.00 43.04 3.55
2819 6397 2.526304 TTTTCAGGTGGAGTCTCACG 57.474 50.000 1.47 0.00 38.46 4.35
2990 6568 8.767085 ACATTTTGAATGTTGAAACACATGATC 58.233 29.630 0.00 0.00 42.51 2.92
3083 6661 2.750814 AGCAAAAATACCATGAGGGGG 58.249 47.619 0.00 0.00 42.91 5.40
3148 6726 2.823154 CCGGCTTAGGAATCACCAAAAA 59.177 45.455 0.00 0.00 42.04 1.94
3209 6787 1.484653 TCACTAGCATAATGCCCGTGT 59.515 47.619 0.59 0.00 46.52 4.49
3315 6893 6.465894 GCCACAGAGGGTCCACTAATATTTAT 60.466 42.308 0.00 0.00 38.09 1.40
3608 7186 2.012673 GTGATCTCATGGTCACAAGGC 58.987 52.381 16.65 0.00 43.20 4.35
3624 7202 0.324943 CCAGGACTTGAACCCGTGAT 59.675 55.000 0.00 0.00 0.00 3.06
3670 7248 2.629051 GGTCTATTGTACGCAGCCTTT 58.371 47.619 0.00 0.00 0.00 3.11
3705 7283 4.101448 CGCAGGGTCCAGGGAAGG 62.101 72.222 0.00 0.00 0.00 3.46
3706 7284 4.785453 GCGCAGGGTCCAGGGAAG 62.785 72.222 0.30 0.00 0.00 3.46
3718 7296 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
3721 7299 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
3722 7300 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
3723 7301 1.434622 CTGCATGTAGCTCCCGCTTG 61.435 60.000 0.00 0.00 46.47 4.01
3724 7302 1.153289 CTGCATGTAGCTCCCGCTT 60.153 57.895 0.00 0.00 46.47 4.68
3726 7304 2.176273 CACTGCATGTAGCTCCCGC 61.176 63.158 11.09 0.00 45.94 6.13
3727 7305 1.522355 CCACTGCATGTAGCTCCCG 60.522 63.158 11.09 0.00 45.94 5.14
3728 7306 0.830648 TACCACTGCATGTAGCTCCC 59.169 55.000 11.09 0.00 45.94 4.30
3729 7307 2.691409 TTACCACTGCATGTAGCTCC 57.309 50.000 11.09 0.00 45.94 4.70
3730 7308 3.600388 ACTTTACCACTGCATGTAGCTC 58.400 45.455 11.09 0.00 45.94 4.09
3731 7309 3.703001 ACTTTACCACTGCATGTAGCT 57.297 42.857 11.09 0.00 45.94 3.32
3732 7310 3.670627 GCAACTTTACCACTGCATGTAGC 60.671 47.826 11.09 0.00 45.96 3.58
3733 7311 3.753272 AGCAACTTTACCACTGCATGTAG 59.247 43.478 9.50 9.50 37.26 2.74
3734 7312 3.501828 CAGCAACTTTACCACTGCATGTA 59.498 43.478 0.00 0.00 37.26 2.29
3735 7313 2.294233 CAGCAACTTTACCACTGCATGT 59.706 45.455 0.00 0.00 37.26 3.21
3736 7314 2.937591 CAGCAACTTTACCACTGCATG 58.062 47.619 0.00 0.00 37.26 4.06
3739 7317 3.479255 GCAGCAACTTTACCACTGC 57.521 52.632 0.00 0.00 45.95 4.40
3740 7318 3.181487 ACAAAGCAGCAACTTTACCACTG 60.181 43.478 3.93 0.00 37.78 3.66
3741 7319 3.023832 ACAAAGCAGCAACTTTACCACT 58.976 40.909 3.93 0.00 37.78 4.00
3742 7320 3.115554 CACAAAGCAGCAACTTTACCAC 58.884 45.455 3.93 0.00 37.78 4.16
3743 7321 3.020274 TCACAAAGCAGCAACTTTACCA 58.980 40.909 3.93 0.00 37.78 3.25
3744 7322 3.372060 GTCACAAAGCAGCAACTTTACC 58.628 45.455 3.93 0.00 37.78 2.85
3745 7323 3.181491 TGGTCACAAAGCAGCAACTTTAC 60.181 43.478 3.93 0.44 37.78 2.01
3746 7324 3.020274 TGGTCACAAAGCAGCAACTTTA 58.980 40.909 3.93 0.00 37.78 1.85
3747 7325 1.824230 TGGTCACAAAGCAGCAACTTT 59.176 42.857 0.00 0.00 40.49 2.66
3748 7326 1.473258 TGGTCACAAAGCAGCAACTT 58.527 45.000 0.00 0.00 0.00 2.66
3749 7327 1.338973 CATGGTCACAAAGCAGCAACT 59.661 47.619 0.00 0.00 39.11 3.16
3750 7328 1.337703 TCATGGTCACAAAGCAGCAAC 59.662 47.619 0.00 0.00 39.11 4.17
3751 7329 1.610038 CTCATGGTCACAAAGCAGCAA 59.390 47.619 0.00 0.00 39.11 3.91
3752 7330 1.241165 CTCATGGTCACAAAGCAGCA 58.759 50.000 0.00 0.00 39.11 4.41
3753 7331 0.524862 CCTCATGGTCACAAAGCAGC 59.475 55.000 0.00 0.00 39.11 5.25
3754 7332 1.901591 ACCTCATGGTCACAAAGCAG 58.098 50.000 0.00 0.00 44.78 4.24
3766 7344 1.270839 ACTTGAACCCGTGACCTCATG 60.271 52.381 0.00 0.00 0.00 3.07
3767 7345 1.002087 GACTTGAACCCGTGACCTCAT 59.998 52.381 0.00 0.00 0.00 2.90
3768 7346 0.391597 GACTTGAACCCGTGACCTCA 59.608 55.000 0.00 0.00 0.00 3.86
3769 7347 0.320508 GGACTTGAACCCGTGACCTC 60.321 60.000 0.00 0.00 0.00 3.85
3770 7348 0.763223 AGGACTTGAACCCGTGACCT 60.763 55.000 0.00 0.00 0.00 3.85
3771 7349 0.602905 CAGGACTTGAACCCGTGACC 60.603 60.000 0.00 0.00 0.00 4.02
3772 7350 0.602905 CCAGGACTTGAACCCGTGAC 60.603 60.000 0.00 0.00 0.00 3.67
3773 7351 1.752198 CCAGGACTTGAACCCGTGA 59.248 57.895 0.00 0.00 0.00 4.35
3774 7352 1.302511 CCCAGGACTTGAACCCGTG 60.303 63.158 0.00 0.00 0.00 4.94
3775 7353 1.057851 TTCCCAGGACTTGAACCCGT 61.058 55.000 0.00 0.00 0.00 5.28
3776 7354 0.605589 GTTCCCAGGACTTGAACCCG 60.606 60.000 0.00 0.00 33.85 5.28
3777 7355 0.476771 TGTTCCCAGGACTTGAACCC 59.523 55.000 4.40 0.00 38.04 4.11
3778 7356 1.897560 CTGTTCCCAGGACTTGAACC 58.102 55.000 4.40 0.00 38.04 3.62
3779 7357 1.239347 GCTGTTCCCAGGACTTGAAC 58.761 55.000 0.00 0.00 39.22 3.18
3780 7358 0.110486 GGCTGTTCCCAGGACTTGAA 59.890 55.000 0.00 0.00 39.22 2.69
3781 7359 0.768221 AGGCTGTTCCCAGGACTTGA 60.768 55.000 0.00 0.00 39.22 3.02
3782 7360 0.322008 GAGGCTGTTCCCAGGACTTG 60.322 60.000 0.00 0.00 39.22 3.16
3783 7361 0.474660 AGAGGCTGTTCCCAGGACTT 60.475 55.000 0.00 0.00 39.22 3.01
3784 7362 0.474660 AAGAGGCTGTTCCCAGGACT 60.475 55.000 0.00 0.00 39.22 3.85
3785 7363 1.066071 GTAAGAGGCTGTTCCCAGGAC 60.066 57.143 0.00 0.00 39.22 3.85
3786 7364 1.276622 GTAAGAGGCTGTTCCCAGGA 58.723 55.000 0.00 0.00 39.22 3.86
3787 7365 0.984230 TGTAAGAGGCTGTTCCCAGG 59.016 55.000 0.00 0.00 39.22 4.45
3788 7366 1.902508 TCTGTAAGAGGCTGTTCCCAG 59.097 52.381 14.27 14.27 38.67 4.45
3789 7367 2.024176 TCTGTAAGAGGCTGTTCCCA 57.976 50.000 0.00 0.00 38.67 4.37
3800 7378 7.386851 CAGTCTTTCCCTACATTTCTGTAAGA 58.613 38.462 0.00 0.00 44.68 2.10
3801 7379 6.092807 GCAGTCTTTCCCTACATTTCTGTAAG 59.907 42.308 0.00 0.00 37.41 2.34
3802 7380 5.938125 GCAGTCTTTCCCTACATTTCTGTAA 59.062 40.000 0.00 0.00 37.41 2.41
3803 7381 5.488341 GCAGTCTTTCCCTACATTTCTGTA 58.512 41.667 0.00 0.00 36.79 2.74
3804 7382 4.327680 GCAGTCTTTCCCTACATTTCTGT 58.672 43.478 0.00 0.00 39.49 3.41
3805 7383 3.372206 CGCAGTCTTTCCCTACATTTCTG 59.628 47.826 0.00 0.00 0.00 3.02
3806 7384 3.008049 ACGCAGTCTTTCCCTACATTTCT 59.992 43.478 0.00 0.00 29.74 2.52
3807 7385 3.335579 ACGCAGTCTTTCCCTACATTTC 58.664 45.455 0.00 0.00 29.74 2.17
3808 7386 3.418684 ACGCAGTCTTTCCCTACATTT 57.581 42.857 0.00 0.00 29.74 2.32
3809 7387 3.259876 TGTACGCAGTCTTTCCCTACATT 59.740 43.478 0.00 0.00 43.93 2.71
3810 7388 2.829720 TGTACGCAGTCTTTCCCTACAT 59.170 45.455 0.00 0.00 43.93 2.29
3811 7389 2.241160 TGTACGCAGTCTTTCCCTACA 58.759 47.619 0.00 0.00 43.93 2.74
3812 7390 3.308438 TTGTACGCAGTCTTTCCCTAC 57.692 47.619 0.00 0.00 43.93 3.18
3813 7391 4.951715 TCTATTGTACGCAGTCTTTCCCTA 59.048 41.667 0.00 0.00 43.93 3.53
3814 7392 3.767673 TCTATTGTACGCAGTCTTTCCCT 59.232 43.478 0.00 0.00 43.93 4.20
3815 7393 3.864003 GTCTATTGTACGCAGTCTTTCCC 59.136 47.826 0.00 0.00 43.93 3.97
3816 7394 3.864003 GGTCTATTGTACGCAGTCTTTCC 59.136 47.826 0.00 0.00 43.93 3.13
3817 7395 3.864003 GGGTCTATTGTACGCAGTCTTTC 59.136 47.826 0.00 0.00 43.93 2.62
3818 7396 3.259876 TGGGTCTATTGTACGCAGTCTTT 59.740 43.478 0.00 0.00 43.93 2.52
3819 7397 2.829720 TGGGTCTATTGTACGCAGTCTT 59.170 45.455 0.00 0.00 43.93 3.01
3820 7398 2.453521 TGGGTCTATTGTACGCAGTCT 58.546 47.619 0.00 0.00 43.93 3.24
3821 7399 2.953466 TGGGTCTATTGTACGCAGTC 57.047 50.000 0.00 0.00 43.93 3.51
3823 7401 3.370978 CACTTTGGGTCTATTGTACGCAG 59.629 47.826 0.00 0.00 40.36 5.18
3824 7402 3.331150 CACTTTGGGTCTATTGTACGCA 58.669 45.455 0.00 0.00 37.94 5.24
3825 7403 2.676342 CCACTTTGGGTCTATTGTACGC 59.324 50.000 0.00 0.00 32.67 4.42
3826 7404 3.934068 ACCACTTTGGGTCTATTGTACG 58.066 45.455 0.00 0.00 43.37 3.67
3836 7414 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
3837 7415 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
3838 7416 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
3839 7417 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
3840 7418 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
3841 7419 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
3842 7420 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
3843 7421 3.714001 GGGGAAGGGTCCGACCAC 61.714 72.222 19.43 8.70 46.04 4.16
3850 7428 4.735599 AGGGTCCGGGGAAGGGTC 62.736 72.222 0.00 0.00 0.00 4.46
3870 7448 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
3871 7449 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
3903 7481 7.120579 ACGGCAGTACTCAATCATCAATAAAAA 59.879 33.333 0.00 0.00 0.00 1.94
3904 7482 6.597672 ACGGCAGTACTCAATCATCAATAAAA 59.402 34.615 0.00 0.00 0.00 1.52
3905 7483 6.037062 CACGGCAGTACTCAATCATCAATAAA 59.963 38.462 0.00 0.00 0.00 1.40
3906 7484 5.523552 CACGGCAGTACTCAATCATCAATAA 59.476 40.000 0.00 0.00 0.00 1.40
3907 7485 5.049828 CACGGCAGTACTCAATCATCAATA 58.950 41.667 0.00 0.00 0.00 1.90
3908 7486 3.873361 CACGGCAGTACTCAATCATCAAT 59.127 43.478 0.00 0.00 0.00 2.57
3909 7487 3.261580 CACGGCAGTACTCAATCATCAA 58.738 45.455 0.00 0.00 0.00 2.57
3910 7488 2.892374 CACGGCAGTACTCAATCATCA 58.108 47.619 0.00 0.00 0.00 3.07
3911 7489 1.594862 GCACGGCAGTACTCAATCATC 59.405 52.381 0.00 0.00 0.00 2.92
3912 7490 1.066215 TGCACGGCAGTACTCAATCAT 60.066 47.619 0.00 0.00 33.32 2.45
3913 7491 0.320050 TGCACGGCAGTACTCAATCA 59.680 50.000 0.00 0.00 33.32 2.57
3914 7492 0.721718 GTGCACGGCAGTACTCAATC 59.278 55.000 0.00 0.00 40.08 2.67
3915 7493 0.673644 GGTGCACGGCAGTACTCAAT 60.674 55.000 11.45 0.00 40.08 2.57
3916 7494 1.301401 GGTGCACGGCAGTACTCAA 60.301 57.895 11.45 0.00 40.08 3.02
3917 7495 2.342279 GGTGCACGGCAGTACTCA 59.658 61.111 11.45 0.00 40.08 3.41
3918 7496 2.027625 GTGGTGCACGGCAGTACTC 61.028 63.158 11.45 0.00 40.08 2.59
3919 7497 2.030562 GTGGTGCACGGCAGTACT 59.969 61.111 11.45 0.00 40.08 2.73
3920 7498 2.280524 TGTGGTGCACGGCAGTAC 60.281 61.111 11.45 3.67 40.08 2.73
3921 7499 2.280524 GTGTGGTGCACGGCAGTA 60.281 61.111 11.45 0.00 40.08 2.74
4009 7587 3.058777 GGGAGTAGAAGATAACGAGCTCG 60.059 52.174 33.45 33.45 46.33 5.03
4152 7792 7.810759 ACAAAGCCCAATAAAAAGTTGTATACG 59.189 33.333 0.00 0.00 0.00 3.06
4498 8139 7.206687 TGTTAAACCAGTCCAAACATTCAATC 58.793 34.615 0.00 0.00 0.00 2.67
4835 8479 3.008704 GCACCTAAACCAAGTAGGAAGGA 59.991 47.826 4.52 0.00 40.67 3.36
5013 8657 8.491045 AAGAAAATAACAGGGGAATTTCAGAA 57.509 30.769 0.00 0.00 31.06 3.02
5188 8832 3.521126 ACAACATGAGCTATCCCAGAAGT 59.479 43.478 0.00 0.00 0.00 3.01
5602 9247 3.619733 CGACATGAACAATGAGAAGGGGA 60.620 47.826 0.00 0.00 38.72 4.81
5744 9389 2.093500 ACGCAAGGAGCACATAAGATGA 60.093 45.455 0.00 0.00 46.13 2.92
6142 9841 8.875168 AGACCGAATCTATTCCTCAAGAAATAT 58.125 33.333 0.00 0.00 38.21 1.28
6143 9842 8.251383 AGACCGAATCTATTCCTCAAGAAATA 57.749 34.615 0.00 0.00 38.21 1.40
6144 9843 7.130681 AGACCGAATCTATTCCTCAAGAAAT 57.869 36.000 0.00 0.00 38.21 2.17
6145 9844 6.407074 GGAGACCGAATCTATTCCTCAAGAAA 60.407 42.308 8.66 0.00 38.00 2.52
6146 9845 5.069251 GGAGACCGAATCTATTCCTCAAGAA 59.931 44.000 8.66 0.00 38.00 2.52
6147 9846 4.585162 GGAGACCGAATCTATTCCTCAAGA 59.415 45.833 8.66 0.00 38.00 3.02
6148 9847 4.342378 TGGAGACCGAATCTATTCCTCAAG 59.658 45.833 8.66 0.00 38.00 3.02
6149 9848 4.286707 TGGAGACCGAATCTATTCCTCAA 58.713 43.478 8.66 0.00 38.00 3.02
6150 9849 3.910989 TGGAGACCGAATCTATTCCTCA 58.089 45.455 8.66 0.00 38.00 3.86
6151 9850 4.939052 TTGGAGACCGAATCTATTCCTC 57.061 45.455 0.00 0.00 38.00 3.71
6152 9851 5.896073 ATTTGGAGACCGAATCTATTCCT 57.104 39.130 0.00 0.00 38.00 3.36
6153 9852 7.173390 CCTTTATTTGGAGACCGAATCTATTCC 59.827 40.741 6.54 0.00 38.46 3.01
6154 9853 7.931948 TCCTTTATTTGGAGACCGAATCTATTC 59.068 37.037 6.54 0.00 38.46 1.75
6155 9854 7.715686 GTCCTTTATTTGGAGACCGAATCTATT 59.284 37.037 6.54 0.00 38.46 1.73
6156 9855 7.147549 TGTCCTTTATTTGGAGACCGAATCTAT 60.148 37.037 6.54 0.00 38.46 1.98
6157 9856 6.155565 TGTCCTTTATTTGGAGACCGAATCTA 59.844 38.462 6.54 0.00 38.46 1.98
6158 9857 5.045869 TGTCCTTTATTTGGAGACCGAATCT 60.046 40.000 6.54 0.00 38.46 2.40
6159 9858 5.183228 TGTCCTTTATTTGGAGACCGAATC 58.817 41.667 6.54 0.00 38.46 2.52
6160 9859 5.045869 TCTGTCCTTTATTTGGAGACCGAAT 60.046 40.000 8.13 8.13 40.42 3.34
6161 9860 4.285003 TCTGTCCTTTATTTGGAGACCGAA 59.715 41.667 0.00 0.00 33.78 4.30
6162 9861 3.835978 TCTGTCCTTTATTTGGAGACCGA 59.164 43.478 0.00 0.00 33.78 4.69
6163 9862 3.933332 GTCTGTCCTTTATTTGGAGACCG 59.067 47.826 0.00 0.00 33.78 4.79
6164 9863 4.262617 GGTCTGTCCTTTATTTGGAGACC 58.737 47.826 0.00 0.00 39.84 3.85
6165 9864 4.262617 GGGTCTGTCCTTTATTTGGAGAC 58.737 47.826 0.00 0.00 33.78 3.36
6166 9865 3.913799 TGGGTCTGTCCTTTATTTGGAGA 59.086 43.478 0.00 0.00 33.78 3.71
6167 9866 4.263506 ACTGGGTCTGTCCTTTATTTGGAG 60.264 45.833 0.00 0.00 33.78 3.86
6168 9867 3.655777 ACTGGGTCTGTCCTTTATTTGGA 59.344 43.478 0.00 0.00 36.25 3.53
6169 9868 4.034285 ACTGGGTCTGTCCTTTATTTGG 57.966 45.455 0.00 0.00 36.25 3.28
6170 9869 4.459337 GGAACTGGGTCTGTCCTTTATTTG 59.541 45.833 0.00 0.00 36.25 2.32
6171 9870 4.105697 TGGAACTGGGTCTGTCCTTTATTT 59.894 41.667 0.00 0.00 36.25 1.40
6172 9871 3.655777 TGGAACTGGGTCTGTCCTTTATT 59.344 43.478 0.00 0.00 36.25 1.40
6173 9872 3.256704 TGGAACTGGGTCTGTCCTTTAT 58.743 45.455 0.00 0.00 36.25 1.40
6174 9873 2.637872 CTGGAACTGGGTCTGTCCTTTA 59.362 50.000 0.00 0.00 36.25 1.85
6175 9874 1.421646 CTGGAACTGGGTCTGTCCTTT 59.578 52.381 0.00 0.00 36.25 3.11
6176 9875 1.059913 CTGGAACTGGGTCTGTCCTT 58.940 55.000 0.00 0.00 36.25 3.36
6177 9876 0.191064 TCTGGAACTGGGTCTGTCCT 59.809 55.000 0.00 0.00 36.25 3.85
6178 9877 1.002544 CTTCTGGAACTGGGTCTGTCC 59.997 57.143 0.00 0.00 0.00 4.02
6179 9878 1.609320 GCTTCTGGAACTGGGTCTGTC 60.609 57.143 0.00 0.00 0.00 3.51
6180 9879 0.398318 GCTTCTGGAACTGGGTCTGT 59.602 55.000 0.00 0.00 0.00 3.41
6181 9880 0.689623 AGCTTCTGGAACTGGGTCTG 59.310 55.000 0.00 0.00 0.00 3.51
6182 9881 0.980423 GAGCTTCTGGAACTGGGTCT 59.020 55.000 0.00 0.00 0.00 3.85
6183 9882 0.035915 GGAGCTTCTGGAACTGGGTC 60.036 60.000 0.00 0.00 0.00 4.46
6184 9883 0.768221 TGGAGCTTCTGGAACTGGGT 60.768 55.000 0.00 0.00 0.00 4.51
6185 9884 0.401738 TTGGAGCTTCTGGAACTGGG 59.598 55.000 0.00 0.00 0.00 4.45
6186 9885 1.202806 TGTTGGAGCTTCTGGAACTGG 60.203 52.381 0.00 0.00 0.00 4.00
6187 9886 1.876156 GTGTTGGAGCTTCTGGAACTG 59.124 52.381 0.00 0.00 0.00 3.16
6188 9887 1.202818 GGTGTTGGAGCTTCTGGAACT 60.203 52.381 0.00 0.00 0.00 3.01
6408 10109 0.414629 TCCTAGTCCCCCGAAAAGGA 59.585 55.000 0.00 0.00 45.00 3.36
6463 10164 1.891919 GTCTGCACGGCTTCACCAA 60.892 57.895 0.00 0.00 39.03 3.67
6531 10232 4.659115 GGTAGTTACCCAGTTTGTTCCAT 58.341 43.478 0.00 0.00 40.53 3.41
6618 10319 6.158520 TCAATCTGTTATCTCCCTCATTTCCA 59.841 38.462 0.00 0.00 0.00 3.53
6857 10559 3.584848 GGAACAGGACATAGGGCATATCT 59.415 47.826 0.00 0.00 0.00 1.98
7033 10819 5.065235 TGAACTGCTTGAGTTGATCATTCA 58.935 37.500 0.00 0.93 45.48 2.57
7136 10922 6.686378 GCAGACCTCCACAATGACAATCTATA 60.686 42.308 0.00 0.00 0.00 1.31
7252 11038 1.607467 AAGCCATGTCCCTTGCCAC 60.607 57.895 0.00 0.00 0.00 5.01
7316 11102 9.658799 TTTCAGATCCTTAGAACAGTTGAATAG 57.341 33.333 0.00 0.00 0.00 1.73
7469 11255 3.128242 GTCAGCAATCCCAGAGTTTGATG 59.872 47.826 0.00 0.00 41.06 3.07
7740 11527 1.544691 GCAGAAGGTAGACGGTGAAGA 59.455 52.381 0.00 0.00 0.00 2.87
7897 11812 2.774234 AGACCTAATGATGGACACCCTG 59.226 50.000 0.00 0.00 0.00 4.45
8229 12144 1.615392 CCTGCCACTTTCCTTTCCAAG 59.385 52.381 0.00 0.00 0.00 3.61
8279 12194 2.296190 GGGTGTGAATTTGGGTTCTCAC 59.704 50.000 11.33 11.33 45.13 3.51
8281 12358 2.593026 TGGGTGTGAATTTGGGTTCTC 58.407 47.619 0.00 0.00 0.00 2.87
8554 12631 4.338400 CCACGTGTAGATATCTTCACCTGA 59.662 45.833 27.42 4.55 39.96 3.86
8686 12763 2.295909 GCAGGTACAAAGATGCCAAACA 59.704 45.455 0.00 0.00 32.49 2.83
8690 12767 2.161855 CAAGCAGGTACAAAGATGCCA 58.838 47.619 0.00 0.00 39.51 4.92
8923 13010 1.024271 GCACAGCAGTCAGTTTTCCA 58.976 50.000 0.00 0.00 0.00 3.53
9039 13126 6.092955 ACCTGTAATTCTGTTTGACGAGTA 57.907 37.500 0.00 0.00 0.00 2.59
9217 13313 5.101628 ACACATTGCAAGTTTGTAACTGTG 58.898 37.500 17.85 17.85 41.91 3.66
9243 13355 6.870965 AGAGATAGTTGAGCGCCATATAAAAG 59.129 38.462 2.29 0.00 0.00 2.27
9272 13384 1.369930 AAACGCAATCGCAACACCG 60.370 52.632 0.00 0.00 39.84 4.94
9337 13449 2.284847 CCATGCCCCAAGCCCTTT 60.285 61.111 0.00 0.00 42.71 3.11
9475 13592 7.707035 AGATTGAGTTTCGTAGGTAATAGCAAG 59.293 37.037 0.00 0.00 0.00 4.01
9481 13598 7.042335 CCTTCAGATTGAGTTTCGTAGGTAAT 58.958 38.462 0.00 0.00 0.00 1.89
9614 13731 2.184565 AGGGATAGGGGCCTCTTTGATA 59.815 50.000 12.52 0.00 0.00 2.15
9649 13767 5.131067 ACCGTATTACTCACTGCTAGATGA 58.869 41.667 0.00 0.00 0.00 2.92
9665 13783 6.127507 GGAACTAAGTCTCCTACAACCGTATT 60.128 42.308 0.00 0.00 0.00 1.89
9852 13970 9.434420 CTAGGGATCTGATTGATGTTTATCTTC 57.566 37.037 0.00 0.00 35.14 2.87
9863 13981 2.968574 GCCAGACTAGGGATCTGATTGA 59.031 50.000 9.78 0.00 45.46 2.57
9885 14003 8.293699 TCAACAATACATGAGCTAGTCTAGAA 57.706 34.615 11.27 0.00 0.00 2.10


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

AutoCloner maintained by Alex Coulton.