Multiple sequence alignment - TraesCS4A01G117300

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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 TraesCS4A01G117300 chr4A 100.000 9411 0 0 1 9411 143242067 143251477 0.000000e+00 17379.0
1 TraesCS4A01G117300 chr4A 89.697 1155 100 11 5079 6223 582640093 582641238 0.000000e+00 1456.0
2 TraesCS4A01G117300 chr4A 89.423 208 13 7 4021 4222 176540474 176540270 4.360000e-63 254.0
3 TraesCS4A01G117300 chr4A 96.000 125 5 0 2530 2654 446768008 446768132 4.460000e-48 204.0
4 TraesCS4A01G117300 chr4A 87.218 133 17 0 2875 3007 617925908 617925776 1.640000e-32 152.0
5 TraesCS4A01G117300 chr4A 84.722 144 20 2 2876 3019 584667570 584667429 9.850000e-30 143.0
6 TraesCS4A01G117300 chr4D 96.408 3480 88 15 5947 9409 327723701 327720242 0.000000e+00 5699.0
7 TraesCS4A01G117300 chr4D 97.283 1951 48 4 577 2526 327731462 327729516 0.000000e+00 3304.0
8 TraesCS4A01G117300 chr4D 93.519 864 45 3 4225 5085 327725815 327724960 0.000000e+00 1275.0
9 TraesCS4A01G117300 chr4D 95.797 690 25 3 3080 3765 327727328 327726639 0.000000e+00 1110.0
10 TraesCS4A01G117300 chr4D 93.213 442 14 5 2654 3091 327729520 327729091 3.710000e-178 636.0
11 TraesCS4A01G117300 chr4D 92.925 424 18 4 3805 4222 327726283 327725866 2.910000e-169 606.0
12 TraesCS4A01G117300 chr4D 93.165 395 9 3 1 377 327731840 327731446 1.770000e-156 564.0
13 TraesCS4A01G117300 chr4D 86.854 426 36 8 3807 4222 346467609 346467194 8.610000e-125 459.0
14 TraesCS4A01G117300 chr4D 86.279 430 42 8 3805 4224 206064555 206064133 1.440000e-122 451.0
15 TraesCS4A01G117300 chr4D 99.200 125 1 0 454 578 278710840 278710964 9.510000e-55 226.0
16 TraesCS4A01G117300 chr4D 96.324 136 3 2 454 587 275881618 275881483 1.230000e-53 222.0
17 TraesCS4A01G117300 chr4D 91.975 162 6 4 424 578 48073460 48073621 4.420000e-53 220.0
18 TraesCS4A01G117300 chr4D 95.000 140 5 2 454 591 44383185 44383046 1.590000e-52 219.0
19 TraesCS4A01G117300 chr4D 84.000 150 12 1 2875 3012 23322870 23322721 5.930000e-27 134.0
20 TraesCS4A01G117300 chr4D 86.885 122 13 2 2892 3012 192739039 192738920 5.930000e-27 134.0
21 TraesCS4A01G117300 chr4D 92.308 91 7 0 2922 3012 220358563 220358653 7.670000e-26 130.0
22 TraesCS4A01G117300 chr4D 82.667 150 14 1 2875 3012 482703475 482703624 1.280000e-23 122.0
23 TraesCS4A01G117300 chr4D 81.333 150 16 1 2875 3012 32017176 32017325 2.780000e-20 111.0
24 TraesCS4A01G117300 chr4D 80.667 150 17 1 2875 3012 100798527 100798676 1.290000e-18 106.0
25 TraesCS4A01G117300 chr4D 84.348 115 6 3 2910 3012 423599071 423598957 1.670000e-17 102.0
26 TraesCS4A01G117300 chr4D 82.456 114 8 4 2911 3012 54796064 54795951 1.300000e-13 89.8
27 TraesCS4A01G117300 chr4D 82.456 114 8 1 2919 3020 220360560 220360447 1.300000e-13 89.8
28 TraesCS4A01G117300 chr4D 81.667 120 9 2 2905 3012 482697523 482697405 4.680000e-13 87.9
29 TraesCS4A01G117300 chr4B 97.192 2493 42 6 1 2491 407070574 407068108 0.000000e+00 4191.0
30 TraesCS4A01G117300 chr4B 95.643 1813 51 6 7623 9409 407059593 407057783 0.000000e+00 2885.0
31 TraesCS4A01G117300 chr4B 97.200 1357 36 2 5079 6434 407064043 407062688 0.000000e+00 2294.0
32 TraesCS4A01G117300 chr4B 97.227 1118 23 5 2654 3767 407067647 407066534 0.000000e+00 1886.0
33 TraesCS4A01G117300 chr4B 95.244 862 32 2 4225 5085 407065372 407064519 0.000000e+00 1356.0
34 TraesCS4A01G117300 chr4B 95.169 621 15 5 6716 7332 407061176 407060567 0.000000e+00 966.0
35 TraesCS4A01G117300 chr4B 95.550 427 12 3 3805 4224 407065846 407065420 0.000000e+00 676.0
36 TraesCS4A01G117300 chr4B 97.101 345 7 2 7336 7678 407059932 407059589 6.340000e-161 579.0
37 TraesCS4A01G117300 chr4B 87.413 429 34 7 3806 4224 327520520 327520938 8.550000e-130 475.0
38 TraesCS4A01G117300 chr4B 96.679 271 9 0 6448 6718 407061604 407061334 1.440000e-122 451.0
39 TraesCS4A01G117300 chr4B 95.105 143 2 2 441 578 90723874 90723732 4.420000e-53 220.0
40 TraesCS4A01G117300 chr4B 86.567 134 18 0 2876 3009 206802623 206802756 2.120000e-31 148.0
41 TraesCS4A01G117300 chr4B 96.825 63 2 0 2556 2618 182772132 182772194 1.290000e-18 106.0
42 TraesCS4A01G117300 chr4B 100.000 40 0 0 2487 2526 407067682 407067643 3.640000e-09 75.0
43 TraesCS4A01G117300 chr7B 89.757 1152 102 10 5079 6223 440797132 440798274 0.000000e+00 1459.0
44 TraesCS4A01G117300 chr7B 91.593 226 17 1 3554 3779 401547909 401548132 2.550000e-80 311.0
45 TraesCS4A01G117300 chr7B 95.205 146 2 2 438 578 440795124 440794979 9.510000e-55 226.0
46 TraesCS4A01G117300 chr6A 89.637 1158 103 9 5079 6227 410905305 410906454 0.000000e+00 1458.0
47 TraesCS4A01G117300 chr6A 92.357 157 10 2 424 578 258137674 258137830 1.230000e-53 222.0
48 TraesCS4A01G117300 chr6A 96.296 135 5 0 454 588 440860429 440860563 1.230000e-53 222.0
49 TraesCS4A01G117300 chr6A 89.595 173 10 5 424 589 417561697 417561868 7.400000e-51 213.0
50 TraesCS4A01G117300 chr6A 94.495 109 4 2 2549 2655 435059234 435059126 5.850000e-37 167.0
51 TraesCS4A01G117300 chr6A 87.640 89 9 2 2567 2654 430582733 430582646 1.670000e-17 102.0
52 TraesCS4A01G117300 chr3A 89.670 1152 102 9 5081 6223 734456763 734457906 0.000000e+00 1452.0
53 TraesCS4A01G117300 chr3A 91.003 389 35 0 4694 5082 83249523 83249911 8.370000e-145 525.0
54 TraesCS4A01G117300 chr3A 91.739 230 18 1 3539 3767 308688536 308688765 1.530000e-82 318.0
55 TraesCS4A01G117300 chr3A 87.162 148 17 2 2876 3023 609950990 609951135 5.850000e-37 167.0
56 TraesCS4A01G117300 chr2D 89.601 1154 103 9 5079 6223 106330540 106329395 0.000000e+00 1450.0
57 TraesCS4A01G117300 chr2D 90.833 480 32 4 4225 4700 335266733 335266262 4.800000e-177 632.0
58 TraesCS4A01G117300 chr2D 91.260 389 32 1 4697 5085 284549330 284548944 6.470000e-146 529.0
59 TraesCS4A01G117300 chr2D 92.140 229 15 3 3539 3765 249891788 249892015 4.240000e-83 320.0
60 TraesCS4A01G117300 chr2D 91.975 162 6 4 424 578 12568394 12568555 4.420000e-53 220.0
61 TraesCS4A01G117300 chr2D 86.897 145 17 2 2875 3019 449516356 449516214 2.720000e-35 161.0
62 TraesCS4A01G117300 chr1D 89.601 1154 102 10 5079 6223 247480984 247482128 0.000000e+00 1450.0
63 TraesCS4A01G117300 chr1D 83.571 700 77 24 3807 4485 22886374 22885692 1.040000e-173 621.0
64 TraesCS4A01G117300 chr1D 92.031 389 30 1 4697 5085 411571000 411570613 6.430000e-151 545.0
65 TraesCS4A01G117300 chr1D 91.228 228 19 1 3539 3765 225419589 225419362 9.180000e-80 309.0
66 TraesCS4A01G117300 chr1D 96.212 132 4 1 454 585 1070874 1071004 2.060000e-51 215.0
67 TraesCS4A01G117300 chr1D 94.326 141 7 1 454 594 107622087 107622226 2.060000e-51 215.0
68 TraesCS4A01G117300 chr1D 90.683 161 9 4 424 578 120400665 120400825 9.580000e-50 209.0
69 TraesCS4A01G117300 chr1D 86.275 102 14 0 2875 2976 348065727 348065828 2.780000e-20 111.0
70 TraesCS4A01G117300 chr1D 94.643 56 3 0 2957 3012 12316454 12316509 4.680000e-13 87.9
71 TraesCS4A01G117300 chr5A 89.145 1170 108 11 5079 6239 111616733 111617892 0.000000e+00 1439.0
72 TraesCS4A01G117300 chr5A 90.452 199 17 2 4026 4224 582391923 582392119 2.610000e-65 261.0
73 TraesCS4A01G117300 chr5A 91.339 127 9 2 2529 2653 9376158 9376032 1.260000e-38 172.0
74 TraesCS4A01G117300 chr5A 86.131 137 19 0 2876 3012 271053779 271053643 2.120000e-31 148.0
75 TraesCS4A01G117300 chr6B 89.203 1167 104 13 5081 6238 511704590 511703437 0.000000e+00 1437.0
76 TraesCS4A01G117300 chr6B 90.852 481 31 5 4225 4700 62426327 62425855 4.800000e-177 632.0
77 TraesCS4A01G117300 chr6B 90.833 480 32 4 4225 4700 410234178 410233707 4.800000e-177 632.0
78 TraesCS4A01G117300 chr6B 85.912 433 43 7 3805 4224 20208238 20207811 6.700000e-121 446.0
79 TraesCS4A01G117300 chr6B 87.923 207 18 7 3527 3727 224870623 224870828 4.390000e-58 237.0
80 TraesCS4A01G117300 chr1B 90.833 480 32 4 4225 4700 146736955 146736484 4.800000e-177 632.0
81 TraesCS4A01G117300 chr1B 90.985 477 31 4 4225 4697 672407441 672407909 4.800000e-177 632.0
82 TraesCS4A01G117300 chr1B 93.836 146 4 2 438 578 303251987 303251842 2.060000e-51 215.0
83 TraesCS4A01G117300 chr1B 90.000 130 10 3 2526 2652 132070123 132070252 2.100000e-36 165.0
84 TraesCS4A01G117300 chr7A 90.417 480 34 7 4225 4700 317759047 317758576 1.040000e-173 621.0
85 TraesCS4A01G117300 chr7A 86.885 427 42 5 3805 4222 353915307 353914886 5.150000e-127 466.0
86 TraesCS4A01G117300 chr7A 86.230 443 29 17 3807 4224 309472117 309471682 1.440000e-122 451.0
87 TraesCS4A01G117300 chr7A 91.928 223 13 4 3805 4023 496823273 496823052 3.300000e-79 307.0
88 TraesCS4A01G117300 chr7A 85.526 152 17 5 2875 3023 356367884 356367735 4.550000e-33 154.0
89 TraesCS4A01G117300 chr2B 90.417 480 34 7 4225 4700 79719430 79718959 1.040000e-173 621.0
90 TraesCS4A01G117300 chr2B 86.792 424 44 7 3805 4221 399820267 399820685 6.660000e-126 462.0
91 TraesCS4A01G117300 chr2B 85.821 402 45 5 3806 4196 546948896 546948496 5.260000e-112 416.0
92 TraesCS4A01G117300 chr2B 95.385 130 6 0 2529 2658 353569224 353569095 3.440000e-49 207.0
93 TraesCS4A01G117300 chr2B 89.855 138 14 0 2875 3012 602995384 602995247 2.700000e-40 178.0
94 TraesCS4A01G117300 chr1A 90.356 477 34 6 4225 4697 128643231 128643699 4.830000e-172 616.0
95 TraesCS4A01G117300 chr1A 92.073 164 6 4 424 580 477660857 477660694 3.420000e-54 224.0
96 TraesCS4A01G117300 chr1A 91.358 162 7 4 424 578 198858707 198858868 2.060000e-51 215.0
97 TraesCS4A01G117300 chr1A 93.151 146 5 2 438 578 127926888 127926743 9.580000e-50 209.0
98 TraesCS4A01G117300 chr1A 90.741 162 8 5 424 578 524430383 524430544 9.580000e-50 209.0
99 TraesCS4A01G117300 chr1A 88.793 116 12 1 2910 3024 223939683 223939568 3.540000e-29 141.0
100 TraesCS4A01G117300 chr5B 91.260 389 34 0 4697 5085 474775529 474775141 1.800000e-146 531.0
101 TraesCS4A01G117300 chr5B 91.003 389 35 0 4694 5082 93223159 93223547 8.370000e-145 525.0
102 TraesCS4A01G117300 chr5B 94.521 146 2 3 438 578 279099245 279099101 4.420000e-53 220.0
103 TraesCS4A01G117300 chr5B 88.889 135 15 0 2875 3009 650012583 650012449 5.850000e-37 167.0
104 TraesCS4A01G117300 chr5B 85.401 137 20 0 2876 3012 573003578 573003714 9.850000e-30 143.0
105 TraesCS4A01G117300 chr5B 92.982 57 3 1 2600 2655 483950428 483950372 2.180000e-11 82.4
106 TraesCS4A01G117300 chr2A 91.260 389 34 0 4694 5082 333747006 333747394 1.800000e-146 531.0
107 TraesCS4A01G117300 chr2A 92.576 229 14 3 3539 3765 310407144 310406917 9.110000e-85 326.0
108 TraesCS4A01G117300 chr2A 88.406 138 16 0 2875 3012 317953304 317953167 5.850000e-37 167.0
109 TraesCS4A01G117300 chr2A 88.550 131 9 3 2529 2653 500026779 500026649 4.550000e-33 154.0
110 TraesCS4A01G117300 chrUn 90.933 386 35 0 4694 5079 27368198 27368583 3.900000e-143 520.0
111 TraesCS4A01G117300 chrUn 98.400 125 2 0 454 578 1035825 1035701 4.420000e-53 220.0
112 TraesCS4A01G117300 chrUn 98.400 125 2 0 454 578 17582231 17582107 4.420000e-53 220.0
113 TraesCS4A01G117300 chrUn 98.400 125 2 0 454 578 70285971 70285847 4.420000e-53 220.0
114 TraesCS4A01G117300 chrUn 98.400 125 2 0 454 578 85312859 85312983 4.420000e-53 220.0
115 TraesCS4A01G117300 chrUn 98.400 125 2 0 454 578 86972417 86972293 4.420000e-53 220.0
116 TraesCS4A01G117300 chrUn 96.296 135 4 1 454 588 95253619 95253486 4.420000e-53 220.0
117 TraesCS4A01G117300 chrUn 98.400 125 2 0 454 578 100782362 100782238 4.420000e-53 220.0
118 TraesCS4A01G117300 chrUn 98.400 125 2 0 454 578 119818183 119818307 4.420000e-53 220.0
119 TraesCS4A01G117300 chrUn 93.151 146 5 3 438 578 222091797 222091652 9.580000e-50 209.0
120 TraesCS4A01G117300 chrUn 91.781 146 7 3 438 578 473291660 473291515 2.070000e-46 198.0
121 TraesCS4A01G117300 chrUn 80.851 141 26 1 2874 3014 262699227 262699366 9.990000e-20 110.0
122 TraesCS4A01G117300 chrUn 80.000 145 16 5 2880 3012 2393971 2394114 2.800000e-15 95.3
123 TraesCS4A01G117300 chr3B 88.861 395 22 8 3805 4179 379353611 379353219 5.150000e-127 466.0
124 TraesCS4A01G117300 chr3B 91.304 230 18 2 3540 3767 342876567 342876796 7.100000e-81 313.0
125 TraesCS4A01G117300 chr3B 93.233 133 7 2 2529 2659 573490994 573490862 2.680000e-45 195.0
126 TraesCS4A01G117300 chr3B 90.000 130 10 3 2529 2655 257831287 257831158 2.100000e-36 165.0
127 TraesCS4A01G117300 chr3D 85.581 430 43 6 3805 4224 326962376 326962796 5.220000e-117 433.0
128 TraesCS4A01G117300 chr3D 85.417 432 41 11 3806 4222 126972393 126972817 6.750000e-116 429.0
129 TraesCS4A01G117300 chr3D 91.228 228 18 2 3539 3765 142475059 142474833 9.180000e-80 309.0
130 TraesCS4A01G117300 chr3D 88.559 236 24 3 3534 3767 32006185 32005951 5.560000e-72 283.0
131 TraesCS4A01G117300 chr3D 94.406 143 3 2 441 578 28237700 28237558 2.060000e-51 215.0
132 TraesCS4A01G117300 chr3D 86.301 146 18 2 2876 3021 467283521 467283664 3.520000e-34 158.0
133 TraesCS4A01G117300 chr3D 89.744 117 9 3 2903 3019 533920900 533920787 7.620000e-31 147.0
134 TraesCS4A01G117300 chr6D 91.975 162 6 4 424 578 429743429 429743590 4.420000e-53 220.0
135 TraesCS4A01G117300 chr6D 84.028 144 21 2 2876 3019 446086892 446086751 4.580000e-28 137.0
136 TraesCS4A01G117300 chr6D 81.988 161 17 1 2875 3023 137159919 137159759 9.920000e-25 126.0
137 TraesCS4A01G117300 chr6D 89.691 97 10 0 2880 2976 445729875 445729971 3.570000e-24 124.0
138 TraesCS4A01G117300 chr6D 82.707 133 9 7 2901 3021 4632346 4632476 1.290000e-18 106.0
139 TraesCS4A01G117300 chr7D 95.312 128 3 3 2532 2659 495861809 495861685 5.760000e-47 200.0
140 TraesCS4A01G117300 chr7D 88.571 140 16 0 2875 3014 404243920 404244059 4.520000e-38 171.0
141 TraesCS4A01G117300 chr7D 89.855 138 7 5 2529 2659 446945236 446945099 4.520000e-38 171.0
142 TraesCS4A01G117300 chr7D 88.462 130 15 0 2883 3012 126649700 126649571 3.520000e-34 158.0
143 TraesCS4A01G117300 chr7D 87.640 89 9 2 2567 2654 490217530 490217443 1.670000e-17 102.0
144 TraesCS4A01G117300 chr7D 93.103 58 4 0 2597 2654 476700205 476700262 1.680000e-12 86.1
145 TraesCS4A01G117300 chr5D 89.130 138 15 0 2875 3012 299073550 299073413 1.260000e-38 172.0


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 TraesCS4A01G117300 chr4A 143242067 143251477 9410 False 17379.000000 17379 100.000000 1 9411 1 chr4A.!!$F1 9410
1 TraesCS4A01G117300 chr4A 582640093 582641238 1145 False 1456.000000 1456 89.697000 5079 6223 1 chr4A.!!$F3 1144
2 TraesCS4A01G117300 chr4D 327720242 327731840 11598 True 1884.857143 5699 94.615714 1 9409 7 chr4D.!!$R11 9408
3 TraesCS4A01G117300 chr4B 407057783 407070574 12791 True 1535.900000 4191 96.700500 1 9409 10 chr4B.!!$R2 9408
4 TraesCS4A01G117300 chr7B 440797132 440798274 1142 False 1459.000000 1459 89.757000 5079 6223 1 chr7B.!!$F2 1144
5 TraesCS4A01G117300 chr6A 410905305 410906454 1149 False 1458.000000 1458 89.637000 5079 6227 1 chr6A.!!$F2 1148
6 TraesCS4A01G117300 chr3A 734456763 734457906 1143 False 1452.000000 1452 89.670000 5081 6223 1 chr3A.!!$F4 1142
7 TraesCS4A01G117300 chr2D 106329395 106330540 1145 True 1450.000000 1450 89.601000 5079 6223 1 chr2D.!!$R1 1144
8 TraesCS4A01G117300 chr1D 247480984 247482128 1144 False 1450.000000 1450 89.601000 5079 6223 1 chr1D.!!$F5 1144
9 TraesCS4A01G117300 chr1D 22885692 22886374 682 True 621.000000 621 83.571000 3807 4485 1 chr1D.!!$R1 678
10 TraesCS4A01G117300 chr5A 111616733 111617892 1159 False 1439.000000 1439 89.145000 5079 6239 1 chr5A.!!$F1 1160
11 TraesCS4A01G117300 chr6B 511703437 511704590 1153 True 1437.000000 1437 89.203000 5081 6238 1 chr6B.!!$R4 1157

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
416 435 0.044855 AGCCTGAAGGACTGGGGTAT 59.955 55.000 0.00 0.00 37.94 2.73 F
441 460 0.044855 AAGAGCCTATGGACAGGGGT 59.955 55.000 0.00 0.00 36.10 4.95 F
497 516 0.179037 TGCTATCCATGTGCCAGAGC 60.179 55.000 0.00 0.00 40.48 4.09 F
516 535 0.179100 CCATGAGTTGGTCGCGAGAT 60.179 55.000 10.24 0.00 45.19 2.75 F
524 543 0.673985 TGGTCGCGAGATCTTATGGG 59.326 55.000 10.24 0.00 43.23 4.00 F
525 544 0.674534 GGTCGCGAGATCTTATGGGT 59.325 55.000 10.24 0.00 45.19 4.51 F
545 564 0.714180 TTCACCTCTAGCCTACCCCA 59.286 55.000 0.00 0.00 0.00 4.96 F
2532 3178 0.324614 TCTGAGGCAGAAATTCCGCA 59.675 50.000 3.46 0.00 37.57 5.69 F
2580 3226 0.033405 AGAGCTGTAACCGCCTCCTA 60.033 55.000 0.00 0.00 0.00 2.94 F
2581 3227 0.386113 GAGCTGTAACCGCCTCCTAG 59.614 60.000 0.00 0.00 0.00 3.02 F
2902 3559 0.608640 GACAATGAGGTCACGGGTCT 59.391 55.000 0.00 0.00 37.73 3.85 F
3907 6998 1.001887 GTACCACCCGCCCATCAAA 60.002 57.895 0.00 0.00 0.00 2.69 F
5604 9260 0.322277 TCCTCACGTCTCCTTACGCT 60.322 55.000 0.00 0.00 46.71 5.07 F
6486 11415 0.036388 ACAACAGTCCGTGGCTATGG 60.036 55.000 0.92 0.92 0.00 2.74 F
7248 12341 0.103937 GTCTCGCTAATGCTCCAGCT 59.896 55.000 0.00 0.00 42.66 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1479 1694 0.609681 TGATGCCATGAACAGCTGCA 60.610 50.000 15.27 4.85 36.23 4.41 R
1965 2181 2.758089 GCACGCTGCAGGAATGGAG 61.758 63.158 17.12 0.00 44.26 3.86 R
2048 2264 5.452078 TTCAAGTAGGAATGCACCAAAAG 57.548 39.130 0.00 0.00 0.00 2.27 R
2050 2266 5.774690 AGATTTCAAGTAGGAATGCACCAAA 59.225 36.000 0.00 0.00 0.00 3.28 R
2432 2648 7.043986 GCATCTGTAACACGAAGACTATGTTAG 60.044 40.741 6.99 1.21 38.98 2.34 R
2530 3176 0.958822 AATGAACGTCCCAGGTTTGC 59.041 50.000 0.00 0.00 0.00 3.68 R
2554 3200 0.824109 CGGTTACAGCTCTGGATGGA 59.176 55.000 1.66 0.00 32.48 3.41 R
3907 6998 1.006162 ACGAGGAGGAAGAGGTTAGCT 59.994 52.381 0.00 0.00 0.00 3.32 R
4461 7619 7.172868 TGTACTAATTACCGTGGAATTCAGA 57.827 36.000 7.93 0.00 0.00 3.27 R
4528 7686 9.836179 AGAAGAATGGAGATGGAGTATATTAGT 57.164 33.333 0.00 0.00 0.00 2.24 R
4725 7883 4.196193 ACTTCGACAAGTTGTTCAATGGA 58.804 39.130 10.45 0.00 40.16 3.41 R
5801 9457 0.118346 TATGGTCCCTGACAGGTGGT 59.882 55.000 20.24 4.35 33.68 4.16 R
6780 11869 0.320421 ACGGTGATGTCAACCTTCCG 60.320 55.000 7.26 7.26 41.77 4.30 R
8405 14200 0.742635 GACCAGCTCCTGCACTAAGC 60.743 60.000 2.69 2.69 42.74 3.09 R
8516 14311 0.670854 GCGGTTTGAGAGACAGGTCC 60.671 60.000 0.00 0.00 0.00 4.46 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
171 172 2.166459 CAGCGTCCTATCAGGAGTTTGA 59.834 50.000 0.00 0.00 46.90 2.69
360 379 5.010012 CACTTTTAGCTGGTCCACAAGATTT 59.990 40.000 0.00 0.00 0.00 2.17
361 380 5.598417 ACTTTTAGCTGGTCCACAAGATTTT 59.402 36.000 0.00 0.00 0.00 1.82
362 381 5.705609 TTTAGCTGGTCCACAAGATTTTC 57.294 39.130 0.00 0.00 0.00 2.29
363 382 3.515602 AGCTGGTCCACAAGATTTTCT 57.484 42.857 0.00 0.00 0.00 2.52
364 383 3.416156 AGCTGGTCCACAAGATTTTCTC 58.584 45.455 0.00 0.00 0.00 2.87
365 384 3.073650 AGCTGGTCCACAAGATTTTCTCT 59.926 43.478 0.00 0.00 34.96 3.10
366 385 4.287067 AGCTGGTCCACAAGATTTTCTCTA 59.713 41.667 0.00 0.00 32.41 2.43
367 386 5.045286 AGCTGGTCCACAAGATTTTCTCTAT 60.045 40.000 0.00 0.00 32.41 1.98
368 387 5.649831 GCTGGTCCACAAGATTTTCTCTATT 59.350 40.000 0.00 0.00 32.41 1.73
369 388 6.404074 GCTGGTCCACAAGATTTTCTCTATTG 60.404 42.308 0.00 0.00 32.41 1.90
370 389 6.778821 TGGTCCACAAGATTTTCTCTATTGA 58.221 36.000 0.00 0.00 32.41 2.57
371 390 6.881065 TGGTCCACAAGATTTTCTCTATTGAG 59.119 38.462 0.00 0.00 41.51 3.02
372 391 6.881602 GGTCCACAAGATTTTCTCTATTGAGT 59.118 38.462 4.06 0.00 40.98 3.41
373 392 7.148340 GGTCCACAAGATTTTCTCTATTGAGTG 60.148 40.741 4.06 0.00 40.98 3.51
374 393 7.604164 GTCCACAAGATTTTCTCTATTGAGTGA 59.396 37.037 4.06 0.00 40.98 3.41
375 394 7.604164 TCCACAAGATTTTCTCTATTGAGTGAC 59.396 37.037 4.06 0.00 40.98 3.67
376 395 7.388776 CCACAAGATTTTCTCTATTGAGTGACA 59.611 37.037 4.06 0.00 40.98 3.58
377 396 8.777413 CACAAGATTTTCTCTATTGAGTGACAA 58.223 33.333 4.06 0.00 40.98 3.18
378 397 8.778358 ACAAGATTTTCTCTATTGAGTGACAAC 58.222 33.333 4.06 0.00 40.98 3.32
379 398 8.777413 CAAGATTTTCTCTATTGAGTGACAACA 58.223 33.333 4.06 0.00 40.98 3.33
380 399 8.908786 AGATTTTCTCTATTGAGTGACAACAA 57.091 30.769 4.06 0.00 41.52 2.83
381 400 8.778358 AGATTTTCTCTATTGAGTGACAACAAC 58.222 33.333 4.06 0.00 41.52 3.32
382 401 7.857734 TTTTCTCTATTGAGTGACAACAACA 57.142 32.000 4.06 0.00 41.52 3.33
383 402 7.857734 TTTCTCTATTGAGTGACAACAACAA 57.142 32.000 4.06 0.00 41.52 2.83
384 403 6.844696 TCTCTATTGAGTGACAACAACAAC 57.155 37.500 4.06 0.00 41.52 3.32
385 404 6.345298 TCTCTATTGAGTGACAACAACAACA 58.655 36.000 4.06 0.00 41.52 3.33
386 405 6.821160 TCTCTATTGAGTGACAACAACAACAA 59.179 34.615 4.06 0.00 41.52 2.83
387 406 7.335673 TCTCTATTGAGTGACAACAACAACAAA 59.664 33.333 4.06 0.00 41.52 2.83
388 407 7.247728 TCTATTGAGTGACAACAACAACAAAC 58.752 34.615 0.00 0.00 41.52 2.93
389 408 4.837896 TGAGTGACAACAACAACAAACA 57.162 36.364 0.00 0.00 0.00 2.83
390 409 5.188327 TGAGTGACAACAACAACAAACAA 57.812 34.783 0.00 0.00 0.00 2.83
391 410 4.979197 TGAGTGACAACAACAACAAACAAC 59.021 37.500 0.00 0.00 0.00 3.32
392 411 4.938080 AGTGACAACAACAACAAACAACA 58.062 34.783 0.00 0.00 0.00 3.33
393 412 5.352284 AGTGACAACAACAACAAACAACAA 58.648 33.333 0.00 0.00 0.00 2.83
394 413 5.233263 AGTGACAACAACAACAAACAACAAC 59.767 36.000 0.00 0.00 0.00 3.32
395 414 5.005779 GTGACAACAACAACAAACAACAACA 59.994 36.000 0.00 0.00 0.00 3.33
396 415 5.580691 TGACAACAACAACAAACAACAACAA 59.419 32.000 0.00 0.00 0.00 2.83
397 416 6.092122 TGACAACAACAACAAACAACAACAAA 59.908 30.769 0.00 0.00 0.00 2.83
398 417 6.481984 ACAACAACAACAAACAACAACAAAG 58.518 32.000 0.00 0.00 0.00 2.77
399 418 5.089396 ACAACAACAAACAACAACAAAGC 57.911 34.783 0.00 0.00 0.00 3.51
400 419 4.024472 ACAACAACAAACAACAACAAAGCC 60.024 37.500 0.00 0.00 0.00 4.35
401 420 4.001618 ACAACAAACAACAACAAAGCCT 57.998 36.364 0.00 0.00 0.00 4.58
402 421 3.745458 ACAACAAACAACAACAAAGCCTG 59.255 39.130 0.00 0.00 0.00 4.85
403 422 3.951775 ACAAACAACAACAAAGCCTGA 57.048 38.095 0.00 0.00 0.00 3.86
404 423 4.264460 ACAAACAACAACAAAGCCTGAA 57.736 36.364 0.00 0.00 0.00 3.02
405 424 4.244862 ACAAACAACAACAAAGCCTGAAG 58.755 39.130 0.00 0.00 0.00 3.02
406 425 3.525268 AACAACAACAAAGCCTGAAGG 57.475 42.857 0.00 0.00 38.53 3.46
407 426 2.733956 ACAACAACAAAGCCTGAAGGA 58.266 42.857 0.00 0.00 37.39 3.36
408 427 2.427095 ACAACAACAAAGCCTGAAGGAC 59.573 45.455 0.00 0.00 37.39 3.85
409 428 2.689983 CAACAACAAAGCCTGAAGGACT 59.310 45.455 0.00 0.00 37.39 3.85
410 429 2.301346 ACAACAAAGCCTGAAGGACTG 58.699 47.619 0.00 0.00 37.39 3.51
411 430 1.610522 CAACAAAGCCTGAAGGACTGG 59.389 52.381 0.00 0.00 40.02 4.00
412 431 0.111253 ACAAAGCCTGAAGGACTGGG 59.889 55.000 0.00 0.00 37.94 4.45
413 432 0.610232 CAAAGCCTGAAGGACTGGGG 60.610 60.000 0.00 0.00 37.94 4.96
414 433 1.068352 AAAGCCTGAAGGACTGGGGT 61.068 55.000 0.00 0.00 37.94 4.95
415 434 0.178873 AAGCCTGAAGGACTGGGGTA 60.179 55.000 0.00 0.00 37.94 3.69
416 435 0.044855 AGCCTGAAGGACTGGGGTAT 59.955 55.000 0.00 0.00 37.94 2.73
417 436 0.470341 GCCTGAAGGACTGGGGTATC 59.530 60.000 0.00 0.00 37.94 2.24
418 437 1.879575 CCTGAAGGACTGGGGTATCA 58.120 55.000 0.00 0.00 37.39 2.15
419 438 1.486726 CCTGAAGGACTGGGGTATCAC 59.513 57.143 0.00 0.00 37.39 3.06
420 439 1.486726 CTGAAGGACTGGGGTATCACC 59.513 57.143 0.00 0.00 37.60 4.02
421 440 1.203376 TGAAGGACTGGGGTATCACCA 60.203 52.381 0.00 0.00 41.02 4.17
422 441 1.913419 GAAGGACTGGGGTATCACCAA 59.087 52.381 0.00 0.00 41.02 3.67
423 442 2.053747 AGGACTGGGGTATCACCAAA 57.946 50.000 0.00 0.00 41.02 3.28
424 443 1.916181 AGGACTGGGGTATCACCAAAG 59.084 52.381 0.00 0.00 41.02 2.77
425 444 1.913419 GGACTGGGGTATCACCAAAGA 59.087 52.381 0.00 0.00 41.02 2.52
426 445 2.092914 GGACTGGGGTATCACCAAAGAG 60.093 54.545 0.00 0.00 41.02 2.85
427 446 1.282157 ACTGGGGTATCACCAAAGAGC 59.718 52.381 0.00 0.00 41.02 4.09
428 447 0.623723 TGGGGTATCACCAAAGAGCC 59.376 55.000 0.00 0.00 41.02 4.70
429 448 0.919710 GGGGTATCACCAAAGAGCCT 59.080 55.000 0.00 0.00 41.02 4.58
430 449 2.124411 GGGGTATCACCAAAGAGCCTA 58.876 52.381 0.00 0.00 41.02 3.93
431 450 2.711547 GGGGTATCACCAAAGAGCCTAT 59.288 50.000 0.00 0.00 41.02 2.57
432 451 3.496870 GGGGTATCACCAAAGAGCCTATG 60.497 52.174 0.00 0.00 41.02 2.23
433 452 3.496870 GGGTATCACCAAAGAGCCTATGG 60.497 52.174 0.00 0.00 41.02 2.74
434 453 3.391296 GGTATCACCAAAGAGCCTATGGA 59.609 47.826 0.00 0.00 38.42 3.41
435 454 3.567478 ATCACCAAAGAGCCTATGGAC 57.433 47.619 0.00 0.00 37.66 4.02
436 455 2.265367 TCACCAAAGAGCCTATGGACA 58.735 47.619 0.00 0.00 37.66 4.02
437 456 2.237143 TCACCAAAGAGCCTATGGACAG 59.763 50.000 0.00 0.00 37.66 3.51
438 457 1.561542 ACCAAAGAGCCTATGGACAGG 59.438 52.381 0.00 0.00 37.66 4.00
439 458 1.133976 CCAAAGAGCCTATGGACAGGG 60.134 57.143 0.00 0.00 36.27 4.45
440 459 1.133976 CAAAGAGCCTATGGACAGGGG 60.134 57.143 0.00 0.00 36.10 4.79
441 460 0.044855 AAGAGCCTATGGACAGGGGT 59.955 55.000 0.00 0.00 36.10 4.95
442 461 0.941963 AGAGCCTATGGACAGGGGTA 59.058 55.000 0.00 0.00 36.10 3.69
443 462 1.509961 AGAGCCTATGGACAGGGGTAT 59.490 52.381 0.00 0.00 36.10 2.73
444 463 1.903183 GAGCCTATGGACAGGGGTATC 59.097 57.143 0.00 0.00 36.10 2.24
445 464 1.223077 AGCCTATGGACAGGGGTATCA 59.777 52.381 0.00 0.00 36.10 2.15
446 465 2.054799 GCCTATGGACAGGGGTATCAA 58.945 52.381 0.00 0.00 36.10 2.57
447 466 2.224548 GCCTATGGACAGGGGTATCAAC 60.225 54.545 0.00 0.00 36.10 3.18
448 467 3.045634 CCTATGGACAGGGGTATCAACA 58.954 50.000 0.00 0.00 31.47 3.33
449 468 3.458118 CCTATGGACAGGGGTATCAACAA 59.542 47.826 0.00 0.00 31.47 2.83
450 469 4.080015 CCTATGGACAGGGGTATCAACAAA 60.080 45.833 0.00 0.00 31.47 2.83
451 470 3.433306 TGGACAGGGGTATCAACAAAG 57.567 47.619 0.00 0.00 0.00 2.77
452 471 2.092323 GGACAGGGGTATCAACAAAGC 58.908 52.381 0.00 0.00 0.00 3.51
453 472 2.092323 GACAGGGGTATCAACAAAGCC 58.908 52.381 0.00 0.00 0.00 4.35
454 473 1.710809 ACAGGGGTATCAACAAAGCCT 59.289 47.619 0.00 0.00 33.67 4.58
455 474 2.916934 ACAGGGGTATCAACAAAGCCTA 59.083 45.455 0.00 0.00 33.67 3.93
456 475 3.527665 ACAGGGGTATCAACAAAGCCTAT 59.472 43.478 0.00 0.00 33.67 2.57
457 476 3.885297 CAGGGGTATCAACAAAGCCTATG 59.115 47.826 0.00 0.00 33.67 2.23
458 477 3.117512 AGGGGTATCAACAAAGCCTATGG 60.118 47.826 0.00 0.00 33.67 2.74
459 478 3.117663 GGGGTATCAACAAAGCCTATGGA 60.118 47.826 0.00 0.00 33.67 3.41
460 479 3.883489 GGGTATCAACAAAGCCTATGGAC 59.117 47.826 0.00 0.00 0.00 4.02
461 480 4.523083 GGTATCAACAAAGCCTATGGACA 58.477 43.478 0.00 0.00 0.00 4.02
462 481 4.576463 GGTATCAACAAAGCCTATGGACAG 59.424 45.833 0.00 0.00 0.00 3.51
463 482 3.071874 TCAACAAAGCCTATGGACAGG 57.928 47.619 0.00 0.00 38.86 4.00
464 483 2.094675 CAACAAAGCCTATGGACAGGG 58.905 52.381 0.00 0.00 36.10 4.45
465 484 0.625849 ACAAAGCCTATGGACAGGGG 59.374 55.000 0.00 0.00 36.10 4.79
466 485 0.625849 CAAAGCCTATGGACAGGGGT 59.374 55.000 0.00 0.00 36.10 4.95
467 486 0.625849 AAAGCCTATGGACAGGGGTG 59.374 55.000 0.00 0.00 36.10 4.61
468 487 1.926426 AAGCCTATGGACAGGGGTGC 61.926 60.000 0.00 0.00 36.10 5.01
469 488 2.505982 CCTATGGACAGGGGTGCG 59.494 66.667 0.00 0.00 38.35 5.34
470 489 2.367202 CCTATGGACAGGGGTGCGT 61.367 63.158 0.00 0.00 38.35 5.24
471 490 1.153369 CTATGGACAGGGGTGCGTG 60.153 63.158 0.00 0.00 38.35 5.34
472 491 2.593468 CTATGGACAGGGGTGCGTGG 62.593 65.000 0.00 0.00 38.35 4.94
474 493 3.948719 GGACAGGGGTGCGTGGAA 61.949 66.667 0.00 0.00 0.00 3.53
475 494 2.358737 GACAGGGGTGCGTGGAAG 60.359 66.667 0.00 0.00 0.00 3.46
476 495 4.643387 ACAGGGGTGCGTGGAAGC 62.643 66.667 0.00 0.00 37.71 3.86
477 496 4.335647 CAGGGGTGCGTGGAAGCT 62.336 66.667 0.00 0.00 38.13 3.74
478 497 3.570212 AGGGGTGCGTGGAAGCTT 61.570 61.111 0.00 0.00 38.13 3.74
479 498 3.365265 GGGGTGCGTGGAAGCTTG 61.365 66.667 2.10 0.00 38.13 4.01
480 499 4.043200 GGGTGCGTGGAAGCTTGC 62.043 66.667 11.58 11.58 38.13 4.01
481 500 2.980233 GGTGCGTGGAAGCTTGCT 60.980 61.111 19.34 0.00 38.13 3.91
482 501 1.671054 GGTGCGTGGAAGCTTGCTA 60.671 57.895 19.34 2.82 38.13 3.49
483 502 1.026718 GGTGCGTGGAAGCTTGCTAT 61.027 55.000 19.34 0.00 38.13 2.97
484 503 0.375106 GTGCGTGGAAGCTTGCTATC 59.625 55.000 19.34 8.59 38.13 2.08
485 504 0.744414 TGCGTGGAAGCTTGCTATCC 60.744 55.000 19.34 6.99 38.13 2.59
486 505 0.744414 GCGTGGAAGCTTGCTATCCA 60.744 55.000 19.34 9.80 40.84 3.41
487 506 1.959042 CGTGGAAGCTTGCTATCCAT 58.041 50.000 19.34 0.00 44.55 3.41
488 507 1.600957 CGTGGAAGCTTGCTATCCATG 59.399 52.381 19.34 20.51 44.55 3.66
489 508 2.648059 GTGGAAGCTTGCTATCCATGT 58.352 47.619 19.34 0.00 44.55 3.21
490 509 2.357009 GTGGAAGCTTGCTATCCATGTG 59.643 50.000 19.34 0.00 44.55 3.21
491 510 1.336125 GGAAGCTTGCTATCCATGTGC 59.664 52.381 11.19 0.00 33.30 4.57
492 511 1.336125 GAAGCTTGCTATCCATGTGCC 59.664 52.381 2.10 0.00 0.00 5.01
493 512 0.256752 AGCTTGCTATCCATGTGCCA 59.743 50.000 0.00 0.00 0.00 4.92
494 513 0.666913 GCTTGCTATCCATGTGCCAG 59.333 55.000 0.00 0.00 0.00 4.85
495 514 1.748244 GCTTGCTATCCATGTGCCAGA 60.748 52.381 0.00 0.00 0.00 3.86
496 515 2.219458 CTTGCTATCCATGTGCCAGAG 58.781 52.381 0.00 0.00 0.00 3.35
497 516 0.179037 TGCTATCCATGTGCCAGAGC 60.179 55.000 0.00 0.00 40.48 4.09
498 517 0.888285 GCTATCCATGTGCCAGAGCC 60.888 60.000 0.00 0.00 38.69 4.70
499 518 0.471191 CTATCCATGTGCCAGAGCCA 59.529 55.000 0.00 0.00 38.69 4.75
500 519 1.073444 CTATCCATGTGCCAGAGCCAT 59.927 52.381 0.00 0.00 38.69 4.40
501 520 0.467474 ATCCATGTGCCAGAGCCATG 60.467 55.000 8.59 8.59 42.54 3.66
502 521 1.077285 CCATGTGCCAGAGCCATGA 60.077 57.895 14.22 0.00 44.14 3.07
503 522 1.101635 CCATGTGCCAGAGCCATGAG 61.102 60.000 14.22 5.17 44.14 2.90
504 523 0.393944 CATGTGCCAGAGCCATGAGT 60.394 55.000 0.00 0.00 44.14 3.41
505 524 0.330604 ATGTGCCAGAGCCATGAGTT 59.669 50.000 0.00 0.00 38.69 3.01
506 525 0.607217 TGTGCCAGAGCCATGAGTTG 60.607 55.000 0.00 0.00 38.69 3.16
514 533 3.786101 CCATGAGTTGGTCGCGAG 58.214 61.111 10.24 0.00 40.99 5.03
515 534 1.215382 CCATGAGTTGGTCGCGAGA 59.785 57.895 10.24 0.00 40.99 4.04
516 535 0.179100 CCATGAGTTGGTCGCGAGAT 60.179 55.000 10.24 0.00 45.19 2.75
517 536 1.203928 CATGAGTTGGTCGCGAGATC 58.796 55.000 10.24 2.63 45.19 2.75
518 537 1.107114 ATGAGTTGGTCGCGAGATCT 58.893 50.000 10.24 5.84 43.23 2.75
519 538 0.888619 TGAGTTGGTCGCGAGATCTT 59.111 50.000 10.24 0.00 43.23 2.40
520 539 2.089201 TGAGTTGGTCGCGAGATCTTA 58.911 47.619 10.24 0.00 43.23 2.10
521 540 2.688446 TGAGTTGGTCGCGAGATCTTAT 59.312 45.455 10.24 0.00 43.23 1.73
522 541 3.046390 GAGTTGGTCGCGAGATCTTATG 58.954 50.000 10.24 0.00 43.23 1.90
523 542 2.128035 GTTGGTCGCGAGATCTTATGG 58.872 52.381 10.24 0.00 43.23 2.74
524 543 0.673985 TGGTCGCGAGATCTTATGGG 59.326 55.000 10.24 0.00 43.23 4.00
525 544 0.674534 GGTCGCGAGATCTTATGGGT 59.325 55.000 10.24 0.00 45.19 4.51
526 545 1.068741 GGTCGCGAGATCTTATGGGTT 59.931 52.381 10.24 0.00 45.19 4.11
527 546 2.483188 GGTCGCGAGATCTTATGGGTTT 60.483 50.000 10.24 0.00 45.19 3.27
528 547 2.795470 GTCGCGAGATCTTATGGGTTTC 59.205 50.000 10.24 0.00 45.19 2.78
529 548 2.429250 TCGCGAGATCTTATGGGTTTCA 59.571 45.455 3.71 0.00 33.31 2.69
530 549 2.540101 CGCGAGATCTTATGGGTTTCAC 59.460 50.000 0.00 0.00 0.00 3.18
531 550 2.872858 GCGAGATCTTATGGGTTTCACC 59.127 50.000 0.00 0.00 37.60 4.02
532 551 3.432326 GCGAGATCTTATGGGTTTCACCT 60.432 47.826 0.00 0.00 38.64 4.00
533 552 4.372656 CGAGATCTTATGGGTTTCACCTC 58.627 47.826 0.00 0.00 38.64 3.85
534 553 4.100189 CGAGATCTTATGGGTTTCACCTCT 59.900 45.833 0.00 0.00 38.64 3.69
535 554 5.302059 CGAGATCTTATGGGTTTCACCTCTA 59.698 44.000 0.00 0.00 38.64 2.43
536 555 6.515862 CGAGATCTTATGGGTTTCACCTCTAG 60.516 46.154 0.00 0.00 38.64 2.43
537 556 4.755266 TCTTATGGGTTTCACCTCTAGC 57.245 45.455 0.00 0.00 38.64 3.42
538 557 3.454812 TCTTATGGGTTTCACCTCTAGCC 59.545 47.826 0.00 0.00 38.64 3.93
539 558 1.972588 ATGGGTTTCACCTCTAGCCT 58.027 50.000 0.00 0.00 38.64 4.58
540 559 2.634639 TGGGTTTCACCTCTAGCCTA 57.365 50.000 0.00 0.00 38.64 3.93
541 560 2.185387 TGGGTTTCACCTCTAGCCTAC 58.815 52.381 0.00 0.00 38.64 3.18
542 561 1.485480 GGGTTTCACCTCTAGCCTACC 59.515 57.143 0.00 0.00 38.64 3.18
543 562 1.485480 GGTTTCACCTCTAGCCTACCC 59.515 57.143 0.00 0.00 34.73 3.69
544 563 1.485480 GTTTCACCTCTAGCCTACCCC 59.515 57.143 0.00 0.00 0.00 4.95
545 564 0.714180 TTCACCTCTAGCCTACCCCA 59.286 55.000 0.00 0.00 0.00 4.96
546 565 0.714180 TCACCTCTAGCCTACCCCAA 59.286 55.000 0.00 0.00 0.00 4.12
547 566 0.831307 CACCTCTAGCCTACCCCAAC 59.169 60.000 0.00 0.00 0.00 3.77
548 567 0.717196 ACCTCTAGCCTACCCCAACT 59.283 55.000 0.00 0.00 0.00 3.16
549 568 1.080666 ACCTCTAGCCTACCCCAACTT 59.919 52.381 0.00 0.00 0.00 2.66
550 569 1.486726 CCTCTAGCCTACCCCAACTTG 59.513 57.143 0.00 0.00 0.00 3.16
551 570 2.188817 CTCTAGCCTACCCCAACTTGT 58.811 52.381 0.00 0.00 0.00 3.16
552 571 2.572104 CTCTAGCCTACCCCAACTTGTT 59.428 50.000 0.00 0.00 0.00 2.83
553 572 2.983898 TCTAGCCTACCCCAACTTGTTT 59.016 45.455 0.00 0.00 0.00 2.83
554 573 1.995376 AGCCTACCCCAACTTGTTTG 58.005 50.000 0.00 0.00 34.63 2.93
565 584 3.977427 CAACTTGTTTGGGTCTAAAGGC 58.023 45.455 0.00 0.00 0.00 4.35
566 585 3.595190 ACTTGTTTGGGTCTAAAGGCT 57.405 42.857 0.00 0.00 0.00 4.58
567 586 3.910989 ACTTGTTTGGGTCTAAAGGCTT 58.089 40.909 0.00 0.00 0.00 4.35
568 587 4.286707 ACTTGTTTGGGTCTAAAGGCTTT 58.713 39.130 17.76 17.76 0.00 3.51
569 588 4.099419 ACTTGTTTGGGTCTAAAGGCTTTG 59.901 41.667 22.32 12.06 0.00 2.77
570 589 3.637769 TGTTTGGGTCTAAAGGCTTTGT 58.362 40.909 22.32 0.00 0.00 2.83
571 590 4.027437 TGTTTGGGTCTAAAGGCTTTGTT 58.973 39.130 22.32 0.00 0.00 2.83
572 591 4.142049 TGTTTGGGTCTAAAGGCTTTGTTG 60.142 41.667 22.32 11.98 0.00 3.33
573 592 3.306472 TGGGTCTAAAGGCTTTGTTGT 57.694 42.857 22.32 0.00 0.00 3.32
574 593 3.637769 TGGGTCTAAAGGCTTTGTTGTT 58.362 40.909 22.32 0.00 0.00 2.83
575 594 3.383185 TGGGTCTAAAGGCTTTGTTGTTG 59.617 43.478 22.32 5.83 0.00 3.33
642 857 4.177026 ACTGCGATTTGTGTGATCTAGAC 58.823 43.478 0.00 0.00 0.00 2.59
806 1021 6.089476 CGTGGTGAGATATATGTGATGACTC 58.911 44.000 0.00 0.00 0.00 3.36
903 1118 7.372714 TGATTGTTTGTTCATCATTTCAGGAG 58.627 34.615 0.00 0.00 0.00 3.69
967 1182 8.707796 TGTACCAAATAAATAGGTCCAACAAA 57.292 30.769 0.00 0.00 36.87 2.83
1218 1433 1.141657 AGCAATGACCGCCATCTACAT 59.858 47.619 0.00 0.00 33.53 2.29
1449 1664 6.017109 GTGGAAAGAATAGCACTTTTCAGACA 60.017 38.462 0.00 0.00 41.56 3.41
1494 1709 2.088950 AAAATGCAGCTGTTCATGGC 57.911 45.000 16.64 0.00 0.00 4.40
1965 2181 6.012745 ACCCATGCCTCTTTTATAATGATCC 58.987 40.000 0.00 0.00 0.00 3.36
2006 2222 7.226523 GTGCAAGGATTTTGAAATTTGGTTACT 59.773 33.333 0.00 0.00 0.00 2.24
2042 2258 5.382664 TCTTTTAGTGAGGACACCCTTTT 57.617 39.130 0.00 0.00 46.99 2.27
2071 2287 5.596361 TCTTTTGGTGCATTCCTACTTGAAA 59.404 36.000 0.00 0.00 0.00 2.69
2431 2647 8.053963 ACTCTAGTGATAACAGCTAACTAGGAA 58.946 37.037 7.97 0.00 40.37 3.36
2432 2648 8.223177 TCTAGTGATAACAGCTAACTAGGAAC 57.777 38.462 7.97 0.00 40.37 3.62
2531 3177 1.453155 TTCTGAGGCAGAAATTCCGC 58.547 50.000 7.36 0.00 45.84 5.54
2532 3178 0.324614 TCTGAGGCAGAAATTCCGCA 59.675 50.000 3.46 0.00 37.57 5.69
2533 3179 1.167851 CTGAGGCAGAAATTCCGCAA 58.832 50.000 3.46 0.00 31.93 4.85
2534 3180 1.541147 CTGAGGCAGAAATTCCGCAAA 59.459 47.619 3.46 0.00 31.93 3.68
2535 3181 1.269448 TGAGGCAGAAATTCCGCAAAC 59.731 47.619 3.46 0.00 0.00 2.93
2536 3182 0.603065 AGGCAGAAATTCCGCAAACC 59.397 50.000 3.46 0.00 0.00 3.27
2537 3183 0.603065 GGCAGAAATTCCGCAAACCT 59.397 50.000 3.46 0.00 0.00 3.50
2538 3184 1.669795 GGCAGAAATTCCGCAAACCTG 60.670 52.381 3.46 0.00 0.00 4.00
2539 3185 1.669795 GCAGAAATTCCGCAAACCTGG 60.670 52.381 0.00 0.00 0.00 4.45
2540 3186 1.067635 CAGAAATTCCGCAAACCTGGG 60.068 52.381 0.00 0.00 35.31 4.45
2541 3187 1.203001 AGAAATTCCGCAAACCTGGGA 60.203 47.619 0.00 0.00 37.70 4.37
2542 3188 0.966179 AAATTCCGCAAACCTGGGAC 59.034 50.000 0.00 0.00 37.70 4.46
2543 3189 1.241315 AATTCCGCAAACCTGGGACG 61.241 55.000 0.00 0.00 37.70 4.79
2544 3190 2.406002 ATTCCGCAAACCTGGGACGT 62.406 55.000 0.00 0.00 37.70 4.34
2545 3191 2.593436 CCGCAAACCTGGGACGTT 60.593 61.111 0.00 0.00 37.70 3.99
2546 3192 2.613506 CCGCAAACCTGGGACGTTC 61.614 63.158 0.00 0.00 37.70 3.95
2547 3193 1.890041 CGCAAACCTGGGACGTTCA 60.890 57.895 0.00 0.00 37.70 3.18
2548 3194 1.234615 CGCAAACCTGGGACGTTCAT 61.235 55.000 0.00 0.00 37.70 2.57
2549 3195 0.958822 GCAAACCTGGGACGTTCATT 59.041 50.000 0.00 0.00 0.00 2.57
2550 3196 1.335872 GCAAACCTGGGACGTTCATTG 60.336 52.381 0.00 0.00 0.00 2.82
2551 3197 2.226330 CAAACCTGGGACGTTCATTGA 58.774 47.619 0.00 0.00 0.00 2.57
2552 3198 1.892209 AACCTGGGACGTTCATTGAC 58.108 50.000 0.00 0.00 0.00 3.18
2553 3199 1.056660 ACCTGGGACGTTCATTGACT 58.943 50.000 0.00 0.00 0.00 3.41
2554 3200 1.420138 ACCTGGGACGTTCATTGACTT 59.580 47.619 0.00 0.00 0.00 3.01
2555 3201 2.076863 CCTGGGACGTTCATTGACTTC 58.923 52.381 0.00 0.00 0.00 3.01
2556 3202 2.076863 CTGGGACGTTCATTGACTTCC 58.923 52.381 0.00 0.00 37.27 3.46
2557 3203 1.418264 TGGGACGTTCATTGACTTCCA 59.582 47.619 0.00 0.00 39.13 3.53
2558 3204 2.039746 TGGGACGTTCATTGACTTCCAT 59.960 45.455 0.00 0.00 39.13 3.41
2559 3205 2.678336 GGGACGTTCATTGACTTCCATC 59.322 50.000 0.00 0.00 39.13 3.51
2560 3206 2.678336 GGACGTTCATTGACTTCCATCC 59.322 50.000 0.00 0.00 37.76 3.51
2561 3207 3.334691 GACGTTCATTGACTTCCATCCA 58.665 45.455 0.00 0.00 0.00 3.41
2562 3208 3.338249 ACGTTCATTGACTTCCATCCAG 58.662 45.455 0.00 0.00 0.00 3.86
2563 3209 3.007940 ACGTTCATTGACTTCCATCCAGA 59.992 43.478 0.00 0.00 0.00 3.86
2564 3210 3.620374 CGTTCATTGACTTCCATCCAGAG 59.380 47.826 0.00 0.00 0.00 3.35
2565 3211 3.272574 TCATTGACTTCCATCCAGAGC 57.727 47.619 0.00 0.00 0.00 4.09
2566 3212 2.842496 TCATTGACTTCCATCCAGAGCT 59.158 45.455 0.00 0.00 0.00 4.09
2567 3213 2.775911 TTGACTTCCATCCAGAGCTG 57.224 50.000 0.00 0.00 0.00 4.24
2568 3214 1.649321 TGACTTCCATCCAGAGCTGT 58.351 50.000 0.00 0.00 0.00 4.40
2569 3215 2.820178 TGACTTCCATCCAGAGCTGTA 58.180 47.619 0.00 0.00 0.00 2.74
2570 3216 3.173151 TGACTTCCATCCAGAGCTGTAA 58.827 45.455 0.00 0.00 0.00 2.41
2571 3217 3.055819 TGACTTCCATCCAGAGCTGTAAC 60.056 47.826 0.00 0.00 0.00 2.50
2572 3218 2.237392 ACTTCCATCCAGAGCTGTAACC 59.763 50.000 0.00 0.00 0.00 2.85
2573 3219 0.824109 TCCATCCAGAGCTGTAACCG 59.176 55.000 0.00 0.00 0.00 4.44
2574 3220 0.811616 CCATCCAGAGCTGTAACCGC 60.812 60.000 0.00 0.00 0.00 5.68
2575 3221 0.811616 CATCCAGAGCTGTAACCGCC 60.812 60.000 0.00 0.00 0.00 6.13
2576 3222 0.978146 ATCCAGAGCTGTAACCGCCT 60.978 55.000 0.00 0.00 0.00 5.52
2577 3223 1.153549 CCAGAGCTGTAACCGCCTC 60.154 63.158 0.00 0.00 0.00 4.70
2578 3224 1.153549 CAGAGCTGTAACCGCCTCC 60.154 63.158 0.00 0.00 0.00 4.30
2579 3225 1.305381 AGAGCTGTAACCGCCTCCT 60.305 57.895 0.00 0.00 0.00 3.69
2580 3226 0.033405 AGAGCTGTAACCGCCTCCTA 60.033 55.000 0.00 0.00 0.00 2.94
2581 3227 0.386113 GAGCTGTAACCGCCTCCTAG 59.614 60.000 0.00 0.00 0.00 3.02
2582 3228 1.043673 AGCTGTAACCGCCTCCTAGG 61.044 60.000 0.82 0.82 38.80 3.02
2583 3229 1.041447 GCTGTAACCGCCTCCTAGGA 61.041 60.000 11.98 11.98 37.67 2.94
2584 3230 1.033574 CTGTAACCGCCTCCTAGGAG 58.966 60.000 29.27 29.27 37.67 3.69
2601 3247 8.488308 TCCTAGGAGGATTGTAACTATTTACC 57.512 38.462 7.62 0.00 40.06 2.85
2602 3248 7.511714 TCCTAGGAGGATTGTAACTATTTACCC 59.488 40.741 7.62 0.00 40.06 3.69
2603 3249 6.511017 AGGAGGATTGTAACTATTTACCCC 57.489 41.667 0.98 0.86 37.39 4.95
2604 3250 5.371769 AGGAGGATTGTAACTATTTACCCCC 59.628 44.000 0.98 0.00 37.39 5.40
2624 3270 5.227152 CCCCCTTTTCAATACAAAGAAACG 58.773 41.667 0.00 0.00 33.69 3.60
2625 3271 4.684242 CCCCTTTTCAATACAAAGAAACGC 59.316 41.667 0.00 0.00 33.69 4.84
2626 3272 5.285651 CCCTTTTCAATACAAAGAAACGCA 58.714 37.500 0.00 0.00 33.69 5.24
2627 3273 5.751028 CCCTTTTCAATACAAAGAAACGCAA 59.249 36.000 0.00 0.00 33.69 4.85
2628 3274 6.074356 CCCTTTTCAATACAAAGAAACGCAAG 60.074 38.462 0.00 0.00 37.05 4.01
2629 3275 5.881637 TTTCAATACAAAGAAACGCAAGC 57.118 34.783 0.00 0.00 45.62 4.01
2630 3276 4.829064 TCAATACAAAGAAACGCAAGCT 57.171 36.364 0.00 0.00 45.62 3.74
2631 3277 4.783242 TCAATACAAAGAAACGCAAGCTC 58.217 39.130 0.00 0.00 45.62 4.09
2632 3278 4.515191 TCAATACAAAGAAACGCAAGCTCT 59.485 37.500 0.00 0.00 45.62 4.09
2633 3279 5.008613 TCAATACAAAGAAACGCAAGCTCTT 59.991 36.000 0.00 0.00 42.63 2.85
2635 3281 4.110036 ACAAAGAAACGCAAGCTCTTTT 57.890 36.364 5.39 0.00 45.29 2.27
2636 3282 3.859386 ACAAAGAAACGCAAGCTCTTTTG 59.141 39.130 5.39 4.74 45.29 2.44
2637 3283 2.860136 AAAGAAACGCAAGCTCTTTTGC 59.140 40.909 0.00 0.00 45.29 3.68
2643 3289 2.910987 GCAAGCTCTTTTGCGTTTTC 57.089 45.000 0.00 0.00 43.36 2.29
2644 3290 2.463876 GCAAGCTCTTTTGCGTTTTCT 58.536 42.857 0.00 0.00 43.36 2.52
2645 3291 2.469147 GCAAGCTCTTTTGCGTTTTCTC 59.531 45.455 0.00 0.00 43.36 2.87
2646 3292 2.670401 AGCTCTTTTGCGTTTTCTCG 57.330 45.000 0.00 0.00 38.13 4.04
2647 3293 2.210116 AGCTCTTTTGCGTTTTCTCGA 58.790 42.857 0.00 0.00 38.13 4.04
2648 3294 2.612212 AGCTCTTTTGCGTTTTCTCGAA 59.388 40.909 0.00 0.00 38.13 3.71
2649 3295 3.064820 AGCTCTTTTGCGTTTTCTCGAAA 59.935 39.130 0.00 0.00 38.13 3.46
2650 3296 3.789224 GCTCTTTTGCGTTTTCTCGAAAA 59.211 39.130 0.93 0.93 36.69 2.29
2651 3297 4.264380 GCTCTTTTGCGTTTTCTCGAAAAA 59.736 37.500 6.41 5.17 43.26 1.94
2686 3332 3.761897 AGGTTAACAACATTAGGCTGCA 58.238 40.909 8.10 0.00 0.00 4.41
2902 3559 0.608640 GACAATGAGGTCACGGGTCT 59.391 55.000 0.00 0.00 37.73 3.85
3176 5607 7.344612 ACCCTATAATATACGATGCTCCAATCA 59.655 37.037 0.00 0.00 0.00 2.57
3551 5986 4.761739 TGGGCAAATGAACAAAACAACAAA 59.238 33.333 0.00 0.00 0.00 2.83
3693 6128 6.375455 CCATTGCTAGTTCTTTGGTGATACTT 59.625 38.462 0.00 0.00 0.00 2.24
3695 6130 5.168569 TGCTAGTTCTTTGGTGATACTTCG 58.831 41.667 0.00 0.00 0.00 3.79
3767 6202 2.108168 CCGACCCCTCTTGACATTCTA 58.892 52.381 0.00 0.00 0.00 2.10
3768 6203 2.700897 CCGACCCCTCTTGACATTCTAT 59.299 50.000 0.00 0.00 0.00 1.98
3769 6204 3.243907 CCGACCCCTCTTGACATTCTATC 60.244 52.174 0.00 0.00 0.00 2.08
3771 6206 3.049344 ACCCCTCTTGACATTCTATCCC 58.951 50.000 0.00 0.00 0.00 3.85
3773 6208 3.048600 CCCTCTTGACATTCTATCCCCA 58.951 50.000 0.00 0.00 0.00 4.96
3774 6209 3.654806 CCCTCTTGACATTCTATCCCCAT 59.345 47.826 0.00 0.00 0.00 4.00
3775 6210 4.263243 CCCTCTTGACATTCTATCCCCATC 60.263 50.000 0.00 0.00 0.00 3.51
3776 6211 4.263243 CCTCTTGACATTCTATCCCCATCC 60.263 50.000 0.00 0.00 0.00 3.51
3778 6213 4.977739 TCTTGACATTCTATCCCCATCCTT 59.022 41.667 0.00 0.00 0.00 3.36
3779 6214 4.982241 TGACATTCTATCCCCATCCTTC 57.018 45.455 0.00 0.00 0.00 3.46
3793 6863 5.839517 CCATCCTTCTTGGGATAGAATCT 57.160 43.478 0.00 0.00 43.55 2.40
3814 6903 1.473677 CATCTTGGGCGCTTTGATTCA 59.526 47.619 7.64 0.00 0.00 2.57
3861 6952 2.366533 CATCCTTCTGCAGCATTGACT 58.633 47.619 9.47 0.00 0.00 3.41
3907 6998 1.001887 GTACCACCCGCCCATCAAA 60.002 57.895 0.00 0.00 0.00 2.69
3945 7036 4.338682 CCTCGTGCCTAGTAGTACTGAAAT 59.661 45.833 13.29 0.00 0.00 2.17
3959 7050 3.233507 ACTGAAATTGCACCTCATGGTT 58.766 40.909 0.00 0.00 46.05 3.67
3973 7064 5.765182 ACCTCATGGTTCTCAGTTTTAGTTG 59.235 40.000 0.00 0.00 46.05 3.16
4061 7160 2.379005 TCGACTAGCACCACATCATCT 58.621 47.619 0.00 0.00 0.00 2.90
4151 7257 1.860484 GCTCAAAGCTGACACCTGGC 61.860 60.000 0.00 0.00 38.45 4.85
4522 7680 6.187682 CCCCTTGTTCTTGAATATTGGTACT 58.812 40.000 0.00 0.00 0.00 2.73
4523 7681 7.343357 CCCCTTGTTCTTGAATATTGGTACTA 58.657 38.462 0.00 0.00 0.00 1.82
4524 7682 7.832187 CCCCTTGTTCTTGAATATTGGTACTAA 59.168 37.037 0.00 0.00 0.00 2.24
4525 7683 9.238368 CCCTTGTTCTTGAATATTGGTACTAAA 57.762 33.333 0.00 0.00 0.00 1.85
4725 7883 6.798427 TTAATGGTAGAGCTCACATTCTCT 57.202 37.500 24.97 11.54 41.97 3.10
4955 8113 4.151798 GTTTCACTCATAGCTCGTTTTGC 58.848 43.478 0.00 0.00 0.00 3.68
4987 8145 3.117046 GCCATCTTGTACTTCTCTACGC 58.883 50.000 0.00 0.00 0.00 4.42
5067 8225 4.623886 GCCTTCTGGACATCATCACTACAA 60.624 45.833 0.00 0.00 34.57 2.41
5187 8831 2.180204 CCTTACAATCCAGGCGCGG 61.180 63.158 8.83 0.00 0.00 6.46
5374 9021 2.284112 CCAAAGCCCCCATGCACT 60.284 61.111 0.00 0.00 0.00 4.40
5445 9092 3.376546 CCTATGAAGAGCTTCTTGCCAAC 59.623 47.826 11.16 0.00 44.23 3.77
5452 9099 0.517316 GCTTCTTGCCAACAGGTACG 59.483 55.000 0.00 0.00 35.15 3.67
5559 9215 9.136323 GATAACATTGAGAATTAAGTCCCCAAT 57.864 33.333 12.48 12.48 0.00 3.16
5574 9230 1.818674 CCCAATAACCAGCTTGACCAC 59.181 52.381 0.00 0.00 0.00 4.16
5604 9260 0.322277 TCCTCACGTCTCCTTACGCT 60.322 55.000 0.00 0.00 46.71 5.07
5607 9263 1.402259 CTCACGTCTCCTTACGCTGAT 59.598 52.381 0.00 0.00 46.71 2.90
5744 9400 2.884639 CTCCATTTGGTTTCTTGGACGT 59.115 45.455 0.00 0.00 34.62 4.34
5745 9401 3.292460 TCCATTTGGTTTCTTGGACGTT 58.708 40.909 0.00 0.00 33.40 3.99
5792 9448 4.328536 CACTGTATCTACTAGCTCCCGAT 58.671 47.826 0.00 0.00 0.00 4.18
5801 9457 2.225041 ACTAGCTCCCGATGCATACCTA 60.225 50.000 0.00 0.00 0.00 3.08
6183 10041 0.399075 CACAACCCTCCTTTACCCGT 59.601 55.000 0.00 0.00 0.00 5.28
6486 11415 0.036388 ACAACAGTCCGTGGCTATGG 60.036 55.000 0.92 0.92 0.00 2.74
6627 11556 8.496707 AAAAATCATTATTGCCAATCACCTTC 57.503 30.769 0.00 0.00 0.00 3.46
6675 11604 9.790344 AGCAGCAATGAAGTTATATTTCTAGAT 57.210 29.630 0.00 0.00 0.00 1.98
6780 11869 6.753744 GCACCTGAAGAATTAATTGATCAACC 59.246 38.462 11.07 0.00 0.00 3.77
6853 11942 1.336056 TGCCGCCGGTTTGTTTAATTC 60.336 47.619 4.45 0.00 0.00 2.17
7130 12223 5.450965 CCTTTTCAGATGAAAGCAACACAGT 60.451 40.000 7.95 0.00 43.90 3.55
7132 12225 6.691754 TTTCAGATGAAAGCAACACAGTTA 57.308 33.333 3.91 0.00 38.94 2.24
7184 12277 3.560636 AAAGGCAAGTGTGACTGTACT 57.439 42.857 0.00 0.00 45.00 2.73
7185 12278 4.682778 AAAGGCAAGTGTGACTGTACTA 57.317 40.909 0.00 0.00 45.00 1.82
7186 12279 3.662247 AGGCAAGTGTGACTGTACTAC 57.338 47.619 0.00 0.00 43.62 2.73
7187 12280 2.963101 AGGCAAGTGTGACTGTACTACA 59.037 45.455 0.00 0.00 43.62 2.74
7188 12281 4.501571 AAGGCAAGTGTGACTGTACTACAG 60.502 45.833 13.77 13.77 45.00 2.74
7248 12341 0.103937 GTCTCGCTAATGCTCCAGCT 59.896 55.000 0.00 0.00 42.66 4.24
7328 12421 1.615384 GGGAGGCTTTCAGTCTGCAAT 60.615 52.381 0.00 0.00 40.28 3.56
7589 13313 2.801342 CGGACAGAAATCTCTAGCTGCC 60.801 54.545 0.00 0.00 31.74 4.85
7781 13557 1.617322 TGAAGACACTGGTAGAGCGT 58.383 50.000 0.00 0.00 0.00 5.07
7895 13671 2.221906 TAACCGTTCCGCAGCTCCTC 62.222 60.000 0.00 0.00 0.00 3.71
7932 13708 3.251245 GGTCTCTGATATCACGACGACAT 59.749 47.826 17.64 0.00 0.00 3.06
8114 13890 9.295825 ACATTGATATTTTGGTCAGTAGTTCAA 57.704 29.630 0.00 0.00 0.00 2.69
8170 13946 4.756642 ACACCATCTGAACCATTATATGCG 59.243 41.667 0.00 0.00 0.00 4.73
8224 14000 1.153329 GTGGTGTCCAACGGTGACA 60.153 57.895 0.00 1.18 40.28 3.58
8225 14001 0.534203 GTGGTGTCCAACGGTGACAT 60.534 55.000 0.00 0.00 43.98 3.06
8284 14061 5.511088 AAACGAAATGAAGCTACTGTACG 57.489 39.130 0.00 0.00 0.00 3.67
8405 14200 5.258456 TCTACGGCCTTATACTTGTTCAG 57.742 43.478 0.00 0.00 0.00 3.02
8516 14311 1.068055 GCAGGGCAATCAAGTCACTTG 60.068 52.381 11.69 11.69 42.25 3.16
8708 14510 3.432588 CGTCGTCCTGCGTCTCCT 61.433 66.667 0.00 0.00 42.13 3.69
8714 14516 3.522731 CCTGCGTCTCCTCCGAGG 61.523 72.222 8.30 8.30 36.70 4.63
8766 14568 3.062466 CTCCACTCCCTCGTCGCA 61.062 66.667 0.00 0.00 0.00 5.10
8869 14671 1.297967 CTCATCGTGCGTCTCCGAG 60.298 63.158 0.00 0.00 36.41 4.63
8884 14686 2.829458 GAGGGCCGCTACGTCTCT 60.829 66.667 0.00 0.00 0.00 3.10
9048 14850 1.446966 GCCTCAGAGCGGAGAACAC 60.447 63.158 4.89 0.00 37.05 3.32
9319 15121 3.181511 CGAATTCACTGCTTTATTCCGCA 60.182 43.478 6.22 0.00 34.54 5.69
9409 15211 3.960102 AGTTCCAGTTCCTGCAAAATTCA 59.040 39.130 0.00 0.00 0.00 2.57
9410 15212 4.590222 AGTTCCAGTTCCTGCAAAATTCAT 59.410 37.500 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
360 379 6.821160 TGTTGTTGTTGTCACTCAATAGAGAA 59.179 34.615 0.00 0.00 44.98 2.87
361 380 6.345298 TGTTGTTGTTGTCACTCAATAGAGA 58.655 36.000 0.00 0.00 44.98 3.10
363 382 6.993786 TTGTTGTTGTTGTCACTCAATAGA 57.006 33.333 0.00 0.00 38.38 1.98
364 383 7.026562 TGTTTGTTGTTGTTGTCACTCAATAG 58.973 34.615 0.00 0.00 38.38 1.73
365 384 6.914259 TGTTTGTTGTTGTTGTCACTCAATA 58.086 32.000 0.00 0.00 38.38 1.90
366 385 5.777802 TGTTTGTTGTTGTTGTCACTCAAT 58.222 33.333 0.00 0.00 38.38 2.57
367 386 5.188327 TGTTTGTTGTTGTTGTCACTCAA 57.812 34.783 0.00 0.00 0.00 3.02
368 387 4.837896 TGTTTGTTGTTGTTGTCACTCA 57.162 36.364 0.00 0.00 0.00 3.41
369 388 4.979197 TGTTGTTTGTTGTTGTTGTCACTC 59.021 37.500 0.00 0.00 0.00 3.51
370 389 4.938080 TGTTGTTTGTTGTTGTTGTCACT 58.062 34.783 0.00 0.00 0.00 3.41
371 390 5.005779 TGTTGTTGTTTGTTGTTGTTGTCAC 59.994 36.000 0.00 0.00 0.00 3.67
372 391 5.109210 TGTTGTTGTTTGTTGTTGTTGTCA 58.891 33.333 0.00 0.00 0.00 3.58
373 392 5.643339 TGTTGTTGTTTGTTGTTGTTGTC 57.357 34.783 0.00 0.00 0.00 3.18
374 393 6.422776 TTTGTTGTTGTTTGTTGTTGTTGT 57.577 29.167 0.00 0.00 0.00 3.32
375 394 5.394904 GCTTTGTTGTTGTTTGTTGTTGTTG 59.605 36.000 0.00 0.00 0.00 3.33
376 395 5.504830 GGCTTTGTTGTTGTTTGTTGTTGTT 60.505 36.000 0.00 0.00 0.00 2.83
377 396 4.024472 GGCTTTGTTGTTGTTTGTTGTTGT 60.024 37.500 0.00 0.00 0.00 3.32
378 397 4.213059 AGGCTTTGTTGTTGTTTGTTGTTG 59.787 37.500 0.00 0.00 0.00 3.33
379 398 4.213059 CAGGCTTTGTTGTTGTTTGTTGTT 59.787 37.500 0.00 0.00 0.00 2.83
380 399 3.745458 CAGGCTTTGTTGTTGTTTGTTGT 59.255 39.130 0.00 0.00 0.00 3.32
381 400 3.993081 TCAGGCTTTGTTGTTGTTTGTTG 59.007 39.130 0.00 0.00 0.00 3.33
382 401 4.264460 TCAGGCTTTGTTGTTGTTTGTT 57.736 36.364 0.00 0.00 0.00 2.83
383 402 3.951775 TCAGGCTTTGTTGTTGTTTGT 57.048 38.095 0.00 0.00 0.00 2.83
384 403 3.618150 CCTTCAGGCTTTGTTGTTGTTTG 59.382 43.478 0.00 0.00 0.00 2.93
385 404 3.513515 TCCTTCAGGCTTTGTTGTTGTTT 59.486 39.130 0.00 0.00 34.44 2.83
386 405 3.096092 TCCTTCAGGCTTTGTTGTTGTT 58.904 40.909 0.00 0.00 34.44 2.83
387 406 2.427095 GTCCTTCAGGCTTTGTTGTTGT 59.573 45.455 0.00 0.00 34.44 3.32
388 407 2.689983 AGTCCTTCAGGCTTTGTTGTTG 59.310 45.455 0.00 0.00 34.44 3.33
389 408 2.689983 CAGTCCTTCAGGCTTTGTTGTT 59.310 45.455 0.00 0.00 34.44 2.83
390 409 2.301346 CAGTCCTTCAGGCTTTGTTGT 58.699 47.619 0.00 0.00 34.44 3.32
391 410 1.610522 CCAGTCCTTCAGGCTTTGTTG 59.389 52.381 0.00 0.00 34.44 3.33
392 411 1.479389 CCCAGTCCTTCAGGCTTTGTT 60.479 52.381 0.00 0.00 34.44 2.83
393 412 0.111253 CCCAGTCCTTCAGGCTTTGT 59.889 55.000 0.00 0.00 34.44 2.83
394 413 0.610232 CCCCAGTCCTTCAGGCTTTG 60.610 60.000 0.00 0.00 34.44 2.77
395 414 1.068352 ACCCCAGTCCTTCAGGCTTT 61.068 55.000 0.00 0.00 34.44 3.51
396 415 0.178873 TACCCCAGTCCTTCAGGCTT 60.179 55.000 0.00 0.00 34.44 4.35
397 416 0.044855 ATACCCCAGTCCTTCAGGCT 59.955 55.000 0.00 0.00 34.44 4.58
398 417 0.470341 GATACCCCAGTCCTTCAGGC 59.530 60.000 0.00 0.00 34.44 4.85
399 418 1.486726 GTGATACCCCAGTCCTTCAGG 59.513 57.143 0.00 0.00 0.00 3.86
400 419 1.486726 GGTGATACCCCAGTCCTTCAG 59.513 57.143 0.00 0.00 30.04 3.02
401 420 1.203376 TGGTGATACCCCAGTCCTTCA 60.203 52.381 0.00 0.00 37.50 3.02
402 421 1.580059 TGGTGATACCCCAGTCCTTC 58.420 55.000 0.00 0.00 37.50 3.46
403 422 2.053747 TTGGTGATACCCCAGTCCTT 57.946 50.000 0.00 0.00 37.50 3.36
404 423 1.916181 CTTTGGTGATACCCCAGTCCT 59.084 52.381 0.00 0.00 37.50 3.85
405 424 1.913419 TCTTTGGTGATACCCCAGTCC 59.087 52.381 0.00 0.00 37.50 3.85
406 425 2.681097 GCTCTTTGGTGATACCCCAGTC 60.681 54.545 0.00 0.00 37.50 3.51
407 426 1.282157 GCTCTTTGGTGATACCCCAGT 59.718 52.381 0.00 0.00 37.50 4.00
408 427 1.408822 GGCTCTTTGGTGATACCCCAG 60.409 57.143 0.00 0.00 37.50 4.45
409 428 0.623723 GGCTCTTTGGTGATACCCCA 59.376 55.000 0.00 0.00 37.50 4.96
410 429 0.919710 AGGCTCTTTGGTGATACCCC 59.080 55.000 0.00 0.00 37.50 4.95
411 430 3.496870 CCATAGGCTCTTTGGTGATACCC 60.497 52.174 0.00 0.00 37.50 3.69
412 431 3.391296 TCCATAGGCTCTTTGGTGATACC 59.609 47.826 9.94 0.00 39.22 2.73
413 432 4.141711 TGTCCATAGGCTCTTTGGTGATAC 60.142 45.833 9.94 3.48 34.84 2.24
414 433 4.037222 TGTCCATAGGCTCTTTGGTGATA 58.963 43.478 9.94 0.00 34.84 2.15
415 434 2.846206 TGTCCATAGGCTCTTTGGTGAT 59.154 45.455 9.94 0.00 34.84 3.06
416 435 2.237143 CTGTCCATAGGCTCTTTGGTGA 59.763 50.000 9.94 0.20 34.84 4.02
417 436 2.636830 CTGTCCATAGGCTCTTTGGTG 58.363 52.381 9.94 1.27 34.84 4.17
418 437 1.561542 CCTGTCCATAGGCTCTTTGGT 59.438 52.381 9.94 0.00 34.84 3.67
419 438 1.133976 CCCTGTCCATAGGCTCTTTGG 60.134 57.143 0.00 0.00 36.47 3.28
420 439 1.133976 CCCCTGTCCATAGGCTCTTTG 60.134 57.143 0.00 0.00 36.47 2.77
421 440 1.216990 CCCCTGTCCATAGGCTCTTT 58.783 55.000 0.00 0.00 36.47 2.52
422 441 0.044855 ACCCCTGTCCATAGGCTCTT 59.955 55.000 0.00 0.00 36.47 2.85
423 442 0.941963 TACCCCTGTCCATAGGCTCT 59.058 55.000 0.00 0.00 36.47 4.09
424 443 1.903183 GATACCCCTGTCCATAGGCTC 59.097 57.143 0.00 0.00 36.47 4.70
425 444 1.223077 TGATACCCCTGTCCATAGGCT 59.777 52.381 0.00 0.00 36.47 4.58
426 445 1.729586 TGATACCCCTGTCCATAGGC 58.270 55.000 0.00 0.00 36.47 3.93
427 446 3.045634 TGTTGATACCCCTGTCCATAGG 58.954 50.000 0.00 0.00 37.59 2.57
428 447 4.771114 TTGTTGATACCCCTGTCCATAG 57.229 45.455 0.00 0.00 0.00 2.23
429 448 4.627741 GCTTTGTTGATACCCCTGTCCATA 60.628 45.833 0.00 0.00 0.00 2.74
430 449 3.877735 GCTTTGTTGATACCCCTGTCCAT 60.878 47.826 0.00 0.00 0.00 3.41
431 450 2.554344 GCTTTGTTGATACCCCTGTCCA 60.554 50.000 0.00 0.00 0.00 4.02
432 451 2.092323 GCTTTGTTGATACCCCTGTCC 58.908 52.381 0.00 0.00 0.00 4.02
433 452 2.092323 GGCTTTGTTGATACCCCTGTC 58.908 52.381 0.00 0.00 0.00 3.51
434 453 1.710809 AGGCTTTGTTGATACCCCTGT 59.289 47.619 0.00 0.00 0.00 4.00
435 454 2.514458 AGGCTTTGTTGATACCCCTG 57.486 50.000 0.00 0.00 0.00 4.45
436 455 3.117512 CCATAGGCTTTGTTGATACCCCT 60.118 47.826 4.26 0.00 0.00 4.79
437 456 3.117663 TCCATAGGCTTTGTTGATACCCC 60.118 47.826 4.26 0.00 0.00 4.95
438 457 3.883489 GTCCATAGGCTTTGTTGATACCC 59.117 47.826 4.26 0.00 0.00 3.69
439 458 4.523083 TGTCCATAGGCTTTGTTGATACC 58.477 43.478 4.26 0.00 0.00 2.73
440 459 4.576463 CCTGTCCATAGGCTTTGTTGATAC 59.424 45.833 4.26 0.00 0.00 2.24
441 460 4.385199 CCCTGTCCATAGGCTTTGTTGATA 60.385 45.833 4.26 0.00 36.47 2.15
442 461 3.624777 CCTGTCCATAGGCTTTGTTGAT 58.375 45.455 4.26 0.00 0.00 2.57
443 462 2.290896 CCCTGTCCATAGGCTTTGTTGA 60.291 50.000 4.26 0.00 36.47 3.18
444 463 2.094675 CCCTGTCCATAGGCTTTGTTG 58.905 52.381 4.26 0.00 36.47 3.33
445 464 1.005924 CCCCTGTCCATAGGCTTTGTT 59.994 52.381 4.26 0.00 36.47 2.83
446 465 0.625849 CCCCTGTCCATAGGCTTTGT 59.374 55.000 4.26 0.00 36.47 2.83
447 466 0.625849 ACCCCTGTCCATAGGCTTTG 59.374 55.000 0.00 0.00 36.47 2.77
448 467 0.625849 CACCCCTGTCCATAGGCTTT 59.374 55.000 0.00 0.00 36.47 3.51
449 468 1.926426 GCACCCCTGTCCATAGGCTT 61.926 60.000 0.00 0.00 36.47 4.35
450 469 2.378634 GCACCCCTGTCCATAGGCT 61.379 63.158 0.00 0.00 36.47 4.58
451 470 2.193248 GCACCCCTGTCCATAGGC 59.807 66.667 0.00 0.00 36.47 3.93
452 471 2.367202 ACGCACCCCTGTCCATAGG 61.367 63.158 0.00 0.00 37.59 2.57
453 472 1.153369 CACGCACCCCTGTCCATAG 60.153 63.158 0.00 0.00 0.00 2.23
454 473 2.665089 CCACGCACCCCTGTCCATA 61.665 63.158 0.00 0.00 0.00 2.74
455 474 4.033776 CCACGCACCCCTGTCCAT 62.034 66.667 0.00 0.00 0.00 3.41
457 476 3.901797 CTTCCACGCACCCCTGTCC 62.902 68.421 0.00 0.00 0.00 4.02
458 477 2.358737 CTTCCACGCACCCCTGTC 60.359 66.667 0.00 0.00 0.00 3.51
459 478 4.643387 GCTTCCACGCACCCCTGT 62.643 66.667 0.00 0.00 0.00 4.00
460 479 3.850098 AAGCTTCCACGCACCCCTG 62.850 63.158 0.00 0.00 0.00 4.45
461 480 3.570212 AAGCTTCCACGCACCCCT 61.570 61.111 0.00 0.00 0.00 4.79
462 481 3.365265 CAAGCTTCCACGCACCCC 61.365 66.667 0.00 0.00 0.00 4.95
463 482 4.043200 GCAAGCTTCCACGCACCC 62.043 66.667 0.00 0.00 0.00 4.61
464 483 1.026718 ATAGCAAGCTTCCACGCACC 61.027 55.000 8.96 0.00 0.00 5.01
465 484 0.375106 GATAGCAAGCTTCCACGCAC 59.625 55.000 8.96 0.00 0.00 5.34
466 485 0.744414 GGATAGCAAGCTTCCACGCA 60.744 55.000 8.96 0.00 0.00 5.24
467 486 0.744414 TGGATAGCAAGCTTCCACGC 60.744 55.000 16.61 0.00 34.65 5.34
468 487 1.600957 CATGGATAGCAAGCTTCCACG 59.399 52.381 20.41 13.24 42.09 4.94
469 488 2.357009 CACATGGATAGCAAGCTTCCAC 59.643 50.000 20.41 0.00 42.09 4.02
470 489 2.646930 CACATGGATAGCAAGCTTCCA 58.353 47.619 20.33 20.33 43.37 3.53
471 490 1.336125 GCACATGGATAGCAAGCTTCC 59.664 52.381 0.00 7.95 0.00 3.46
472 491 1.336125 GGCACATGGATAGCAAGCTTC 59.664 52.381 0.00 0.00 0.00 3.86
473 492 1.341285 TGGCACATGGATAGCAAGCTT 60.341 47.619 0.00 0.00 0.00 3.74
474 493 0.256752 TGGCACATGGATAGCAAGCT 59.743 50.000 0.00 0.00 0.00 3.74
475 494 0.666913 CTGGCACATGGATAGCAAGC 59.333 55.000 0.00 0.00 38.20 4.01
476 495 2.219458 CTCTGGCACATGGATAGCAAG 58.781 52.381 0.00 0.00 38.20 4.01
477 496 1.748244 GCTCTGGCACATGGATAGCAA 60.748 52.381 0.00 0.00 38.20 3.91
478 497 0.179037 GCTCTGGCACATGGATAGCA 60.179 55.000 0.00 0.00 38.20 3.49
479 498 0.888285 GGCTCTGGCACATGGATAGC 60.888 60.000 0.00 0.00 38.20 2.97
480 499 0.471191 TGGCTCTGGCACATGGATAG 59.529 55.000 0.00 0.00 38.20 2.08
481 500 1.142936 ATGGCTCTGGCACATGGATA 58.857 50.000 0.00 0.00 41.84 2.59
482 501 0.467474 CATGGCTCTGGCACATGGAT 60.467 55.000 7.68 0.00 41.84 3.41
483 502 1.077285 CATGGCTCTGGCACATGGA 60.077 57.895 7.68 0.00 41.84 3.41
484 503 1.077285 TCATGGCTCTGGCACATGG 60.077 57.895 13.76 0.00 41.84 3.66
485 504 0.393944 ACTCATGGCTCTGGCACATG 60.394 55.000 8.97 8.97 41.84 3.21
486 505 0.330604 AACTCATGGCTCTGGCACAT 59.669 50.000 0.00 0.00 41.84 3.21
487 506 0.607217 CAACTCATGGCTCTGGCACA 60.607 55.000 0.00 0.00 41.84 4.57
488 507 1.310933 CCAACTCATGGCTCTGGCAC 61.311 60.000 0.00 0.00 43.80 5.01
489 508 1.001764 CCAACTCATGGCTCTGGCA 60.002 57.895 0.00 0.00 43.80 4.92
490 509 3.915575 CCAACTCATGGCTCTGGC 58.084 61.111 0.00 0.00 43.80 4.85
498 517 1.202348 AGATCTCGCGACCAACTCATG 60.202 52.381 3.71 0.00 0.00 3.07
499 518 1.107114 AGATCTCGCGACCAACTCAT 58.893 50.000 3.71 0.00 0.00 2.90
500 519 0.888619 AAGATCTCGCGACCAACTCA 59.111 50.000 3.71 0.00 0.00 3.41
501 520 2.846039 TAAGATCTCGCGACCAACTC 57.154 50.000 3.71 0.00 0.00 3.01
502 521 2.223829 CCATAAGATCTCGCGACCAACT 60.224 50.000 3.71 0.00 0.00 3.16
503 522 2.128035 CCATAAGATCTCGCGACCAAC 58.872 52.381 3.71 0.00 0.00 3.77
504 523 1.068588 CCCATAAGATCTCGCGACCAA 59.931 52.381 3.71 0.00 0.00 3.67
505 524 0.673985 CCCATAAGATCTCGCGACCA 59.326 55.000 3.71 0.00 0.00 4.02
506 525 0.674534 ACCCATAAGATCTCGCGACC 59.325 55.000 3.71 0.00 0.00 4.79
507 526 2.510768 AACCCATAAGATCTCGCGAC 57.489 50.000 3.71 0.00 0.00 5.19
508 527 2.429250 TGAAACCCATAAGATCTCGCGA 59.571 45.455 9.26 9.26 0.00 5.87
509 528 2.540101 GTGAAACCCATAAGATCTCGCG 59.460 50.000 0.00 0.00 0.00 5.87
524 543 1.485480 GGGGTAGGCTAGAGGTGAAAC 59.515 57.143 0.00 0.00 0.00 2.78
525 544 1.079825 TGGGGTAGGCTAGAGGTGAAA 59.920 52.381 0.00 0.00 0.00 2.69
526 545 0.714180 TGGGGTAGGCTAGAGGTGAA 59.286 55.000 0.00 0.00 0.00 3.18
527 546 0.714180 TTGGGGTAGGCTAGAGGTGA 59.286 55.000 0.00 0.00 0.00 4.02
528 547 0.831307 GTTGGGGTAGGCTAGAGGTG 59.169 60.000 0.00 0.00 0.00 4.00
529 548 0.717196 AGTTGGGGTAGGCTAGAGGT 59.283 55.000 0.00 0.00 0.00 3.85
530 549 1.486726 CAAGTTGGGGTAGGCTAGAGG 59.513 57.143 0.00 0.00 0.00 3.69
531 550 2.188817 ACAAGTTGGGGTAGGCTAGAG 58.811 52.381 7.96 0.00 0.00 2.43
532 551 2.337359 ACAAGTTGGGGTAGGCTAGA 57.663 50.000 7.96 0.00 0.00 2.43
533 552 3.081804 CAAACAAGTTGGGGTAGGCTAG 58.918 50.000 7.96 0.00 33.18 3.42
534 553 3.149005 CAAACAAGTTGGGGTAGGCTA 57.851 47.619 7.96 0.00 33.18 3.93
535 554 1.995376 CAAACAAGTTGGGGTAGGCT 58.005 50.000 7.96 0.00 33.18 4.58
544 563 3.636764 AGCCTTTAGACCCAAACAAGTTG 59.363 43.478 0.00 0.00 36.94 3.16
545 564 3.910989 AGCCTTTAGACCCAAACAAGTT 58.089 40.909 0.00 0.00 0.00 2.66
546 565 3.595190 AGCCTTTAGACCCAAACAAGT 57.405 42.857 0.00 0.00 0.00 3.16
547 566 4.099419 ACAAAGCCTTTAGACCCAAACAAG 59.901 41.667 0.00 0.00 0.00 3.16
548 567 4.027437 ACAAAGCCTTTAGACCCAAACAA 58.973 39.130 0.00 0.00 0.00 2.83
549 568 3.637769 ACAAAGCCTTTAGACCCAAACA 58.362 40.909 0.00 0.00 0.00 2.83
550 569 4.142026 ACAACAAAGCCTTTAGACCCAAAC 60.142 41.667 0.00 0.00 0.00 2.93
551 570 4.027437 ACAACAAAGCCTTTAGACCCAAA 58.973 39.130 0.00 0.00 0.00 3.28
552 571 3.637769 ACAACAAAGCCTTTAGACCCAA 58.362 40.909 0.00 0.00 0.00 4.12
553 572 3.306472 ACAACAAAGCCTTTAGACCCA 57.694 42.857 0.00 0.00 0.00 4.51
554 573 3.383505 ACAACAACAAAGCCTTTAGACCC 59.616 43.478 0.00 0.00 0.00 4.46
555 574 4.649088 ACAACAACAAAGCCTTTAGACC 57.351 40.909 0.00 0.00 0.00 3.85
556 575 5.891451 AGAACAACAACAAAGCCTTTAGAC 58.109 37.500 0.00 0.00 0.00 2.59
557 576 5.885912 AGAGAACAACAACAAAGCCTTTAGA 59.114 36.000 0.00 0.00 0.00 2.10
558 577 6.136541 AGAGAACAACAACAAAGCCTTTAG 57.863 37.500 0.00 0.00 0.00 1.85
559 578 7.817418 ATAGAGAACAACAACAAAGCCTTTA 57.183 32.000 0.00 0.00 0.00 1.85
560 579 6.715347 ATAGAGAACAACAACAAAGCCTTT 57.285 33.333 0.00 0.00 0.00 3.11
561 580 6.321181 TCAATAGAGAACAACAACAAAGCCTT 59.679 34.615 0.00 0.00 0.00 4.35
562 581 5.827797 TCAATAGAGAACAACAACAAAGCCT 59.172 36.000 0.00 0.00 0.00 4.58
563 582 6.072112 TCAATAGAGAACAACAACAAAGCC 57.928 37.500 0.00 0.00 0.00 4.35
564 583 6.634436 CACTCAATAGAGAACAACAACAAAGC 59.366 38.462 0.00 0.00 44.98 3.51
565 584 7.852945 GTCACTCAATAGAGAACAACAACAAAG 59.147 37.037 0.00 0.00 44.98 2.77
566 585 7.335673 TGTCACTCAATAGAGAACAACAACAAA 59.664 33.333 0.00 0.00 44.98 2.83
567 586 6.821160 TGTCACTCAATAGAGAACAACAACAA 59.179 34.615 0.00 0.00 44.98 2.83
568 587 6.257849 GTGTCACTCAATAGAGAACAACAACA 59.742 38.462 0.00 0.00 44.98 3.33
569 588 6.257849 TGTGTCACTCAATAGAGAACAACAAC 59.742 38.462 4.27 0.00 44.98 3.32
570 589 6.257849 GTGTGTCACTCAATAGAGAACAACAA 59.742 38.462 4.27 0.00 44.98 2.83
571 590 5.753438 GTGTGTCACTCAATAGAGAACAACA 59.247 40.000 4.27 3.11 44.98 3.33
572 591 5.986135 AGTGTGTCACTCAATAGAGAACAAC 59.014 40.000 4.27 5.34 41.21 3.32
573 592 6.161855 AGTGTGTCACTCAATAGAGAACAA 57.838 37.500 4.27 0.00 41.21 2.83
574 593 5.791336 AGTGTGTCACTCAATAGAGAACA 57.209 39.130 4.27 1.22 41.21 3.18
575 594 6.216569 TGAAGTGTGTCACTCAATAGAGAAC 58.783 40.000 4.27 0.00 44.62 3.01
642 857 7.221452 GCACAAATTTAGCAGATAATCTGTTGG 59.779 37.037 9.26 0.00 45.94 3.77
806 1021 6.790285 ATGTAACTAAACTAACAACGGTGG 57.210 37.500 4.97 0.00 0.00 4.61
903 1118 6.929606 AGAATATTCAACGCCACCTCTATTAC 59.070 38.462 17.56 0.00 0.00 1.89
967 1182 4.740902 AGTAGAAAAGGGCATCAAAGGTT 58.259 39.130 0.00 0.00 0.00 3.50
1218 1433 3.197549 TCGATGATTCAACTGATCCACCA 59.802 43.478 0.00 0.00 0.00 4.17
1449 1664 9.716556 TTTACCTCTCTCTCAGGATTTATAAGT 57.283 33.333 0.00 0.00 34.75 2.24
1479 1694 0.609681 TGATGCCATGAACAGCTGCA 60.610 50.000 15.27 4.85 36.23 4.41
1662 1877 9.443283 GAAATATAACTTGTGCTCTGCATTTAG 57.557 33.333 0.00 0.00 41.91 1.85
1965 2181 2.758089 GCACGCTGCAGGAATGGAG 61.758 63.158 17.12 0.00 44.26 3.86
2048 2264 5.452078 TTCAAGTAGGAATGCACCAAAAG 57.548 39.130 0.00 0.00 0.00 2.27
2050 2266 5.774690 AGATTTCAAGTAGGAATGCACCAAA 59.225 36.000 0.00 0.00 0.00 3.28
2083 2299 7.624549 AGCCAGAGATGAAAACTCTAATTACA 58.375 34.615 0.00 0.00 45.03 2.41
2431 2647 7.444629 TCTGTAACACGAAGACTATGTTAGT 57.555 36.000 6.99 0.00 38.98 2.24
2432 2648 7.043986 GCATCTGTAACACGAAGACTATGTTAG 60.044 40.741 6.99 1.21 38.98 2.34
2526 3172 2.281208 CGTCCCAGGTTTGCGGAA 60.281 61.111 0.00 0.00 0.00 4.30
2527 3173 2.999739 GAACGTCCCAGGTTTGCGGA 63.000 60.000 0.00 0.00 0.00 5.54
2528 3174 2.593436 AACGTCCCAGGTTTGCGG 60.593 61.111 0.00 0.00 0.00 5.69
2529 3175 1.234615 ATGAACGTCCCAGGTTTGCG 61.235 55.000 0.00 0.00 0.00 4.85
2530 3176 0.958822 AATGAACGTCCCAGGTTTGC 59.041 50.000 0.00 0.00 0.00 3.68
2531 3177 2.031157 GTCAATGAACGTCCCAGGTTTG 60.031 50.000 0.00 0.00 0.00 2.93
2532 3178 2.158667 AGTCAATGAACGTCCCAGGTTT 60.159 45.455 0.00 0.00 0.00 3.27
2533 3179 1.420138 AGTCAATGAACGTCCCAGGTT 59.580 47.619 0.00 0.00 0.00 3.50
2534 3180 1.056660 AGTCAATGAACGTCCCAGGT 58.943 50.000 0.00 0.00 0.00 4.00
2535 3181 2.076863 GAAGTCAATGAACGTCCCAGG 58.923 52.381 0.00 0.00 0.00 4.45
2536 3182 2.076863 GGAAGTCAATGAACGTCCCAG 58.923 52.381 0.00 0.00 40.62 4.45
2537 3183 1.418264 TGGAAGTCAATGAACGTCCCA 59.582 47.619 12.25 0.00 44.35 4.37
2538 3184 2.178912 TGGAAGTCAATGAACGTCCC 57.821 50.000 12.25 0.00 44.35 4.46
2539 3185 2.678336 GGATGGAAGTCAATGAACGTCC 59.322 50.000 9.47 9.47 44.95 4.79
2540 3186 3.334691 TGGATGGAAGTCAATGAACGTC 58.665 45.455 0.00 0.00 0.00 4.34
2541 3187 3.007940 TCTGGATGGAAGTCAATGAACGT 59.992 43.478 0.00 0.00 0.00 3.99
2542 3188 3.599343 TCTGGATGGAAGTCAATGAACG 58.401 45.455 0.00 0.00 0.00 3.95
2543 3189 3.376546 GCTCTGGATGGAAGTCAATGAAC 59.623 47.826 0.00 0.00 0.00 3.18
2544 3190 3.265221 AGCTCTGGATGGAAGTCAATGAA 59.735 43.478 0.00 0.00 0.00 2.57
2545 3191 2.842496 AGCTCTGGATGGAAGTCAATGA 59.158 45.455 0.00 0.00 0.00 2.57
2546 3192 2.943690 CAGCTCTGGATGGAAGTCAATG 59.056 50.000 0.00 0.00 0.00 2.82
2547 3193 2.575279 ACAGCTCTGGATGGAAGTCAAT 59.425 45.455 1.66 0.00 32.48 2.57
2548 3194 1.980765 ACAGCTCTGGATGGAAGTCAA 59.019 47.619 1.66 0.00 32.48 3.18
2549 3195 1.649321 ACAGCTCTGGATGGAAGTCA 58.351 50.000 1.66 0.00 32.48 3.41
2550 3196 3.526534 GTTACAGCTCTGGATGGAAGTC 58.473 50.000 1.66 0.00 31.80 3.01
2551 3197 2.237392 GGTTACAGCTCTGGATGGAAGT 59.763 50.000 1.66 0.00 31.80 3.01
2552 3198 2.739932 CGGTTACAGCTCTGGATGGAAG 60.740 54.545 1.66 0.00 31.80 3.46
2553 3199 1.207089 CGGTTACAGCTCTGGATGGAA 59.793 52.381 1.66 0.00 32.48 3.53
2554 3200 0.824109 CGGTTACAGCTCTGGATGGA 59.176 55.000 1.66 0.00 32.48 3.41
2555 3201 0.811616 GCGGTTACAGCTCTGGATGG 60.812 60.000 0.00 0.00 32.48 3.51
2556 3202 0.811616 GGCGGTTACAGCTCTGGATG 60.812 60.000 7.48 0.00 34.19 3.51
2557 3203 0.978146 AGGCGGTTACAGCTCTGGAT 60.978 55.000 7.48 0.00 34.19 3.41
2558 3204 1.605058 GAGGCGGTTACAGCTCTGGA 61.605 60.000 7.48 0.00 34.19 3.86
2559 3205 1.153549 GAGGCGGTTACAGCTCTGG 60.154 63.158 7.48 0.00 34.19 3.86
2560 3206 1.153549 GGAGGCGGTTACAGCTCTG 60.154 63.158 7.48 0.00 34.52 3.35
2561 3207 0.033405 TAGGAGGCGGTTACAGCTCT 60.033 55.000 7.48 3.02 34.52 4.09
2562 3208 0.386113 CTAGGAGGCGGTTACAGCTC 59.614 60.000 7.48 3.36 34.52 4.09
2563 3209 1.043673 CCTAGGAGGCGGTTACAGCT 61.044 60.000 1.05 0.00 34.52 4.24
2564 3210 1.041447 TCCTAGGAGGCGGTTACAGC 61.041 60.000 7.62 0.00 34.61 4.40
2565 3211 1.033574 CTCCTAGGAGGCGGTTACAG 58.966 60.000 28.68 1.89 38.51 2.74
2566 3212 3.202548 CTCCTAGGAGGCGGTTACA 57.797 57.895 28.68 0.00 38.51 2.41
2575 3221 8.586744 GGTAAATAGTTACAATCCTCCTAGGAG 58.413 40.741 29.27 29.27 43.51 3.69
2576 3222 7.511714 GGGTAAATAGTTACAATCCTCCTAGGA 59.488 40.741 11.98 11.98 43.95 2.94
2577 3223 7.256583 GGGGTAAATAGTTACAATCCTCCTAGG 60.257 44.444 14.45 0.82 41.31 3.02
2578 3224 7.256583 GGGGGTAAATAGTTACAATCCTCCTAG 60.257 44.444 14.45 0.00 41.31 3.02
2579 3225 6.559921 GGGGGTAAATAGTTACAATCCTCCTA 59.440 42.308 14.45 0.00 41.31 2.94
2580 3226 5.371769 GGGGGTAAATAGTTACAATCCTCCT 59.628 44.000 14.45 0.00 41.31 3.69
2581 3227 5.628130 GGGGGTAAATAGTTACAATCCTCC 58.372 45.833 14.45 3.25 41.31 4.30
2601 3247 5.227152 CGTTTCTTTGTATTGAAAAGGGGG 58.773 41.667 0.00 0.00 35.71 5.40
2602 3248 4.684242 GCGTTTCTTTGTATTGAAAAGGGG 59.316 41.667 0.00 0.00 35.71 4.79
2603 3249 5.285651 TGCGTTTCTTTGTATTGAAAAGGG 58.714 37.500 0.00 0.00 35.71 3.95
2604 3250 6.562086 GCTTGCGTTTCTTTGTATTGAAAAGG 60.562 38.462 0.00 0.00 35.71 3.11
2605 3251 6.198966 AGCTTGCGTTTCTTTGTATTGAAAAG 59.801 34.615 0.00 0.00 34.52 2.27
2606 3252 6.039616 AGCTTGCGTTTCTTTGTATTGAAAA 58.960 32.000 0.00 0.00 34.52 2.29
2607 3253 5.587289 AGCTTGCGTTTCTTTGTATTGAAA 58.413 33.333 0.00 0.00 0.00 2.69
2608 3254 5.008613 AGAGCTTGCGTTTCTTTGTATTGAA 59.991 36.000 0.00 0.00 0.00 2.69
2609 3255 4.515191 AGAGCTTGCGTTTCTTTGTATTGA 59.485 37.500 0.00 0.00 0.00 2.57
2610 3256 4.787598 AGAGCTTGCGTTTCTTTGTATTG 58.212 39.130 0.00 0.00 0.00 1.90
2611 3257 5.438761 AAGAGCTTGCGTTTCTTTGTATT 57.561 34.783 0.00 0.00 0.00 1.89
2612 3258 5.438761 AAAGAGCTTGCGTTTCTTTGTAT 57.561 34.783 7.29 0.00 39.12 2.29
2613 3259 4.893424 AAAGAGCTTGCGTTTCTTTGTA 57.107 36.364 7.29 0.00 39.12 2.41
2614 3260 3.782889 AAAGAGCTTGCGTTTCTTTGT 57.217 38.095 7.29 0.00 39.12 2.83
2615 3261 3.302028 GCAAAAGAGCTTGCGTTTCTTTG 60.302 43.478 8.42 6.68 42.09 2.77
2616 3262 2.860136 GCAAAAGAGCTTGCGTTTCTTT 59.140 40.909 0.00 3.51 42.09 2.52
2617 3263 2.463876 GCAAAAGAGCTTGCGTTTCTT 58.536 42.857 0.00 0.00 42.09 2.52
2618 3264 2.125461 GCAAAAGAGCTTGCGTTTCT 57.875 45.000 0.00 0.00 42.09 2.52
2624 3270 2.463876 AGAAAACGCAAAAGAGCTTGC 58.536 42.857 0.00 0.00 46.70 4.01
2625 3271 2.715997 CGAGAAAACGCAAAAGAGCTTG 59.284 45.455 0.00 0.00 0.00 4.01
2626 3272 2.612212 TCGAGAAAACGCAAAAGAGCTT 59.388 40.909 0.00 0.00 0.00 3.74
2627 3273 2.210116 TCGAGAAAACGCAAAAGAGCT 58.790 42.857 0.00 0.00 0.00 4.09
2628 3274 2.663279 TCGAGAAAACGCAAAAGAGC 57.337 45.000 0.00 0.00 0.00 4.09
2629 3275 5.925189 TTTTTCGAGAAAACGCAAAAGAG 57.075 34.783 10.18 0.00 39.70 2.85
2649 3295 5.841783 TGTTAACCTAGCCCCATTTCTTTTT 59.158 36.000 2.48 0.00 0.00 1.94
2650 3296 5.399113 TGTTAACCTAGCCCCATTTCTTTT 58.601 37.500 2.48 0.00 0.00 2.27
2651 3297 5.005628 TGTTAACCTAGCCCCATTTCTTT 57.994 39.130 2.48 0.00 0.00 2.52
2652 3298 4.668138 TGTTAACCTAGCCCCATTTCTT 57.332 40.909 2.48 0.00 0.00 2.52
2653 3299 4.202631 TGTTGTTAACCTAGCCCCATTTCT 60.203 41.667 2.48 0.00 0.00 2.52
2654 3300 4.083565 TGTTGTTAACCTAGCCCCATTTC 58.916 43.478 2.48 0.00 0.00 2.17
2655 3301 4.120946 TGTTGTTAACCTAGCCCCATTT 57.879 40.909 2.48 0.00 0.00 2.32
2656 3302 3.818295 TGTTGTTAACCTAGCCCCATT 57.182 42.857 2.48 0.00 0.00 3.16
2657 3303 4.331159 AATGTTGTTAACCTAGCCCCAT 57.669 40.909 2.48 0.00 0.00 4.00
2658 3304 3.818295 AATGTTGTTAACCTAGCCCCA 57.182 42.857 2.48 0.00 0.00 4.96
2686 3332 3.945640 AAAACTGTGGAGGTTACTGGT 57.054 42.857 0.00 0.00 0.00 4.00
2886 3543 0.898320 CTCAGACCCGTGACCTCATT 59.102 55.000 0.00 0.00 0.00 2.57
2902 3559 4.708177 CAAGAGGTTCTTTCCAAGACTCA 58.292 43.478 6.81 0.00 33.78 3.41
3220 5652 3.312421 GCAGCTTCGATGCAATAACCTTA 59.688 43.478 23.42 0.00 43.31 2.69
3521 5953 1.275856 TGTTCATTTGCCCAAGATGCC 59.724 47.619 0.00 0.00 0.00 4.40
3551 5986 4.027437 TGGGACTAAAGGCTTTGTTGTTT 58.973 39.130 22.32 0.00 0.00 2.83
3693 6128 4.580995 GTGAAGAGAGATATGAAGGACCGA 59.419 45.833 0.00 0.00 0.00 4.69
3695 6130 4.261825 CCGTGAAGAGAGATATGAAGGACC 60.262 50.000 0.00 0.00 0.00 4.46
3771 6206 5.309020 TGAGATTCTATCCCAAGAAGGATGG 59.691 44.000 3.29 0.52 46.44 3.51
3774 6209 6.388814 AGATGAGATTCTATCCCAAGAAGGA 58.611 40.000 0.00 0.00 38.81 3.36
3775 6210 6.684897 AGATGAGATTCTATCCCAAGAAGG 57.315 41.667 0.00 0.00 38.81 3.46
3776 6211 6.935771 CCAAGATGAGATTCTATCCCAAGAAG 59.064 42.308 0.00 0.00 38.81 2.85
3778 6213 5.309020 CCCAAGATGAGATTCTATCCCAAGA 59.691 44.000 0.00 0.00 0.00 3.02
3779 6214 5.558818 CCCAAGATGAGATTCTATCCCAAG 58.441 45.833 0.00 0.00 0.00 3.61
3793 6863 1.745087 GAATCAAAGCGCCCAAGATGA 59.255 47.619 2.29 0.00 0.00 2.92
3814 6903 6.652481 GGATATCGATGAAGATGTGAACCATT 59.348 38.462 8.54 0.00 32.56 3.16
3861 6952 4.837093 AGGACACCTTTCGATATTTGGA 57.163 40.909 0.00 0.00 0.00 3.53
3907 6998 1.006162 ACGAGGAGGAAGAGGTTAGCT 59.994 52.381 0.00 0.00 0.00 3.32
4151 7257 7.973388 TGATTTTCCAATTAAAATAGGACTGCG 59.027 33.333 0.02 0.00 38.77 5.18
4461 7619 7.172868 TGTACTAATTACCGTGGAATTCAGA 57.827 36.000 7.93 0.00 0.00 3.27
4528 7686 9.836179 AGAAGAATGGAGATGGAGTATATTAGT 57.164 33.333 0.00 0.00 0.00 2.24
4725 7883 4.196193 ACTTCGACAAGTTGTTCAATGGA 58.804 39.130 10.45 0.00 40.16 3.41
4987 8145 0.534412 CTGGGTAGGAGTGCAGACAG 59.466 60.000 0.00 0.00 0.00 3.51
5014 8172 4.154375 GGAGAAGAAAGATTGTTTCGGACC 59.846 45.833 1.09 1.47 33.86 4.46
5067 8225 1.423541 TGTGCCAAAGATACCTGGTGT 59.576 47.619 10.23 1.58 34.97 4.16
5187 8831 0.459411 GAGAAGAGAAGACAGGCGGC 60.459 60.000 0.00 0.00 0.00 6.53
5374 9021 5.690865 ACATCTAACACAGGTTTTGAAGGA 58.309 37.500 0.00 0.00 38.45 3.36
5445 9092 1.480954 ACATGGTTAGGAGCGTACCTG 59.519 52.381 11.65 0.00 40.81 4.00
5452 9099 1.139853 CTGGAGGACATGGTTAGGAGC 59.860 57.143 0.00 0.00 0.00 4.70
5559 9215 3.592059 GTTATCGTGGTCAAGCTGGTTA 58.408 45.455 0.00 0.00 0.00 2.85
5574 9230 1.065273 CGTGAGGACCGGGTTATCG 59.935 63.158 6.32 0.00 0.00 2.92
5604 9260 7.071196 ACAATAGCCTCAAGTATGGAGTTATCA 59.929 37.037 0.00 0.00 0.00 2.15
5607 9263 6.808321 ACAATAGCCTCAAGTATGGAGTTA 57.192 37.500 0.00 0.00 0.00 2.24
5744 9400 7.364762 GGTGAGGAGAGTTGTTGATATCCTTAA 60.365 40.741 0.00 0.00 37.30 1.85
5745 9401 6.098409 GGTGAGGAGAGTTGTTGATATCCTTA 59.902 42.308 0.00 0.00 37.30 2.69
5792 9448 1.831106 CTGACAGGTGGTAGGTATGCA 59.169 52.381 0.00 0.00 0.00 3.96
5801 9457 0.118346 TATGGTCCCTGACAGGTGGT 59.882 55.000 20.24 4.35 33.68 4.16
6183 10041 0.698238 AACATAGCTGGTCCCAAGCA 59.302 50.000 0.00 0.00 0.00 3.91
6460 11389 3.007614 AGCCACGGACTGTTGTTAGTTAT 59.992 43.478 0.00 0.00 0.00 1.89
6486 11415 5.371115 TGCCTTACTGTCTTTTACATTGC 57.629 39.130 0.00 0.00 37.50 3.56
6535 11464 3.270877 GGACAGGCTCGTGTTATGATTT 58.729 45.455 0.00 0.00 0.00 2.17
6627 11556 5.472820 GCTTCAATCCAAGGAATATCCAGAG 59.527 44.000 0.00 0.00 39.61 3.35
6780 11869 0.320421 ACGGTGATGTCAACCTTCCG 60.320 55.000 7.26 7.26 41.77 4.30
6853 11942 4.440880 TGCAATCCCTTGAAAAACACAAG 58.559 39.130 0.00 0.00 42.72 3.16
7132 12225 9.263446 ACGGGGTGTATGATGTTAGTATATATT 57.737 33.333 0.00 0.00 0.00 1.28
7248 12341 2.613595 CGCAAAGTTGGCATAGCTATCA 59.386 45.455 2.34 0.00 0.00 2.15
7315 12408 3.371917 CCTCCCCATATTGCAGACTGAAA 60.372 47.826 6.65 1.43 0.00 2.69
7316 12409 2.173356 CCTCCCCATATTGCAGACTGAA 59.827 50.000 6.65 0.00 0.00 3.02
7328 12421 2.844362 CGCCTCTGCCTCCCCATA 60.844 66.667 0.00 0.00 0.00 2.74
7589 13313 2.038295 GGAGGCTCCACATCAATCCTAG 59.962 54.545 28.55 0.00 36.28 3.02
7781 13557 2.158957 GCCATCGACTGGGATCTTGTAA 60.159 50.000 13.51 0.00 46.06 2.41
8114 13890 7.389884 CCAGCAAGTATCAGTAATATTGAGCAT 59.610 37.037 0.00 0.00 0.00 3.79
8170 13946 2.601741 GCAGCTCTGAATTTAGCATCGC 60.602 50.000 0.29 6.49 41.32 4.58
8224 14000 4.878397 GGAACAGTAAAGAGCACTGCATAT 59.122 41.667 3.30 0.00 45.96 1.78
8225 14001 4.020218 AGGAACAGTAAAGAGCACTGCATA 60.020 41.667 3.30 0.00 45.96 3.14
8284 14061 6.262496 ACTTTTCTCCCAGTTACTGCTAAAAC 59.738 38.462 6.88 0.00 0.00 2.43
8405 14200 0.742635 GACCAGCTCCTGCACTAAGC 60.743 60.000 2.69 2.69 42.74 3.09
8516 14311 0.670854 GCGGTTTGAGAGACAGGTCC 60.671 60.000 0.00 0.00 0.00 4.46
8783 14585 3.726144 GAGCAGGCCTCCCTTGCT 61.726 66.667 15.74 15.74 43.57 3.91
8869 14671 3.902086 GGAGAGACGTAGCGGCCC 61.902 72.222 0.00 0.00 34.11 5.80
9048 14850 1.662438 GAGGAGGAGAGACAGGTGCG 61.662 65.000 0.00 0.00 0.00 5.34
9319 15121 4.697352 AGCAGATAAACAAAGCGATTCACT 59.303 37.500 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.