Multiple sequence alignment - TraesCS5A01G001500

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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 TraesCS5A01G001500 chr5A 100.000 9334 0 0 1 9334 1217937 1227270 0.000000e+00 17237.0
1 TraesCS5A01G001500 chr5A 95.148 742 29 5 4435 5174 377128227 377127491 0.000000e+00 1164.0
2 TraesCS5A01G001500 chr5A 98.221 562 10 0 3529 4090 662512109 662511548 0.000000e+00 983.0
3 TraesCS5A01G001500 chr5A 97.153 562 16 0 3529 4090 80114062 80113501 0.000000e+00 950.0
4 TraesCS5A01G001500 chr5A 96.329 572 20 1 3519 4090 684792986 684793556 0.000000e+00 939.0
5 TraesCS5A01G001500 chr5A 82.324 809 100 28 6287 7066 2084514 2083720 0.000000e+00 662.0
6 TraesCS5A01G001500 chr5A 87.943 423 42 6 6287 6704 1950163 1949745 3.030000e-134 490.0
7 TraesCS5A01G001500 chr5A 95.455 286 8 2 5174 5458 684793551 684793832 1.430000e-122 451.0
8 TraesCS5A01G001500 chr5A 94.237 295 13 2 5174 5468 662511553 662511263 1.850000e-121 448.0
9 TraesCS5A01G001500 chr5A 88.940 217 13 9 1048 1254 2086048 2085833 3.340000e-64 257.0
10 TraesCS5A01G001500 chr5A 83.083 266 33 8 3186 3439 1951704 1951439 2.030000e-56 231.0
11 TraesCS5A01G001500 chr5A 87.255 204 22 2 3116 3315 2085374 2085171 7.290000e-56 230.0
12 TraesCS5A01G001500 chr5A 96.000 100 3 1 4091 4190 1222849 1222947 2.700000e-35 161.0
13 TraesCS5A01G001500 chr5A 82.456 114 16 3 2840 2951 2085547 2085436 7.710000e-16 97.1
14 TraesCS5A01G001500 chr5A 100.000 46 0 0 6920 6965 1222120 1222165 1.670000e-12 86.1
15 TraesCS5A01G001500 chr5A 100.000 46 0 0 4184 4229 1224856 1224901 1.670000e-12 86.1
16 TraesCS5A01G001500 chr5A 85.526 76 0 2 4287 4361 1222188 1222253 1.680000e-07 69.4
17 TraesCS5A01G001500 chr5A 85.333 75 2 2 4252 4317 1222223 1222297 1.680000e-07 69.4
18 TraesCS5A01G001500 chr5D 91.665 3911 208 70 5456 9334 2138767 2142591 0.000000e+00 5308.0
19 TraesCS5A01G001500 chr5D 83.736 1242 105 41 811 2010 2135789 2136975 0.000000e+00 1085.0
20 TraesCS5A01G001500 chr5D 82.338 804 102 24 6287 7062 2686350 2687141 0.000000e+00 662.0
21 TraesCS5A01G001500 chr5D 81.088 809 119 24 6278 7062 2697775 2698573 4.790000e-172 616.0
22 TraesCS5A01G001500 chr5D 80.273 806 115 20 6284 7057 2693982 2694775 1.360000e-157 568.0
23 TraesCS5A01G001500 chr5D 89.474 399 39 3 3051 3447 2138180 2138577 1.400000e-137 501.0
24 TraesCS5A01G001500 chr5D 86.453 406 26 12 370 749 3629478 3629880 1.450000e-112 418.0
25 TraesCS5A01G001500 chr5D 85.564 381 30 9 2385 2758 2137488 2137850 8.850000e-100 375.0
26 TraesCS5A01G001500 chr5D 91.228 228 12 5 1 221 3628941 3629167 4.240000e-78 303.0
27 TraesCS5A01G001500 chr5D 87.963 216 18 6 1048 1255 2684848 2685063 2.010000e-61 248.0
28 TraesCS5A01G001500 chr5D 82.313 294 35 10 3123 3400 2685483 2685775 1.210000e-58 239.0
29 TraesCS5A01G001500 chr5D 92.806 139 10 0 3174 3312 2692653 2692791 1.590000e-47 202.0
30 TraesCS5A01G001500 chr5D 89.062 128 14 0 8008 8135 2696055 2696182 9.700000e-35 159.0
31 TraesCS5A01G001500 chr5D 92.771 83 6 0 3446 3528 2138692 2138774 4.580000e-23 121.0
32 TraesCS5A01G001500 chr5D 100.000 46 0 0 4184 4229 2140234 2140279 1.670000e-12 86.1
33 TraesCS5A01G001500 chr5B 86.620 1420 123 37 2146 3528 3921955 3920566 0.000000e+00 1507.0
34 TraesCS5A01G001500 chr5B 92.330 1043 44 16 5456 6465 3920573 3919534 0.000000e+00 1450.0
35 TraesCS5A01G001500 chr5B 97.395 691 12 2 1 690 648305027 648305712 0.000000e+00 1171.0
36 TraesCS5A01G001500 chr5B 92.579 795 27 15 1 764 370072236 370071443 0.000000e+00 1112.0
37 TraesCS5A01G001500 chr5B 87.249 847 51 26 784 1608 3923338 3922527 0.000000e+00 913.0
38 TraesCS5A01G001500 chr5B 87.310 725 55 21 6857 7575 3919221 3918528 0.000000e+00 795.0
39 TraesCS5A01G001500 chr5B 91.444 561 34 6 7630 8185 3918416 3917865 0.000000e+00 758.0
40 TraesCS5A01G001500 chr5B 83.024 807 99 23 6285 7066 2582935 2583728 0.000000e+00 697.0
41 TraesCS5A01G001500 chr5B 82.305 729 80 28 8562 9287 3917480 3916798 3.760000e-163 586.0
42 TraesCS5A01G001500 chr5B 94.928 276 12 2 6482 6755 3919491 3919216 1.860000e-116 431.0
43 TraesCS5A01G001500 chr5B 90.045 221 10 10 1044 1254 2581335 2581553 9.230000e-70 276.0
44 TraesCS5A01G001500 chr5B 94.203 138 8 0 4312 4449 259550823 259550960 2.640000e-50 211.0
45 TraesCS5A01G001500 chr5B 83.929 224 27 6 3187 3401 2582150 2582373 1.230000e-48 206.0
46 TraesCS5A01G001500 chr5B 88.806 134 15 0 8008 8141 2584996 2585129 2.090000e-36 165.0
47 TraesCS5A01G001500 chr5B 94.000 100 5 1 4091 4190 270428999 270428901 5.840000e-32 150.0
48 TraesCS5A01G001500 chr5B 82.143 112 16 3 2840 2951 2581923 2582030 9.980000e-15 93.5
49 TraesCS5A01G001500 chr5B 95.652 46 2 0 729 774 648302178 648302133 3.610000e-09 75.0
50 TraesCS5A01G001500 chr5B 100.000 33 0 0 9302 9334 3916804 3916772 2.810000e-05 62.1
51 TraesCS5A01G001500 chr5B 97.059 34 1 0 4282 4315 576992572 576992605 3.640000e-04 58.4
52 TraesCS5A01G001500 chr6A 95.822 742 25 4 4435 5174 200001285 200000548 0.000000e+00 1194.0
53 TraesCS5A01G001500 chr6A 95.687 742 26 4 4435 5174 262059512 262060249 0.000000e+00 1188.0
54 TraesCS5A01G001500 chr6A 94.059 101 5 1 4090 4190 33201054 33200955 1.620000e-32 152.0
55 TraesCS5A01G001500 chr6A 94.000 100 5 1 4091 4190 33199312 33199214 5.840000e-32 150.0
56 TraesCS5A01G001500 chr6A 100.000 39 0 0 4242 4280 539226825 539226787 1.300000e-08 73.1
57 TraesCS5A01G001500 chr4A 96.175 732 25 2 4445 5174 45865685 45864955 0.000000e+00 1194.0
58 TraesCS5A01G001500 chr4A 92.422 805 30 9 1 775 646964377 646963574 0.000000e+00 1120.0
59 TraesCS5A01G001500 chr4A 96.454 282 8 1 5174 5455 71162268 71161989 1.840000e-126 464.0
60 TraesCS5A01G001500 chr3A 95.822 742 25 4 4435 5174 663294428 663293691 0.000000e+00 1194.0
61 TraesCS5A01G001500 chr3A 98.060 567 11 0 3524 4090 57432198 57431632 0.000000e+00 987.0
62 TraesCS5A01G001500 chr3A 96.814 565 18 0 3526 4090 705144046 705144610 0.000000e+00 944.0
63 TraesCS5A01G001500 chr3A 95.946 296 9 1 5174 5469 57431637 57431345 2.360000e-130 477.0
64 TraesCS5A01G001500 chr3A 96.797 281 6 1 5174 5454 705144605 705144882 5.100000e-127 466.0
65 TraesCS5A01G001500 chr3A 100.000 29 0 0 4287 4315 385758772 385758800 5.000000e-03 54.7
66 TraesCS5A01G001500 chr2A 95.418 742 29 3 4435 5174 61474728 61475466 0.000000e+00 1177.0
67 TraesCS5A01G001500 chr2A 95.148 742 30 4 4435 5174 688639387 688638650 0.000000e+00 1166.0
68 TraesCS5A01G001500 chr2A 98.579 563 8 0 3528 4090 777644585 777644023 0.000000e+00 996.0
69 TraesCS5A01G001500 chr2A 97.872 282 3 1 5174 5455 777644028 777643750 1.410000e-132 484.0
70 TraesCS5A01G001500 chr2A 97.101 138 4 0 4312 4449 61473602 61473465 5.640000e-57 233.0
71 TraesCS5A01G001500 chr2A 95.146 103 4 1 4088 4190 61473068 61473169 2.700000e-35 161.0
72 TraesCS5A01G001500 chr2A 100.000 31 0 0 4287 4317 61473583 61473553 3.640000e-04 58.4
73 TraesCS5A01G001500 chr1A 95.418 742 27 5 4435 5174 405519752 405520488 0.000000e+00 1175.0
74 TraesCS5A01G001500 chr1A 92.422 805 29 13 1 774 577869089 577868286 0.000000e+00 1120.0
75 TraesCS5A01G001500 chr1A 92.579 795 26 12 11 774 534059670 534060462 0.000000e+00 1110.0
76 TraesCS5A01G001500 chr1A 97.509 562 14 0 3529 4090 412138485 412137924 0.000000e+00 961.0
77 TraesCS5A01G001500 chr1A 97.133 279 5 1 5177 5455 412137926 412137651 1.420000e-127 468.0
78 TraesCS5A01G001500 chr1A 100.000 39 0 0 4242 4280 22652318 22652280 1.300000e-08 73.1
79 TraesCS5A01G001500 chr1A 100.000 39 0 0 4242 4280 339690453 339690415 1.300000e-08 73.1
80 TraesCS5A01G001500 chr7A 95.283 742 27 5 4436 5174 726480512 726479776 0.000000e+00 1170.0
81 TraesCS5A01G001500 chr7A 98.932 562 5 1 3529 4090 432141788 432141228 0.000000e+00 1003.0
82 TraesCS5A01G001500 chr7A 97.350 566 14 1 3526 4090 149928655 149928090 0.000000e+00 961.0
83 TraesCS5A01G001500 chr7A 95.455 286 10 2 5174 5459 656008474 656008756 3.970000e-123 453.0
84 TraesCS5A01G001500 chr7A 97.080 137 4 0 4312 4448 43059191 43059327 2.030000e-56 231.0
85 TraesCS5A01G001500 chr7A 95.620 137 6 0 4312 4448 43061360 43061496 4.390000e-53 220.0
86 TraesCS5A01G001500 chr7A 93.069 101 6 1 4090 4190 447289051 447289150 7.550000e-31 147.0
87 TraesCS5A01G001500 chr7A 89.423 104 10 1 4081 4184 213107800 213107902 7.610000e-26 130.0
88 TraesCS5A01G001500 chr3B 92.201 795 30 11 11 774 49395774 49396567 0.000000e+00 1096.0
89 TraesCS5A01G001500 chr2D 89.415 718 28 16 104 774 608727960 608727244 0.000000e+00 861.0
90 TraesCS5A01G001500 chr2D 90.083 121 2 2 1 121 608728086 608727976 2.100000e-31 148.0
91 TraesCS5A01G001500 chr6D 96.113 283 8 1 5174 5456 193074731 193075010 8.540000e-125 459.0
92 TraesCS5A01G001500 chr7D 94.570 221 11 1 1 221 622365974 622365755 3.230000e-89 340.0
93 TraesCS5A01G001500 chr7D 84.659 352 25 12 370 695 622365444 622365096 3.250000e-84 324.0
94 TraesCS5A01G001500 chr7D 91.946 149 6 3 4312 4460 353926203 353926061 4.420000e-48 204.0
95 TraesCS5A01G001500 chr7D 92.157 102 7 1 4091 4192 440569551 440569451 9.770000e-30 143.0
96 TraesCS5A01G001500 chr7D 90.265 113 5 4 231 342 622365704 622365597 9.770000e-30 143.0
97 TraesCS5A01G001500 chr7D 100.000 39 0 0 4242 4280 9131334 9131296 1.300000e-08 73.1
98 TraesCS5A01G001500 chr2B 94.495 218 9 3 561 775 793902506 793902289 5.400000e-87 333.0
99 TraesCS5A01G001500 chr2B 89.091 110 11 1 4081 4190 80581880 80581772 1.630000e-27 135.0
100 TraesCS5A01G001500 chr1D 95.775 142 5 1 4308 4449 460247636 460247776 2.620000e-55 228.0
101 TraesCS5A01G001500 chr6B 94.203 138 8 0 4312 4449 529738072 529737935 2.640000e-50 211.0
102 TraesCS5A01G001500 chr6B 100.000 31 0 0 4287 4317 529738053 529738023 3.640000e-04 58.4
103 TraesCS5A01G001500 chr4D 92.517 147 7 3 4314 4460 36484340 36484198 3.420000e-49 207.0
104 TraesCS5A01G001500 chr4D 93.069 101 6 1 4090 4190 451042989 451043088 7.550000e-31 147.0
105 TraesCS5A01G001500 chr4D 100.000 29 0 0 4287 4315 36484323 36484295 5.000000e-03 54.7
106 TraesCS5A01G001500 chr1B 92.958 142 9 1 4308 4449 324356741 324356601 1.230000e-48 206.0
107 TraesCS5A01G001500 chr1B 91.509 106 7 2 4086 4190 279177735 279177839 2.720000e-30 145.0
108 TraesCS5A01G001500 chr1B 95.556 45 2 0 4236 4280 401785722 401785678 1.300000e-08 73.1
109 TraesCS5A01G001500 chr1B 100.000 31 0 0 4287 4317 95745617 95745647 3.640000e-04 58.4
110 TraesCS5A01G001500 chr3D 89.908 109 8 3 4084 4190 337660606 337660499 4.550000e-28 137.0
111 TraesCS5A01G001500 chr3D 100.000 39 0 0 4242 4280 268944650 268944688 1.300000e-08 73.1
112 TraesCS5A01G001500 chr3D 100.000 39 0 0 4242 4280 609942005 609942043 1.300000e-08 73.1
113 TraesCS5A01G001500 chr7B 87.963 108 10 3 4084 4190 672408447 672408342 3.540000e-24 124.0
114 TraesCS5A01G001500 chr7B 95.556 45 2 0 4236 4280 599341206 599341250 1.300000e-08 73.1
115 TraesCS5A01G001500 chr4B 100.000 39 0 0 4242 4280 58756656 58756618 1.300000e-08 73.1
116 TraesCS5A01G001500 chr4B 100.000 29 0 0 4287 4315 58756646 58756618 5.000000e-03 54.7


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 TraesCS5A01G001500 chr5A 1217937 1227270 9333 False 17237.000000 17237 100.000000 1 9334 1 chr5A.!!$F1 9333
1 TraesCS5A01G001500 chr5A 377127491 377128227 736 True 1164.000000 1164 95.148000 4435 5174 1 chr5A.!!$R2 739
2 TraesCS5A01G001500 chr5A 80113501 80114062 561 True 950.000000 950 97.153000 3529 4090 1 chr5A.!!$R1 561
3 TraesCS5A01G001500 chr5A 662511263 662512109 846 True 715.500000 983 96.229000 3529 5468 2 chr5A.!!$R5 1939
4 TraesCS5A01G001500 chr5A 684792986 684793832 846 False 695.000000 939 95.892000 3519 5458 2 chr5A.!!$F3 1939
5 TraesCS5A01G001500 chr5A 1949745 1951704 1959 True 360.500000 490 85.513000 3186 6704 2 chr5A.!!$R3 3518
6 TraesCS5A01G001500 chr5A 2083720 2086048 2328 True 311.525000 662 85.243750 1048 7066 4 chr5A.!!$R4 6018
7 TraesCS5A01G001500 chr5D 2135789 2142591 6802 False 1246.016667 5308 90.535000 811 9334 6 chr5D.!!$F1 8523
8 TraesCS5A01G001500 chr5D 2692653 2698573 5920 False 386.250000 616 85.807250 3174 8135 4 chr5D.!!$F3 4961
9 TraesCS5A01G001500 chr5D 2684848 2687141 2293 False 383.000000 662 84.204667 1048 7062 3 chr5D.!!$F2 6014
10 TraesCS5A01G001500 chr5D 3628941 3629880 939 False 360.500000 418 88.840500 1 749 2 chr5D.!!$F4 748
11 TraesCS5A01G001500 chr5B 648305027 648305712 685 False 1171.000000 1171 97.395000 1 690 1 chr5B.!!$F3 689
12 TraesCS5A01G001500 chr5B 370071443 370072236 793 True 1112.000000 1112 92.579000 1 764 1 chr5B.!!$R2 763
13 TraesCS5A01G001500 chr5B 3916772 3923338 6566 True 812.762500 1507 90.273250 784 9334 8 chr5B.!!$R4 8550
14 TraesCS5A01G001500 chr5B 2581335 2585129 3794 False 287.500000 697 85.589400 1044 8141 5 chr5B.!!$F4 7097
15 TraesCS5A01G001500 chr6A 200000548 200001285 737 True 1194.000000 1194 95.822000 4435 5174 1 chr6A.!!$R1 739
16 TraesCS5A01G001500 chr6A 262059512 262060249 737 False 1188.000000 1188 95.687000 4435 5174 1 chr6A.!!$F1 739
17 TraesCS5A01G001500 chr4A 45864955 45865685 730 True 1194.000000 1194 96.175000 4445 5174 1 chr4A.!!$R1 729
18 TraesCS5A01G001500 chr4A 646963574 646964377 803 True 1120.000000 1120 92.422000 1 775 1 chr4A.!!$R3 774
19 TraesCS5A01G001500 chr3A 663293691 663294428 737 True 1194.000000 1194 95.822000 4435 5174 1 chr3A.!!$R1 739
20 TraesCS5A01G001500 chr3A 57431345 57432198 853 True 732.000000 987 97.003000 3524 5469 2 chr3A.!!$R2 1945
21 TraesCS5A01G001500 chr3A 705144046 705144882 836 False 705.000000 944 96.805500 3526 5454 2 chr3A.!!$F2 1928
22 TraesCS5A01G001500 chr2A 688638650 688639387 737 True 1166.000000 1166 95.148000 4435 5174 1 chr2A.!!$R1 739
23 TraesCS5A01G001500 chr2A 777643750 777644585 835 True 740.000000 996 98.225500 3528 5455 2 chr2A.!!$R3 1927
24 TraesCS5A01G001500 chr2A 61473068 61475466 2398 False 669.000000 1177 95.282000 4088 5174 2 chr2A.!!$F1 1086
25 TraesCS5A01G001500 chr1A 405519752 405520488 736 False 1175.000000 1175 95.418000 4435 5174 1 chr1A.!!$F1 739
26 TraesCS5A01G001500 chr1A 577868286 577869089 803 True 1120.000000 1120 92.422000 1 774 1 chr1A.!!$R3 773
27 TraesCS5A01G001500 chr1A 534059670 534060462 792 False 1110.000000 1110 92.579000 11 774 1 chr1A.!!$F2 763
28 TraesCS5A01G001500 chr1A 412137651 412138485 834 True 714.500000 961 97.321000 3529 5455 2 chr1A.!!$R4 1926
29 TraesCS5A01G001500 chr7A 726479776 726480512 736 True 1170.000000 1170 95.283000 4436 5174 1 chr7A.!!$R3 738
30 TraesCS5A01G001500 chr7A 432141228 432141788 560 True 1003.000000 1003 98.932000 3529 4090 1 chr7A.!!$R2 561
31 TraesCS5A01G001500 chr7A 149928090 149928655 565 True 961.000000 961 97.350000 3526 4090 1 chr7A.!!$R1 564
32 TraesCS5A01G001500 chr7A 43059191 43061496 2305 False 225.500000 231 96.350000 4312 4448 2 chr7A.!!$F4 136
33 TraesCS5A01G001500 chr3B 49395774 49396567 793 False 1096.000000 1096 92.201000 11 774 1 chr3B.!!$F1 763
34 TraesCS5A01G001500 chr2D 608727244 608728086 842 True 504.500000 861 89.749000 1 774 2 chr2D.!!$R1 773
35 TraesCS5A01G001500 chr7D 622365096 622365974 878 True 269.000000 340 89.831333 1 695 3 chr7D.!!$R4 694

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
901 1146 0.105607 TACAAACCAAACCCCCACCC 60.106 55.0 0.00 0.0 0.00 4.61 F
1279 1575 0.035820 TTCTTCCCCACCGCATACAC 60.036 55.0 0.00 0.0 0.00 2.90 F
1938 2260 0.036010 ATCTCTGGCACAAAGGGACG 60.036 55.0 0.00 0.0 38.70 4.79 F
2046 2418 0.036306 GTTCTGAACCACCCACGGAT 59.964 55.0 9.38 0.0 0.00 4.18 F
2047 2419 0.768622 TTCTGAACCACCCACGGATT 59.231 50.0 0.00 0.0 0.00 3.01 F
2338 3011 0.874390 GCATCCTGCAAGAACAACGA 59.126 50.0 0.00 0.0 44.26 3.85 F
4190 6402 0.036388 CGCTTGCTTAGGGGTGAAGA 60.036 55.0 0.00 0.0 33.37 2.87 F
5175 10468 0.104855 TCTAGCAGCGCCATAACAGG 59.895 55.0 2.29 0.0 0.00 4.00 F
5176 10469 0.179073 CTAGCAGCGCCATAACAGGT 60.179 55.0 2.29 0.0 0.00 4.00 F
5177 10470 0.251916 TAGCAGCGCCATAACAGGTT 59.748 50.0 2.29 0.0 0.00 3.50 F
5455 10748 0.868406 GCCGAGTTCTTGAACAGTGG 59.132 55.0 14.80 13.0 0.00 4.00 F
7362 13091 0.394216 TGCAACTCACCAGTGCTTGT 60.394 50.0 8.78 0.0 31.06 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1919 2241 0.036010 CGTCCCTTTGTGCCAGAGAT 60.036 55.000 0.00 0.0 0.00 2.75 R
2229 2860 0.249031 GGTCAAACAAGCCAGTGCAC 60.249 55.000 9.40 9.4 41.13 4.57 R
3526 5738 0.321298 CCGAGTTCCCGAACAATGGT 60.321 55.000 10.07 0.0 43.47 3.55 R
4110 6322 1.919816 CCAGCCCAGGCCCATTTTT 60.920 57.895 4.70 0.0 43.17 1.94 R
4111 6323 2.284847 CCAGCCCAGGCCCATTTT 60.285 61.111 4.70 0.0 43.17 1.82 R
4230 6442 0.341961 AGCCCCTACAGACCATACCA 59.658 55.000 0.00 0.0 0.00 3.25 R
5253 10546 2.722094 ACTGAAGCGGCATCCATAAAA 58.278 42.857 1.45 0.0 0.00 1.52 R
7192 12921 2.167398 CTTCGTCGCCCTCTTCCCAA 62.167 60.000 0.00 0.0 0.00 4.12 R
7311 13040 1.197036 GTAAAAGTTGAGGTCGCAGGC 59.803 52.381 0.00 0.0 0.00 4.85 R
7326 13055 7.437862 GTGAGTTGCATGGAATTCAAAGTAAAA 59.562 33.333 23.29 0.0 0.00 1.52 R
7444 13175 0.179124 CGAGGGAAGTCTACAGCAGC 60.179 60.000 0.00 0.0 0.00 5.25 R
8479 14571 0.710567 GCAGTCTCGTTCATGTGTCG 59.289 55.000 0.00 0.0 0.00 4.35 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
406 613 1.154093 CTCGTTGAGCTCGCCGTTA 60.154 57.895 20.07 5.66 0.00 3.18
483 690 2.265739 CAGCAGCCGGTAGAAGCA 59.734 61.111 1.90 0.00 0.00 3.91
579 813 1.917872 AGCTTGCGTTGGGGAATAAA 58.082 45.000 0.00 0.00 0.00 1.40
645 890 0.963355 AACAGTGTGGCGTGTGGTTT 60.963 50.000 0.00 0.00 0.00 3.27
646 891 0.963355 ACAGTGTGGCGTGTGGTTTT 60.963 50.000 0.00 0.00 0.00 2.43
647 892 0.172352 CAGTGTGGCGTGTGGTTTTT 59.828 50.000 0.00 0.00 0.00 1.94
648 893 0.454196 AGTGTGGCGTGTGGTTTTTC 59.546 50.000 0.00 0.00 0.00 2.29
649 894 0.454196 GTGTGGCGTGTGGTTTTTCT 59.546 50.000 0.00 0.00 0.00 2.52
695 940 1.375908 TCACACAGCGATTGAGCCC 60.376 57.895 0.00 0.00 38.01 5.19
723 968 7.444183 TGGATTAAAATGAACGATGGATCCTAC 59.556 37.037 14.23 6.01 33.43 3.18
775 1020 1.751927 GTAGAGGAGCCGAACCCGA 60.752 63.158 0.00 0.00 38.22 5.14
776 1021 1.751927 TAGAGGAGCCGAACCCGAC 60.752 63.158 0.00 0.00 38.22 4.79
777 1022 2.207501 TAGAGGAGCCGAACCCGACT 62.208 60.000 0.00 0.00 38.22 4.18
778 1023 3.066233 GAGGAGCCGAACCCGACTC 62.066 68.421 0.00 0.00 43.25 3.36
779 1024 3.379445 GGAGCCGAACCCGACTCA 61.379 66.667 3.83 0.00 45.31 3.41
780 1025 2.654877 GAGCCGAACCCGACTCAA 59.345 61.111 0.00 0.00 43.42 3.02
781 1026 1.218316 GAGCCGAACCCGACTCAAT 59.782 57.895 0.00 0.00 43.42 2.57
782 1027 0.391263 GAGCCGAACCCGACTCAATT 60.391 55.000 0.00 0.00 43.42 2.32
783 1028 0.673644 AGCCGAACCCGACTCAATTG 60.674 55.000 0.00 0.00 38.22 2.32
784 1029 0.672401 GCCGAACCCGACTCAATTGA 60.672 55.000 8.12 8.12 38.22 2.57
785 1030 2.012051 GCCGAACCCGACTCAATTGAT 61.012 52.381 8.96 0.00 38.22 2.57
786 1031 2.356135 CCGAACCCGACTCAATTGATT 58.644 47.619 8.96 2.75 38.22 2.57
787 1032 2.351726 CCGAACCCGACTCAATTGATTC 59.648 50.000 8.96 12.03 38.22 2.52
834 1079 0.667792 GACTAATCGATGGCCGGCTC 60.668 60.000 28.56 16.48 39.14 4.70
841 1086 3.151958 GATGGCCGGCTCTCGCTAA 62.152 63.158 28.56 2.22 37.59 3.09
850 1095 1.638467 CTCTCGCTAACGCCATTGC 59.362 57.895 0.00 0.00 39.84 3.56
898 1143 0.470268 GGCTACAAACCAAACCCCCA 60.470 55.000 0.00 0.00 0.00 4.96
901 1146 0.105607 TACAAACCAAACCCCCACCC 60.106 55.000 0.00 0.00 0.00 4.61
907 1152 3.443479 AAACCCCCACCCAGCCAA 61.443 61.111 0.00 0.00 0.00 4.52
949 1212 2.527875 ATCATCTCCGGCCTCCCC 60.528 66.667 0.00 0.00 0.00 4.81
955 1218 2.204090 TCCGGCCTCCCCTCTTTT 60.204 61.111 0.00 0.00 0.00 2.27
962 1225 1.354705 GCCTCCCCTCTTTTACCAACT 59.645 52.381 0.00 0.00 0.00 3.16
963 1226 2.574824 GCCTCCCCTCTTTTACCAACTA 59.425 50.000 0.00 0.00 0.00 2.24
972 1235 3.462579 TCTTTTACCAACTAACCCACCCA 59.537 43.478 0.00 0.00 0.00 4.51
973 1236 2.955342 TTACCAACTAACCCACCCAC 57.045 50.000 0.00 0.00 0.00 4.61
1005 1276 0.253044 CACCAGTAGTCACCATGGGG 59.747 60.000 18.09 13.53 37.13 4.96
1051 1325 4.344865 TGAAGAAGGGGGCGGTGC 62.345 66.667 0.00 0.00 0.00 5.01
1241 1521 4.394712 CCACCTCCCGGTCAGCAC 62.395 72.222 0.00 0.00 43.24 4.40
1242 1522 4.394712 CACCTCCCGGTCAGCACC 62.395 72.222 0.00 0.00 43.24 5.01
1279 1575 0.035820 TTCTTCCCCACCGCATACAC 60.036 55.000 0.00 0.00 0.00 2.90
1297 1593 6.017770 GCATACACGAGTGTTCTATCTAGTCT 60.018 42.308 14.40 0.00 41.83 3.24
1298 1594 7.171167 GCATACACGAGTGTTCTATCTAGTCTA 59.829 40.741 14.40 0.00 41.83 2.59
1300 1596 6.050432 ACACGAGTGTTCTATCTAGTCTAGG 58.950 44.000 7.05 0.00 41.83 3.02
1303 1599 7.169645 CACGAGTGTTCTATCTAGTCTAGGTAC 59.830 44.444 7.05 0.00 0.00 3.34
1337 1633 1.964552 TTCTTACCCGCCGTCAAAAA 58.035 45.000 0.00 0.00 0.00 1.94
1338 1634 1.228533 TCTTACCCGCCGTCAAAAAC 58.771 50.000 0.00 0.00 0.00 2.43
1362 1662 5.604650 CCAAGATCCCCTCTGTTAGTTAGAT 59.395 44.000 0.00 0.00 33.29 1.98
1401 1702 7.561356 TCCCTTCTTTTAGATGGATGAAATTCC 59.439 37.037 9.50 0.00 40.83 3.01
1430 1731 3.825328 AGCTCAACTGTGGAGTGAAATT 58.175 40.909 13.51 0.00 34.83 1.82
1435 1736 3.498774 ACTGTGGAGTGAAATTCTGCT 57.501 42.857 0.00 0.00 0.00 4.24
1446 1747 3.888323 TGAAATTCTGCTGTGGTTTGCTA 59.112 39.130 0.00 0.00 0.00 3.49
1516 1819 3.165875 TCGGATGAGGACTTGAGACTTT 58.834 45.455 0.00 0.00 0.00 2.66
1525 1828 7.963532 TGAGGACTTGAGACTTTTTGTACTAT 58.036 34.615 0.00 0.00 0.00 2.12
1526 1829 9.085645 TGAGGACTTGAGACTTTTTGTACTATA 57.914 33.333 0.00 0.00 0.00 1.31
1555 1858 7.165460 TCGTTAGTCAACCATGAGAAATAGA 57.835 36.000 0.00 0.00 35.88 1.98
1655 1960 4.298009 CTCTGGAGCCAGCAACAG 57.702 61.111 11.68 7.12 43.31 3.16
1656 1961 1.376942 CTCTGGAGCCAGCAACAGG 60.377 63.158 11.68 0.00 43.31 4.00
1687 1998 2.618709 CAACCCAGAGAACACCTGAAAC 59.381 50.000 0.00 0.00 33.65 2.78
1688 1999 2.127708 ACCCAGAGAACACCTGAAACT 58.872 47.619 0.00 0.00 33.65 2.66
1723 2034 8.273557 GCACCTTGTTCATGTAAGTATATAACG 58.726 37.037 0.00 0.00 0.00 3.18
1754 2066 2.496899 TGCCCTCTAAAAGCTTCAGG 57.503 50.000 0.00 3.07 0.00 3.86
1776 2093 2.257207 TGTCCTGAAGGGGAGTAACTG 58.743 52.381 0.00 0.00 35.87 3.16
1782 2099 6.155737 GTCCTGAAGGGGAGTAACTGTAATTA 59.844 42.308 0.00 0.00 35.87 1.40
1783 2100 6.155737 TCCTGAAGGGGAGTAACTGTAATTAC 59.844 42.308 8.75 8.75 34.24 1.89
1785 2102 7.311109 CCTGAAGGGGAGTAACTGTAATTACTT 60.311 40.741 16.33 6.29 43.83 2.24
1787 2104 7.236019 TGAAGGGGAGTAACTGTAATTACTTCA 59.764 37.037 16.33 9.92 43.83 3.02
1791 2108 7.093421 GGGGAGTAACTGTAATTACTTCACTCT 60.093 40.741 23.68 14.34 43.83 3.24
1807 2124 6.828785 ACTTCACTCTTGTATGTCAAAAACCT 59.171 34.615 0.00 0.00 35.48 3.50
1809 2126 7.026631 TCACTCTTGTATGTCAAAAACCTTG 57.973 36.000 0.00 0.00 35.48 3.61
1812 2132 6.039382 ACTCTTGTATGTCAAAAACCTTGGTC 59.961 38.462 0.00 0.00 35.48 4.02
1813 2133 6.126409 TCTTGTATGTCAAAAACCTTGGTCT 58.874 36.000 0.00 0.00 35.48 3.85
1816 2136 8.472007 TTGTATGTCAAAAACCTTGGTCTTAT 57.528 30.769 0.00 0.00 32.64 1.73
1821 2141 6.183360 TGTCAAAAACCTTGGTCTTATTCACC 60.183 38.462 0.00 0.00 0.00 4.02
1822 2142 5.894393 TCAAAAACCTTGGTCTTATTCACCA 59.106 36.000 0.00 0.00 42.48 4.17
1833 2153 7.284074 TGGTCTTATTCACCAGACAAAACTAA 58.716 34.615 1.98 0.00 41.19 2.24
1857 2179 8.910351 AATTACTACTCATCTTTTATCCCTGC 57.090 34.615 0.00 0.00 0.00 4.85
1874 2196 1.206849 CTGCCCTTCTCTTCTCCAGTC 59.793 57.143 0.00 0.00 0.00 3.51
1875 2197 0.539518 GCCCTTCTCTTCTCCAGTCC 59.460 60.000 0.00 0.00 0.00 3.85
1877 2199 1.551452 CCTTCTCTTCTCCAGTCCGT 58.449 55.000 0.00 0.00 0.00 4.69
1885 2207 3.194968 TCTTCTCCAGTCCGTTTGTATCC 59.805 47.826 0.00 0.00 0.00 2.59
1888 2210 3.581332 TCTCCAGTCCGTTTGTATCCTTT 59.419 43.478 0.00 0.00 0.00 3.11
1889 2211 4.041198 TCTCCAGTCCGTTTGTATCCTTTT 59.959 41.667 0.00 0.00 0.00 2.27
1892 2214 4.700213 CCAGTCCGTTTGTATCCTTTTCAT 59.300 41.667 0.00 0.00 0.00 2.57
1893 2215 5.878116 CCAGTCCGTTTGTATCCTTTTCATA 59.122 40.000 0.00 0.00 0.00 2.15
1895 2217 5.585047 AGTCCGTTTGTATCCTTTTCATAGC 59.415 40.000 0.00 0.00 0.00 2.97
1898 2220 5.354234 CCGTTTGTATCCTTTTCATAGCTGT 59.646 40.000 0.00 0.00 0.00 4.40
1905 2227 8.103305 TGTATCCTTTTCATAGCTGTTTCTTCT 58.897 33.333 0.00 0.00 0.00 2.85
1913 2235 9.730420 TTTCATAGCTGTTTCTTCTTTTTACAC 57.270 29.630 0.00 0.00 0.00 2.90
1919 2241 6.310224 GCTGTTTCTTCTTTTTACACTTTGCA 59.690 34.615 0.00 0.00 0.00 4.08
1926 2248 6.317789 TCTTTTTACACTTTGCATCTCTGG 57.682 37.500 0.00 0.00 0.00 3.86
1927 2249 4.503741 TTTTACACTTTGCATCTCTGGC 57.496 40.909 0.00 0.00 0.00 4.85
1930 2252 1.241165 CACTTTGCATCTCTGGCACA 58.759 50.000 0.00 0.00 41.75 4.57
1932 2254 2.034939 CACTTTGCATCTCTGGCACAAA 59.965 45.455 0.00 0.00 41.75 2.83
1935 2257 0.609957 TGCATCTCTGGCACAAAGGG 60.610 55.000 0.00 0.00 38.70 3.95
1937 2259 1.457346 CATCTCTGGCACAAAGGGAC 58.543 55.000 0.00 0.00 38.70 4.46
1938 2260 0.036010 ATCTCTGGCACAAAGGGACG 60.036 55.000 0.00 0.00 38.70 4.79
1941 2263 2.594303 TGGCACAAAGGGACGCAG 60.594 61.111 0.00 0.00 31.92 5.18
2002 2374 5.168647 ACCGTTACAAGGATTAACATGGA 57.831 39.130 0.00 0.00 30.95 3.41
2030 2402 4.447389 GCTCAGAACTCTTGTCTCTTGTTC 59.553 45.833 0.00 0.00 37.76 3.18
2038 2410 4.442706 TCTTGTCTCTTGTTCTGAACCAC 58.557 43.478 17.26 7.24 0.00 4.16
2039 2411 3.194005 TGTCTCTTGTTCTGAACCACC 57.806 47.619 17.26 1.44 0.00 4.61
2041 2413 2.123589 TCTCTTGTTCTGAACCACCCA 58.876 47.619 17.26 0.00 0.00 4.51
2045 2417 1.338890 TGTTCTGAACCACCCACGGA 61.339 55.000 17.26 0.00 0.00 4.69
2046 2418 0.036306 GTTCTGAACCACCCACGGAT 59.964 55.000 9.38 0.00 0.00 4.18
2047 2419 0.768622 TTCTGAACCACCCACGGATT 59.231 50.000 0.00 0.00 0.00 3.01
2048 2420 1.646912 TCTGAACCACCCACGGATTA 58.353 50.000 0.00 0.00 0.00 1.75
2049 2421 2.193127 TCTGAACCACCCACGGATTAT 58.807 47.619 0.00 0.00 0.00 1.28
2054 2426 5.511363 TGAACCACCCACGGATTATATTTT 58.489 37.500 0.00 0.00 0.00 1.82
2062 2434 5.215160 CCACGGATTATATTTTGCTCAAGC 58.785 41.667 0.00 0.00 42.50 4.01
2065 2437 5.590259 ACGGATTATATTTTGCTCAAGCTGT 59.410 36.000 3.32 0.00 42.66 4.40
2090 2464 7.730364 AGCTTGTTTACCTCATATTATTCGG 57.270 36.000 0.00 0.00 0.00 4.30
2092 2466 6.072673 GCTTGTTTACCTCATATTATTCGGGG 60.073 42.308 0.00 0.00 0.00 5.73
2094 2468 5.370289 TGTTTACCTCATATTATTCGGGGGT 59.630 40.000 0.00 0.00 0.00 4.95
2096 2470 6.610075 TTACCTCATATTATTCGGGGGTAC 57.390 41.667 0.00 0.00 0.00 3.34
2132 2507 4.395231 GTCTAACAAAGCTATGTTGGGACC 59.605 45.833 3.10 0.00 43.13 4.46
2148 2776 2.512476 GGGACCCCAAATCCTAGCTAAA 59.488 50.000 0.00 0.00 36.40 1.85
2154 2782 5.254501 ACCCCAAATCCTAGCTAAAAACCTA 59.745 40.000 0.00 0.00 0.00 3.08
2155 2783 5.593095 CCCCAAATCCTAGCTAAAAACCTAC 59.407 44.000 0.00 0.00 0.00 3.18
2165 2793 4.224594 AGCTAAAAACCTACCTGGGAGTAC 59.775 45.833 4.95 0.00 41.11 2.73
2205 2835 6.509418 TTGTGGCCAACATATCTTTTAGTC 57.491 37.500 7.24 0.00 38.99 2.59
2208 2838 7.398829 TGTGGCCAACATATCTTTTAGTCTTA 58.601 34.615 7.24 0.00 32.36 2.10
2209 2839 7.335924 TGTGGCCAACATATCTTTTAGTCTTAC 59.664 37.037 7.24 0.00 32.36 2.34
2210 2840 7.553044 GTGGCCAACATATCTTTTAGTCTTACT 59.447 37.037 7.24 0.00 0.00 2.24
2211 2841 8.107095 TGGCCAACATATCTTTTAGTCTTACTT 58.893 33.333 0.61 0.00 0.00 2.24
2212 2842 8.613482 GGCCAACATATCTTTTAGTCTTACTTC 58.387 37.037 0.00 0.00 0.00 3.01
2213 2843 9.162764 GCCAACATATCTTTTAGTCTTACTTCA 57.837 33.333 0.00 0.00 0.00 3.02
2244 2875 2.297033 CCTTATGTGCACTGGCTTGTTT 59.703 45.455 19.41 0.00 41.91 2.83
2265 2896 2.116238 GACCTATGTCTGGTAGGCCAA 58.884 52.381 5.01 0.00 45.51 4.52
2280 2911 2.946947 CCAAGATCTGGCCGTTTGT 58.053 52.632 0.00 0.00 38.76 2.83
2323 2996 6.815142 AGCAAATTACATTTCTTTCCAGCATC 59.185 34.615 0.00 0.00 0.00 3.91
2337 3010 3.389741 GCATCCTGCAAGAACAACG 57.610 52.632 0.00 0.00 44.26 4.10
2338 3011 0.874390 GCATCCTGCAAGAACAACGA 59.126 50.000 0.00 0.00 44.26 3.85
2339 3012 1.266718 GCATCCTGCAAGAACAACGAA 59.733 47.619 0.00 0.00 44.26 3.85
2340 3013 2.287547 GCATCCTGCAAGAACAACGAAA 60.288 45.455 0.00 0.00 44.26 3.46
2341 3014 3.795150 GCATCCTGCAAGAACAACGAAAA 60.795 43.478 0.00 0.00 44.26 2.29
2342 3015 4.358851 CATCCTGCAAGAACAACGAAAAA 58.641 39.130 0.00 0.00 34.07 1.94
2343 3016 4.647424 TCCTGCAAGAACAACGAAAAAT 57.353 36.364 0.00 0.00 34.07 1.82
2344 3017 4.358851 TCCTGCAAGAACAACGAAAAATG 58.641 39.130 0.00 0.00 34.07 2.32
2345 3018 4.097135 TCCTGCAAGAACAACGAAAAATGA 59.903 37.500 0.00 0.00 34.07 2.57
2346 3019 4.984161 CCTGCAAGAACAACGAAAAATGAT 59.016 37.500 0.00 0.00 34.07 2.45
2347 3020 5.107760 CCTGCAAGAACAACGAAAAATGATG 60.108 40.000 0.00 0.00 34.07 3.07
2348 3021 5.586339 TGCAAGAACAACGAAAAATGATGA 58.414 33.333 0.00 0.00 0.00 2.92
2349 3022 5.458452 TGCAAGAACAACGAAAAATGATGAC 59.542 36.000 0.00 0.00 0.00 3.06
2354 3027 4.869215 ACAACGAAAAATGATGACATGCA 58.131 34.783 0.00 0.00 36.79 3.96
2355 3028 4.681025 ACAACGAAAAATGATGACATGCAC 59.319 37.500 0.00 0.00 36.79 4.57
2356 3029 4.771590 ACGAAAAATGATGACATGCACT 57.228 36.364 0.00 0.00 36.79 4.40
2367 3040 6.571605 TGATGACATGCACTTTTTCTGAAAA 58.428 32.000 11.33 11.33 33.86 2.29
2370 3043 7.236674 TGACATGCACTTTTTCTGAAAAATG 57.763 32.000 23.95 22.16 39.43 2.32
2371 3044 7.040494 TGACATGCACTTTTTCTGAAAAATGA 58.960 30.769 23.95 15.01 39.43 2.57
2402 3156 6.097554 TGCACTTTTTCTTGGAGAAATTGGTA 59.902 34.615 4.16 0.00 43.06 3.25
2403 3157 6.420903 GCACTTTTTCTTGGAGAAATTGGTAC 59.579 38.462 4.16 0.00 43.06 3.34
2407 3162 7.510549 TTTTCTTGGAGAAATTGGTACTGAG 57.489 36.000 4.16 0.00 43.06 3.35
2419 3174 2.037251 TGGTACTGAGCAGTTCCTTGAC 59.963 50.000 21.69 8.56 45.64 3.18
2527 3475 5.279156 GGAGTGCTTGAATGGAGAATTTGTT 60.279 40.000 0.00 0.00 0.00 2.83
2595 3548 7.936847 TCATTGGTATTGACTCTTACTTGTTGT 59.063 33.333 0.00 0.00 0.00 3.32
2696 3649 1.134788 ACGGGCTGTTATCTTCCTTCG 60.135 52.381 0.00 0.00 0.00 3.79
2728 3682 7.928706 GTGACTACAGTATCCATATCTGCTTTT 59.071 37.037 0.00 0.00 33.12 2.27
2729 3683 8.486210 TGACTACAGTATCCATATCTGCTTTTT 58.514 33.333 0.00 0.00 33.12 1.94
2741 3695 7.148188 CCATATCTGCTTTTTGATGTACACAGT 60.148 37.037 0.00 0.00 0.00 3.55
2762 3716 8.879759 CACAGTTTAATTGTGGTAGTATACAGG 58.120 37.037 11.94 0.00 45.43 4.00
2791 3751 9.623000 AAAAAGTTCAGTTGTGGTAGTAGTAAT 57.377 29.630 0.00 0.00 0.00 1.89
2792 3752 8.603242 AAAGTTCAGTTGTGGTAGTAGTAATG 57.397 34.615 0.00 0.00 0.00 1.90
2793 3753 7.299246 AGTTCAGTTGTGGTAGTAGTAATGT 57.701 36.000 0.00 0.00 0.00 2.71
2827 3787 3.501062 ACAAGTGCTCATTGTCACATCTG 59.499 43.478 11.99 9.13 36.10 2.90
2835 3795 4.392047 TCATTGTCACATCTGTTGCTTCT 58.608 39.130 0.00 0.00 0.00 2.85
2836 3796 4.214758 TCATTGTCACATCTGTTGCTTCTG 59.785 41.667 0.00 0.00 0.00 3.02
2914 3878 2.171027 GTTTGATGGGGATGGGTACGTA 59.829 50.000 0.00 0.00 0.00 3.57
2968 3940 5.604758 TCTAGCTCTAGTTGCACATTCAT 57.395 39.130 11.67 0.00 34.84 2.57
3012 3986 7.182060 ACAATTTTCCAGACCATACCACTTAT 58.818 34.615 0.00 0.00 0.00 1.73
3013 3987 7.122650 ACAATTTTCCAGACCATACCACTTATG 59.877 37.037 0.00 0.00 37.86 1.90
3015 3989 5.772393 TTCCAGACCATACCACTTATGTT 57.228 39.130 0.00 0.00 36.54 2.71
3025 3999 7.940137 ACCATACCACTTATGTTACTGTTTCAA 59.060 33.333 0.00 0.00 36.54 2.69
3033 4007 2.685897 TGTTACTGTTTCAAGCCCACAC 59.314 45.455 0.00 0.00 0.00 3.82
3044 4031 2.557924 CAAGCCCACACTTGCAAGATTA 59.442 45.455 32.50 0.00 40.53 1.75
3097 4203 4.582701 TGTTTCGGCATCAAGTTTTCAT 57.417 36.364 0.00 0.00 0.00 2.57
3102 4208 5.295431 TCGGCATCAAGTTTTCATTACTG 57.705 39.130 0.00 0.00 0.00 2.74
3112 4218 5.005740 AGTTTTCATTACTGCAGCTCATGA 58.994 37.500 15.27 15.49 0.00 3.07
3128 4235 8.662141 GCAGCTCATGATTTTTGTGATAAAATT 58.338 29.630 0.00 0.00 37.72 1.82
3161 4272 5.376625 TCTATGTTCCAGACTGTTGCTTTT 58.623 37.500 0.93 0.00 0.00 2.27
3162 4273 4.574599 ATGTTCCAGACTGTTGCTTTTC 57.425 40.909 0.93 0.00 0.00 2.29
3378 4669 2.028748 GCAACACTTGATTGCCTCCATT 60.029 45.455 0.00 0.00 45.48 3.16
3379 4670 3.193267 GCAACACTTGATTGCCTCCATTA 59.807 43.478 0.00 0.00 45.48 1.90
3383 4674 3.129287 CACTTGATTGCCTCCATTACCAC 59.871 47.826 0.00 0.00 0.00 4.16
3416 4730 7.710044 TCTGTTTTTCTTATTCATGCTTGCAAA 59.290 29.630 0.00 0.00 0.00 3.68
3524 5736 6.182627 TGATCAGCTTGGTTCTTAATGACAT 58.817 36.000 0.00 0.00 0.00 3.06
3525 5737 7.337938 TGATCAGCTTGGTTCTTAATGACATA 58.662 34.615 0.00 0.00 0.00 2.29
3526 5738 7.828717 TGATCAGCTTGGTTCTTAATGACATAA 59.171 33.333 0.00 0.00 0.00 1.90
4110 6322 6.099269 GGTTCTGTTAGAGTACATAATGGGGA 59.901 42.308 0.00 0.00 0.00 4.81
4111 6323 7.365295 GGTTCTGTTAGAGTACATAATGGGGAA 60.365 40.741 0.00 0.00 0.00 3.97
4112 6324 7.743116 TCTGTTAGAGTACATAATGGGGAAA 57.257 36.000 0.00 0.00 0.00 3.13
4183 6395 0.539986 TAAGGGTCGCTTGCTTAGGG 59.460 55.000 12.19 0.00 38.13 3.53
4186 6398 1.745489 GGTCGCTTGCTTAGGGGTG 60.745 63.158 4.21 0.00 37.41 4.61
4190 6402 0.036388 CGCTTGCTTAGGGGTGAAGA 60.036 55.000 0.00 0.00 33.37 2.87
4192 6404 2.728007 GCTTGCTTAGGGGTGAAGAAT 58.272 47.619 0.00 0.00 0.00 2.40
4194 6406 2.806945 TGCTTAGGGGTGAAGAATGG 57.193 50.000 0.00 0.00 0.00 3.16
4195 6407 1.992557 TGCTTAGGGGTGAAGAATGGT 59.007 47.619 0.00 0.00 0.00 3.55
4196 6408 2.290896 TGCTTAGGGGTGAAGAATGGTG 60.291 50.000 0.00 0.00 0.00 4.17
4197 6409 2.026262 GCTTAGGGGTGAAGAATGGTGA 60.026 50.000 0.00 0.00 0.00 4.02
4198 6410 3.561313 GCTTAGGGGTGAAGAATGGTGAA 60.561 47.826 0.00 0.00 0.00 3.18
4199 6411 4.860022 CTTAGGGGTGAAGAATGGTGAAT 58.140 43.478 0.00 0.00 0.00 2.57
4201 6413 3.701664 AGGGGTGAAGAATGGTGAATTC 58.298 45.455 0.00 0.00 44.44 2.17
4202 6414 3.075882 AGGGGTGAAGAATGGTGAATTCA 59.924 43.478 3.38 3.38 46.21 2.57
4203 6415 4.026052 GGGGTGAAGAATGGTGAATTCAT 58.974 43.478 12.12 0.00 46.21 2.57
4204 6416 4.098501 GGGGTGAAGAATGGTGAATTCATC 59.901 45.833 12.12 12.05 46.21 2.92
4205 6417 4.952335 GGGTGAAGAATGGTGAATTCATCT 59.048 41.667 19.21 11.32 46.21 2.90
4206 6418 6.122277 GGGTGAAGAATGGTGAATTCATCTA 58.878 40.000 19.21 8.15 46.21 1.98
4207 6419 6.038714 GGGTGAAGAATGGTGAATTCATCTAC 59.961 42.308 19.21 9.83 46.21 2.59
4208 6420 6.599244 GGTGAAGAATGGTGAATTCATCTACA 59.401 38.462 19.21 12.55 46.21 2.74
4210 6422 8.180267 GTGAAGAATGGTGAATTCATCTACAAG 58.820 37.037 19.21 0.00 46.21 3.16
4211 6423 7.884877 TGAAGAATGGTGAATTCATCTACAAGT 59.115 33.333 19.21 0.00 46.21 3.16
4213 6425 8.273780 AGAATGGTGAATTCATCTACAAGTTC 57.726 34.615 19.21 12.51 46.21 3.01
4214 6426 6.668541 ATGGTGAATTCATCTACAAGTTCG 57.331 37.500 19.21 0.00 0.00 3.95
4218 6430 5.063564 GTGAATTCATCTACAAGTTCGACCC 59.936 44.000 12.12 0.00 0.00 4.46
4219 6431 5.046591 TGAATTCATCTACAAGTTCGACCCT 60.047 40.000 3.38 0.00 0.00 4.34
4220 6432 6.153851 TGAATTCATCTACAAGTTCGACCCTA 59.846 38.462 3.38 0.00 0.00 3.53
4222 6434 4.338012 TCATCTACAAGTTCGACCCTACA 58.662 43.478 0.00 0.00 0.00 2.74
4224 6436 5.244402 TCATCTACAAGTTCGACCCTACAAA 59.756 40.000 0.00 0.00 0.00 2.83
4225 6437 5.130292 TCTACAAGTTCGACCCTACAAAG 57.870 43.478 0.00 0.00 0.00 2.77
4226 6438 4.828939 TCTACAAGTTCGACCCTACAAAGA 59.171 41.667 0.00 0.00 0.00 2.52
4230 6442 5.826208 ACAAGTTCGACCCTACAAAGAAAAT 59.174 36.000 0.00 0.00 0.00 1.82
4231 6443 5.941948 AGTTCGACCCTACAAAGAAAATG 57.058 39.130 0.00 0.00 0.00 2.32
4233 6445 4.360951 TCGACCCTACAAAGAAAATGGT 57.639 40.909 0.00 0.00 0.00 3.55
4234 6446 5.486735 TCGACCCTACAAAGAAAATGGTA 57.513 39.130 0.00 0.00 0.00 3.25
4235 6447 6.057321 TCGACCCTACAAAGAAAATGGTAT 57.943 37.500 0.00 0.00 0.00 2.73
4236 6448 5.878116 TCGACCCTACAAAGAAAATGGTATG 59.122 40.000 0.00 0.00 0.00 2.39
4238 6450 5.899278 ACCCTACAAAGAAAATGGTATGGT 58.101 37.500 0.00 0.00 32.26 3.55
4239 6451 5.949952 ACCCTACAAAGAAAATGGTATGGTC 59.050 40.000 0.00 0.00 31.75 4.02
4240 6452 6.187682 CCCTACAAAGAAAATGGTATGGTCT 58.812 40.000 0.00 0.00 0.00 3.85
4241 6453 6.095440 CCCTACAAAGAAAATGGTATGGTCTG 59.905 42.308 0.00 0.00 0.00 3.51
4242 6454 6.659242 CCTACAAAGAAAATGGTATGGTCTGT 59.341 38.462 0.00 0.00 0.00 3.41
4243 6455 7.827236 CCTACAAAGAAAATGGTATGGTCTGTA 59.173 37.037 0.00 0.00 0.00 2.74
4244 6456 7.687941 ACAAAGAAAATGGTATGGTCTGTAG 57.312 36.000 0.00 0.00 0.00 2.74
4245 6457 6.659242 ACAAAGAAAATGGTATGGTCTGTAGG 59.341 38.462 0.00 0.00 0.00 3.18
4246 6458 5.373812 AGAAAATGGTATGGTCTGTAGGG 57.626 43.478 0.00 0.00 0.00 3.53
4247 6459 4.166144 AGAAAATGGTATGGTCTGTAGGGG 59.834 45.833 0.00 0.00 0.00 4.79
4250 6462 0.759346 GGTATGGTCTGTAGGGGCTG 59.241 60.000 0.00 0.00 0.00 4.85
4251 6463 0.759346 GTATGGTCTGTAGGGGCTGG 59.241 60.000 0.00 0.00 0.00 4.85
4252 6464 1.054406 TATGGTCTGTAGGGGCTGGC 61.054 60.000 0.00 0.00 0.00 4.85
4255 6467 2.688666 TCTGTAGGGGCTGGCCAG 60.689 66.667 29.34 29.34 37.98 4.85
4257 6469 4.675303 TGTAGGGGCTGGCCAGGT 62.675 66.667 33.46 8.34 37.98 4.00
4259 6471 2.366435 TAGGGGCTGGCCAGGTAC 60.366 66.667 33.46 17.20 37.98 3.34
4260 6472 3.261315 TAGGGGCTGGCCAGGTACA 62.261 63.158 33.46 0.00 37.98 2.90
4261 6473 4.115199 GGGGCTGGCCAGGTACAG 62.115 72.222 33.46 9.13 37.98 2.74
4272 6524 2.446036 GGTACAGCCGGATCCCCT 60.446 66.667 5.05 0.00 0.00 4.79
4275 6527 3.016613 TACAGCCGGATCCCCTGGA 62.017 63.158 23.66 16.66 35.55 3.86
4302 6554 3.849951 CGCCAGGTACAGCCGGAT 61.850 66.667 5.05 0.00 43.70 4.18
4303 6555 2.109181 GCCAGGTACAGCCGGATC 59.891 66.667 5.05 0.00 43.70 3.36
4305 6557 2.808206 CCAGGTACAGCCGGATCCC 61.808 68.421 5.05 0.00 43.70 3.85
4307 6559 2.446036 GGTACAGCCGGATCCCCT 60.446 66.667 5.05 0.00 0.00 4.79
4308 6560 2.808206 GGTACAGCCGGATCCCCTG 61.808 68.421 20.16 20.16 0.00 4.45
4309 6561 2.445845 TACAGCCGGATCCCCTGG 60.446 66.667 23.66 14.03 0.00 4.45
4311 6563 3.866582 CAGCCGGATCCCCTGGAC 61.867 72.222 5.05 5.27 32.98 4.02
4697 9987 1.084652 TCCATGGGATCCAGGTGGT 59.915 57.895 21.72 0.00 35.71 4.16
4889 10180 1.291588 CTGCAGCTCGAGGACAAGT 59.708 57.895 15.58 0.00 0.00 3.16
5031 10322 1.377994 AGCCTTGCTTGGGAGTCAG 59.622 57.895 0.00 0.00 33.89 3.51
5072 10365 7.470935 AGAGAGGAGATGTATCAATCTGATG 57.529 40.000 0.00 0.00 37.70 3.07
5174 10467 1.863454 CTTCTAGCAGCGCCATAACAG 59.137 52.381 2.29 0.00 0.00 3.16
5175 10468 0.104855 TCTAGCAGCGCCATAACAGG 59.895 55.000 2.29 0.00 0.00 4.00
5176 10469 0.179073 CTAGCAGCGCCATAACAGGT 60.179 55.000 2.29 0.00 0.00 4.00
5177 10470 0.251916 TAGCAGCGCCATAACAGGTT 59.748 50.000 2.29 0.00 0.00 3.50
5178 10471 1.026718 AGCAGCGCCATAACAGGTTC 61.027 55.000 2.29 0.00 0.00 3.62
5251 10544 1.624336 GCTTCGGTTACCCCCTTTTT 58.376 50.000 0.00 0.00 0.00 1.94
5455 10748 0.868406 GCCGAGTTCTTGAACAGTGG 59.132 55.000 14.80 13.00 0.00 4.00
5457 10750 2.135933 CCGAGTTCTTGAACAGTGGAC 58.864 52.381 14.80 0.00 0.00 4.02
6015 11313 6.927381 TGCAGTCACTGAATGATGTATATCTG 59.073 38.462 9.70 0.00 40.28 2.90
6307 11633 3.953612 TGCAACTGTGGAAGATGAGTTTT 59.046 39.130 0.00 0.00 30.34 2.43
6871 12255 7.675062 CATTAGCACTTGATAAGGGATACTCT 58.325 38.462 0.00 0.00 31.51 3.24
6909 12298 7.094805 TGGTCTTATTGTTCTGCATTCTTGTAC 60.095 37.037 0.00 0.00 0.00 2.90
7045 12435 6.355747 TGAACTTCCCAATTGCTTCATTTTT 58.644 32.000 0.00 0.00 0.00 1.94
7115 12842 3.119065 TCCAATCGATGCATTGCACAATT 60.119 39.130 14.66 10.77 43.04 2.32
7311 13040 4.696899 TCGGGAATGAGCTGTATATACG 57.303 45.455 8.33 4.69 0.00 3.06
7326 13055 1.605058 ATACGCCTGCGACCTCAACT 61.605 55.000 19.52 0.00 42.83 3.16
7349 13078 7.500141 ACTTTTACTTTGAATTCCATGCAACT 58.500 30.769 2.27 0.00 0.00 3.16
7362 13091 0.394216 TGCAACTCACCAGTGCTTGT 60.394 50.000 8.78 0.00 31.06 3.16
7374 13105 4.022329 ACCAGTGCTTGTGCCTAATTTTAC 60.022 41.667 0.00 0.00 38.71 2.01
7444 13175 0.597637 ACAGAAGCAACTGTCGGTCG 60.598 55.000 9.45 0.00 46.36 4.79
7458 13189 0.798771 CGGTCGCTGCTGTAGACTTC 60.799 60.000 16.19 5.17 35.42 3.01
7533 13268 9.237846 GAACTTCAACATAAGTTTCCTTTCTTG 57.762 33.333 3.71 0.00 46.92 3.02
7541 13276 9.739276 ACATAAGTTTCCTTTCTTGTATGATGA 57.261 29.630 0.00 0.00 31.89 2.92
7566 13303 6.867662 GCTTATATCATAAAGCACCACTGT 57.132 37.500 3.54 0.00 45.89 3.55
7567 13304 7.962964 GCTTATATCATAAAGCACCACTGTA 57.037 36.000 3.54 0.00 45.89 2.74
7577 13314 3.115390 AGCACCACTGTATATCAACCCT 58.885 45.455 0.00 0.00 0.00 4.34
7592 13333 5.195001 TCAACCCTTGATAAAACTTGCAC 57.805 39.130 0.00 0.00 34.08 4.57
7622 13363 6.437162 AGTGAGATTCTTCCTGGAGCTATATC 59.563 42.308 0.00 0.00 0.00 1.63
7623 13364 5.417266 TGAGATTCTTCCTGGAGCTATATCG 59.583 44.000 0.00 0.00 0.00 2.92
7626 13367 3.833732 TCTTCCTGGAGCTATATCGTGT 58.166 45.455 0.00 0.00 0.00 4.49
7641 13439 3.667497 TCGTGTGCTTTCTCTGATCTT 57.333 42.857 0.00 0.00 0.00 2.40
7661 13462 7.496920 TGATCTTTTACTCTGTGATAATGCAGG 59.503 37.037 0.00 0.00 33.81 4.85
7716 13535 1.141881 ATAGCGAAGGTGACTGGCG 59.858 57.895 0.00 0.00 43.38 5.69
7856 13675 4.722700 CCCAAGGAGCCCGGTGTG 62.723 72.222 0.00 0.00 0.00 3.82
7932 13751 2.844348 GGGTACTCTTCCATTCCCTTCA 59.156 50.000 0.00 0.00 32.89 3.02
7941 13760 8.820831 ACTCTTCCATTCCCTTCATATACATAG 58.179 37.037 0.00 0.00 0.00 2.23
7943 13762 8.816894 TCTTCCATTCCCTTCATATACATAGAC 58.183 37.037 0.00 0.00 0.00 2.59
7973 13792 3.106738 GCTGCTGCTCCATGGTTAT 57.893 52.632 12.58 0.00 36.03 1.89
7979 13798 2.291741 GCTGCTCCATGGTTATAGTTGC 59.708 50.000 12.58 6.70 0.00 4.17
7980 13799 3.813443 CTGCTCCATGGTTATAGTTGCT 58.187 45.455 12.58 0.00 0.00 3.91
7982 13801 4.960938 TGCTCCATGGTTATAGTTGCTAG 58.039 43.478 12.58 0.00 0.00 3.42
7983 13802 4.653801 TGCTCCATGGTTATAGTTGCTAGA 59.346 41.667 12.58 0.00 0.00 2.43
8019 13859 1.608055 TGTGTTGTGGATGCAGGAAG 58.392 50.000 0.00 0.00 0.00 3.46
8170 14014 7.375106 TCTTCTTCTTTTCTGATCTGATTGC 57.625 36.000 2.84 0.00 0.00 3.56
8181 14025 8.917415 TTCTGATCTGATTGCGTATGTATATC 57.083 34.615 2.84 0.00 0.00 1.63
8185 14029 9.136323 TGATCTGATTGCGTATGTATATCCTAT 57.864 33.333 0.00 0.00 0.00 2.57
8187 14031 7.716612 TCTGATTGCGTATGTATATCCTATGG 58.283 38.462 0.00 0.00 0.00 2.74
8229 14155 4.826183 GGCAAAGCCTGAAATGAGATCTAT 59.174 41.667 0.00 0.00 46.69 1.98
8280 14206 8.026026 CGTATATGCTGAAGAACATCTATCTGT 58.974 37.037 0.00 0.00 0.00 3.41
8281 14207 9.352784 GTATATGCTGAAGAACATCTATCTGTC 57.647 37.037 0.00 0.00 0.00 3.51
8292 14218 6.808008 ACATCTATCTGTCTTGTGGTTTTG 57.192 37.500 0.00 0.00 0.00 2.44
8344 14271 3.860378 GCAGAGGTGTGAAGAAGAGTGAG 60.860 52.174 0.00 0.00 0.00 3.51
8345 14272 3.320541 CAGAGGTGTGAAGAAGAGTGAGT 59.679 47.826 0.00 0.00 0.00 3.41
8346 14273 3.320541 AGAGGTGTGAAGAAGAGTGAGTG 59.679 47.826 0.00 0.00 0.00 3.51
8348 14275 3.900601 AGGTGTGAAGAAGAGTGAGTGAT 59.099 43.478 0.00 0.00 0.00 3.06
8352 14279 6.146347 GGTGTGAAGAAGAGTGAGTGATAAAC 59.854 42.308 0.00 0.00 0.00 2.01
8354 14281 6.150318 GTGAAGAAGAGTGAGTGATAAACGA 58.850 40.000 0.00 0.00 0.00 3.85
8355 14282 6.088350 GTGAAGAAGAGTGAGTGATAAACGAC 59.912 42.308 0.00 0.00 0.00 4.34
8357 14284 5.945155 AGAAGAGTGAGTGATAAACGACTC 58.055 41.667 0.00 0.00 40.67 3.36
8358 14285 5.708230 AGAAGAGTGAGTGATAAACGACTCT 59.292 40.000 0.00 0.00 46.89 3.24
8364 14454 6.655848 AGTGAGTGATAAACGACTCTACTCTT 59.344 38.462 0.00 0.00 39.54 2.85
8371 14461 7.755373 TGATAAACGACTCTACTCTTCATGTTG 59.245 37.037 0.00 0.00 0.00 3.33
8376 14466 5.795939 CGACTCTACTCTTCATGTTGTACAC 59.204 44.000 0.00 0.00 0.00 2.90
8378 14468 5.055642 TCTACTCTTCATGTTGTACACGG 57.944 43.478 0.00 0.00 0.00 4.94
8396 14486 4.339814 ACACGGTGCAGAAATAAAGGAAAA 59.660 37.500 8.30 0.00 0.00 2.29
8398 14488 5.345741 CACGGTGCAGAAATAAAGGAAAATG 59.654 40.000 0.00 0.00 0.00 2.32
8399 14489 5.010617 ACGGTGCAGAAATAAAGGAAAATGT 59.989 36.000 0.00 0.00 0.00 2.71
8449 14541 5.642686 TGCGTTAAATTAGTAACATTGCCC 58.357 37.500 1.98 0.00 34.25 5.36
8469 14561 5.647658 TGCCCTCAAATATTTGTACAGTGAG 59.352 40.000 23.95 14.03 39.18 3.51
8486 14578 6.166279 ACAGTGAGTGAATTAATCGACACAT 58.834 36.000 16.76 7.21 35.97 3.21
8498 14591 0.710567 CGACACATGAACGAGACTGC 59.289 55.000 0.00 0.00 0.00 4.40
8512 14605 6.648725 ACGAGACTGCAAATTTCATACTAC 57.351 37.500 0.00 0.00 0.00 2.73
8516 14609 7.010460 CGAGACTGCAAATTTCATACTACATGA 59.990 37.037 0.00 0.00 0.00 3.07
8518 14611 9.182214 AGACTGCAAATTTCATACTACATGATT 57.818 29.630 0.00 0.00 0.00 2.57
8560 14658 9.999660 CATGGATTTCATATAGGGAGATGATAG 57.000 37.037 0.00 0.00 33.39 2.08
8611 16301 3.955471 ACTCCATGAACATCGTTGGATT 58.045 40.909 0.00 0.00 0.00 3.01
8622 16313 4.273480 ACATCGTTGGATTATGCTTACAGC 59.727 41.667 0.00 0.00 42.82 4.40
8654 16352 4.359434 AGAGGAGCTAGACACGATGATA 57.641 45.455 0.00 0.00 0.00 2.15
8655 16353 4.069304 AGAGGAGCTAGACACGATGATAC 58.931 47.826 0.00 0.00 0.00 2.24
8661 16359 6.127869 GGAGCTAGACACGATGATACATACAT 60.128 42.308 0.00 0.00 0.00 2.29
8663 16361 7.309177 AGCTAGACACGATGATACATACATTC 58.691 38.462 0.00 0.00 0.00 2.67
8664 16362 7.040409 AGCTAGACACGATGATACATACATTCA 60.040 37.037 0.00 0.00 0.00 2.57
8665 16363 7.757173 GCTAGACACGATGATACATACATTCAT 59.243 37.037 0.00 0.00 32.93 2.57
8667 16365 8.526218 AGACACGATGATACATACATTCATTC 57.474 34.615 0.00 0.00 30.48 2.67
8670 16368 9.276590 ACACGATGATACATACATTCATTCATT 57.723 29.630 0.00 0.00 30.48 2.57
8692 16390 9.607988 TCATTTTAATAAGAGATAAAGGCGTGA 57.392 29.630 0.00 0.00 0.00 4.35
8704 16402 2.494918 GCGTGAGAGCCACCGTAT 59.505 61.111 0.00 0.00 42.76 3.06
8731 16429 4.711949 CTGCGGGCCACTTGCTCT 62.712 66.667 4.39 0.00 38.81 4.09
8735 16433 2.360475 GGGCCACTTGCTCTGGAC 60.360 66.667 4.39 0.00 37.53 4.02
8746 16444 2.362503 TCTGGACTGATCGCCGGT 60.363 61.111 1.90 0.00 37.00 5.28
8904 16602 1.302832 CCAGCGAGCCTGAAAAGGT 60.303 57.895 0.00 0.00 44.64 3.50
8913 16611 0.609131 CCTGAAAAGGTCATGCCGGT 60.609 55.000 1.90 0.00 43.70 5.28
9149 16847 3.197790 CCGCCGCTGGATTCTGTG 61.198 66.667 0.00 0.00 0.00 3.66
9261 16959 2.078914 GTAGACGACGGCACACACG 61.079 63.158 2.19 0.00 37.36 4.49
9270 16968 3.788766 GCACACACGCTTAGGCCG 61.789 66.667 0.00 0.00 34.44 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
379 586 2.490217 CTCAACGAGCCCGACGAT 59.510 61.111 0.00 0.00 39.50 3.73
483 690 2.460853 CCATCCCCGTGCCCCTATT 61.461 63.158 0.00 0.00 0.00 1.73
579 813 1.359474 TCTAGAGAGGTCTGGCCACTT 59.641 52.381 0.00 0.00 38.32 3.16
695 940 7.013655 AGGATCCATCGTTCATTTTAATCCAAG 59.986 37.037 15.82 0.00 34.02 3.61
723 968 3.481903 CACGCGTGCTGTAGCTGG 61.482 66.667 28.16 0.00 42.66 4.85
775 1020 2.259618 CGTCGTCCGAATCAATTGAGT 58.740 47.619 14.54 11.65 39.56 3.41
776 1021 1.005975 GCGTCGTCCGAATCAATTGAG 60.006 52.381 14.54 0.02 39.56 3.02
777 1022 0.996462 GCGTCGTCCGAATCAATTGA 59.004 50.000 11.26 11.26 39.56 2.57
778 1023 0.314259 CGCGTCGTCCGAATCAATTG 60.314 55.000 0.00 0.00 39.56 2.32
779 1024 1.418342 CCGCGTCGTCCGAATCAATT 61.418 55.000 4.92 0.00 39.56 2.32
780 1025 1.876714 CCGCGTCGTCCGAATCAAT 60.877 57.895 4.92 0.00 39.56 2.57
781 1026 2.505337 CCGCGTCGTCCGAATCAA 60.505 61.111 4.92 0.00 39.56 2.57
834 1079 2.709475 GGCAATGGCGTTAGCGAG 59.291 61.111 2.07 0.00 46.35 5.03
850 1095 2.517402 CGGAGGAGAGAGGGACGG 60.517 72.222 0.00 0.00 0.00 4.79
901 1146 4.659172 TTCCCTGGGCGTTGGCTG 62.659 66.667 8.22 0.00 39.81 4.85
907 1152 2.676471 GCATTGTTCCCTGGGCGT 60.676 61.111 8.22 0.00 0.00 5.68
949 1212 4.077108 GGGTGGGTTAGTTGGTAAAAGAG 58.923 47.826 0.00 0.00 0.00 2.85
955 1218 1.420891 GTGTGGGTGGGTTAGTTGGTA 59.579 52.381 0.00 0.00 0.00 3.25
962 1225 1.760479 CTGACGGTGTGGGTGGGTTA 61.760 60.000 0.00 0.00 0.00 2.85
963 1226 3.091190 TGACGGTGTGGGTGGGTT 61.091 61.111 0.00 0.00 0.00 4.11
972 1235 4.250305 GGTGGCCACTGACGGTGT 62.250 66.667 33.91 0.00 43.94 4.16
973 1236 4.248842 TGGTGGCCACTGACGGTG 62.249 66.667 33.91 7.49 44.96 4.94
1244 1524 2.188818 AGAAGGATTGGAGAGAGGGG 57.811 55.000 0.00 0.00 0.00 4.79
1257 1545 0.619255 TATGCGGTGGGGAAGAAGGA 60.619 55.000 0.00 0.00 0.00 3.36
1279 1575 7.436118 AGTACCTAGACTAGATAGAACACTCG 58.564 42.308 11.27 0.00 0.00 4.18
1297 1593 6.500336 AGAAACAATCTGGGACTAGTACCTA 58.500 40.000 24.95 13.47 36.88 3.08
1298 1594 5.342866 AGAAACAATCTGGGACTAGTACCT 58.657 41.667 24.95 1.65 36.88 3.08
1300 1596 7.040494 GGTAAGAAACAATCTGGGACTAGTAC 58.960 42.308 0.00 0.00 38.79 2.73
1303 1599 5.429130 GGGTAAGAAACAATCTGGGACTAG 58.571 45.833 0.00 0.00 38.79 2.57
1308 1604 1.743394 GCGGGTAAGAAACAATCTGGG 59.257 52.381 0.00 0.00 38.79 4.45
1337 1633 3.207044 ACTAACAGAGGGGATCTTGGT 57.793 47.619 0.00 0.00 35.47 3.67
1338 1634 4.962995 TCTAACTAACAGAGGGGATCTTGG 59.037 45.833 0.00 0.00 35.47 3.61
1401 1702 0.036010 CACAGTTGAGCTACAGGGGG 60.036 60.000 0.00 0.00 0.00 5.40
1407 1708 3.386768 TTCACTCCACAGTTGAGCTAC 57.613 47.619 1.42 0.00 32.98 3.58
1408 1709 4.623932 ATTTCACTCCACAGTTGAGCTA 57.376 40.909 1.42 0.00 32.98 3.32
1430 1731 2.221169 CTTGTAGCAAACCACAGCAGA 58.779 47.619 0.00 0.00 0.00 4.26
1435 1736 4.013728 ACAAAGACTTGTAGCAAACCACA 58.986 39.130 0.00 0.00 44.14 4.17
1500 1803 6.235231 AGTACAAAAAGTCTCAAGTCCTCA 57.765 37.500 0.00 0.00 0.00 3.86
1525 1828 7.576861 TCTCATGGTTGACTAACGATGTATA 57.423 36.000 12.60 1.32 46.67 1.47
1526 1829 6.465439 TCTCATGGTTGACTAACGATGTAT 57.535 37.500 12.60 0.00 46.67 2.29
1646 1951 1.213537 CCGAAATGCCTGTTGCTGG 59.786 57.895 0.00 0.00 42.00 4.85
1647 1952 0.109597 GACCGAAATGCCTGTTGCTG 60.110 55.000 0.00 0.00 42.00 4.41
1648 1953 0.537143 TGACCGAAATGCCTGTTGCT 60.537 50.000 0.00 0.00 42.00 3.91
1649 1954 0.313672 TTGACCGAAATGCCTGTTGC 59.686 50.000 0.00 0.00 41.77 4.17
1650 1955 1.335872 GGTTGACCGAAATGCCTGTTG 60.336 52.381 0.00 0.00 0.00 3.33
1651 1956 0.958822 GGTTGACCGAAATGCCTGTT 59.041 50.000 0.00 0.00 0.00 3.16
1652 1957 0.893727 GGGTTGACCGAAATGCCTGT 60.894 55.000 0.00 0.00 36.71 4.00
1653 1958 0.893270 TGGGTTGACCGAAATGCCTG 60.893 55.000 0.00 0.00 44.64 4.85
1654 1959 0.609131 CTGGGTTGACCGAAATGCCT 60.609 55.000 0.00 0.00 44.64 4.75
1655 1960 0.608035 TCTGGGTTGACCGAAATGCC 60.608 55.000 0.00 0.00 44.64 4.40
1656 1961 0.804989 CTCTGGGTTGACCGAAATGC 59.195 55.000 0.00 0.00 44.64 3.56
1657 1962 2.472695 TCTCTGGGTTGACCGAAATG 57.527 50.000 0.00 0.00 44.64 2.32
1658 1963 2.105821 TGTTCTCTGGGTTGACCGAAAT 59.894 45.455 0.00 0.00 44.64 2.17
1659 1964 1.487142 TGTTCTCTGGGTTGACCGAAA 59.513 47.619 0.00 0.00 44.64 3.46
1660 1965 1.124780 TGTTCTCTGGGTTGACCGAA 58.875 50.000 0.00 0.00 44.64 4.30
1661 1966 0.391597 GTGTTCTCTGGGTTGACCGA 59.608 55.000 0.00 0.00 44.64 4.69
1662 1967 0.602905 GGTGTTCTCTGGGTTGACCG 60.603 60.000 0.00 0.00 44.64 4.79
1663 1968 0.765510 AGGTGTTCTCTGGGTTGACC 59.234 55.000 0.00 0.00 40.81 4.02
1664 1969 1.416401 TCAGGTGTTCTCTGGGTTGAC 59.584 52.381 0.00 0.00 33.36 3.18
1687 1998 1.398390 GAACAAGGTGCCGAGCATTAG 59.602 52.381 1.90 0.00 41.91 1.73
1688 1999 1.271108 TGAACAAGGTGCCGAGCATTA 60.271 47.619 1.90 0.00 41.91 1.90
1754 2066 2.638363 AGTTACTCCCCTTCAGGACAAC 59.362 50.000 0.00 0.00 38.24 3.32
1766 2083 7.838884 AGAGTGAAGTAATTACAGTTACTCCC 58.161 38.462 24.93 12.99 42.48 4.30
1782 2099 6.828785 AGGTTTTTGACATACAAGAGTGAAGT 59.171 34.615 0.00 0.00 39.77 3.01
1783 2100 7.264373 AGGTTTTTGACATACAAGAGTGAAG 57.736 36.000 0.00 0.00 39.77 3.02
1785 2102 6.039270 CCAAGGTTTTTGACATACAAGAGTGA 59.961 38.462 0.00 0.00 39.77 3.41
1787 2104 5.891551 ACCAAGGTTTTTGACATACAAGAGT 59.108 36.000 0.00 0.00 39.77 3.24
1791 2108 6.783708 AAGACCAAGGTTTTTGACATACAA 57.216 33.333 0.00 0.00 36.65 2.41
1805 2122 4.286297 TGTCTGGTGAATAAGACCAAGG 57.714 45.455 0.00 0.00 43.02 3.61
1807 2124 6.126409 AGTTTTGTCTGGTGAATAAGACCAA 58.874 36.000 0.00 0.00 43.02 3.67
1809 2126 7.739498 TTAGTTTTGTCTGGTGAATAAGACC 57.261 36.000 0.70 0.00 41.79 3.85
1816 2136 9.485206 GAGTAGTAATTAGTTTTGTCTGGTGAA 57.515 33.333 0.00 0.00 0.00 3.18
1833 2153 7.454225 GGCAGGGATAAAAGATGAGTAGTAAT 58.546 38.462 0.00 0.00 0.00 1.89
1849 2171 2.683768 GAGAAGAGAAGGGCAGGGATA 58.316 52.381 0.00 0.00 0.00 2.59
1856 2178 0.539518 GGACTGGAGAAGAGAAGGGC 59.460 60.000 0.00 0.00 0.00 5.19
1857 2179 0.820871 CGGACTGGAGAAGAGAAGGG 59.179 60.000 0.00 0.00 0.00 3.95
1874 2196 5.354234 ACAGCTATGAAAAGGATACAAACGG 59.646 40.000 0.00 0.00 41.41 4.44
1875 2197 6.422776 ACAGCTATGAAAAGGATACAAACG 57.577 37.500 0.00 0.00 41.41 3.60
1877 2199 8.635765 AGAAACAGCTATGAAAAGGATACAAA 57.364 30.769 0.00 0.00 41.41 2.83
1888 2210 9.120538 AGTGTAAAAAGAAGAAACAGCTATGAA 57.879 29.630 0.00 0.00 0.00 2.57
1889 2211 8.677148 AGTGTAAAAAGAAGAAACAGCTATGA 57.323 30.769 0.00 0.00 0.00 2.15
1892 2214 7.700656 GCAAAGTGTAAAAAGAAGAAACAGCTA 59.299 33.333 0.00 0.00 0.00 3.32
1893 2215 6.531594 GCAAAGTGTAAAAAGAAGAAACAGCT 59.468 34.615 0.00 0.00 0.00 4.24
1895 2217 7.810766 TGCAAAGTGTAAAAAGAAGAAACAG 57.189 32.000 0.00 0.00 0.00 3.16
1898 2220 8.686334 AGAGATGCAAAGTGTAAAAAGAAGAAA 58.314 29.630 0.00 0.00 0.00 2.52
1905 2227 4.340666 TGCCAGAGATGCAAAGTGTAAAAA 59.659 37.500 0.00 0.00 35.40 1.94
1912 2234 1.985473 TTGTGCCAGAGATGCAAAGT 58.015 45.000 0.00 0.00 41.06 2.66
1913 2235 2.352421 CCTTTGTGCCAGAGATGCAAAG 60.352 50.000 0.00 0.00 43.06 2.77
1919 2241 0.036010 CGTCCCTTTGTGCCAGAGAT 60.036 55.000 0.00 0.00 0.00 2.75
1926 2248 1.444119 TTGACTGCGTCCCTTTGTGC 61.444 55.000 6.30 0.00 0.00 4.57
1927 2249 1.021202 TTTGACTGCGTCCCTTTGTG 58.979 50.000 6.30 0.00 0.00 3.33
1978 2301 4.938832 CCATGTTAATCCTTGTAACGGTCA 59.061 41.667 0.00 0.00 34.75 4.02
2002 2374 5.619220 AGAGACAAGAGTTCTGAGCAAAAT 58.381 37.500 0.00 0.00 0.00 1.82
2030 2402 2.710096 ATAATCCGTGGGTGGTTCAG 57.290 50.000 0.00 0.00 0.00 3.02
2038 2410 5.762045 CTTGAGCAAAATATAATCCGTGGG 58.238 41.667 0.00 0.00 0.00 4.61
2039 2411 5.009010 AGCTTGAGCAAAATATAATCCGTGG 59.991 40.000 5.70 0.00 45.16 4.94
2041 2413 5.590259 ACAGCTTGAGCAAAATATAATCCGT 59.410 36.000 5.70 0.00 45.16 4.69
2065 2437 7.876068 CCCGAATAATATGAGGTAAACAAGCTA 59.124 37.037 0.00 0.00 35.60 3.32
2108 2482 4.395231 GTCCCAACATAGCTTTGTTAGACC 59.605 45.833 25.59 15.84 37.73 3.85
2109 2483 4.395231 GGTCCCAACATAGCTTTGTTAGAC 59.605 45.833 26.76 26.76 37.73 2.59
2132 2507 5.593095 GGTAGGTTTTTAGCTAGGATTTGGG 59.407 44.000 0.00 0.00 0.00 4.12
2148 2776 6.903340 AAATATGTACTCCCAGGTAGGTTT 57.097 37.500 0.00 0.00 34.66 3.27
2154 2782 6.886178 AACTGTAAATATGTACTCCCAGGT 57.114 37.500 4.68 0.00 0.00 4.00
2155 2783 8.575649 AAAAACTGTAAATATGTACTCCCAGG 57.424 34.615 4.68 0.00 0.00 4.45
2165 2793 8.994429 TGGCCACAATAAAAACTGTAAATATG 57.006 30.769 0.00 0.00 0.00 1.78
2208 2838 8.893727 GTGCACATAAGGAATAACTAATGAAGT 58.106 33.333 13.17 0.00 41.49 3.01
2209 2839 9.113838 AGTGCACATAAGGAATAACTAATGAAG 57.886 33.333 21.04 0.00 0.00 3.02
2210 2840 8.892723 CAGTGCACATAAGGAATAACTAATGAA 58.107 33.333 21.04 0.00 0.00 2.57
2211 2841 7.498900 CCAGTGCACATAAGGAATAACTAATGA 59.501 37.037 21.04 0.00 0.00 2.57
2212 2842 7.642669 CCAGTGCACATAAGGAATAACTAATG 58.357 38.462 21.04 1.62 0.00 1.90
2213 2843 6.263168 GCCAGTGCACATAAGGAATAACTAAT 59.737 38.462 21.04 0.00 37.47 1.73
2214 2844 5.588648 GCCAGTGCACATAAGGAATAACTAA 59.411 40.000 21.04 0.00 37.47 2.24
2216 2846 3.947834 GCCAGTGCACATAAGGAATAACT 59.052 43.478 21.04 0.00 37.47 2.24
2229 2860 0.249031 GGTCAAACAAGCCAGTGCAC 60.249 55.000 9.40 9.40 41.13 4.57
2244 2875 1.789523 GGCCTACCAGACATAGGTCA 58.210 55.000 10.58 0.00 46.80 4.02
2265 2896 2.270352 TTGAACAAACGGCCAGATCT 57.730 45.000 2.24 0.00 0.00 2.75
2323 2996 4.358851 TCATTTTTCGTTGTTCTTGCAGG 58.641 39.130 0.00 0.00 0.00 4.85
2337 3010 8.007716 CAGAAAAAGTGCATGTCATCATTTTTC 58.992 33.333 22.43 22.43 40.30 2.29
2338 3011 7.711772 TCAGAAAAAGTGCATGTCATCATTTTT 59.288 29.630 15.01 15.01 33.92 1.94
2339 3012 7.211573 TCAGAAAAAGTGCATGTCATCATTTT 58.788 30.769 0.00 3.21 31.15 1.82
2340 3013 6.751157 TCAGAAAAAGTGCATGTCATCATTT 58.249 32.000 0.00 0.00 31.15 2.32
2341 3014 6.335471 TCAGAAAAAGTGCATGTCATCATT 57.665 33.333 0.00 0.00 31.15 2.57
2342 3015 5.970317 TCAGAAAAAGTGCATGTCATCAT 57.030 34.783 0.00 0.00 34.21 2.45
2343 3016 5.771153 TTCAGAAAAAGTGCATGTCATCA 57.229 34.783 0.00 0.00 0.00 3.07
2344 3017 7.467557 TTTTTCAGAAAAAGTGCATGTCATC 57.532 32.000 15.81 0.00 35.84 2.92
2345 3018 7.711772 TCATTTTTCAGAAAAAGTGCATGTCAT 59.288 29.630 22.44 3.30 42.97 3.06
2346 3019 7.040494 TCATTTTTCAGAAAAAGTGCATGTCA 58.960 30.769 22.44 0.44 42.97 3.58
2347 3020 7.467557 TCATTTTTCAGAAAAAGTGCATGTC 57.532 32.000 22.44 0.00 42.97 3.06
2348 3021 7.711772 TCATCATTTTTCAGAAAAAGTGCATGT 59.288 29.630 22.44 5.18 42.97 3.21
2349 3022 8.078959 TCATCATTTTTCAGAAAAAGTGCATG 57.921 30.769 22.44 19.05 42.97 4.06
2354 3027 9.111613 TGCATTTCATCATTTTTCAGAAAAAGT 57.888 25.926 22.44 11.04 42.97 2.66
2355 3028 9.377383 GTGCATTTCATCATTTTTCAGAAAAAG 57.623 29.630 22.44 15.48 42.97 2.27
2356 3029 9.111613 AGTGCATTTCATCATTTTTCAGAAAAA 57.888 25.926 20.82 20.82 43.76 1.94
2367 3040 7.218614 TCCAAGAAAAAGTGCATTTCATCATT 58.781 30.769 12.50 0.00 38.86 2.57
2370 3043 6.449698 TCTCCAAGAAAAAGTGCATTTCATC 58.550 36.000 12.50 6.47 38.86 2.92
2371 3044 6.409524 TCTCCAAGAAAAAGTGCATTTCAT 57.590 33.333 12.50 0.00 38.86 2.57
2402 3156 1.040646 TCGTCAAGGAACTGCTCAGT 58.959 50.000 0.00 0.00 44.94 3.41
2403 3157 1.795286 GTTCGTCAAGGAACTGCTCAG 59.205 52.381 8.03 0.00 42.33 3.35
2419 3174 4.092675 GCTTCATGAGGAAAAGAGAGTTCG 59.907 45.833 9.36 0.00 34.44 3.95
2449 3260 9.052365 AGGAAAAGAAAGGATAATCTAGTGAGT 57.948 33.333 0.00 0.00 0.00 3.41
2487 3435 5.133221 AGCACTCCTGTAGACAACAAAAAT 58.867 37.500 0.00 0.00 37.74 1.82
2527 3475 1.460689 CGGATTAGGCCCCACCCTA 60.461 63.158 0.00 0.00 40.58 3.53
2595 3548 2.364647 TGCATGACCAGCAAATTGTCAA 59.635 40.909 0.00 0.00 41.85 3.18
2623 3576 8.970691 TGTTTAAGAATTGAGATTTTGCTAGC 57.029 30.769 8.10 8.10 0.00 3.42
2696 3649 5.584253 ATGGATACTGTAGTCACACTGTC 57.416 43.478 0.00 0.00 33.32 3.51
2728 3682 7.575414 ACCACAATTAAACTGTGTACATCAA 57.425 32.000 15.90 0.00 42.18 2.57
2729 3683 7.934665 ACTACCACAATTAAACTGTGTACATCA 59.065 33.333 15.90 0.00 42.18 3.07
2767 3727 8.208903 ACATTACTACTACCACAACTGAACTTT 58.791 33.333 0.00 0.00 0.00 2.66
2800 3760 4.035091 TGTGACAATGAGCACTTGTGTTAC 59.965 41.667 10.90 2.95 36.98 2.50
2802 3762 3.016031 TGTGACAATGAGCACTTGTGTT 58.984 40.909 10.90 0.00 36.98 3.32
2805 3765 3.501062 CAGATGTGACAATGAGCACTTGT 59.499 43.478 10.90 0.00 39.46 3.16
2813 3773 4.214758 CAGAAGCAACAGATGTGACAATGA 59.785 41.667 7.98 0.00 0.00 2.57
2827 3787 4.093408 TGACGCTCAATTATCAGAAGCAAC 59.907 41.667 0.00 0.00 0.00 4.17
2835 3795 7.841915 TTAGAAATGTGACGCTCAATTATCA 57.158 32.000 0.00 0.00 0.00 2.15
2836 3796 9.722056 AAATTAGAAATGTGACGCTCAATTATC 57.278 29.630 0.00 0.00 0.00 1.75
3012 3986 2.685897 GTGTGGGCTTGAAACAGTAACA 59.314 45.455 0.00 0.00 0.00 2.41
3013 3987 2.949644 AGTGTGGGCTTGAAACAGTAAC 59.050 45.455 0.00 0.00 0.00 2.50
3015 3989 2.948979 CAAGTGTGGGCTTGAAACAGTA 59.051 45.455 0.00 0.00 46.34 2.74
3025 3999 2.584835 TAATCTTGCAAGTGTGGGCT 57.415 45.000 25.19 6.61 0.00 5.19
3063 4169 4.880759 TGCCGAAACATCAAAATTGTGAT 58.119 34.783 5.20 5.20 38.84 3.06
3074 4180 4.545610 TGAAAACTTGATGCCGAAACATC 58.454 39.130 6.21 6.21 45.51 3.06
3097 4203 5.241285 TCACAAAAATCATGAGCTGCAGTAA 59.759 36.000 16.64 1.25 0.00 2.24
3102 4208 7.585286 TTTTATCACAAAAATCATGAGCTGC 57.415 32.000 0.09 0.00 0.00 5.25
3128 4235 5.663106 AGTCTGGAACATAGATTAAGGCTGA 59.337 40.000 0.00 0.00 38.20 4.26
3146 4256 3.904136 AATCGAAAAGCAACAGTCTGG 57.096 42.857 4.53 0.00 0.00 3.86
3161 4272 9.661563 AAACAATATAGAAGTTGGTGTAATCGA 57.338 29.630 0.00 0.00 0.00 3.59
3162 4273 9.916397 GAAACAATATAGAAGTTGGTGTAATCG 57.084 33.333 0.00 0.00 0.00 3.34
3344 4469 5.627172 TCAAGTGTTGCGTAATAATTGAGC 58.373 37.500 18.50 0.00 37.18 4.26
3378 4669 9.802039 AATAAGAAAAACAGAACATAGGTGGTA 57.198 29.630 0.00 0.00 0.00 3.25
3379 4670 8.706322 AATAAGAAAAACAGAACATAGGTGGT 57.294 30.769 0.00 0.00 0.00 4.16
3383 4674 9.294030 GCATGAATAAGAAAAACAGAACATAGG 57.706 33.333 0.00 0.00 0.00 2.57
3491 5703 2.902486 ACCAAGCTGATCAGAGAACTCA 59.098 45.455 27.04 0.00 0.00 3.41
3492 5704 3.608316 ACCAAGCTGATCAGAGAACTC 57.392 47.619 27.04 7.27 0.00 3.01
3524 5736 2.613474 CCGAGTTCCCGAACAATGGTTA 60.613 50.000 10.07 0.00 43.47 2.85
3525 5737 1.519408 CGAGTTCCCGAACAATGGTT 58.481 50.000 10.07 0.00 43.47 3.67
3526 5738 0.321298 CCGAGTTCCCGAACAATGGT 60.321 55.000 10.07 0.00 43.47 3.55
4110 6322 1.919816 CCAGCCCAGGCCCATTTTT 60.920 57.895 4.70 0.00 43.17 1.94
4111 6323 2.284847 CCAGCCCAGGCCCATTTT 60.285 61.111 4.70 0.00 43.17 1.82
4183 6395 6.599244 TGTAGATGAATTCACCATTCTTCACC 59.401 38.462 11.07 0.00 43.77 4.02
4186 6398 8.273780 ACTTGTAGATGAATTCACCATTCTTC 57.726 34.615 11.07 8.19 42.56 2.87
4190 6402 6.878923 TCGAACTTGTAGATGAATTCACCATT 59.121 34.615 11.07 0.00 0.00 3.16
4192 6404 5.637810 GTCGAACTTGTAGATGAATTCACCA 59.362 40.000 11.07 2.68 0.00 4.17
4194 6406 5.063564 GGGTCGAACTTGTAGATGAATTCAC 59.936 44.000 11.07 5.15 0.00 3.18
4195 6407 5.046591 AGGGTCGAACTTGTAGATGAATTCA 60.047 40.000 11.26 11.26 0.00 2.57
4196 6408 5.420409 AGGGTCGAACTTGTAGATGAATTC 58.580 41.667 0.00 0.00 0.00 2.17
4197 6409 5.422214 AGGGTCGAACTTGTAGATGAATT 57.578 39.130 0.00 0.00 0.00 2.17
4198 6410 5.421056 TGTAGGGTCGAACTTGTAGATGAAT 59.579 40.000 0.00 0.00 0.00 2.57
4199 6411 4.768448 TGTAGGGTCGAACTTGTAGATGAA 59.232 41.667 0.00 0.00 0.00 2.57
4201 6413 4.713824 TGTAGGGTCGAACTTGTAGATG 57.286 45.455 0.00 0.00 0.00 2.90
4202 6414 5.479375 TCTTTGTAGGGTCGAACTTGTAGAT 59.521 40.000 0.00 0.00 0.00 1.98
4203 6415 4.828939 TCTTTGTAGGGTCGAACTTGTAGA 59.171 41.667 0.00 0.00 0.00 2.59
4204 6416 5.130292 TCTTTGTAGGGTCGAACTTGTAG 57.870 43.478 0.00 0.00 0.00 2.74
4205 6417 5.534207 TTCTTTGTAGGGTCGAACTTGTA 57.466 39.130 0.00 0.00 0.00 2.41
4206 6418 4.411256 TTCTTTGTAGGGTCGAACTTGT 57.589 40.909 0.00 0.00 0.00 3.16
4207 6419 5.744666 TTTTCTTTGTAGGGTCGAACTTG 57.255 39.130 0.00 0.00 0.00 3.16
4208 6420 5.240844 CCATTTTCTTTGTAGGGTCGAACTT 59.759 40.000 0.00 0.00 0.00 2.66
4210 6422 4.517832 ACCATTTTCTTTGTAGGGTCGAAC 59.482 41.667 0.00 0.00 0.00 3.95
4211 6423 4.721132 ACCATTTTCTTTGTAGGGTCGAA 58.279 39.130 0.00 0.00 0.00 3.71
4213 6425 5.065988 CCATACCATTTTCTTTGTAGGGTCG 59.934 44.000 0.00 0.00 32.11 4.79
4214 6426 5.949952 ACCATACCATTTTCTTTGTAGGGTC 59.050 40.000 0.00 0.00 42.78 4.46
4218 6430 7.687941 ACAGACCATACCATTTTCTTTGTAG 57.312 36.000 0.00 0.00 0.00 2.74
4219 6431 7.827236 CCTACAGACCATACCATTTTCTTTGTA 59.173 37.037 0.00 0.00 0.00 2.41
4220 6432 6.659242 CCTACAGACCATACCATTTTCTTTGT 59.341 38.462 0.00 0.00 0.00 2.83
4222 6434 6.187682 CCCTACAGACCATACCATTTTCTTT 58.812 40.000 0.00 0.00 0.00 2.52
4224 6436 4.166144 CCCCTACAGACCATACCATTTTCT 59.834 45.833 0.00 0.00 0.00 2.52
4225 6437 4.461198 CCCCTACAGACCATACCATTTTC 58.539 47.826 0.00 0.00 0.00 2.29
4226 6438 3.372675 GCCCCTACAGACCATACCATTTT 60.373 47.826 0.00 0.00 0.00 1.82
4230 6442 0.341961 AGCCCCTACAGACCATACCA 59.658 55.000 0.00 0.00 0.00 3.25
4231 6443 0.759346 CAGCCCCTACAGACCATACC 59.241 60.000 0.00 0.00 0.00 2.73
4233 6445 1.054406 GCCAGCCCCTACAGACCATA 61.054 60.000 0.00 0.00 0.00 2.74
4234 6446 2.378634 GCCAGCCCCTACAGACCAT 61.379 63.158 0.00 0.00 0.00 3.55
4235 6447 3.009115 GCCAGCCCCTACAGACCA 61.009 66.667 0.00 0.00 0.00 4.02
4236 6448 3.798511 GGCCAGCCCCTACAGACC 61.799 72.222 0.00 0.00 0.00 3.85
4238 6450 2.688666 CTGGCCAGCCCCTACAGA 60.689 66.667 22.33 0.00 34.56 3.41
4239 6451 3.801997 CCTGGCCAGCCCCTACAG 61.802 72.222 28.39 7.14 34.56 2.74
4240 6452 3.261315 TACCTGGCCAGCCCCTACA 62.261 63.158 28.39 3.21 34.56 2.74
4241 6453 2.366435 TACCTGGCCAGCCCCTAC 60.366 66.667 28.39 0.00 34.56 3.18
4242 6454 2.366435 GTACCTGGCCAGCCCCTA 60.366 66.667 28.39 10.15 34.56 3.53
4243 6455 4.675303 TGTACCTGGCCAGCCCCT 62.675 66.667 28.39 11.17 34.56 4.79
4244 6456 4.115199 CTGTACCTGGCCAGCCCC 62.115 72.222 28.39 16.15 34.56 5.80
4245 6457 4.803908 GCTGTACCTGGCCAGCCC 62.804 72.222 28.39 16.51 46.55 5.19
4250 6462 3.462199 GATCCGGCTGTACCTGGCC 62.462 68.421 0.00 0.00 44.43 5.36
4251 6463 2.109181 GATCCGGCTGTACCTGGC 59.891 66.667 0.00 0.00 35.61 4.85
4252 6464 2.808206 GGGATCCGGCTGTACCTGG 61.808 68.421 5.45 0.00 35.61 4.45
4255 6467 2.446036 AGGGGATCCGGCTGTACC 60.446 66.667 5.45 0.00 38.33 3.34
4257 6469 2.445845 CCAGGGGATCCGGCTGTA 60.446 66.667 5.45 0.00 38.33 2.74
4259 6471 3.866582 GTCCAGGGGATCCGGCTG 61.867 72.222 5.45 0.00 38.33 4.85
4288 6540 2.808206 GGGGATCCGGCTGTACCTG 61.808 68.421 5.45 0.00 35.61 4.00
4289 6541 2.446036 GGGGATCCGGCTGTACCT 60.446 66.667 5.45 0.00 35.61 3.08
4290 6542 2.446036 AGGGGATCCGGCTGTACC 60.446 66.667 5.45 0.00 38.33 3.34
4291 6543 2.808206 CCAGGGGATCCGGCTGTAC 61.808 68.421 5.45 0.00 38.33 2.90
4293 6545 4.414956 TCCAGGGGATCCGGCTGT 62.415 66.667 5.45 0.00 38.33 4.40
4740 10031 9.147732 GGGATGATTTATTTTGGTCCTCTTAAT 57.852 33.333 0.00 0.00 0.00 1.40
4749 10040 5.588845 TGGACTGGGATGATTTATTTTGGT 58.411 37.500 0.00 0.00 0.00 3.67
4889 10180 2.440147 CCCCACCTGGACATGCAA 59.560 61.111 0.00 0.00 37.39 4.08
5069 10362 9.513727 GATTTCCTTCTTAATTCTTGCTTCATC 57.486 33.333 0.00 0.00 0.00 2.92
5072 10365 7.123397 AGGGATTTCCTTCTTAATTCTTGCTTC 59.877 37.037 0.00 0.00 45.47 3.86
5174 10467 4.385825 TGAGTATTTGTGGTCAGTGAACC 58.614 43.478 5.53 5.31 39.94 3.62
5175 10468 6.371809 TTTGAGTATTTGTGGTCAGTGAAC 57.628 37.500 0.00 0.00 0.00 3.18
5176 10469 7.936847 ACTATTTGAGTATTTGTGGTCAGTGAA 59.063 33.333 0.00 0.00 36.27 3.18
5177 10470 7.450074 ACTATTTGAGTATTTGTGGTCAGTGA 58.550 34.615 0.00 0.00 36.27 3.41
5178 10471 7.672983 ACTATTTGAGTATTTGTGGTCAGTG 57.327 36.000 0.00 0.00 36.27 3.66
5252 10545 3.088532 ACTGAAGCGGCATCCATAAAAA 58.911 40.909 1.45 0.00 0.00 1.94
5253 10546 2.722094 ACTGAAGCGGCATCCATAAAA 58.278 42.857 1.45 0.00 0.00 1.52
5455 10748 4.757149 GGTGGGCATCAGATTAGTTATGTC 59.243 45.833 0.00 0.00 0.00 3.06
5457 10750 4.717877 TGGTGGGCATCAGATTAGTTATG 58.282 43.478 0.00 0.00 0.00 1.90
5551 10844 9.692325 ACAAGATAAGCCATAAAAGAAGAGAAT 57.308 29.630 0.00 0.00 0.00 2.40
5855 11153 9.166173 TCTCCAATCTGTAAACATCAATACAAG 57.834 33.333 0.00 0.00 32.05 3.16
5858 11156 9.553064 AGATCTCCAATCTGTAAACATCAATAC 57.447 33.333 0.00 0.00 0.00 1.89
6176 11484 7.847744 AGGCCCCCTATCTACAATGATATATA 58.152 38.462 0.00 0.00 28.47 0.86
6261 11587 4.526970 AGTTATTGTGATGGATGTGGGAC 58.473 43.478 0.00 0.00 0.00 4.46
6307 11633 9.552114 TTAACAACGTCTGAAAAACGAAAATAA 57.448 25.926 2.33 0.00 42.62 1.40
6462 11788 8.129211 ACGATTTTTGTCCTCAAAGAAAGTAAG 58.871 33.333 0.00 0.00 43.17 2.34
6506 11860 6.521151 GGTGAACATTTCATCTGAAAGGAT 57.479 37.500 20.40 11.11 45.46 3.24
6871 12255 7.939039 AGAACAATAAGACCAGATTGTGAAGAA 59.061 33.333 1.29 0.00 43.73 2.52
6909 12298 5.010922 TCACCATTCTTCACCATTTCCTTTG 59.989 40.000 0.00 0.00 0.00 2.77
7027 12417 5.287674 TGTGAAAAATGAAGCAATTGGGA 57.712 34.783 7.72 0.00 0.00 4.37
7192 12921 2.167398 CTTCGTCGCCCTCTTCCCAA 62.167 60.000 0.00 0.00 0.00 4.12
7311 13040 1.197036 GTAAAAGTTGAGGTCGCAGGC 59.803 52.381 0.00 0.00 0.00 4.85
7326 13055 7.437862 GTGAGTTGCATGGAATTCAAAGTAAAA 59.562 33.333 23.29 0.00 0.00 1.52
7349 13078 0.472044 TTAGGCACAAGCACTGGTGA 59.528 50.000 9.41 0.00 44.61 4.02
7444 13175 0.179124 CGAGGGAAGTCTACAGCAGC 60.179 60.000 0.00 0.00 0.00 5.25
7543 13278 6.867662 ACAGTGGTGCTTTATGATATAAGC 57.132 37.500 10.42 10.42 45.36 3.09
7571 13308 4.039124 AGGTGCAAGTTTTATCAAGGGTTG 59.961 41.667 0.00 0.00 0.00 3.77
7577 13314 6.058833 TCACTGTAGGTGCAAGTTTTATCAA 58.941 36.000 0.00 0.00 44.98 2.57
7592 13333 4.026744 TCCAGGAAGAATCTCACTGTAGG 58.973 47.826 11.46 0.23 0.00 3.18
7600 13341 5.417580 ACGATATAGCTCCAGGAAGAATCTC 59.582 44.000 0.00 0.00 0.00 2.75
7622 13363 4.739046 AAAAGATCAGAGAAAGCACACG 57.261 40.909 0.00 0.00 0.00 4.49
7623 13364 6.648725 AGAGTAAAAGATCAGAGAAAGCACAC 59.351 38.462 0.00 0.00 0.00 3.82
7626 13367 6.648310 CACAGAGTAAAAGATCAGAGAAAGCA 59.352 38.462 0.00 0.00 0.00 3.91
7641 13439 5.586243 GCTTCCTGCATTATCACAGAGTAAA 59.414 40.000 0.00 0.00 42.31 2.01
7661 13462 0.109412 AGTACACGTACCGCTGCTTC 60.109 55.000 3.73 0.00 36.75 3.86
7716 13535 2.474526 CGTGCAGGTCGAATTTGATGAC 60.475 50.000 0.00 0.00 0.00 3.06
7856 13675 1.134670 CCGTCATCTTCTTCCCCAGAC 60.135 57.143 0.00 0.00 0.00 3.51
7932 13751 8.965819 CAGCTTAGAGTGATGGTCTATGTATAT 58.034 37.037 0.00 0.00 0.00 0.86
7941 13760 2.548875 CAGCAGCTTAGAGTGATGGTC 58.451 52.381 0.00 0.00 0.00 4.02
7943 13762 1.297664 GCAGCAGCTTAGAGTGATGG 58.702 55.000 0.00 0.00 37.91 3.51
7989 13808 6.209192 TGCATCCACAACACAATTCTTTATCT 59.791 34.615 0.00 0.00 0.00 1.98
7990 13809 6.389091 TGCATCCACAACACAATTCTTTATC 58.611 36.000 0.00 0.00 0.00 1.75
7991 13810 6.343716 TGCATCCACAACACAATTCTTTAT 57.656 33.333 0.00 0.00 0.00 1.40
7996 13815 2.557924 TCCTGCATCCACAACACAATTC 59.442 45.455 0.00 0.00 0.00 2.17
8019 13859 5.330295 GCATCAATCACATTCACTTCAGAC 58.670 41.667 0.00 0.00 0.00 3.51
8181 14025 9.765795 CCAAAATACTACTCTCTTTACCATAGG 57.234 37.037 0.00 0.00 0.00 2.57
8185 14029 7.011499 TGCCAAAATACTACTCTCTTTACCA 57.989 36.000 0.00 0.00 0.00 3.25
8187 14031 7.963465 GCTTTGCCAAAATACTACTCTCTTTAC 59.037 37.037 0.00 0.00 0.00 2.01
8229 14155 9.409312 CGATGCAAATGCCAAATAAATAGATAA 57.591 29.630 2.46 0.00 41.18 1.75
8280 14206 4.082845 TCCTGTCAAACAAAACCACAAGA 58.917 39.130 0.00 0.00 0.00 3.02
8281 14207 4.448537 TCCTGTCAAACAAAACCACAAG 57.551 40.909 0.00 0.00 0.00 3.16
8292 14218 3.942748 TGTACCAGTTGTTCCTGTCAAAC 59.057 43.478 0.00 0.00 0.00 2.93
8344 14271 7.251994 ACATGAAGAGTAGAGTCGTTTATCAC 58.748 38.462 0.00 0.00 0.00 3.06
8345 14272 7.392494 ACATGAAGAGTAGAGTCGTTTATCA 57.608 36.000 0.00 0.00 0.00 2.15
8346 14273 7.755822 ACAACATGAAGAGTAGAGTCGTTTATC 59.244 37.037 0.00 0.00 0.00 1.75
8348 14275 6.978338 ACAACATGAAGAGTAGAGTCGTTTA 58.022 36.000 0.00 0.00 0.00 2.01
8352 14279 5.795939 GTGTACAACATGAAGAGTAGAGTCG 59.204 44.000 0.00 0.00 0.00 4.18
8354 14281 5.335740 CCGTGTACAACATGAAGAGTAGAGT 60.336 44.000 0.00 0.00 37.29 3.24
8355 14282 5.096169 CCGTGTACAACATGAAGAGTAGAG 58.904 45.833 0.00 0.00 37.29 2.43
8357 14284 4.621460 CACCGTGTACAACATGAAGAGTAG 59.379 45.833 0.00 0.00 37.29 2.57
8358 14285 4.552355 CACCGTGTACAACATGAAGAGTA 58.448 43.478 0.00 0.00 37.29 2.59
8364 14454 1.069358 TCTGCACCGTGTACAACATGA 59.931 47.619 0.00 0.00 37.29 3.07
8371 14461 3.998341 TCCTTTATTTCTGCACCGTGTAC 59.002 43.478 0.00 0.00 0.00 2.90
8376 14466 5.469479 ACATTTTCCTTTATTTCTGCACCG 58.531 37.500 0.00 0.00 0.00 4.94
8378 14468 9.556030 GTACTACATTTTCCTTTATTTCTGCAC 57.444 33.333 0.00 0.00 0.00 4.57
8427 14519 5.886992 AGGGCAATGTTACTAATTTAACGC 58.113 37.500 0.00 0.00 35.09 4.84
8428 14520 7.079182 TGAGGGCAATGTTACTAATTTAACG 57.921 36.000 0.00 0.00 35.09 3.18
8429 14521 9.869757 ATTTGAGGGCAATGTTACTAATTTAAC 57.130 29.630 0.00 0.00 33.25 2.01
8435 14527 9.030452 ACAAATATTTGAGGGCAATGTTACTAA 57.970 29.630 30.18 0.00 40.55 2.24
8436 14528 8.588290 ACAAATATTTGAGGGCAATGTTACTA 57.412 30.769 30.18 0.00 40.55 1.82
8437 14529 7.480760 ACAAATATTTGAGGGCAATGTTACT 57.519 32.000 30.18 4.10 40.55 2.24
8438 14530 8.247562 TGTACAAATATTTGAGGGCAATGTTAC 58.752 33.333 30.18 18.46 40.55 2.50
8439 14531 8.354711 TGTACAAATATTTGAGGGCAATGTTA 57.645 30.769 30.18 8.95 40.55 2.41
8440 14532 7.039082 ACTGTACAAATATTTGAGGGCAATGTT 60.039 33.333 30.18 9.84 40.55 2.71
8441 14533 6.437162 ACTGTACAAATATTTGAGGGCAATGT 59.563 34.615 30.18 15.44 40.55 2.71
8442 14534 6.753279 CACTGTACAAATATTTGAGGGCAATG 59.247 38.462 30.18 18.48 40.55 2.82
8443 14535 6.663093 TCACTGTACAAATATTTGAGGGCAAT 59.337 34.615 30.18 11.77 40.55 3.56
8444 14536 6.007076 TCACTGTACAAATATTTGAGGGCAA 58.993 36.000 30.18 10.34 40.55 4.52
8445 14537 5.565509 TCACTGTACAAATATTTGAGGGCA 58.434 37.500 30.18 20.28 40.55 5.36
8446 14538 5.648092 ACTCACTGTACAAATATTTGAGGGC 59.352 40.000 30.18 17.58 40.55 5.19
8447 14539 6.878923 TCACTCACTGTACAAATATTTGAGGG 59.121 38.462 30.18 19.64 40.55 4.30
8448 14540 7.905604 TCACTCACTGTACAAATATTTGAGG 57.094 36.000 30.18 18.71 40.55 3.86
8469 14561 6.034577 TCTCGTTCATGTGTCGATTAATTCAC 59.965 38.462 9.15 10.39 33.26 3.18
8475 14567 4.412207 CAGTCTCGTTCATGTGTCGATTA 58.588 43.478 9.15 1.40 33.26 1.75
8478 14570 1.666023 GCAGTCTCGTTCATGTGTCGA 60.666 52.381 0.00 1.29 0.00 4.20
8479 14571 0.710567 GCAGTCTCGTTCATGTGTCG 59.289 55.000 0.00 0.00 0.00 4.35
8486 14578 5.700832 AGTATGAAATTTGCAGTCTCGTTCA 59.299 36.000 0.00 0.00 0.00 3.18
8529 14622 9.965902 ATCTCCCTATATGAAATCCATGTTTAC 57.034 33.333 0.00 0.00 36.71 2.01
8548 14641 9.866655 TGCAATAAAATTTACTATCATCTCCCT 57.133 29.630 0.00 0.00 0.00 4.20
8584 16274 8.134202 TCCAACGATGTTCATGGAGTATATAT 57.866 34.615 0.00 0.00 37.05 0.86
8585 16275 7.533289 TCCAACGATGTTCATGGAGTATATA 57.467 36.000 0.00 0.00 37.05 0.86
8622 16313 4.274950 GTCTAGCTCCTCTAGTAGCAAGTG 59.725 50.000 14.07 4.60 44.10 3.16
8627 16325 2.803956 CGTGTCTAGCTCCTCTAGTAGC 59.196 54.545 0.00 6.43 44.10 3.58
8667 16365 9.869844 CTCACGCCTTTATCTCTTATTAAAATG 57.130 33.333 0.00 0.00 0.00 2.32
8670 16368 7.438459 GCTCTCACGCCTTTATCTCTTATTAAA 59.562 37.037 0.00 0.00 0.00 1.52
8671 16369 6.924060 GCTCTCACGCCTTTATCTCTTATTAA 59.076 38.462 0.00 0.00 0.00 1.40
8673 16371 5.293560 GCTCTCACGCCTTTATCTCTTATT 58.706 41.667 0.00 0.00 0.00 1.40
8852 16550 3.730761 GCTGCTGTCACGCTTGGG 61.731 66.667 0.00 0.00 0.00 4.12
8953 16651 3.905678 CTCCTACTCGCCAGCCCG 61.906 72.222 0.00 0.00 0.00 6.13
8960 16658 2.886124 GCCGTTGCTCCTACTCGC 60.886 66.667 0.00 0.00 33.53 5.03
8961 16659 2.579787 CGCCGTTGCTCCTACTCG 60.580 66.667 0.00 0.00 34.43 4.18
9131 16829 3.706373 ACAGAATCCAGCGGCGGT 61.706 61.111 5.44 5.44 0.00 5.68
9261 16959 1.598130 CCACTATGGCGGCCTAAGC 60.598 63.158 21.46 0.00 38.76 3.09
9297 16995 1.600636 CAATGTGGCCACGTGGAGT 60.601 57.895 38.30 13.82 37.39 3.85
9298 16996 1.300971 CTCAATGTGGCCACGTGGAG 61.301 60.000 36.98 36.98 40.76 3.86
9299 16997 1.302431 CTCAATGTGGCCACGTGGA 60.302 57.895 38.30 29.61 37.39 4.02
9300 16998 2.981560 GCTCAATGTGGCCACGTGG 61.982 63.158 30.95 30.66 38.53 4.94


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

AutoCloner maintained by Alex Coulton.