Multiple sequence alignment - TraesCS2B01G548400

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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 TraesCS2B01G548400 chr2B 100.000 6925 0 0 1570 8494 744381577 744388501 0.000000e+00 12789.0
1 TraesCS2B01G548400 chr2B 93.139 2361 96 28 1663 3995 774722233 774719911 0.000000e+00 3402.0
2 TraesCS2B01G548400 chr2B 100.000 1381 0 0 1 1381 744380008 744381388 0.000000e+00 2551.0
3 TraesCS2B01G548400 chr2B 92.526 1338 78 13 6001 7325 774718711 774717383 0.000000e+00 1897.0
4 TraesCS2B01G548400 chr2B 88.267 1500 120 30 6290 7765 774946486 774945019 0.000000e+00 1744.0
5 TraesCS2B01G548400 chr2B 87.182 1139 95 24 2920 4044 774949023 774947922 0.000000e+00 1247.0
6 TraesCS2B01G548400 chr2B 88.913 938 76 14 2004 2926 774949972 774949048 0.000000e+00 1131.0
7 TraesCS2B01G548400 chr2B 92.217 681 39 8 4056 4726 774719887 774719211 0.000000e+00 952.0
8 TraesCS2B01G548400 chr2B 95.635 504 22 0 4941 5444 774719209 774718706 0.000000e+00 809.0
9 TraesCS2B01G548400 chr2B 92.679 560 37 2 5447 6002 57085897 57086456 0.000000e+00 804.0
10 TraesCS2B01G548400 chr2B 93.196 485 18 6 8017 8489 774716549 774716068 0.000000e+00 699.0
11 TraesCS2B01G548400 chr2B 84.424 642 52 17 4096 4726 774947911 774947307 9.500000e-164 588.0
12 TraesCS2B01G548400 chr2B 85.274 584 59 14 6290 6870 720805969 720806528 2.060000e-160 577.0
13 TraesCS2B01G548400 chr2B 89.440 464 36 5 6856 7311 720806677 720807135 2.660000e-159 573.0
14 TraesCS2B01G548400 chr2B 81.910 597 42 27 7962 8494 774944801 774944207 2.180000e-120 444.0
15 TraesCS2B01G548400 chr2B 88.714 381 16 14 7319 7684 774717284 774716916 2.810000e-119 440.0
16 TraesCS2B01G548400 chr2B 79.235 549 62 23 4148 4689 720804108 720804611 1.370000e-87 335.0
17 TraesCS2B01G548400 chr2B 93.056 216 14 1 5135 5349 774947177 774946962 1.780000e-81 315.0
18 TraesCS2B01G548400 chr2B 92.157 204 16 0 3 206 774737086 774736883 1.080000e-73 289.0
19 TraesCS2B01G548400 chr2B 90.698 215 19 1 5136 5349 720805297 720805511 1.400000e-72 285.0
20 TraesCS2B01G548400 chr2B 89.950 199 14 3 917 1115 774723156 774722964 1.420000e-62 252.0
21 TraesCS2B01G548400 chr2B 88.235 204 24 0 3527 3730 720803523 720803726 2.370000e-60 244.0
22 TraesCS2B01G548400 chr2B 84.585 253 23 12 2862 3114 774392830 774392594 3.960000e-58 237.0
23 TraesCS2B01G548400 chr2B 91.549 142 11 1 4929 5070 720805157 720805297 2.420000e-45 195.0
24 TraesCS2B01G548400 chr2B 80.169 237 38 8 6063 6295 403107974 403107743 1.470000e-37 169.0
25 TraesCS2B01G548400 chr2B 94.737 76 4 0 188 263 744380138 744380213 1.500000e-22 119.0
26 TraesCS2B01G548400 chr2B 86.667 105 10 1 639 739 774723522 774723418 6.970000e-21 113.0
27 TraesCS2B01G548400 chr2B 88.298 94 10 1 5358 5451 774946574 774946482 2.510000e-20 111.0
28 TraesCS2B01G548400 chr2B 91.549 71 6 0 7962 8032 774716636 774716566 1.950000e-16 99.0
29 TraesCS2B01G548400 chr2B 95.652 46 0 1 4044 4087 539337598 539337553 1.180000e-08 73.1
30 TraesCS2B01G548400 chr2B 91.837 49 2 1 4044 4090 782154008 782153960 5.500000e-07 67.6
31 TraesCS2B01G548400 chr2B 88.889 45 2 3 747 790 720799123 720799165 1.500000e-02 52.8
32 TraesCS2B01G548400 chr2D 95.472 3180 88 26 1570 4726 631246011 631242865 0.000000e+00 5024.0
33 TraesCS2B01G548400 chr2D 95.000 1960 67 16 6287 8228 631241746 631239800 0.000000e+00 3048.0
34 TraesCS2B01G548400 chr2D 87.114 2491 189 63 1570 3986 631486268 631483836 0.000000e+00 2700.0
35 TraesCS2B01G548400 chr2D 87.637 2103 165 50 1996 4044 631800148 631802209 0.000000e+00 2355.0
36 TraesCS2B01G548400 chr2D 87.525 1499 125 34 6290 7765 631482170 631480711 0.000000e+00 1676.0
37 TraesCS2B01G548400 chr2D 88.456 1412 103 31 6290 7684 631803530 631804898 0.000000e+00 1650.0
38 TraesCS2B01G548400 chr2D 88.323 805 65 16 6290 7091 593802516 593803294 0.000000e+00 939.0
39 TraesCS2B01G548400 chr2D 96.415 530 10 2 4932 5452 631242872 631242343 0.000000e+00 865.0
40 TraesCS2B01G548400 chr2D 93.640 566 31 3 5447 6008 345839398 345838834 0.000000e+00 841.0
41 TraesCS2B01G548400 chr2D 89.238 669 50 16 2532 3196 630948934 630949584 0.000000e+00 817.0
42 TraesCS2B01G548400 chr2D 82.636 789 66 34 639 1381 631247874 631247111 4.330000e-177 632.0
43 TraesCS2B01G548400 chr2D 84.579 642 56 20 4096 4726 631483568 631482959 1.580000e-166 597.0
44 TraesCS2B01G548400 chr2D 91.667 396 23 7 4340 4726 631802415 631802809 2.700000e-149 540.0
45 TraesCS2B01G548400 chr2D 98.264 288 5 0 6001 6288 631242357 631242070 9.840000e-139 505.0
46 TraesCS2B01G548400 chr2D 89.433 388 35 3 2062 2449 631246518 631246137 1.280000e-132 484.0
47 TraesCS2B01G548400 chr2D 84.362 486 31 23 855 1315 631486831 631486366 1.310000e-117 435.0
48 TraesCS2B01G548400 chr2D 91.873 283 18 4 7962 8240 631480493 631480212 2.870000e-104 390.0
49 TraesCS2B01G548400 chr2D 92.308 247 7 7 8259 8494 631239708 631239463 2.940000e-89 340.0
50 TraesCS2B01G548400 chr2D 91.304 230 16 4 5139 5366 631482849 631482622 2.300000e-80 311.0
51 TraesCS2B01G548400 chr2D 81.915 376 50 10 1677 2049 631246923 631246563 1.390000e-77 302.0
52 TraesCS2B01G548400 chr2D 91.262 206 18 0 1 206 631248564 631248359 1.810000e-71 281.0
53 TraesCS2B01G548400 chr2D 84.722 288 21 10 8140 8406 631805415 631805700 5.050000e-67 267.0
54 TraesCS2B01G548400 chr2D 90.863 197 13 4 7962 8154 631805204 631805399 8.460000e-65 259.0
55 TraesCS2B01G548400 chr2D 94.375 160 7 2 199 357 631248423 631248265 2.370000e-60 244.0
56 TraesCS2B01G548400 chr2D 79.832 357 53 14 1 355 651504081 651503742 8.520000e-60 243.0
57 TraesCS2B01G548400 chr2D 89.268 205 1 1 4727 4931 473705917 473705734 3.960000e-58 237.0
58 TraesCS2B01G548400 chr2D 82.353 306 17 13 8221 8494 631480200 631479900 1.840000e-56 231.0
59 TraesCS2B01G548400 chr2D 86.957 207 16 4 7108 7311 593803381 593803579 1.110000e-53 222.0
60 TraesCS2B01G548400 chr2D 81.624 234 24 3 331 545 631248222 631247989 8.760000e-40 176.0
61 TraesCS2B01G548400 chr2D 81.081 222 31 7 6066 6286 512922386 512922175 5.270000e-37 167.0
62 TraesCS2B01G548400 chr2D 89.109 101 10 1 5351 5451 631482265 631482166 3.220000e-24 124.0
63 TraesCS2B01G548400 chr2D 89.109 101 10 1 5351 5451 631803435 631803534 3.220000e-24 124.0
64 TraesCS2B01G548400 chr2D 91.026 78 7 0 4991 5068 593801759 593801836 1.170000e-18 106.0
65 TraesCS2B01G548400 chr2D 81.081 111 13 4 435 545 574927076 574927178 1.970000e-11 82.4
66 TraesCS2B01G548400 chr2A 87.608 1848 138 49 2245 4044 760113752 760115556 0.000000e+00 2060.0
67 TraesCS2B01G548400 chr2A 90.007 1431 91 29 6290 7702 760116994 760118390 0.000000e+00 1803.0
68 TraesCS2B01G548400 chr2A 89.507 934 71 14 2004 2926 759873482 759872565 0.000000e+00 1157.0
69 TraesCS2B01G548400 chr2A 88.939 669 52 13 2532 3196 760303194 760302544 0.000000e+00 806.0
70 TraesCS2B01G548400 chr2A 85.369 704 49 20 1570 2249 760112925 760113598 0.000000e+00 680.0
71 TraesCS2B01G548400 chr2A 85.248 644 57 19 4096 4726 760115567 760116185 5.600000e-176 628.0
72 TraesCS2B01G548400 chr2A 96.405 306 10 1 7740 8045 760118396 760118700 3.540000e-138 503.0
73 TraesCS2B01G548400 chr2A 88.918 379 31 10 3054 3428 759869951 759869580 2.790000e-124 457.0
74 TraesCS2B01G548400 chr2A 82.845 478 32 16 856 1315 760112382 760112827 4.810000e-102 383.0
75 TraesCS2B01G548400 chr2A 92.130 216 15 2 5135 5349 760116315 760116529 3.850000e-78 303.0
76 TraesCS2B01G548400 chr2A 84.536 97 12 2 525 621 480643221 480643314 9.080000e-15 93.5
77 TraesCS2B01G548400 chr2A 90.385 52 1 2 4040 4087 58364001 58364052 1.980000e-06 65.8
78 TraesCS2B01G548400 chr1B 84.600 1013 111 24 6290 7282 34324150 34325137 0.000000e+00 965.0
79 TraesCS2B01G548400 chr1B 85.329 593 75 9 2229 2819 34321082 34321664 3.390000e-168 603.0
80 TraesCS2B01G548400 chr1B 80.684 585 79 15 4148 4726 34322776 34323332 2.830000e-114 424.0
81 TraesCS2B01G548400 chr1B 90.566 212 20 0 5135 5346 34323457 34323668 1.810000e-71 281.0
82 TraesCS2B01G548400 chr1B 82.405 341 30 15 12 346 10412600 10412284 3.910000e-68 270.0
83 TraesCS2B01G548400 chr1B 85.714 161 23 0 3 163 43980592 43980752 4.080000e-38 171.0
84 TraesCS2B01G548400 chr1B 81.915 188 34 0 3 190 43996179 43996366 8.830000e-35 159.0
85 TraesCS2B01G548400 chr1B 79.167 216 27 10 1973 2175 34320854 34321064 5.350000e-27 134.0
86 TraesCS2B01G548400 chr1B 88.312 77 8 1 554 629 664955842 664955766 3.270000e-14 91.6
87 TraesCS2B01G548400 chr1B 90.000 50 3 1 4040 4087 269041466 269041515 7.120000e-06 63.9
88 TraesCS2B01G548400 chr4D 84.735 963 106 20 6341 7282 73386299 73387241 0.000000e+00 926.0
89 TraesCS2B01G548400 chr4D 97.087 206 6 0 4726 4931 7877173 7877378 1.750000e-91 348.0
90 TraesCS2B01G548400 chr4D 90.278 216 20 1 5135 5349 73385594 73385809 1.810000e-71 281.0
91 TraesCS2B01G548400 chr4D 87.179 234 27 3 4495 4726 73385236 73385468 6.540000e-66 263.0
92 TraesCS2B01G548400 chr4D 83.843 229 37 0 3527 3755 73384439 73384667 1.440000e-52 219.0
93 TraesCS2B01G548400 chr4D 85.437 206 20 7 4727 4932 500428660 500428465 1.120000e-48 206.0
94 TraesCS2B01G548400 chr4D 81.604 212 26 4 4148 4347 73384937 73385147 6.820000e-36 163.0
95 TraesCS2B01G548400 chr4D 83.942 137 22 0 3353 3489 73384303 73384439 1.920000e-26 132.0
96 TraesCS2B01G548400 chr1D 84.576 966 107 22 6341 7282 20972358 20973305 0.000000e+00 920.0
97 TraesCS2B01G548400 chr1D 89.624 559 49 6 5447 6001 71016135 71015582 0.000000e+00 702.0
98 TraesCS2B01G548400 chr1D 85.067 596 75 7 2229 2819 20969291 20969877 5.680000e-166 595.0
99 TraesCS2B01G548400 chr1D 80.624 609 48 33 655 1212 432643269 432643858 2.850000e-109 407.0
100 TraesCS2B01G548400 chr1D 91.262 206 18 0 1 206 432642617 432642822 1.810000e-71 281.0
101 TraesCS2B01G548400 chr1D 89.815 216 21 1 5135 5349 20971648 20971863 8.400000e-70 276.0
102 TraesCS2B01G548400 chr1D 95.031 161 8 0 188 348 432642747 432642907 3.940000e-63 254.0
103 TraesCS2B01G548400 chr1D 83.843 229 37 0 3527 3755 20970494 20970722 1.440000e-52 219.0
104 TraesCS2B01G548400 chr1D 87.701 187 2 1 4723 4909 440041201 440041366 1.870000e-46 198.0
105 TraesCS2B01G548400 chr1D 81.466 232 24 1 331 543 432642959 432643190 1.130000e-38 172.0
106 TraesCS2B01G548400 chr1D 83.942 137 22 0 3353 3489 20970358 20970494 1.920000e-26 132.0
107 TraesCS2B01G548400 chr1D 88.462 52 3 2 4039 4087 437299754 437299805 9.210000e-05 60.2
108 TraesCS2B01G548400 chr7B 93.214 560 34 2 5447 6002 593013627 593013068 0.000000e+00 821.0
109 TraesCS2B01G548400 chr7B 91.950 559 37 4 5447 6001 23785656 23785102 0.000000e+00 776.0
110 TraesCS2B01G548400 chr7B 82.548 361 35 19 1 357 716685014 716684678 8.340000e-75 292.0
111 TraesCS2B01G548400 chr7B 81.180 356 47 14 1 355 716989827 716990163 1.410000e-67 268.0
112 TraesCS2B01G548400 chr7B 82.818 291 43 7 6006 6292 613180111 613179824 3.940000e-63 254.0
113 TraesCS2B01G548400 chr7B 80.645 279 48 5 6006 6282 613180916 613180642 2.400000e-50 211.0
114 TraesCS2B01G548400 chr7B 92.308 52 3 1 2106 2156 462531330 462531381 1.180000e-08 73.1
115 TraesCS2B01G548400 chr7B 90.196 51 2 2 4040 4087 713284277 713284327 7.120000e-06 63.9
116 TraesCS2B01G548400 chr5D 93.073 563 32 4 5447 6002 297962755 297963317 0.000000e+00 817.0
117 TraesCS2B01G548400 chr5D 88.517 209 2 2 4724 4931 284182717 284182904 5.130000e-57 233.0
118 TraesCS2B01G548400 chr3B 91.935 558 42 2 5447 6002 773045300 773044744 0.000000e+00 778.0
119 TraesCS2B01G548400 chr3B 83.333 282 31 12 6008 6276 254947792 254948070 6.590000e-61 246.0
120 TraesCS2B01G548400 chrUn 91.771 559 38 4 5447 6001 84609072 84609626 0.000000e+00 771.0
121 TraesCS2B01G548400 chrUn 88.942 208 2 1 4727 4934 134241860 134241674 3.960000e-58 237.0
122 TraesCS2B01G548400 chr5B 91.771 559 38 4 5447 6001 414241679 414242233 0.000000e+00 771.0
123 TraesCS2B01G548400 chr5B 78.235 510 77 23 7880 8377 652519425 652519912 6.450000e-76 296.0
124 TraesCS2B01G548400 chr5B 94.697 132 7 0 4800 4931 41266628 41266759 1.120000e-48 206.0
125 TraesCS2B01G548400 chr5B 85.882 85 7 3 540 623 404145851 404145771 1.520000e-12 86.1
126 TraesCS2B01G548400 chr5B 83.000 100 11 4 525 623 588655785 588655879 1.520000e-12 86.1
127 TraesCS2B01G548400 chr5B 89.362 47 2 2 4044 4087 449743934 449743980 1.000000e-03 56.5
128 TraesCS2B01G548400 chr3D 82.609 368 42 14 1 357 338301274 338300918 1.070000e-78 305.0
129 TraesCS2B01G548400 chr3D 89.372 207 1 1 4727 4933 257147311 257147126 3.060000e-59 241.0
130 TraesCS2B01G548400 chr3D 88.780 205 2 1 4727 4931 210637980 210638163 1.840000e-56 231.0
131 TraesCS2B01G548400 chr3D 82.143 280 38 8 6008 6276 175550755 175551033 6.630000e-56 230.0
132 TraesCS2B01G548400 chr3D 88.172 186 0 2 4724 4908 364260882 364260718 1.450000e-47 202.0
133 TraesCS2B01G548400 chr3D 85.577 104 13 1 441 544 277147379 277147278 3.240000e-19 108.0
134 TraesCS2B01G548400 chr7D 83.381 349 37 16 1 348 417914627 417914955 3.850000e-78 303.0
135 TraesCS2B01G548400 chr1A 82.500 360 38 12 1 359 91597636 91597971 8.340000e-75 292.0
136 TraesCS2B01G548400 chr6A 83.108 296 36 11 6006 6295 173108779 173109066 3.040000e-64 257.0
137 TraesCS2B01G548400 chr6A 86.667 135 15 3 224 357 187743153 187743285 6.870000e-31 147.0
138 TraesCS2B01G548400 chr6D 89.048 210 2 1 4727 4936 304096827 304097015 3.060000e-59 241.0
139 TraesCS2B01G548400 chr6D 88.517 209 3 1 4727 4935 377347310 377347123 5.130000e-57 233.0
140 TraesCS2B01G548400 chr3A 95.556 135 6 0 4800 4934 550648034 550647900 5.160000e-52 217.0
141 TraesCS2B01G548400 chr3A 88.889 72 8 0 554 625 726339036 726339107 1.170000e-13 89.8
142 TraesCS2B01G548400 chr3A 86.667 75 10 0 331 405 22632011 22631937 5.460000e-12 84.2
143 TraesCS2B01G548400 chr3A 91.111 45 2 1 4044 4086 383714611 383714567 9.210000e-05 60.2
144 TraesCS2B01G548400 chr5A 86.503 163 16 5 191 348 650032739 650032900 3.150000e-39 174.0
145 TraesCS2B01G548400 chr5A 88.406 69 8 0 554 622 529096971 529096903 5.460000e-12 84.2
146 TraesCS2B01G548400 chr6B 81.865 193 32 2 1 190 686871944 686871752 8.830000e-35 159.0
147 TraesCS2B01G548400 chr6B 97.778 45 1 0 435 479 682544458 682544502 2.540000e-10 78.7


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 TraesCS2B01G548400 chr2B 744380008 744388501 8493 False 5153.000000 12789 98.245667 1 8494 3 chr2B.!!$F4 8493
1 TraesCS2B01G548400 chr2B 774716068 774723522 7454 True 962.555556 3402 91.510333 639 8489 9 chr2B.!!$R6 7850
2 TraesCS2B01G548400 chr2B 57085897 57086456 559 False 804.000000 804 92.679000 5447 6002 1 chr2B.!!$F1 555
3 TraesCS2B01G548400 chr2B 774944207 774949972 5765 True 797.142857 1744 87.435714 2004 8494 7 chr2B.!!$R7 6490
4 TraesCS2B01G548400 chr2B 720803523 720807135 3612 False 368.166667 577 87.405167 3527 7311 6 chr2B.!!$F3 3784
5 TraesCS2B01G548400 chr2D 631239463 631248564 9101 True 1081.909091 5024 90.791273 1 8494 11 chr2D.!!$R5 8493
6 TraesCS2B01G548400 chr2D 631800148 631805700 5552 False 865.833333 2355 88.742333 1996 8406 6 chr2D.!!$F4 6410
7 TraesCS2B01G548400 chr2D 345838834 345839398 564 True 841.000000 841 93.640000 5447 6008 1 chr2D.!!$R1 561
8 TraesCS2B01G548400 chr2D 630948934 630949584 650 False 817.000000 817 89.238000 2532 3196 1 chr2D.!!$F2 664
9 TraesCS2B01G548400 chr2D 631479900 631486831 6931 True 808.000000 2700 87.277375 855 8494 8 chr2D.!!$R6 7639
10 TraesCS2B01G548400 chr2D 593801759 593803579 1820 False 422.333333 939 88.768667 4991 7311 3 chr2D.!!$F3 2320
11 TraesCS2B01G548400 chr2A 760112382 760118700 6318 False 908.571429 2060 88.516000 856 8045 7 chr2A.!!$F3 7189
12 TraesCS2B01G548400 chr2A 759869580 759873482 3902 True 807.000000 1157 89.212500 2004 3428 2 chr2A.!!$R2 1424
13 TraesCS2B01G548400 chr2A 760302544 760303194 650 True 806.000000 806 88.939000 2532 3196 1 chr2A.!!$R1 664
14 TraesCS2B01G548400 chr1B 34320854 34325137 4283 False 481.400000 965 84.069200 1973 7282 5 chr1B.!!$F4 5309
15 TraesCS2B01G548400 chr4D 73384303 73387241 2938 False 330.666667 926 85.263500 3353 7282 6 chr4D.!!$F2 3929
16 TraesCS2B01G548400 chr1D 71015582 71016135 553 True 702.000000 702 89.624000 5447 6001 1 chr1D.!!$R1 554
17 TraesCS2B01G548400 chr1D 20969291 20973305 4014 False 428.400000 920 85.448600 2229 7282 5 chr1D.!!$F3 5053
18 TraesCS2B01G548400 chr1D 432642617 432643858 1241 False 278.500000 407 87.095750 1 1212 4 chr1D.!!$F4 1211
19 TraesCS2B01G548400 chr7B 593013068 593013627 559 True 821.000000 821 93.214000 5447 6002 1 chr7B.!!$R2 555
20 TraesCS2B01G548400 chr7B 23785102 23785656 554 True 776.000000 776 91.950000 5447 6001 1 chr7B.!!$R1 554
21 TraesCS2B01G548400 chr7B 613179824 613180916 1092 True 232.500000 254 81.731500 6006 6292 2 chr7B.!!$R4 286
22 TraesCS2B01G548400 chr5D 297962755 297963317 562 False 817.000000 817 93.073000 5447 6002 1 chr5D.!!$F2 555
23 TraesCS2B01G548400 chr3B 773044744 773045300 556 True 778.000000 778 91.935000 5447 6002 1 chr3B.!!$R1 555
24 TraesCS2B01G548400 chrUn 84609072 84609626 554 False 771.000000 771 91.771000 5447 6001 1 chrUn.!!$F1 554
25 TraesCS2B01G548400 chr5B 414241679 414242233 554 False 771.000000 771 91.771000 5447 6001 1 chr5B.!!$F2 554

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
491 580 0.038159 CCGGCTCAGTCTTTCGAAGT 60.038 55.000 0.00 0.0 0.00 3.01 F
1707 3343 0.514691 CGCTGCAGTTTTCCTCTGAC 59.485 55.000 16.64 0.0 35.20 3.51 F
2060 3757 0.615331 ATTGACTGTGCGTCCTGGAT 59.385 50.000 0.00 0.0 42.13 3.41 F
2107 3807 0.636647 AATGGGAAGGCTTTAGGGGG 59.363 55.000 0.00 0.0 0.00 5.40 F
2227 3929 1.016130 AAGCTCACCACTTCGCATCG 61.016 55.000 0.00 0.0 0.00 3.84 F
2258 4122 2.038557 TGCTTGACTTAGTGAGGTTCCC 59.961 50.000 0.00 0.0 0.00 3.97 F
4352 9077 1.686052 TCACCCAGCAATCACCAAAAC 59.314 47.619 0.00 0.0 0.00 2.43 F
5723 11574 0.040646 TCAGTCCGACCACCTACCAT 59.959 55.000 0.00 0.0 0.00 3.55 F
6002 11859 1.858091 CACGGGCATCTTGCTAGTAG 58.142 55.000 0.00 0.0 44.28 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2226 3928 0.957395 AGTCAAGCAGGGATGCAACG 60.957 55.000 2.73 0.00 37.25 4.10 R
2979 4909 5.655488 ACTAGAGTGTACAGCAGCAAATAG 58.345 41.667 0.00 0.00 0.00 1.73 R
3825 8304 4.072131 ACACATACCTTTTGCCTACACAG 58.928 43.478 0.00 0.00 0.00 3.66 R
4166 8871 3.049912 GTCTTCAAAACCATTTCACGCC 58.950 45.455 0.00 0.00 0.00 5.68 R
4352 9077 5.471456 ACACAGCCTAAGAGAATTCAAGTTG 59.529 40.000 8.44 0.00 0.00 3.16 R
4425 9176 7.156000 TCAGAGTAAATGAACGAATACCAACA 58.844 34.615 0.00 0.00 0.00 3.33 R
5957 11814 0.179032 ACGGAACACCAAGATGCACA 60.179 50.000 0.00 0.00 0.00 4.57 R
7036 13800 0.032952 TGACGGTAGCAAGCTTTCGT 59.967 50.000 17.53 17.53 36.66 3.85 R
7797 14806 0.108138 GGGAGTGACTGAATGACCCG 60.108 60.000 0.00 0.00 0.00 5.28 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
21 22 3.084039 GACCTTGCATTCTTGATGGTGA 58.916 45.455 0.00 0.00 36.21 4.02
56 57 2.811317 GACGAGCAGGTGAAGGCG 60.811 66.667 0.00 0.00 34.54 5.52
63 64 1.671742 CAGGTGAAGGCGTGGTACT 59.328 57.895 0.00 0.00 0.00 2.73
67 68 1.302192 TGAAGGCGTGGTACTTGGC 60.302 57.895 0.00 0.00 0.00 4.52
90 91 0.737715 GCGCGACCTCATCTTGAACT 60.738 55.000 12.10 0.00 0.00 3.01
104 105 0.397957 TGAACTAGATGCCCGGGCTA 60.398 55.000 43.34 30.35 42.51 3.93
165 166 4.680237 CGACCAGCCCGAGCACAA 62.680 66.667 0.00 0.00 43.56 3.33
178 179 2.953821 CACAAAAGCCACGCCGAT 59.046 55.556 0.00 0.00 0.00 4.18
194 195 3.825833 GATGCCGAGCCCGACTACG 62.826 68.421 0.00 0.00 38.22 3.51
199 200 4.509737 GAGCCCGACTACGCCCAC 62.510 72.222 0.00 0.00 38.29 4.61
204 205 4.111016 CGACTACGCCCACGCTGA 62.111 66.667 0.00 0.00 45.53 4.26
205 206 2.506438 GACTACGCCCACGCTGAC 60.506 66.667 0.00 0.00 45.53 3.51
206 207 4.415332 ACTACGCCCACGCTGACG 62.415 66.667 0.00 0.00 45.53 4.35
207 208 4.111016 CTACGCCCACGCTGACGA 62.111 66.667 0.00 0.00 45.53 4.20
208 209 4.409218 TACGCCCACGCTGACGAC 62.409 66.667 0.00 0.00 45.53 4.34
218 219 4.803426 CTGACGACCAGCCCGAGC 62.803 72.222 0.00 0.00 35.89 5.03
222 223 4.680237 CGACCAGCCCGAGCACAA 62.680 66.667 0.00 0.00 43.56 3.33
223 224 2.281484 GACCAGCCCGAGCACAAA 60.281 61.111 0.00 0.00 43.56 2.83
224 225 1.896660 GACCAGCCCGAGCACAAAA 60.897 57.895 0.00 0.00 43.56 2.44
225 226 1.856265 GACCAGCCCGAGCACAAAAG 61.856 60.000 0.00 0.00 43.56 2.27
226 227 2.256461 CAGCCCGAGCACAAAAGC 59.744 61.111 0.00 0.00 43.56 3.51
227 228 2.985847 AGCCCGAGCACAAAAGCC 60.986 61.111 0.00 0.00 43.56 4.35
228 229 3.294493 GCCCGAGCACAAAAGCCA 61.294 61.111 0.00 0.00 39.53 4.75
229 230 2.644992 CCCGAGCACAAAAGCCAC 59.355 61.111 0.00 0.00 34.23 5.01
230 231 2.252260 CCGAGCACAAAAGCCACG 59.748 61.111 0.00 0.00 35.62 4.94
231 232 2.427410 CGAGCACAAAAGCCACGC 60.427 61.111 0.00 0.00 34.23 5.34
232 233 2.050077 GAGCACAAAAGCCACGCC 60.050 61.111 0.00 0.00 34.23 5.68
233 234 3.879351 GAGCACAAAAGCCACGCCG 62.879 63.158 0.00 0.00 34.23 6.46
234 235 3.959975 GCACAAAAGCCACGCCGA 61.960 61.111 0.00 0.00 0.00 5.54
235 236 2.953821 CACAAAAGCCACGCCGAT 59.046 55.556 0.00 0.00 0.00 4.18
236 237 1.442520 CACAAAAGCCACGCCGATG 60.443 57.895 0.00 0.00 0.00 3.84
237 238 2.504681 CAAAAGCCACGCCGATGC 60.505 61.111 0.00 0.00 0.00 3.91
238 239 3.747976 AAAAGCCACGCCGATGCC 61.748 61.111 0.00 0.00 0.00 4.40
451 540 2.047560 GGCGCCTACGGTGACTTT 60.048 61.111 22.15 0.00 38.38 2.66
452 541 2.388232 GGCGCCTACGGTGACTTTG 61.388 63.158 22.15 0.00 38.38 2.77
460 549 4.092968 GCCTACGGTGACTTTGTAAATCTG 59.907 45.833 0.00 0.00 0.00 2.90
487 576 1.945354 TAGGCCGGCTCAGTCTTTCG 61.945 60.000 28.56 0.00 0.00 3.46
491 580 0.038159 CCGGCTCAGTCTTTCGAAGT 60.038 55.000 0.00 0.00 0.00 3.01
501 590 4.328440 CAGTCTTTCGAAGTTGCTCATAGG 59.672 45.833 0.00 0.00 0.00 2.57
509 598 1.981495 AGTTGCTCATAGGGATAGGGC 59.019 52.381 0.00 0.00 0.00 5.19
514 603 1.079819 CATAGGGATAGGGCGTGCG 60.080 63.158 0.00 0.00 0.00 5.34
538 627 4.830600 TGTATGCGGTCATAGAGGTGAATA 59.169 41.667 0.00 0.00 35.96 1.75
545 634 5.393135 CGGTCATAGAGGTGAATATATGCGT 60.393 44.000 0.00 0.00 0.00 5.24
548 637 7.649705 GGTCATAGAGGTGAATATATGCGTATG 59.350 40.741 8.77 0.00 0.00 2.39
550 639 8.190784 TCATAGAGGTGAATATATGCGTATGTG 58.809 37.037 8.77 0.00 0.00 3.21
551 640 5.171476 AGAGGTGAATATATGCGTATGTGC 58.829 41.667 8.77 1.06 0.00 4.57
559 648 3.922190 TGCGTATGTGCATGCATTC 57.078 47.368 25.64 12.77 40.62 2.67
560 649 1.093159 TGCGTATGTGCATGCATTCA 58.907 45.000 25.64 18.55 40.62 2.57
561 650 1.677052 TGCGTATGTGCATGCATTCAT 59.323 42.857 25.64 23.88 40.62 2.57
562 651 2.877168 TGCGTATGTGCATGCATTCATA 59.123 40.909 25.64 22.84 40.62 2.15
563 652 3.058777 TGCGTATGTGCATGCATTCATAG 60.059 43.478 25.64 18.82 40.62 2.23
564 653 3.187022 GCGTATGTGCATGCATTCATAGA 59.813 43.478 25.64 6.66 34.15 1.98
565 654 4.668431 GCGTATGTGCATGCATTCATAGAG 60.668 45.833 25.64 21.19 34.15 2.43
566 655 4.687483 CGTATGTGCATGCATTCATAGAGA 59.313 41.667 25.64 5.57 0.00 3.10
567 656 5.350640 CGTATGTGCATGCATTCATAGAGAT 59.649 40.000 25.64 4.43 0.00 2.75
568 657 6.532657 CGTATGTGCATGCATTCATAGAGATA 59.467 38.462 25.64 4.48 0.00 1.98
569 658 7.063780 CGTATGTGCATGCATTCATAGAGATAA 59.936 37.037 25.64 3.76 0.00 1.75
570 659 7.939784 ATGTGCATGCATTCATAGAGATAAT 57.060 32.000 25.64 0.00 0.00 1.28
571 660 7.754851 TGTGCATGCATTCATAGAGATAATT 57.245 32.000 25.64 0.00 0.00 1.40
572 661 8.851541 TGTGCATGCATTCATAGAGATAATTA 57.148 30.769 25.64 0.00 0.00 1.40
573 662 9.457436 TGTGCATGCATTCATAGAGATAATTAT 57.543 29.630 25.64 0.00 0.00 1.28
590 679 9.744468 AGATAATTATATGCGCGTGTATATGAA 57.256 29.630 24.28 16.01 34.71 2.57
601 690 5.496330 CGTGTATATGAACGCTTATGTCC 57.504 43.478 0.00 0.00 32.40 4.02
606 695 3.795623 ATGAACGCTTATGTCCGTACT 57.204 42.857 0.00 0.00 36.56 2.73
613 702 4.096833 ACGCTTATGTCCGTACTGATGTTA 59.903 41.667 0.00 0.00 35.69 2.41
673 839 2.516448 CCCCCGTCTGCTGAGATTA 58.484 57.895 0.00 0.00 0.00 1.75
753 1027 1.507141 GACTTGAACACACCCCAGCG 61.507 60.000 0.00 0.00 0.00 5.18
754 1028 2.203280 TTGAACACACCCCAGCGG 60.203 61.111 0.00 0.00 37.81 5.52
755 1029 2.674563 CTTGAACACACCCCAGCGGA 62.675 60.000 0.00 0.00 34.64 5.54
756 1030 2.668550 GAACACACCCCAGCGGAC 60.669 66.667 0.00 0.00 34.64 4.79
757 1031 4.619227 AACACACCCCAGCGGACG 62.619 66.667 0.00 0.00 34.64 4.79
834 1134 2.597510 AGCGAGCCCCAAACCAAC 60.598 61.111 0.00 0.00 0.00 3.77
835 1135 3.680786 GCGAGCCCCAAACCAACC 61.681 66.667 0.00 0.00 0.00 3.77
836 1136 2.989253 CGAGCCCCAAACCAACCC 60.989 66.667 0.00 0.00 0.00 4.11
837 1137 2.200092 GAGCCCCAAACCAACCCA 59.800 61.111 0.00 0.00 0.00 4.51
838 1138 1.458588 GAGCCCCAAACCAACCCAA 60.459 57.895 0.00 0.00 0.00 4.12
849 1149 2.037136 CAACCCAAGCAGAGCGAGG 61.037 63.158 0.00 0.00 0.00 4.63
885 1219 4.322953 GCATCCCACCAGTTCATTCAAAAT 60.323 41.667 0.00 0.00 0.00 1.82
886 1220 5.413499 CATCCCACCAGTTCATTCAAAATC 58.587 41.667 0.00 0.00 0.00 2.17
887 1221 4.478203 TCCCACCAGTTCATTCAAAATCA 58.522 39.130 0.00 0.00 0.00 2.57
888 1222 4.898265 TCCCACCAGTTCATTCAAAATCAA 59.102 37.500 0.00 0.00 0.00 2.57
889 1223 5.365025 TCCCACCAGTTCATTCAAAATCAAA 59.635 36.000 0.00 0.00 0.00 2.69
890 1224 6.054295 CCCACCAGTTCATTCAAAATCAAAA 58.946 36.000 0.00 0.00 0.00 2.44
1084 1426 2.387757 CTCCTCCCCTTCTCTCTCTTG 58.612 57.143 0.00 0.00 0.00 3.02
1134 1492 6.124340 TCTCTCTCTCTCTCTCTAAGTACGA 58.876 44.000 0.00 0.00 0.00 3.43
1141 1499 2.608546 TCTCTCTAAGTACGAGCGCTTC 59.391 50.000 13.26 3.81 0.00 3.86
1212 1606 2.640302 GGCGTCTCAGAGGTCAGCA 61.640 63.158 0.00 0.00 0.00 4.41
1226 1625 0.633378 TCAGCATCTCCTCTCCCTCA 59.367 55.000 0.00 0.00 0.00 3.86
1229 1628 0.760189 GCATCTCCTCTCCCTCAGCT 60.760 60.000 0.00 0.00 0.00 4.24
1230 1629 1.792115 CATCTCCTCTCCCTCAGCTT 58.208 55.000 0.00 0.00 0.00 3.74
1231 1630 2.117865 CATCTCCTCTCCCTCAGCTTT 58.882 52.381 0.00 0.00 0.00 3.51
1232 1631 2.334006 TCTCCTCTCCCTCAGCTTTT 57.666 50.000 0.00 0.00 0.00 2.27
1237 1636 1.078143 CTCCCTCAGCTTTTCCCCG 60.078 63.158 0.00 0.00 0.00 5.73
1264 1679 1.347221 GCGAGGCCGTAATTTGTCG 59.653 57.895 0.00 0.00 38.24 4.35
1286 1701 1.958579 GTCGGGTTAGGGTTTTGCTTT 59.041 47.619 0.00 0.00 0.00 3.51
1309 1724 4.778143 GCCGTGGCCGTCCAATCT 62.778 66.667 0.00 0.00 45.53 2.40
1316 1731 2.505982 CCGTCCAATCTCCGGCAT 59.494 61.111 0.00 0.00 34.62 4.40
1317 1732 1.745890 CCGTCCAATCTCCGGCATA 59.254 57.895 0.00 0.00 34.62 3.14
1318 1733 0.600255 CCGTCCAATCTCCGGCATAC 60.600 60.000 0.00 0.00 34.62 2.39
1319 1734 0.939577 CGTCCAATCTCCGGCATACG 60.940 60.000 0.00 0.00 43.80 3.06
1344 1759 5.560953 GCGGCTGGATTAGATAATGTTGTTC 60.561 44.000 0.00 0.00 0.00 3.18
1348 1763 8.250332 GGCTGGATTAGATAATGTTGTTCAAAA 58.750 33.333 0.00 0.00 0.00 2.44
1358 1776 5.827568 ATGTTGTTCAAAAATGATGCGAC 57.172 34.783 0.00 0.00 0.00 5.19
1363 1781 1.202114 TCAAAAATGATGCGACTGCCC 59.798 47.619 0.00 0.00 41.78 5.36
1376 1794 2.037687 TGCCCCCATTGCTCCTTG 59.962 61.111 0.00 0.00 0.00 3.61
1640 2984 6.429692 TGATGGCGGGTTATCTTGTTATTATG 59.570 38.462 0.00 0.00 0.00 1.90
1647 2998 9.647797 CGGGTTATCTTGTTATTATGCTGTATA 57.352 33.333 0.00 0.00 0.00 1.47
1661 3297 6.947644 ATGCTGTATAATTGATCAACTGCA 57.052 33.333 22.96 22.96 45.06 4.41
1694 3330 2.739913 GTGAAATTAGGTGTACGCTGCA 59.260 45.455 6.35 0.00 0.00 4.41
1695 3331 3.000041 TGAAATTAGGTGTACGCTGCAG 59.000 45.455 10.11 10.11 0.00 4.41
1707 3343 0.514691 CGCTGCAGTTTTCCTCTGAC 59.485 55.000 16.64 0.00 35.20 3.51
1774 3410 3.261643 ACTTGTGTGGAGCAGTATGATGA 59.738 43.478 0.00 0.00 39.69 2.92
1775 3411 3.531934 TGTGTGGAGCAGTATGATGAG 57.468 47.619 0.00 0.00 39.69 2.90
1799 3449 9.790389 GAGTATTATGCTGTATGTATGTAGACC 57.210 37.037 0.00 0.00 0.00 3.85
1807 3463 7.228108 TGCTGTATGTATGTAGACCAGTACTAC 59.772 40.741 0.00 0.00 40.13 2.73
1867 3523 8.630278 TCTAGTCGATTAAGTGTAAAATCTGC 57.370 34.615 0.00 0.00 31.29 4.26
1868 3524 8.467598 TCTAGTCGATTAAGTGTAAAATCTGCT 58.532 33.333 0.00 0.00 31.29 4.24
1869 3525 7.295952 AGTCGATTAAGTGTAAAATCTGCTG 57.704 36.000 0.00 0.00 31.29 4.41
1870 3526 6.874134 AGTCGATTAAGTGTAAAATCTGCTGT 59.126 34.615 0.00 0.00 31.29 4.40
1871 3527 8.033038 AGTCGATTAAGTGTAAAATCTGCTGTA 58.967 33.333 0.00 0.00 31.29 2.74
1872 3528 8.818057 GTCGATTAAGTGTAAAATCTGCTGTAT 58.182 33.333 0.00 0.00 31.29 2.29
1930 3598 1.602377 CGGTTGTGGTCTTTTGGACTC 59.398 52.381 0.00 0.00 43.97 3.36
2026 3712 8.858003 TTACGATCAGATCACTATTCTTTGTC 57.142 34.615 11.12 0.00 0.00 3.18
2027 3713 6.867550 ACGATCAGATCACTATTCTTTGTCA 58.132 36.000 11.12 0.00 0.00 3.58
2028 3714 7.323420 ACGATCAGATCACTATTCTTTGTCAA 58.677 34.615 11.12 0.00 0.00 3.18
2029 3715 7.490725 ACGATCAGATCACTATTCTTTGTCAAG 59.509 37.037 11.12 0.00 0.00 3.02
2031 3717 8.715191 ATCAGATCACTATTCTTTGTCAAGTC 57.285 34.615 0.00 0.00 0.00 3.01
2033 3719 9.025041 TCAGATCACTATTCTTTGTCAAGTCTA 57.975 33.333 0.00 0.00 0.00 2.59
2034 3720 9.814899 CAGATCACTATTCTTTGTCAAGTCTAT 57.185 33.333 0.00 0.00 0.00 1.98
2035 3721 9.814899 AGATCACTATTCTTTGTCAAGTCTATG 57.185 33.333 0.00 0.00 0.00 2.23
2036 3722 7.834068 TCACTATTCTTTGTCAAGTCTATGC 57.166 36.000 0.00 0.00 0.00 3.14
2037 3723 7.386059 TCACTATTCTTTGTCAAGTCTATGCA 58.614 34.615 0.00 0.00 0.00 3.96
2040 3726 5.929697 TTCTTTGTCAAGTCTATGCACTG 57.070 39.130 0.00 0.00 0.00 3.66
2056 3753 0.681733 ACTGATTGACTGTGCGTCCT 59.318 50.000 0.00 0.00 42.13 3.85
2060 3757 0.615331 ATTGACTGTGCGTCCTGGAT 59.385 50.000 0.00 0.00 42.13 3.41
2097 3797 3.019564 GACATGAGTGGAAATGGGAAGG 58.980 50.000 0.00 0.00 0.00 3.46
2106 3806 2.388735 GAAATGGGAAGGCTTTAGGGG 58.611 52.381 0.00 0.00 0.00 4.79
2107 3807 0.636647 AATGGGAAGGCTTTAGGGGG 59.363 55.000 0.00 0.00 0.00 5.40
2221 3923 4.496360 GGTACTCTAAAGCTCACCACTTC 58.504 47.826 0.00 0.00 0.00 3.01
2226 3928 1.160137 AAAGCTCACCACTTCGCATC 58.840 50.000 0.00 0.00 0.00 3.91
2227 3929 1.016130 AAGCTCACCACTTCGCATCG 61.016 55.000 0.00 0.00 0.00 3.84
2258 4122 2.038557 TGCTTGACTTAGTGAGGTTCCC 59.961 50.000 0.00 0.00 0.00 3.97
2272 4137 2.303022 AGGTTCCCGTCCATATATGCAG 59.697 50.000 7.24 0.89 0.00 4.41
2281 4146 3.817084 GTCCATATATGCAGCACATGTGT 59.183 43.478 26.01 10.99 40.06 3.72
2296 4161 6.966435 CACATGTGTGTTCCTTTTCTTTTT 57.034 33.333 18.03 0.00 40.96 1.94
2836 4713 9.610705 ATGCAATTTGTTTTATATTACCATGCA 57.389 25.926 0.00 0.00 0.00 3.96
2979 4909 4.336889 TGGTGGTCATTATAGTAGCAGC 57.663 45.455 0.00 0.00 39.03 5.25
3000 4931 4.433615 GCTATTTGCTGCTGTACACTCTA 58.566 43.478 0.00 0.00 38.95 2.43
3001 4932 4.505922 GCTATTTGCTGCTGTACACTCTAG 59.494 45.833 0.00 0.00 38.95 2.43
3322 7728 8.461222 CAGCTCATATTCTATTTTTGTGTTCCA 58.539 33.333 0.00 0.00 0.00 3.53
3454 7889 5.858381 TGCTGATTAAGGCCAGTATTCTAG 58.142 41.667 5.01 4.94 33.19 2.43
3483 7918 9.241919 TCTATATCTTTTCATTGCTTTGTTCCA 57.758 29.630 0.00 0.00 0.00 3.53
3755 8192 6.159293 TCTATGCTATTCGAACTTATGCTGG 58.841 40.000 0.00 0.00 0.00 4.85
3825 8304 4.743493 CACACACCTACCAAAATATTGCC 58.257 43.478 0.00 0.00 35.10 4.52
4064 8759 5.983333 ATCCCTCTGATCCAATAAGTGTT 57.017 39.130 0.00 0.00 0.00 3.32
4352 9077 1.686052 TCACCCAGCAATCACCAAAAC 59.314 47.619 0.00 0.00 0.00 2.43
4425 9176 9.492973 CTTTATGTTGTTTTCTTCATCCCAATT 57.507 29.630 0.00 0.00 0.00 2.32
4470 9221 9.088512 ACTCTGAAGTGTCAAATTATATTCGTC 57.911 33.333 0.00 0.00 33.32 4.20
4720 10015 1.006281 TGCTTGCTGGGATGAATCCTT 59.994 47.619 9.18 0.00 46.35 3.36
4721 10016 1.407979 GCTTGCTGGGATGAATCCTTG 59.592 52.381 9.18 4.03 46.35 3.61
4722 10017 2.731572 CTTGCTGGGATGAATCCTTGT 58.268 47.619 9.18 0.00 46.35 3.16
4723 10018 2.905415 TGCTGGGATGAATCCTTGTT 57.095 45.000 9.18 0.00 46.35 2.83
4724 10019 2.449464 TGCTGGGATGAATCCTTGTTG 58.551 47.619 9.18 0.00 46.35 3.33
4725 10020 2.041485 TGCTGGGATGAATCCTTGTTGA 59.959 45.455 9.18 0.00 46.35 3.18
4726 10021 2.424956 GCTGGGATGAATCCTTGTTGAC 59.575 50.000 9.18 0.00 46.35 3.18
4727 10022 3.689347 CTGGGATGAATCCTTGTTGACA 58.311 45.455 9.18 0.00 46.35 3.58
4728 10023 4.081406 CTGGGATGAATCCTTGTTGACAA 58.919 43.478 9.18 0.00 46.35 3.18
4741 10036 4.349663 TGTTGACAAGGTTTTTGAGTCG 57.650 40.909 0.00 0.00 32.08 4.18
4742 10037 3.105937 GTTGACAAGGTTTTTGAGTCGC 58.894 45.455 0.00 0.00 32.08 5.19
4743 10038 1.329292 TGACAAGGTTTTTGAGTCGCG 59.671 47.619 0.00 0.00 32.08 5.87
4744 10039 1.595794 GACAAGGTTTTTGAGTCGCGA 59.404 47.619 3.71 3.71 0.00 5.87
4745 10040 1.329599 ACAAGGTTTTTGAGTCGCGAC 59.670 47.619 31.30 31.30 0.00 5.19
4746 10041 1.597663 CAAGGTTTTTGAGTCGCGACT 59.402 47.619 39.89 39.89 45.84 4.18
4747 10042 1.949465 AGGTTTTTGAGTCGCGACTT 58.051 45.000 39.38 24.60 42.66 3.01
4748 10043 1.597663 AGGTTTTTGAGTCGCGACTTG 59.402 47.619 39.38 0.00 42.66 3.16
4749 10044 1.333791 GGTTTTTGAGTCGCGACTTGG 60.334 52.381 39.38 0.00 42.66 3.61
4750 10045 0.306533 TTTTTGAGTCGCGACTTGGC 59.693 50.000 39.38 27.60 42.66 4.52
4781 10076 4.227134 CCCTGCGGCTCAGCGTAT 62.227 66.667 0.00 0.00 41.50 3.06
4782 10077 2.728180 CCTGCGGCTCAGCGTATA 59.272 61.111 0.00 0.00 41.50 1.47
4783 10078 1.372251 CCTGCGGCTCAGCGTATAG 60.372 63.158 0.00 0.00 41.50 1.31
4784 10079 1.360551 CTGCGGCTCAGCGTATAGT 59.639 57.895 0.00 0.00 40.67 2.12
4785 10080 0.661780 CTGCGGCTCAGCGTATAGTC 60.662 60.000 0.00 0.00 40.67 2.59
4786 10081 1.726322 GCGGCTCAGCGTATAGTCG 60.726 63.158 0.00 3.25 43.47 4.18
4787 10082 1.939597 CGGCTCAGCGTATAGTCGA 59.060 57.895 0.00 0.00 43.30 4.20
4788 10083 0.384477 CGGCTCAGCGTATAGTCGAC 60.384 60.000 7.70 7.70 43.30 4.20
4789 10084 0.384477 GGCTCAGCGTATAGTCGACG 60.384 60.000 10.46 0.00 43.19 5.12
4790 10085 0.580578 GCTCAGCGTATAGTCGACGA 59.419 55.000 10.46 5.12 42.98 4.20
4791 10086 1.004185 GCTCAGCGTATAGTCGACGAA 60.004 52.381 10.46 2.69 42.98 3.85
4792 10087 2.538333 GCTCAGCGTATAGTCGACGAAA 60.538 50.000 10.46 0.00 42.98 3.46
4793 10088 3.281601 CTCAGCGTATAGTCGACGAAAG 58.718 50.000 10.46 3.33 42.98 2.62
4807 10102 3.048942 ACGAAAGTCGCTGTATAGTCG 57.951 47.619 0.00 0.00 45.12 4.18
4808 10103 1.774085 CGAAAGTCGCTGTATAGTCGC 59.226 52.381 0.00 0.00 31.14 5.19
4809 10104 2.117910 GAAAGTCGCTGTATAGTCGCC 58.882 52.381 0.00 0.00 0.00 5.54
4810 10105 1.100510 AAGTCGCTGTATAGTCGCCA 58.899 50.000 0.00 0.00 0.00 5.69
4811 10106 1.319541 AGTCGCTGTATAGTCGCCAT 58.680 50.000 0.00 0.00 0.00 4.40
4812 10107 2.501261 AGTCGCTGTATAGTCGCCATA 58.499 47.619 0.00 0.00 0.00 2.74
4813 10108 2.882761 AGTCGCTGTATAGTCGCCATAA 59.117 45.455 0.00 0.00 0.00 1.90
4814 10109 3.058155 AGTCGCTGTATAGTCGCCATAAG 60.058 47.826 0.00 0.00 0.00 1.73
4815 10110 2.882761 TCGCTGTATAGTCGCCATAAGT 59.117 45.455 0.00 0.00 0.00 2.24
4816 10111 3.058432 TCGCTGTATAGTCGCCATAAGTC 60.058 47.826 0.00 0.00 0.00 3.01
4817 10112 3.304458 CGCTGTATAGTCGCCATAAGTCA 60.304 47.826 0.00 0.00 0.00 3.41
4818 10113 3.982058 GCTGTATAGTCGCCATAAGTCAC 59.018 47.826 0.00 0.00 0.00 3.67
4819 10114 4.261656 GCTGTATAGTCGCCATAAGTCACT 60.262 45.833 0.00 0.00 0.00 3.41
4820 10115 5.183014 TGTATAGTCGCCATAAGTCACTG 57.817 43.478 0.00 0.00 0.00 3.66
4821 10116 4.643334 TGTATAGTCGCCATAAGTCACTGT 59.357 41.667 0.00 0.00 0.00 3.55
4822 10117 5.824097 TGTATAGTCGCCATAAGTCACTGTA 59.176 40.000 0.00 0.00 0.00 2.74
4823 10118 6.489022 TGTATAGTCGCCATAAGTCACTGTAT 59.511 38.462 0.00 0.00 0.00 2.29
4824 10119 7.662669 TGTATAGTCGCCATAAGTCACTGTATA 59.337 37.037 0.00 0.00 0.00 1.47
4825 10120 5.440234 AGTCGCCATAAGTCACTGTATAG 57.560 43.478 0.00 0.00 0.00 1.31
4826 10121 4.888239 AGTCGCCATAAGTCACTGTATAGT 59.112 41.667 0.00 0.00 37.75 2.12
4827 10122 5.008811 AGTCGCCATAAGTCACTGTATAGTC 59.991 44.000 0.00 0.00 34.07 2.59
4828 10123 4.024302 TCGCCATAAGTCACTGTATAGTCG 60.024 45.833 0.00 0.00 34.07 4.18
4829 10124 3.982058 GCCATAAGTCACTGTATAGTCGC 59.018 47.826 0.00 0.00 34.07 5.19
4830 10125 4.547532 CCATAAGTCACTGTATAGTCGCC 58.452 47.826 0.00 0.00 34.07 5.54
4831 10126 4.037565 CCATAAGTCACTGTATAGTCGCCA 59.962 45.833 0.00 0.00 34.07 5.69
4832 10127 5.279006 CCATAAGTCACTGTATAGTCGCCAT 60.279 44.000 0.00 0.00 34.07 4.40
4833 10128 6.072119 CCATAAGTCACTGTATAGTCGCCATA 60.072 42.308 0.00 0.00 34.07 2.74
4834 10129 5.847111 AAGTCACTGTATAGTCGCCATAA 57.153 39.130 0.00 0.00 34.07 1.90
4835 10130 5.440234 AGTCACTGTATAGTCGCCATAAG 57.560 43.478 0.00 0.00 34.07 1.73
4836 10131 4.888239 AGTCACTGTATAGTCGCCATAAGT 59.112 41.667 0.00 0.00 34.07 2.24
4837 10132 5.008811 AGTCACTGTATAGTCGCCATAAGTC 59.991 44.000 0.00 0.00 34.07 3.01
4838 10133 4.885325 TCACTGTATAGTCGCCATAAGTCA 59.115 41.667 0.00 0.00 34.07 3.41
4839 10134 4.976731 CACTGTATAGTCGCCATAAGTCAC 59.023 45.833 0.00 0.00 34.07 3.67
4840 10135 4.888239 ACTGTATAGTCGCCATAAGTCACT 59.112 41.667 0.00 0.00 28.79 3.41
4841 10136 5.183014 TGTATAGTCGCCATAAGTCACTG 57.817 43.478 0.00 0.00 0.00 3.66
4842 10137 4.643334 TGTATAGTCGCCATAAGTCACTGT 59.357 41.667 0.00 0.00 0.00 3.55
4843 10138 5.824097 TGTATAGTCGCCATAAGTCACTGTA 59.176 40.000 0.00 0.00 0.00 2.74
4844 10139 6.489022 TGTATAGTCGCCATAAGTCACTGTAT 59.511 38.462 0.00 0.00 0.00 2.29
4845 10140 7.662669 TGTATAGTCGCCATAAGTCACTGTATA 59.337 37.037 0.00 0.00 0.00 1.47
4846 10141 5.440234 AGTCGCCATAAGTCACTGTATAG 57.560 43.478 0.00 0.00 0.00 1.31
4847 10142 4.888239 AGTCGCCATAAGTCACTGTATAGT 59.112 41.667 0.00 0.00 37.75 2.12
4848 10143 5.008811 AGTCGCCATAAGTCACTGTATAGTC 59.991 44.000 0.00 0.00 34.07 2.59
4849 10144 4.024302 TCGCCATAAGTCACTGTATAGTCG 60.024 45.833 0.00 0.00 34.07 4.18
4850 10145 3.982058 GCCATAAGTCACTGTATAGTCGC 59.018 47.826 0.00 0.00 34.07 5.19
4851 10146 4.219802 CCATAAGTCACTGTATAGTCGCG 58.780 47.826 0.00 0.00 34.07 5.87
4852 10147 4.024302 CCATAAGTCACTGTATAGTCGCGA 60.024 45.833 3.71 3.71 34.07 5.87
4853 10148 3.677190 AAGTCACTGTATAGTCGCGAG 57.323 47.619 10.24 0.00 34.07 5.03
4854 10149 2.630158 AGTCACTGTATAGTCGCGAGT 58.370 47.619 21.82 21.82 34.07 4.18
4855 10150 2.608546 AGTCACTGTATAGTCGCGAGTC 59.391 50.000 21.77 6.97 34.07 3.36
4856 10151 1.591619 TCACTGTATAGTCGCGAGTCG 59.408 52.381 21.77 8.54 34.07 4.18
4857 10152 1.916394 CACTGTATAGTCGCGAGTCGC 60.916 57.143 27.37 27.37 41.75 5.19
4868 10163 3.975992 CGAGTCGCCCTGATTTTTG 57.024 52.632 0.00 0.00 0.00 2.44
4869 10164 0.447801 CGAGTCGCCCTGATTTTTGG 59.552 55.000 0.00 0.00 0.00 3.28
4870 10165 1.821216 GAGTCGCCCTGATTTTTGGA 58.179 50.000 0.00 0.00 0.00 3.53
4871 10166 2.159382 GAGTCGCCCTGATTTTTGGAA 58.841 47.619 0.00 0.00 0.00 3.53
4872 10167 2.556622 GAGTCGCCCTGATTTTTGGAAA 59.443 45.455 0.00 0.00 0.00 3.13
4873 10168 2.962421 AGTCGCCCTGATTTTTGGAAAA 59.038 40.909 0.00 0.00 0.00 2.29
4874 10169 3.057019 GTCGCCCTGATTTTTGGAAAAC 58.943 45.455 0.00 0.00 0.00 2.43
4875 10170 2.058057 CGCCCTGATTTTTGGAAAACG 58.942 47.619 0.00 0.00 0.00 3.60
4876 10171 2.287909 CGCCCTGATTTTTGGAAAACGA 60.288 45.455 0.00 0.00 0.00 3.85
4877 10172 3.057019 GCCCTGATTTTTGGAAAACGAC 58.943 45.455 0.00 0.00 0.00 4.34
4878 10173 3.243737 GCCCTGATTTTTGGAAAACGACT 60.244 43.478 0.00 0.00 0.00 4.18
4879 10174 4.739436 GCCCTGATTTTTGGAAAACGACTT 60.739 41.667 0.00 0.00 0.00 3.01
4880 10175 4.744631 CCCTGATTTTTGGAAAACGACTTG 59.255 41.667 0.00 0.00 0.00 3.16
4881 10176 4.744631 CCTGATTTTTGGAAAACGACTTGG 59.255 41.667 0.00 0.00 0.00 3.61
4882 10177 4.116238 TGATTTTTGGAAAACGACTTGGC 58.884 39.130 0.00 0.00 0.00 4.52
4883 10178 2.196295 TTTTGGAAAACGACTTGGCG 57.804 45.000 0.00 0.00 37.29 5.69
4884 10179 1.380524 TTTGGAAAACGACTTGGCGA 58.619 45.000 1.78 0.00 34.83 5.54
4885 10180 1.600023 TTGGAAAACGACTTGGCGAT 58.400 45.000 1.78 0.00 34.83 4.58
4886 10181 1.600023 TGGAAAACGACTTGGCGATT 58.400 45.000 1.78 0.00 34.83 3.34
4887 10182 2.768698 TGGAAAACGACTTGGCGATTA 58.231 42.857 1.78 0.00 34.83 1.75
4888 10183 2.739913 TGGAAAACGACTTGGCGATTAG 59.260 45.455 1.78 0.00 34.83 1.73
4889 10184 2.740447 GGAAAACGACTTGGCGATTAGT 59.260 45.455 1.78 0.00 34.83 2.24
4890 10185 3.181523 GGAAAACGACTTGGCGATTAGTC 60.182 47.826 1.78 0.00 37.90 2.59
4902 10197 3.800929 CGATTAGTCGGCGACTATACA 57.199 47.619 40.30 29.65 43.45 2.29
4903 10198 3.734031 CGATTAGTCGGCGACTATACAG 58.266 50.000 40.30 28.83 43.45 2.74
4904 10199 3.490399 GATTAGTCGGCGACTATACAGC 58.510 50.000 40.30 28.40 43.45 4.40
4905 10200 0.863799 TAGTCGGCGACTATACAGCG 59.136 55.000 37.84 0.00 41.51 5.18
4906 10201 0.812811 AGTCGGCGACTATACAGCGA 60.813 55.000 38.49 0.00 41.51 4.93
4907 10202 0.656786 GTCGGCGACTATACAGCGAC 60.657 60.000 31.15 1.70 0.00 5.19
4908 10203 0.812811 TCGGCGACTATACAGCGACT 60.813 55.000 4.99 0.00 30.19 4.18
4909 10204 0.863799 CGGCGACTATACAGCGACTA 59.136 55.000 0.00 0.00 30.19 2.59
4910 10205 1.262417 CGGCGACTATACAGCGACTAA 59.738 52.381 0.00 0.00 30.19 2.24
4911 10206 2.095869 CGGCGACTATACAGCGACTAAT 60.096 50.000 0.00 0.00 30.19 1.73
4912 10207 3.490399 GGCGACTATACAGCGACTAATC 58.510 50.000 0.00 0.00 0.00 1.75
4913 10208 3.058432 GGCGACTATACAGCGACTAATCA 60.058 47.826 0.00 0.00 0.00 2.57
4914 10209 4.152526 GCGACTATACAGCGACTAATCAG 58.847 47.826 0.00 0.00 0.00 2.90
4915 10210 4.152526 CGACTATACAGCGACTAATCAGC 58.847 47.826 0.00 0.00 0.00 4.26
4916 10211 4.148563 ACTATACAGCGACTAATCAGCG 57.851 45.455 0.00 0.00 35.78 5.18
4917 10212 3.813724 ACTATACAGCGACTAATCAGCGA 59.186 43.478 0.00 0.00 35.78 4.93
4918 10213 2.470196 TACAGCGACTAATCAGCGAC 57.530 50.000 0.00 0.00 35.78 5.19
4919 10214 0.811915 ACAGCGACTAATCAGCGACT 59.188 50.000 0.00 0.00 35.78 4.18
4920 10215 1.202200 ACAGCGACTAATCAGCGACTC 60.202 52.381 0.00 0.00 35.78 3.36
4921 10216 1.095600 AGCGACTAATCAGCGACTCA 58.904 50.000 0.00 0.00 35.78 3.41
4922 10217 1.472878 AGCGACTAATCAGCGACTCAA 59.527 47.619 0.00 0.00 35.78 3.02
4923 10218 2.094700 AGCGACTAATCAGCGACTCAAA 60.095 45.455 0.00 0.00 35.78 2.69
4924 10219 2.666508 GCGACTAATCAGCGACTCAAAA 59.333 45.455 0.00 0.00 0.00 2.44
4925 10220 3.122948 GCGACTAATCAGCGACTCAAAAA 59.877 43.478 0.00 0.00 0.00 1.94
4926 10221 4.629065 CGACTAATCAGCGACTCAAAAAC 58.371 43.478 0.00 0.00 0.00 2.43
4927 10222 4.434330 CGACTAATCAGCGACTCAAAAACC 60.434 45.833 0.00 0.00 0.00 3.27
4928 10223 4.385825 ACTAATCAGCGACTCAAAAACCA 58.614 39.130 0.00 0.00 0.00 3.67
4929 10224 5.003804 ACTAATCAGCGACTCAAAAACCAT 58.996 37.500 0.00 0.00 0.00 3.55
4930 10225 3.837213 ATCAGCGACTCAAAAACCATG 57.163 42.857 0.00 0.00 0.00 3.66
4931 10226 1.266718 TCAGCGACTCAAAAACCATGC 59.733 47.619 0.00 0.00 0.00 4.06
4932 10227 1.267806 CAGCGACTCAAAAACCATGCT 59.732 47.619 0.00 0.00 0.00 3.79
4952 10247 3.364964 GCTTGTTGAGACATTTGGTACCG 60.365 47.826 7.57 0.00 35.29 4.02
5066 10465 8.914011 GCATTCTAAAGGGTCCTTTAATTATGT 58.086 33.333 19.18 4.56 44.68 2.29
5074 10473 7.375890 AGGGTCCTTTAATTATGTACTCCCTA 58.624 38.462 10.75 0.00 38.57 3.53
5086 10485 5.097742 TGTACTCCCTATGTTCCACATTG 57.902 43.478 0.00 0.00 39.88 2.82
5088 10487 4.657814 ACTCCCTATGTTCCACATTGTT 57.342 40.909 0.00 0.00 39.88 2.83
5106 10505 4.868450 TGTTGTCGTGGTTTTAGTTCAG 57.132 40.909 0.00 0.00 0.00 3.02
5129 10528 5.878116 AGAACGACAATAATTTCGGAATGGA 59.122 36.000 0.00 0.00 39.63 3.41
5238 10638 5.048504 TGACTGCATGGAAGAAGTTGAAATC 60.049 40.000 0.00 0.00 0.00 2.17
5508 11355 3.306088 CCTGCAATATAGACCGTCCGATT 60.306 47.826 0.00 0.00 0.00 3.34
5535 11384 3.444742 TCCGACGGAGAAAGCAAACTATA 59.555 43.478 13.88 0.00 0.00 1.31
5544 11393 8.181573 CGGAGAAAGCAAACTATAGCAATTTTA 58.818 33.333 0.00 0.00 0.00 1.52
5580 11429 2.681848 CACCTCTCTCCACATTTGCATC 59.318 50.000 0.00 0.00 0.00 3.91
5586 11435 4.225942 TCTCTCCACATTTGCATCTAAGGT 59.774 41.667 0.00 0.00 0.00 3.50
5699 11550 3.860605 TCGTCCATCCCCATGCCG 61.861 66.667 0.00 0.00 0.00 5.69
5700 11551 4.935495 CGTCCATCCCCATGCCGG 62.935 72.222 0.00 0.00 0.00 6.13
5701 11552 3.488569 GTCCATCCCCATGCCGGA 61.489 66.667 5.05 2.51 36.56 5.14
5723 11574 0.040646 TCAGTCCGACCACCTACCAT 59.959 55.000 0.00 0.00 0.00 3.55
5763 11616 5.594777 TCCTCACCTTATCTCTCCTTTCTT 58.405 41.667 0.00 0.00 0.00 2.52
5808 11661 4.289245 CGTTGGGACACGGACGGT 62.289 66.667 0.00 0.00 39.29 4.83
6002 11859 1.858091 CACGGGCATCTTGCTAGTAG 58.142 55.000 0.00 0.00 44.28 2.57
6398 12984 9.931210 GCCATTTGTTATGTTAGTATACTTGAC 57.069 33.333 11.40 10.87 0.00 3.18
6591 13182 4.327087 CACCTTGAACAAACAAAAGCTGTC 59.673 41.667 0.00 0.00 37.23 3.51
7036 13800 0.613260 AATGCTGCGACCTAACTGGA 59.387 50.000 0.00 0.00 39.71 3.86
7077 13841 1.007580 CTGCAGCTCACATGCTACTG 58.992 55.000 0.00 0.00 44.17 2.74
7168 14013 1.550524 TCCTTTGACGTGCTCTATGCT 59.449 47.619 0.00 0.00 43.37 3.79
7327 14282 5.472478 AGCATGAACAGCATATACTTCCATG 59.528 40.000 0.00 0.00 34.82 3.66
7347 14302 1.947678 GCTAGTGACCAGCAGTTGCAT 60.948 52.381 6.90 0.00 44.62 3.96
7461 14416 0.696501 GTACAGGAAGGCCAGGGAAA 59.303 55.000 5.01 0.00 36.29 3.13
7566 14536 4.422073 TCAACTGAATGTGACCAGAAGT 57.578 40.909 0.00 0.00 34.65 3.01
7568 14538 5.924356 TCAACTGAATGTGACCAGAAGTAA 58.076 37.500 0.00 0.00 34.65 2.24
7595 14565 5.221581 TGGTGGTACCTAACTTGAAAGTCTC 60.222 44.000 14.36 0.00 39.58 3.36
7674 14644 4.037923 GCTGAGAGGATTTGGTGTGAAAAA 59.962 41.667 0.00 0.00 0.00 1.94
7730 14706 3.270027 TCGTTGGATCTAGCACAAATGG 58.730 45.455 0.00 0.00 0.00 3.16
7735 14713 3.142174 GGATCTAGCACAAATGGCCTAC 58.858 50.000 3.32 0.00 0.00 3.18
7815 14824 0.608640 ACGGGTCATTCAGTCACTCC 59.391 55.000 0.00 0.00 0.00 3.85
7827 14836 1.160137 GTCACTCCCTGAACATGCAC 58.840 55.000 0.00 0.00 0.00 4.57
7830 14839 0.036952 ACTCCCTGAACATGCACGAG 60.037 55.000 0.00 0.00 0.00 4.18
7922 14981 4.933505 TCATTTGCCTTGTGTTTGATCA 57.066 36.364 0.00 0.00 0.00 2.92
8090 15185 2.832129 TCTAGGTTCGAAACAGGATGCT 59.168 45.455 16.95 0.00 42.53 3.79
8097 15196 4.265904 TCGAAACAGGATGCTTAAGTCA 57.734 40.909 4.02 3.28 42.53 3.41
8102 15201 6.401153 CGAAACAGGATGCTTAAGTCACTTAC 60.401 42.308 4.02 0.00 42.53 2.34
8105 15204 7.425224 ACAGGATGCTTAAGTCACTTACTAT 57.575 36.000 4.02 0.00 42.53 2.12
8432 15660 3.567576 TGTGTTGACATATTTTGGGCG 57.432 42.857 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 2.688507 GTCCATCGTCAACATGTCTGT 58.311 47.619 0.00 0.00 37.12 3.41
31 32 1.977009 ACCTGCTCGTCCATCGTCA 60.977 57.895 0.00 0.00 40.80 4.35
56 57 2.813908 CGCTCCGCCAAGTACCAC 60.814 66.667 0.00 0.00 0.00 4.16
67 68 3.417275 AAGATGAGGTCGCGCTCCG 62.417 63.158 5.56 0.00 38.61 4.63
90 91 3.303135 CGCTAGCCCGGGCATCTA 61.303 66.667 45.13 28.26 44.88 1.98
201 202 4.803426 GCTCGGGCTGGTCGTCAG 62.803 72.222 0.00 4.59 46.03 3.51
205 206 4.680237 TTGTGCTCGGGCTGGTCG 62.680 66.667 9.62 0.00 39.59 4.79
206 207 1.856265 CTTTTGTGCTCGGGCTGGTC 61.856 60.000 9.62 0.00 39.59 4.02
207 208 1.898574 CTTTTGTGCTCGGGCTGGT 60.899 57.895 9.62 0.00 39.59 4.00
208 209 2.956987 CTTTTGTGCTCGGGCTGG 59.043 61.111 9.62 0.00 39.59 4.85
209 210 2.256461 GCTTTTGTGCTCGGGCTG 59.744 61.111 9.62 0.00 39.59 4.85
210 211 2.985847 GGCTTTTGTGCTCGGGCT 60.986 61.111 9.62 0.00 39.59 5.19
211 212 3.294493 TGGCTTTTGTGCTCGGGC 61.294 61.111 0.00 0.00 39.26 6.13
212 213 2.644992 GTGGCTTTTGTGCTCGGG 59.355 61.111 0.00 0.00 0.00 5.14
213 214 2.252260 CGTGGCTTTTGTGCTCGG 59.748 61.111 0.00 0.00 0.00 4.63
214 215 2.427410 GCGTGGCTTTTGTGCTCG 60.427 61.111 0.00 0.00 35.17 5.03
215 216 2.050077 GGCGTGGCTTTTGTGCTC 60.050 61.111 0.00 0.00 0.00 4.26
216 217 3.964875 CGGCGTGGCTTTTGTGCT 61.965 61.111 0.00 0.00 0.00 4.40
217 218 3.267597 ATCGGCGTGGCTTTTGTGC 62.268 57.895 6.85 0.00 0.00 4.57
218 219 1.442520 CATCGGCGTGGCTTTTGTG 60.443 57.895 6.85 0.00 0.00 3.33
219 220 2.953821 CATCGGCGTGGCTTTTGT 59.046 55.556 6.85 0.00 0.00 2.83
220 221 2.504681 GCATCGGCGTGGCTTTTG 60.505 61.111 6.85 0.00 0.00 2.44
221 222 3.747976 GGCATCGGCGTGGCTTTT 61.748 61.111 21.87 0.00 42.47 2.27
232 233 3.592814 TAGTCGGGCTCGGCATCG 61.593 66.667 15.59 2.35 44.51 3.84
233 234 2.027751 GTAGTCGGGCTCGGCATC 59.972 66.667 15.59 0.20 44.51 3.91
234 235 3.900892 CGTAGTCGGGCTCGGCAT 61.901 66.667 15.59 0.00 44.51 4.40
239 240 4.509737 GTGGGCGTAGTCGGGCTC 62.510 72.222 0.00 0.00 37.56 4.70
279 280 2.520536 AAACGGCAGGCTCCTCTGT 61.521 57.895 0.00 0.00 37.12 3.41
361 431 7.984617 CCCAAAAATTCAAACTTGTCTTTCCTA 59.015 33.333 0.00 0.00 0.00 2.94
451 540 5.511373 CCGGCCTATCATCTTCAGATTTACA 60.511 44.000 0.00 0.00 31.21 2.41
452 541 4.932200 CCGGCCTATCATCTTCAGATTTAC 59.068 45.833 0.00 0.00 31.21 2.01
460 549 0.681733 TGAGCCGGCCTATCATCTTC 59.318 55.000 26.15 11.49 0.00 2.87
470 559 2.781595 TTCGAAAGACTGAGCCGGCC 62.782 60.000 26.15 15.80 41.84 6.13
487 576 3.558109 GCCCTATCCCTATGAGCAACTTC 60.558 52.174 0.00 0.00 0.00 3.01
491 580 0.976641 CGCCCTATCCCTATGAGCAA 59.023 55.000 0.00 0.00 0.00 3.91
501 590 0.944311 CATACACGCACGCCCTATCC 60.944 60.000 0.00 0.00 0.00 2.59
509 598 0.868177 TATGACCGCATACACGCACG 60.868 55.000 0.00 0.00 35.94 5.34
514 603 2.361119 TCACCTCTATGACCGCATACAC 59.639 50.000 0.00 0.00 35.94 2.90
523 612 8.191446 ACATACGCATATATTCACCTCTATGAC 58.809 37.037 0.00 0.00 0.00 3.06
545 634 9.457436 AATTATCTCTATGAATGCATGCACATA 57.543 29.630 25.37 23.59 35.94 2.29
553 642 8.768019 GCGCATATAATTATCTCTATGAATGCA 58.232 33.333 18.59 0.00 36.64 3.96
554 643 7.948895 CGCGCATATAATTATCTCTATGAATGC 59.051 37.037 8.75 8.12 34.21 3.56
555 644 8.972349 ACGCGCATATAATTATCTCTATGAATG 58.028 33.333 5.73 0.00 0.00 2.67
556 645 8.972349 CACGCGCATATAATTATCTCTATGAAT 58.028 33.333 5.73 0.00 0.00 2.57
557 646 7.973944 ACACGCGCATATAATTATCTCTATGAA 59.026 33.333 5.73 0.00 0.00 2.57
558 647 7.480810 ACACGCGCATATAATTATCTCTATGA 58.519 34.615 5.73 0.00 0.00 2.15
559 648 7.685532 ACACGCGCATATAATTATCTCTATG 57.314 36.000 5.73 1.67 0.00 2.23
562 651 9.399403 CATATACACGCGCATATAATTATCTCT 57.601 33.333 5.73 0.00 0.00 3.10
563 652 9.394477 TCATATACACGCGCATATAATTATCTC 57.606 33.333 5.73 0.00 0.00 2.75
564 653 9.744468 TTCATATACACGCGCATATAATTATCT 57.256 29.630 5.73 0.00 0.00 1.98
565 654 9.779237 GTTCATATACACGCGCATATAATTATC 57.221 33.333 5.73 0.00 0.00 1.75
566 655 8.476925 CGTTCATATACACGCGCATATAATTAT 58.523 33.333 5.73 2.97 0.00 1.28
567 656 7.823692 CGTTCATATACACGCGCATATAATTA 58.176 34.615 5.73 0.00 0.00 1.40
568 657 6.692392 CGTTCATATACACGCGCATATAATT 58.308 36.000 5.73 0.00 0.00 1.40
569 658 6.255884 CGTTCATATACACGCGCATATAAT 57.744 37.500 5.73 0.00 0.00 1.28
570 659 5.674215 CGTTCATATACACGCGCATATAA 57.326 39.130 5.73 0.00 0.00 0.98
590 679 2.426024 ACATCAGTACGGACATAAGCGT 59.574 45.455 0.00 0.00 0.00 5.07
673 839 4.341502 GCCCACATGCGCGTTTGT 62.342 61.111 14.27 9.24 0.00 2.83
834 1134 3.382803 CTCCCTCGCTCTGCTTGGG 62.383 68.421 9.36 9.36 39.06 4.12
835 1135 2.186384 CTCCCTCGCTCTGCTTGG 59.814 66.667 0.00 0.00 0.00 3.61
836 1136 2.186384 CCTCCCTCGCTCTGCTTG 59.814 66.667 0.00 0.00 0.00 4.01
837 1137 3.080121 CCCTCCCTCGCTCTGCTT 61.080 66.667 0.00 0.00 0.00 3.91
1064 1406 2.387757 CAAGAGAGAGAAGGGGAGGAG 58.612 57.143 0.00 0.00 0.00 3.69
1084 1426 3.964031 AGAGAGAGAGAGAGAGAGAGTCC 59.036 52.174 0.00 0.00 0.00 3.85
1134 1492 3.341043 CTGCACACACGAAGCGCT 61.341 61.111 2.64 2.64 0.00 5.92
1141 1499 4.624364 TCCTGGCCTGCACACACG 62.624 66.667 3.32 0.00 0.00 4.49
1198 1592 1.287442 AGGAGATGCTGACCTCTGAGA 59.713 52.381 6.17 0.00 0.00 3.27
1212 1606 2.566708 AAAGCTGAGGGAGAGGAGAT 57.433 50.000 0.00 0.00 0.00 2.75
1264 1679 1.246056 GCAAAACCCTAACCCGACCC 61.246 60.000 0.00 0.00 0.00 4.46
1315 1730 1.267121 ATCTAATCCAGCCGCCGTAT 58.733 50.000 0.00 0.00 0.00 3.06
1316 1731 1.913778 TATCTAATCCAGCCGCCGTA 58.086 50.000 0.00 0.00 0.00 4.02
1317 1732 1.045407 TTATCTAATCCAGCCGCCGT 58.955 50.000 0.00 0.00 0.00 5.68
1318 1733 2.002586 CATTATCTAATCCAGCCGCCG 58.997 52.381 0.00 0.00 0.00 6.46
1319 1734 3.059352 ACATTATCTAATCCAGCCGCC 57.941 47.619 0.00 0.00 0.00 6.13
1320 1735 3.815401 ACAACATTATCTAATCCAGCCGC 59.185 43.478 0.00 0.00 0.00 6.53
1321 1736 5.527214 TGAACAACATTATCTAATCCAGCCG 59.473 40.000 0.00 0.00 0.00 5.52
1344 1759 1.632422 GGGCAGTCGCATCATTTTTG 58.368 50.000 0.00 0.00 41.24 2.44
1348 1763 2.124151 GGGGGCAGTCGCATCATT 60.124 61.111 0.00 0.00 41.24 2.57
1358 1776 2.056223 CAAGGAGCAATGGGGGCAG 61.056 63.158 0.00 0.00 0.00 4.85
1363 1781 3.142838 CGGCCAAGGAGCAATGGG 61.143 66.667 2.24 0.00 37.19 4.00
1582 2923 1.965754 AAGCGCAGGAGGAAGCCTAG 61.966 60.000 11.47 0.00 36.22 3.02
1587 2928 1.302033 ACACAAGCGCAGGAGGAAG 60.302 57.895 11.47 0.00 0.00 3.46
1614 2958 2.038387 ACAAGATAACCCGCCATCAC 57.962 50.000 0.00 0.00 0.00 3.06
1640 2984 5.200454 CGTGCAGTTGATCAATTATACAGC 58.800 41.667 12.12 8.08 0.00 4.40
1647 2998 3.581024 ATTGCGTGCAGTTGATCAATT 57.419 38.095 12.12 4.21 0.00 2.32
1648 2999 3.581024 AATTGCGTGCAGTTGATCAAT 57.419 38.095 12.12 0.00 0.00 2.57
1649 3000 4.023279 ACTTAATTGCGTGCAGTTGATCAA 60.023 37.500 12.18 3.38 0.00 2.57
1650 3001 3.501828 ACTTAATTGCGTGCAGTTGATCA 59.498 39.130 12.18 0.00 0.00 2.92
1651 3002 3.848019 CACTTAATTGCGTGCAGTTGATC 59.152 43.478 12.18 0.00 0.00 2.92
1652 3003 3.253188 ACACTTAATTGCGTGCAGTTGAT 59.747 39.130 12.18 0.00 34.58 2.57
1654 3005 2.720578 CACACTTAATTGCGTGCAGTTG 59.279 45.455 12.18 0.00 34.58 3.16
1655 3006 2.616376 TCACACTTAATTGCGTGCAGTT 59.384 40.909 7.73 7.73 34.58 3.16
1656 3007 2.217750 TCACACTTAATTGCGTGCAGT 58.782 42.857 8.36 0.00 34.58 4.40
1661 3297 6.016610 ACACCTAATTTCACACTTAATTGCGT 60.017 34.615 0.00 0.00 0.00 5.24
1675 3311 3.000727 ACTGCAGCGTACACCTAATTTC 58.999 45.455 15.27 0.00 0.00 2.17
1707 3343 8.509690 TCAGAGAGCAATTTCTGTTTTCATAAG 58.490 33.333 5.09 0.00 41.21 1.73
1774 3410 9.309224 TGGTCTACATACATACAGCATAATACT 57.691 33.333 0.00 0.00 0.00 2.12
1775 3411 9.574458 CTGGTCTACATACATACAGCATAATAC 57.426 37.037 0.00 0.00 0.00 1.89
1799 3449 9.741168 CAAATTAACAAGACAATCGTAGTACTG 57.259 33.333 5.39 0.00 0.00 2.74
1807 3463 6.434596 TGACACCAAATTAACAAGACAATCG 58.565 36.000 0.00 0.00 0.00 3.34
1867 3523 8.988064 ATGCAGAGAATAATTACCGTATACAG 57.012 34.615 3.32 0.00 0.00 2.74
1899 3567 1.404035 ACCACAACCGCAGAAAAAGAC 59.596 47.619 0.00 0.00 0.00 3.01
1930 3598 1.897560 ACTCGCCTTTCCCTTTGAAG 58.102 50.000 0.00 0.00 33.63 3.02
2026 3712 4.934001 ACAGTCAATCAGTGCATAGACTTG 59.066 41.667 0.00 0.00 34.39 3.16
2027 3713 4.934001 CACAGTCAATCAGTGCATAGACTT 59.066 41.667 0.00 0.00 34.39 3.01
2028 3714 4.502016 CACAGTCAATCAGTGCATAGACT 58.498 43.478 0.00 0.00 36.84 3.24
2029 3715 4.854361 CACAGTCAATCAGTGCATAGAC 57.146 45.455 0.00 0.00 0.00 2.59
2051 3748 2.069273 GACTTGTTCACATCCAGGACG 58.931 52.381 0.00 0.00 0.00 4.79
2107 3807 3.179685 ACTAAAGAGGGTTGGAGGGTAC 58.820 50.000 0.00 0.00 0.00 3.34
2191 3893 5.023452 TGAGCTTTAGAGTACCCTTCATCA 58.977 41.667 0.00 0.00 0.00 3.07
2226 3928 0.957395 AGTCAAGCAGGGATGCAACG 60.957 55.000 2.73 0.00 37.25 4.10
2227 3929 1.251251 AAGTCAAGCAGGGATGCAAC 58.749 50.000 2.73 0.00 37.25 4.17
2258 4122 3.069289 ACATGTGCTGCATATATGGACG 58.931 45.455 20.62 7.01 35.74 4.79
2281 4146 7.033185 GCTAGACAACAAAAAGAAAAGGAACA 58.967 34.615 0.00 0.00 0.00 3.18
2979 4909 5.655488 ACTAGAGTGTACAGCAGCAAATAG 58.345 41.667 0.00 0.00 0.00 1.73
3483 7918 6.873605 GGCAAAGTGGTAGATTAAGCAAAATT 59.126 34.615 0.00 0.00 0.00 1.82
3825 8304 4.072131 ACACATACCTTTTGCCTACACAG 58.928 43.478 0.00 0.00 0.00 3.66
4166 8871 3.049912 GTCTTCAAAACCATTTCACGCC 58.950 45.455 0.00 0.00 0.00 5.68
4352 9077 5.471456 ACACAGCCTAAGAGAATTCAAGTTG 59.529 40.000 8.44 0.00 0.00 3.16
4425 9176 7.156000 TCAGAGTAAATGAACGAATACCAACA 58.844 34.615 0.00 0.00 0.00 3.33
4470 9221 8.532977 AAAATTGTTCCACGATTATTGAAAGG 57.467 30.769 0.00 0.00 31.20 3.11
4720 10015 3.426963 GCGACTCAAAAACCTTGTCAACA 60.427 43.478 0.00 0.00 0.00 3.33
4721 10016 3.105937 GCGACTCAAAAACCTTGTCAAC 58.894 45.455 0.00 0.00 0.00 3.18
4722 10017 2.223157 CGCGACTCAAAAACCTTGTCAA 60.223 45.455 0.00 0.00 0.00 3.18
4723 10018 1.329292 CGCGACTCAAAAACCTTGTCA 59.671 47.619 0.00 0.00 0.00 3.58
4724 10019 1.595794 TCGCGACTCAAAAACCTTGTC 59.404 47.619 3.71 0.00 0.00 3.18
4725 10020 1.329599 GTCGCGACTCAAAAACCTTGT 59.670 47.619 31.12 0.00 0.00 3.16
4726 10021 1.597663 AGTCGCGACTCAAAAACCTTG 59.402 47.619 34.98 0.00 36.92 3.61
4727 10022 1.949465 AGTCGCGACTCAAAAACCTT 58.051 45.000 34.98 10.31 36.92 3.50
4728 10023 1.597663 CAAGTCGCGACTCAAAAACCT 59.402 47.619 39.19 20.28 41.58 3.50
4729 10024 1.333791 CCAAGTCGCGACTCAAAAACC 60.334 52.381 39.19 10.95 41.58 3.27
4730 10025 1.920272 GCCAAGTCGCGACTCAAAAAC 60.920 52.381 39.19 21.97 41.58 2.43
4731 10026 0.306533 GCCAAGTCGCGACTCAAAAA 59.693 50.000 39.19 0.00 41.58 1.94
4732 10027 1.938861 GCCAAGTCGCGACTCAAAA 59.061 52.632 39.19 0.00 41.58 2.44
4733 10028 3.637714 GCCAAGTCGCGACTCAAA 58.362 55.556 39.19 0.00 41.58 2.69
4767 10062 1.359117 GACTATACGCTGAGCCGCA 59.641 57.895 0.00 0.00 0.00 5.69
4768 10063 1.726322 CGACTATACGCTGAGCCGC 60.726 63.158 0.00 0.00 0.00 6.53
4769 10064 0.384477 GTCGACTATACGCTGAGCCG 60.384 60.000 8.70 0.00 0.00 5.52
4770 10065 0.384477 CGTCGACTATACGCTGAGCC 60.384 60.000 14.70 0.00 33.04 4.70
4771 10066 0.580578 TCGTCGACTATACGCTGAGC 59.419 55.000 14.70 0.00 40.12 4.26
4772 10067 3.242349 ACTTTCGTCGACTATACGCTGAG 60.242 47.826 14.70 2.28 40.12 3.35
4773 10068 2.674852 ACTTTCGTCGACTATACGCTGA 59.325 45.455 14.70 0.00 40.12 4.26
4774 10069 3.027710 GACTTTCGTCGACTATACGCTG 58.972 50.000 14.70 0.00 40.12 5.18
4775 10070 3.316253 GACTTTCGTCGACTATACGCT 57.684 47.619 14.70 0.00 40.12 5.07
4786 10081 3.027710 CGACTATACAGCGACTTTCGTC 58.972 50.000 0.00 0.00 42.81 4.20
4787 10082 2.790468 GCGACTATACAGCGACTTTCGT 60.790 50.000 0.00 0.00 42.81 3.85
4788 10083 1.774085 GCGACTATACAGCGACTTTCG 59.226 52.381 0.00 0.00 43.89 3.46
4789 10084 2.117910 GGCGACTATACAGCGACTTTC 58.882 52.381 0.00 0.00 0.00 2.62
4790 10085 1.475280 TGGCGACTATACAGCGACTTT 59.525 47.619 0.00 0.00 32.60 2.66
4791 10086 1.100510 TGGCGACTATACAGCGACTT 58.899 50.000 0.00 0.00 32.60 3.01
4792 10087 1.319541 ATGGCGACTATACAGCGACT 58.680 50.000 0.00 0.00 32.60 4.18
4793 10088 2.983402 TATGGCGACTATACAGCGAC 57.017 50.000 0.00 0.00 32.18 5.19
4794 10089 2.882761 ACTTATGGCGACTATACAGCGA 59.117 45.455 0.00 0.00 0.00 4.93
4795 10090 3.235195 GACTTATGGCGACTATACAGCG 58.765 50.000 0.00 0.00 0.00 5.18
4796 10091 3.982058 GTGACTTATGGCGACTATACAGC 59.018 47.826 0.00 0.00 0.00 4.40
4797 10092 5.215903 CAGTGACTTATGGCGACTATACAG 58.784 45.833 0.00 0.00 0.00 2.74
4798 10093 4.643334 ACAGTGACTTATGGCGACTATACA 59.357 41.667 0.00 0.00 0.00 2.29
4799 10094 5.184340 ACAGTGACTTATGGCGACTATAC 57.816 43.478 0.00 0.00 0.00 1.47
4800 10095 7.881751 ACTATACAGTGACTTATGGCGACTATA 59.118 37.037 0.00 0.00 32.25 1.31
4801 10096 6.715718 ACTATACAGTGACTTATGGCGACTAT 59.284 38.462 0.00 0.00 32.25 2.12
4802 10097 6.060136 ACTATACAGTGACTTATGGCGACTA 58.940 40.000 0.00 0.00 32.25 2.59
4803 10098 4.888239 ACTATACAGTGACTTATGGCGACT 59.112 41.667 0.00 0.00 32.25 4.18
4804 10099 5.184340 ACTATACAGTGACTTATGGCGAC 57.816 43.478 0.00 0.00 32.25 5.19
4805 10100 4.024302 CGACTATACAGTGACTTATGGCGA 60.024 45.833 0.00 0.00 34.21 5.54
4806 10101 4.219802 CGACTATACAGTGACTTATGGCG 58.780 47.826 0.00 0.00 34.21 5.69
4807 10102 3.982058 GCGACTATACAGTGACTTATGGC 59.018 47.826 0.00 0.00 34.21 4.40
4808 10103 4.037565 TGGCGACTATACAGTGACTTATGG 59.962 45.833 0.00 0.00 34.21 2.74
4809 10104 5.183014 TGGCGACTATACAGTGACTTATG 57.817 43.478 0.00 0.00 34.21 1.90
4810 10105 7.230913 ACTTATGGCGACTATACAGTGACTTAT 59.769 37.037 0.00 0.00 34.21 1.73
4811 10106 6.544931 ACTTATGGCGACTATACAGTGACTTA 59.455 38.462 0.00 0.00 34.21 2.24
4812 10107 5.360144 ACTTATGGCGACTATACAGTGACTT 59.640 40.000 0.00 0.00 34.21 3.01
4813 10108 4.888239 ACTTATGGCGACTATACAGTGACT 59.112 41.667 0.00 0.00 34.21 3.41
4814 10109 5.184340 ACTTATGGCGACTATACAGTGAC 57.816 43.478 0.00 0.00 34.21 3.67
4815 10110 4.885325 TGACTTATGGCGACTATACAGTGA 59.115 41.667 0.00 0.00 34.21 3.41
4816 10111 4.976731 GTGACTTATGGCGACTATACAGTG 59.023 45.833 0.00 0.00 34.21 3.66
4817 10112 4.888239 AGTGACTTATGGCGACTATACAGT 59.112 41.667 0.00 0.00 37.87 3.55
4818 10113 5.215903 CAGTGACTTATGGCGACTATACAG 58.784 45.833 0.00 0.00 0.00 2.74
4819 10114 4.643334 ACAGTGACTTATGGCGACTATACA 59.357 41.667 0.00 0.00 0.00 2.29
4820 10115 5.184340 ACAGTGACTTATGGCGACTATAC 57.816 43.478 0.00 0.00 0.00 1.47
4821 10116 7.881751 ACTATACAGTGACTTATGGCGACTATA 59.118 37.037 0.00 0.00 32.25 1.31
4822 10117 6.715718 ACTATACAGTGACTTATGGCGACTAT 59.284 38.462 0.00 0.00 32.25 2.12
4823 10118 6.060136 ACTATACAGTGACTTATGGCGACTA 58.940 40.000 0.00 0.00 32.25 2.59
4824 10119 4.888239 ACTATACAGTGACTTATGGCGACT 59.112 41.667 0.00 0.00 32.25 4.18
4825 10120 5.184340 ACTATACAGTGACTTATGGCGAC 57.816 43.478 0.00 0.00 32.25 5.19
4826 10121 4.024302 CGACTATACAGTGACTTATGGCGA 60.024 45.833 0.00 0.00 34.21 5.54
4827 10122 4.219802 CGACTATACAGTGACTTATGGCG 58.780 47.826 0.00 0.00 34.21 5.69
4828 10123 3.982058 GCGACTATACAGTGACTTATGGC 59.018 47.826 0.00 0.00 34.21 4.40
4829 10124 4.024302 TCGCGACTATACAGTGACTTATGG 60.024 45.833 3.71 0.00 34.21 2.74
4830 10125 5.091910 TCGCGACTATACAGTGACTTATG 57.908 43.478 3.71 0.00 34.21 1.90
4831 10126 4.815308 ACTCGCGACTATACAGTGACTTAT 59.185 41.667 3.71 0.00 34.21 1.73
4832 10127 4.186926 ACTCGCGACTATACAGTGACTTA 58.813 43.478 3.71 0.00 34.21 2.24
4833 10128 3.008330 ACTCGCGACTATACAGTGACTT 58.992 45.455 3.71 0.00 34.21 3.01
4834 10129 2.608546 GACTCGCGACTATACAGTGACT 59.391 50.000 3.71 0.00 34.21 3.41
4835 10130 2.597040 CGACTCGCGACTATACAGTGAC 60.597 54.545 3.71 0.00 44.57 3.67
4836 10131 1.591619 CGACTCGCGACTATACAGTGA 59.408 52.381 3.71 0.00 44.57 3.41
4837 10132 1.916394 GCGACTCGCGACTATACAGTG 60.916 57.143 3.71 0.00 44.55 3.66
4838 10133 0.304098 GCGACTCGCGACTATACAGT 59.696 55.000 3.71 0.00 44.55 3.55
4839 10134 3.059898 GCGACTCGCGACTATACAG 57.940 57.895 3.71 0.00 44.55 2.74
4850 10145 0.447801 CCAAAAATCAGGGCGACTCG 59.552 55.000 0.00 0.00 0.00 4.18
4851 10146 1.821216 TCCAAAAATCAGGGCGACTC 58.179 50.000 0.00 0.00 0.00 3.36
4852 10147 2.286365 TTCCAAAAATCAGGGCGACT 57.714 45.000 0.00 0.00 0.00 4.18
4853 10148 3.057019 GTTTTCCAAAAATCAGGGCGAC 58.943 45.455 0.00 0.00 0.00 5.19
4854 10149 2.287909 CGTTTTCCAAAAATCAGGGCGA 60.288 45.455 0.00 0.00 0.00 5.54
4855 10150 2.058057 CGTTTTCCAAAAATCAGGGCG 58.942 47.619 0.00 0.00 0.00 6.13
4856 10151 3.057019 GTCGTTTTCCAAAAATCAGGGC 58.943 45.455 0.00 0.00 0.00 5.19
4857 10152 4.584327 AGTCGTTTTCCAAAAATCAGGG 57.416 40.909 0.00 0.00 0.00 4.45
4858 10153 4.744631 CCAAGTCGTTTTCCAAAAATCAGG 59.255 41.667 0.00 0.00 0.00 3.86
4859 10154 4.209080 GCCAAGTCGTTTTCCAAAAATCAG 59.791 41.667 0.00 0.00 0.00 2.90
4860 10155 4.116238 GCCAAGTCGTTTTCCAAAAATCA 58.884 39.130 0.00 0.00 0.00 2.57
4861 10156 3.181575 CGCCAAGTCGTTTTCCAAAAATC 59.818 43.478 0.00 0.00 0.00 2.17
4862 10157 3.120041 CGCCAAGTCGTTTTCCAAAAAT 58.880 40.909 0.00 0.00 0.00 1.82
4863 10158 2.163815 TCGCCAAGTCGTTTTCCAAAAA 59.836 40.909 0.00 0.00 0.00 1.94
4864 10159 1.743958 TCGCCAAGTCGTTTTCCAAAA 59.256 42.857 0.00 0.00 0.00 2.44
4865 10160 1.380524 TCGCCAAGTCGTTTTCCAAA 58.619 45.000 0.00 0.00 0.00 3.28
4866 10161 1.600023 ATCGCCAAGTCGTTTTCCAA 58.400 45.000 0.00 0.00 0.00 3.53
4867 10162 1.600023 AATCGCCAAGTCGTTTTCCA 58.400 45.000 0.00 0.00 0.00 3.53
4868 10163 2.740447 ACTAATCGCCAAGTCGTTTTCC 59.260 45.455 0.00 0.00 0.00 3.13
4869 10164 3.987361 GACTAATCGCCAAGTCGTTTTC 58.013 45.455 0.00 0.00 33.38 2.29
4877 10172 5.690984 ATAGTCGCCGACTAATCGCCAAG 62.691 52.174 28.54 0.00 46.28 3.61
4878 10173 3.903286 ATAGTCGCCGACTAATCGCCAA 61.903 50.000 28.54 7.79 46.28 4.52
4879 10174 2.419101 ATAGTCGCCGACTAATCGCCA 61.419 52.381 28.54 8.55 46.28 5.69
4880 10175 0.240411 ATAGTCGCCGACTAATCGCC 59.760 55.000 28.54 0.00 46.28 5.54
4881 10176 2.096069 TGTATAGTCGCCGACTAATCGC 60.096 50.000 28.54 18.43 46.28 4.58
4882 10177 3.734031 CTGTATAGTCGCCGACTAATCG 58.266 50.000 28.54 14.45 46.28 3.34
4883 10178 3.490399 GCTGTATAGTCGCCGACTAATC 58.510 50.000 28.54 22.63 46.28 1.75
4884 10179 2.095869 CGCTGTATAGTCGCCGACTAAT 60.096 50.000 28.54 18.97 46.28 1.73
4885 10180 1.262417 CGCTGTATAGTCGCCGACTAA 59.738 52.381 28.54 15.92 46.28 2.24
4887 10182 0.812811 TCGCTGTATAGTCGCCGACT 60.813 55.000 24.55 24.55 45.54 4.18
4888 10183 0.656786 GTCGCTGTATAGTCGCCGAC 60.657 60.000 9.71 9.71 0.00 4.79
4889 10184 0.812811 AGTCGCTGTATAGTCGCCGA 60.813 55.000 0.00 0.00 0.00 5.54
4890 10185 0.863799 TAGTCGCTGTATAGTCGCCG 59.136 55.000 0.00 0.00 0.00 6.46
4891 10186 3.058432 TGATTAGTCGCTGTATAGTCGCC 60.058 47.826 0.00 0.00 0.00 5.54
4892 10187 4.143194 TGATTAGTCGCTGTATAGTCGC 57.857 45.455 0.00 0.00 0.00 5.19
4893 10188 4.152526 GCTGATTAGTCGCTGTATAGTCG 58.847 47.826 0.00 0.00 0.00 4.18
4894 10189 4.083961 TCGCTGATTAGTCGCTGTATAGTC 60.084 45.833 0.00 0.00 0.00 2.59
4895 10190 3.813724 TCGCTGATTAGTCGCTGTATAGT 59.186 43.478 0.00 0.00 0.00 2.12
4896 10191 4.083749 AGTCGCTGATTAGTCGCTGTATAG 60.084 45.833 1.97 0.00 0.00 1.31
4897 10192 3.813724 AGTCGCTGATTAGTCGCTGTATA 59.186 43.478 1.97 0.00 0.00 1.47
4898 10193 2.619177 AGTCGCTGATTAGTCGCTGTAT 59.381 45.455 1.97 0.00 0.00 2.29
4899 10194 2.014857 AGTCGCTGATTAGTCGCTGTA 58.985 47.619 1.97 0.00 0.00 2.74
4900 10195 0.811915 AGTCGCTGATTAGTCGCTGT 59.188 50.000 1.97 0.00 0.00 4.40
4901 10196 1.202188 TGAGTCGCTGATTAGTCGCTG 60.202 52.381 1.97 0.00 0.00 5.18
4902 10197 1.095600 TGAGTCGCTGATTAGTCGCT 58.904 50.000 1.97 0.00 0.00 4.93
4903 10198 1.909376 TTGAGTCGCTGATTAGTCGC 58.091 50.000 0.00 0.00 0.00 5.19
4904 10199 4.434330 GGTTTTTGAGTCGCTGATTAGTCG 60.434 45.833 0.00 0.00 0.00 4.18
4905 10200 4.451096 TGGTTTTTGAGTCGCTGATTAGTC 59.549 41.667 0.00 0.00 0.00 2.59
4906 10201 4.385825 TGGTTTTTGAGTCGCTGATTAGT 58.614 39.130 0.00 0.00 0.00 2.24
4907 10202 5.327091 CATGGTTTTTGAGTCGCTGATTAG 58.673 41.667 0.00 0.00 0.00 1.73
4908 10203 4.379394 GCATGGTTTTTGAGTCGCTGATTA 60.379 41.667 0.00 0.00 0.00 1.75
4909 10204 3.612479 GCATGGTTTTTGAGTCGCTGATT 60.612 43.478 0.00 0.00 0.00 2.57
4910 10205 2.095059 GCATGGTTTTTGAGTCGCTGAT 60.095 45.455 0.00 0.00 0.00 2.90
4911 10206 1.266718 GCATGGTTTTTGAGTCGCTGA 59.733 47.619 0.00 0.00 0.00 4.26
4912 10207 1.267806 AGCATGGTTTTTGAGTCGCTG 59.732 47.619 0.00 0.00 0.00 5.18
4913 10208 1.609208 AGCATGGTTTTTGAGTCGCT 58.391 45.000 0.00 0.00 0.00 4.93
4914 10209 2.053627 CAAGCATGGTTTTTGAGTCGC 58.946 47.619 7.57 0.00 0.00 5.19
4915 10210 3.354089 ACAAGCATGGTTTTTGAGTCG 57.646 42.857 7.57 0.00 0.00 4.18
4916 10211 4.681744 TCAACAAGCATGGTTTTTGAGTC 58.318 39.130 26.93 0.00 0.00 3.36
4917 10212 4.402155 TCTCAACAAGCATGGTTTTTGAGT 59.598 37.500 38.96 22.10 40.45 3.41
4918 10213 4.741676 GTCTCAACAAGCATGGTTTTTGAG 59.258 41.667 37.45 37.45 40.78 3.02
4919 10214 4.159321 TGTCTCAACAAGCATGGTTTTTGA 59.841 37.500 28.04 28.04 30.70 2.69
4920 10215 4.431809 TGTCTCAACAAGCATGGTTTTTG 58.568 39.130 23.94 23.94 30.70 2.44
4921 10216 4.734398 TGTCTCAACAAGCATGGTTTTT 57.266 36.364 7.57 5.20 30.70 1.94
4922 10217 4.942761 ATGTCTCAACAAGCATGGTTTT 57.057 36.364 7.57 0.00 39.30 2.43
4923 10218 4.942761 AATGTCTCAACAAGCATGGTTT 57.057 36.364 7.57 0.00 39.30 3.27
4924 10219 4.501915 CCAAATGTCTCAACAAGCATGGTT 60.502 41.667 3.82 3.82 39.30 3.67
4925 10220 3.006110 CCAAATGTCTCAACAAGCATGGT 59.994 43.478 0.00 0.00 39.30 3.55
4926 10221 3.006110 ACCAAATGTCTCAACAAGCATGG 59.994 43.478 0.00 0.00 39.30 3.66
4927 10222 4.247267 ACCAAATGTCTCAACAAGCATG 57.753 40.909 0.00 0.00 39.30 4.06
4928 10223 4.218417 GGTACCAAATGTCTCAACAAGCAT 59.782 41.667 7.15 0.00 39.30 3.79
4929 10224 3.568007 GGTACCAAATGTCTCAACAAGCA 59.432 43.478 7.15 0.00 39.30 3.91
4930 10225 3.364964 CGGTACCAAATGTCTCAACAAGC 60.365 47.826 13.54 0.00 39.30 4.01
4931 10226 3.188460 CCGGTACCAAATGTCTCAACAAG 59.812 47.826 13.54 0.00 39.30 3.16
4932 10227 3.142951 CCGGTACCAAATGTCTCAACAA 58.857 45.455 13.54 0.00 39.30 2.83
4952 10247 4.490706 AGGACCAGGGTCTACATAATACC 58.509 47.826 17.41 0.00 44.04 2.73
5028 10343 6.599638 ACCCTTTAGAATGCAGTAACAGAATC 59.400 38.462 0.00 0.00 0.00 2.52
5086 10485 5.260900 GTTCTGAACTAAAACCACGACAAC 58.739 41.667 13.13 0.00 0.00 3.32
5088 10487 3.552699 CGTTCTGAACTAAAACCACGACA 59.447 43.478 17.60 0.00 0.00 4.35
5106 10505 6.114221 TCCATTCCGAAATTATTGTCGTTC 57.886 37.500 8.04 0.00 35.48 3.95
5121 10520 4.957684 ATTAACTACTCCCTCCATTCCG 57.042 45.455 0.00 0.00 0.00 4.30
5238 10638 3.230134 TGGGGATGTCAAAGGAAACAAG 58.770 45.455 0.00 0.00 0.00 3.16
5458 11305 4.698780 CAGACACACCATCATCATCAACTT 59.301 41.667 0.00 0.00 0.00 2.66
5464 11311 1.282738 TGGCAGACACACCATCATCAT 59.717 47.619 0.00 0.00 0.00 2.45
5508 11355 4.659111 TTGCTTTCTCCGTCGGATATAA 57.341 40.909 15.81 7.08 0.00 0.98
5535 11384 5.047188 CGGGTGTCTTTTTGTAAAATTGCT 58.953 37.500 0.00 0.00 0.00 3.91
5544 11393 0.395173 AGGTGCGGGTGTCTTTTTGT 60.395 50.000 0.00 0.00 0.00 2.83
5553 11402 2.997315 TGGAGAGAGGTGCGGGTG 60.997 66.667 0.00 0.00 0.00 4.61
5586 11435 4.547671 AGATAAGGATGAACGAGGGAAGA 58.452 43.478 0.00 0.00 0.00 2.87
5699 11550 2.574399 GTGGTCGGACTGAGCTCC 59.426 66.667 12.15 0.00 45.46 4.70
5700 11551 0.680280 TAGGTGGTCGGACTGAGCTC 60.680 60.000 14.31 6.82 45.46 4.09
5701 11552 0.966370 GTAGGTGGTCGGACTGAGCT 60.966 60.000 14.31 11.80 45.46 4.09
5723 11574 4.954118 AGGAGTGGGGCGTGGTGA 62.954 66.667 0.00 0.00 0.00 4.02
5763 11616 4.316823 AGCGGAGTGGGGGAGACA 62.317 66.667 0.00 0.00 0.00 3.41
5791 11644 4.289245 ACCGTCCGTGTCCCAACG 62.289 66.667 0.00 0.00 43.20 4.10
5808 11661 2.100031 CGCAAGCACGTAGATGGCA 61.100 57.895 0.00 0.00 0.00 4.92
5956 11813 0.518636 CGGAACACCAAGATGCACAG 59.481 55.000 0.00 0.00 0.00 3.66
5957 11814 0.179032 ACGGAACACCAAGATGCACA 60.179 50.000 0.00 0.00 0.00 4.57
5958 11815 0.238289 CACGGAACACCAAGATGCAC 59.762 55.000 0.00 0.00 0.00 4.57
6002 11859 5.501715 TGCACGTACGCTTACTAGTATTAC 58.498 41.667 16.72 3.06 0.00 1.89
6186 12305 5.291971 ACCAAGATTGCTTCAATGACAAAC 58.708 37.500 0.00 0.00 33.90 2.93
6398 12984 4.025813 GCAAAGTGCACATTTGGTAACTTG 60.026 41.667 27.69 10.52 44.26 3.16
6591 13182 2.937149 CTGATCTGCATGTGACTTGAGG 59.063 50.000 2.34 0.00 0.00 3.86
6755 13346 9.708092 AGAGAACAATAGTAGAAAACTGGTTAC 57.292 33.333 0.00 0.00 39.39 2.50
7036 13800 0.032952 TGACGGTAGCAAGCTTTCGT 59.967 50.000 17.53 17.53 36.66 3.85
7077 13841 5.348997 GCTGGACATGTAGTAACTCACTTTC 59.651 44.000 0.00 0.00 38.80 2.62
7168 14013 7.065803 GCATCACAAGCTTGTTTATACTCCTAA 59.934 37.037 29.23 4.12 39.91 2.69
7283 14128 4.935205 TGCTTGCAAGACGTATACTCAAAT 59.065 37.500 30.39 0.00 0.00 2.32
7284 14129 4.311606 TGCTTGCAAGACGTATACTCAAA 58.688 39.130 30.39 0.00 0.00 2.69
7285 14130 3.920446 TGCTTGCAAGACGTATACTCAA 58.080 40.909 30.39 0.00 0.00 3.02
7327 14282 0.603707 TGCAACTGCTGGTCACTAGC 60.604 55.000 6.13 6.13 42.66 3.42
7461 14416 3.535561 CCTCACCGTGAGCTTTCATTAT 58.464 45.455 21.26 0.00 42.98 1.28
7566 14536 4.161876 TCAAGTTAGGTACCACCAGCTTA 58.838 43.478 15.94 0.00 41.95 3.09
7568 14538 2.616524 TCAAGTTAGGTACCACCAGCT 58.383 47.619 15.94 3.18 41.95 4.24
7595 14565 7.753659 TCTAGAAATTCAACGACTCTAGAGTG 58.246 38.462 29.84 21.74 42.66 3.51
7674 14644 9.953565 TTAGATTTTAAGTTAGGTACAGCACAT 57.046 29.630 0.00 0.00 0.00 3.21
7708 14679 3.310774 CCATTTGTGCTAGATCCAACGAG 59.689 47.826 0.00 0.00 0.00 4.18
7730 14706 4.640201 TCAGCAAATATTCAACAGGTAGGC 59.360 41.667 0.00 0.00 0.00 3.93
7735 14713 7.201461 CCGAAAAATCAGCAAATATTCAACAGG 60.201 37.037 0.00 0.00 0.00 4.00
7797 14806 0.108138 GGGAGTGACTGAATGACCCG 60.108 60.000 0.00 0.00 0.00 5.28
7815 14824 1.081892 CTTCCTCGTGCATGTTCAGG 58.918 55.000 5.68 5.81 0.00 3.86
7827 14836 4.273480 ACATTGTTGAACAGAACTTCCTCG 59.727 41.667 0.00 0.00 0.00 4.63
7830 14839 4.504097 GCAACATTGTTGAACAGAACTTCC 59.496 41.667 29.04 6.66 0.00 3.46
8097 15196 8.422566 GCCCTAAAGAGATGTACAATAGTAAGT 58.577 37.037 0.00 0.00 30.67 2.24
8332 15528 8.243289 CATTTATTGGAAACACATCAACCTTC 57.757 34.615 0.00 0.00 42.67 3.46
8418 15625 0.028902 GTCGCCGCCCAAAATATGTC 59.971 55.000 0.00 0.00 0.00 3.06
8469 15697 0.779997 AGGGTTGGGCATGTTCTTCT 59.220 50.000 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.