Multiple sequence alignment - TraesCS7D01G152800

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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 TraesCS7D01G152800 chr7D 100.000 7339 0 0 1 7339 101401935 101394597 0.000000e+00 13553.0
1 TraesCS7D01G152800 chr7D 93.864 440 23 2 182 618 214358636 214359074 0.000000e+00 660.0
2 TraesCS7D01G152800 chr7D 87.023 393 41 5 6232 6617 101284670 101284281 1.130000e-117 435.0
3 TraesCS7D01G152800 chr7D 98.895 181 2 0 1 181 101409310 101409130 2.550000e-84 324.0
4 TraesCS7D01G152800 chr7D 91.346 104 2 2 6630 6733 604292689 604292593 1.280000e-27 135.0
5 TraesCS7D01G152800 chr7D 80.357 112 21 1 1164 1275 510323535 510323645 4.720000e-12 84.2
6 TraesCS7D01G152800 chr7B 90.242 3638 214 74 1748 5320 58253893 58250332 0.000000e+00 4621.0
7 TraesCS7D01G152800 chr7B 88.462 1066 58 35 725 1767 58254848 58253825 0.000000e+00 1227.0
8 TraesCS7D01G152800 chr7B 89.643 589 44 10 6053 6633 58249565 58248986 0.000000e+00 734.0
9 TraesCS7D01G152800 chr7B 84.906 636 62 16 6012 6631 57871017 57870400 4.870000e-171 612.0
10 TraesCS7D01G152800 chr7B 96.584 322 9 1 7018 7337 58248695 58248374 3.900000e-147 532.0
11 TraesCS7D01G152800 chr7B 83.333 558 49 20 5361 5900 58250325 58249794 6.660000e-130 475.0
12 TraesCS7D01G152800 chr7B 84.709 412 44 13 5495 5898 57880848 57880448 1.920000e-105 394.0
13 TraesCS7D01G152800 chr7B 91.011 267 13 5 418 674 512332767 512332502 4.210000e-92 350.0
14 TraesCS7D01G152800 chr7B 89.637 193 16 3 5129 5320 58239653 58239464 7.360000e-60 243.0
15 TraesCS7D01G152800 chr7B 88.542 192 20 2 5129 5320 57903292 57903103 1.590000e-56 231.0
16 TraesCS7D01G152800 chr7B 88.636 176 14 4 6730 6905 58248991 58248822 7.460000e-50 209.0
17 TraesCS7D01G152800 chr7B 97.826 46 1 0 6905 6950 58248767 58248722 6.100000e-11 80.5
18 TraesCS7D01G152800 chr7B 97.297 37 1 0 2657 2693 519904375 519904411 6.150000e-06 63.9
19 TraesCS7D01G152800 chr7A 90.061 1318 74 20 5363 6633 104805354 104804047 0.000000e+00 1655.0
20 TraesCS7D01G152800 chr7A 93.308 1046 63 5 2690 3732 104813185 104812144 0.000000e+00 1537.0
21 TraesCS7D01G152800 chr7A 86.201 1261 90 34 3728 4939 104806999 104805774 0.000000e+00 1288.0
22 TraesCS7D01G152800 chr7A 90.185 703 27 21 690 1364 104815207 104814519 0.000000e+00 878.0
23 TraesCS7D01G152800 chr7A 84.701 902 102 22 6012 6905 104243481 104242608 0.000000e+00 869.0
24 TraesCS7D01G152800 chr7A 84.385 903 104 23 6012 6905 104278385 104277511 0.000000e+00 852.0
25 TraesCS7D01G152800 chr7A 94.700 434 21 2 6905 7338 104803692 104803261 0.000000e+00 673.0
26 TraesCS7D01G152800 chr7A 92.067 416 27 4 4906 5320 104805773 104805363 1.370000e-161 580.0
27 TraesCS7D01G152800 chr7A 87.557 442 19 5 6905 7339 104552403 104551991 5.150000e-131 479.0
28 TraesCS7D01G152800 chr7A 83.183 553 56 17 5373 5898 104733165 104732623 8.620000e-129 472.0
29 TraesCS7D01G152800 chr7A 88.608 395 35 5 2260 2645 104813648 104813255 8.620000e-129 472.0
30 TraesCS7D01G152800 chr7A 84.250 400 49 9 5507 5898 104244031 104243638 1.930000e-100 377.0
31 TraesCS7D01G152800 chr7A 83.636 385 44 13 1813 2194 104814143 104813775 1.960000e-90 344.0
32 TraesCS7D01G152800 chr7A 84.150 347 34 14 6012 6341 104729823 104729481 4.270000e-82 316.0
33 TraesCS7D01G152800 chr7A 93.717 191 11 1 5130 5320 104733376 104733187 1.210000e-72 285.0
34 TraesCS7D01G152800 chr7A 92.000 200 12 4 7144 7339 104277097 104276898 2.020000e-70 278.0
35 TraesCS7D01G152800 chr7A 91.414 198 15 2 7144 7339 104242194 104241997 3.370000e-68 270.0
36 TraesCS7D01G152800 chr7A 95.294 170 6 2 6737 6905 104803913 104803745 1.210000e-67 268.0
37 TraesCS7D01G152800 chr7A 82.449 245 16 14 6905 7148 104242550 104242332 9.720000e-44 189.0
38 TraesCS7D01G152800 chr7A 82.449 245 16 14 6905 7148 104277453 104277235 9.720000e-44 189.0
39 TraesCS7D01G152800 chr3D 93.359 512 23 2 182 683 31429025 31429535 0.000000e+00 747.0
40 TraesCS7D01G152800 chr3D 91.952 497 33 5 182 675 380180266 380180758 0.000000e+00 689.0
41 TraesCS7D01G152800 chr3D 96.354 192 7 0 1 192 589539249 589539058 4.270000e-82 316.0
42 TraesCS7D01G152800 chr3D 95.000 40 2 0 2657 2696 555633637 555633676 6.150000e-06 63.9
43 TraesCS7D01G152800 chr3D 94.737 38 1 1 2668 2704 28505508 28505471 2.860000e-04 58.4
44 TraesCS7D01G152800 chr2D 92.354 497 36 2 178 673 106334814 106334319 0.000000e+00 706.0
45 TraesCS7D01G152800 chr2D 92.063 504 28 5 182 675 498110851 498110350 0.000000e+00 699.0
46 TraesCS7D01G152800 chr2D 90.090 111 5 1 6630 6740 83966781 83966677 9.930000e-29 139.0
47 TraesCS7D01G152800 chr3A 91.881 505 30 3 182 675 65871332 65871836 0.000000e+00 695.0
48 TraesCS7D01G152800 chr1B 91.767 498 29 7 182 667 437539686 437540183 0.000000e+00 682.0
49 TraesCS7D01G152800 chr1B 91.633 502 28 7 182 669 639061304 639060803 0.000000e+00 682.0
50 TraesCS7D01G152800 chr5B 91.583 499 30 5 182 669 412283903 412284400 0.000000e+00 678.0
51 TraesCS7D01G152800 chr5B 91.743 109 4 1 6630 6733 477078549 477078441 5.930000e-31 147.0
52 TraesCS7D01G152800 chr5B 89.076 119 10 1 6628 6743 440023202 440023084 2.130000e-30 145.0
53 TraesCS7D01G152800 chr5B 87.611 113 7 5 6630 6736 549974394 549974283 2.780000e-24 124.0
54 TraesCS7D01G152800 chr5B 81.301 123 23 0 1150 1272 421998400 421998278 4.690000e-17 100.0
55 TraesCS7D01G152800 chr5B 79.675 123 25 0 1150 1272 422040615 422040493 1.010000e-13 89.8
56 TraesCS7D01G152800 chr5B 97.059 34 0 1 2668 2701 571532116 571532148 1.000000e-03 56.5
57 TraesCS7D01G152800 chr5D 90.570 509 33 6 182 675 450384328 450383820 0.000000e+00 660.0
58 TraesCS7D01G152800 chr5D 98.901 182 2 0 1 182 303403996 303404177 7.100000e-85 326.0
59 TraesCS7D01G152800 chr5D 97.849 186 4 0 1 186 31774268 31774083 9.190000e-84 322.0
60 TraesCS7D01G152800 chr5D 98.361 183 3 0 1 183 549002192 549002374 9.190000e-84 322.0
61 TraesCS7D01G152800 chr5D 91.429 105 6 1 6629 6733 109811317 109811418 2.760000e-29 141.0
62 TraesCS7D01G152800 chr5D 92.308 91 3 1 6646 6736 24356417 24356331 7.730000e-25 126.0
63 TraesCS7D01G152800 chr5D 89.216 102 9 2 6633 6733 481421088 481420988 7.730000e-25 126.0
64 TraesCS7D01G152800 chr5D 85.088 114 11 2 6630 6739 248589492 248589381 2.160000e-20 111.0
65 TraesCS7D01G152800 chr5D 83.178 107 18 0 1166 1272 357396560 357396454 1.690000e-16 99.0
66 TraesCS7D01G152800 chr5D 80.159 126 19 5 1150 1272 357159656 357159534 1.010000e-13 89.8
67 TraesCS7D01G152800 chr5D 79.675 123 25 0 1150 1272 357371707 357371585 1.010000e-13 89.8
68 TraesCS7D01G152800 chr5D 95.000 40 2 0 2657 2696 136584047 136584086 6.150000e-06 63.9
69 TraesCS7D01G152800 chr2B 93.836 438 26 1 182 618 100027360 100027797 0.000000e+00 658.0
70 TraesCS7D01G152800 chr2B 78.275 313 48 11 2296 2589 47662072 47661761 4.520000e-42 183.0
71 TraesCS7D01G152800 chr2B 91.429 105 8 1 6630 6733 676589015 676589119 7.680000e-30 143.0
72 TraesCS7D01G152800 chr2B 86.598 97 13 0 2260 2356 47655774 47655678 2.800000e-19 108.0
73 TraesCS7D01G152800 chr2B 88.235 85 10 0 2691 2775 47661675 47661591 1.300000e-17 102.0
74 TraesCS7D01G152800 chr5A 89.216 510 44 3 182 681 520561695 520561187 1.740000e-175 627.0
75 TraesCS7D01G152800 chr5A 82.114 123 22 0 1150 1272 458525061 458524939 1.010000e-18 106.0
76 TraesCS7D01G152800 chr4D 88.976 508 33 7 180 675 31208806 31208310 2.260000e-169 606.0
77 TraesCS7D01G152800 chr4D 97.849 186 4 0 1 186 119833243 119833428 9.190000e-84 322.0
78 TraesCS7D01G152800 chr4D 96.354 192 7 0 1 192 88195407 88195216 4.270000e-82 316.0
79 TraesCS7D01G152800 chr4D 96.354 192 7 0 1 192 463155552 463155361 4.270000e-82 316.0
80 TraesCS7D01G152800 chr4D 91.000 100 5 3 6644 6739 249166946 249166847 1.660000e-26 132.0
81 TraesCS7D01G152800 chr4D 98.462 65 1 0 6672 6736 466837166 466837230 1.670000e-21 115.0
82 TraesCS7D01G152800 chr4D 96.825 63 2 0 6672 6734 99662468 99662406 1.010000e-18 106.0
83 TraesCS7D01G152800 chr4D 96.774 62 2 0 6672 6733 245478361 245478422 3.620000e-18 104.0
84 TraesCS7D01G152800 chr4D 95.385 65 3 0 6672 6736 414221132 414221196 3.620000e-18 104.0
85 TraesCS7D01G152800 chr4D 91.379 58 3 2 6621 6676 82867101 82867044 2.200000e-10 78.7
86 TraesCS7D01G152800 chr4D 94.118 51 3 0 6621 6671 245478431 245478381 2.200000e-10 78.7
87 TraesCS7D01G152800 chr4D 91.379 58 2 3 6627 6681 419139085 419139028 7.900000e-10 76.8
88 TraesCS7D01G152800 chr4D 92.308 39 3 0 2657 2695 499510143 499510181 1.000000e-03 56.5
89 TraesCS7D01G152800 chr1D 97.814 183 4 0 1 183 445169108 445169290 4.270000e-82 316.0
90 TraesCS7D01G152800 chr1D 98.387 62 1 0 6672 6733 318382817 318382878 7.780000e-20 110.0
91 TraesCS7D01G152800 chr1D 98.361 61 1 0 6673 6733 277349084 277349024 2.800000e-19 108.0
92 TraesCS7D01G152800 chr3B 85.606 264 35 2 2722 2983 54598093 54597831 2.610000e-69 274.0
93 TraesCS7D01G152800 chr3B 94.444 108 5 1 6626 6733 731134705 731134811 1.640000e-36 165.0
94 TraesCS7D01G152800 chr3B 88.679 106 10 1 6630 6733 772892908 772893013 2.150000e-25 128.0
95 TraesCS7D01G152800 chr3B 97.561 41 1 0 2658 2698 621152206 621152246 3.670000e-08 71.3
96 TraesCS7D01G152800 chr6D 93.458 107 7 0 6627 6733 50742373 50742267 7.620000e-35 159.0
97 TraesCS7D01G152800 chr6D 89.815 108 8 3 6630 6736 410399945 410399840 1.280000e-27 135.0
98 TraesCS7D01G152800 chr6D 79.679 187 32 5 1091 1275 305270888 305271070 5.980000e-26 130.0
99 TraesCS7D01G152800 chr6D 98.438 64 1 0 6672 6735 296699553 296699490 6.020000e-21 113.0
100 TraesCS7D01G152800 chr6D 98.387 62 1 0 6672 6733 9406753 9406692 7.780000e-20 110.0
101 TraesCS7D01G152800 chr6D 93.939 66 4 0 6672 6737 340947250 340947315 4.690000e-17 100.0
102 TraesCS7D01G152800 chr6D 89.873 79 6 2 6672 6749 460470407 460470330 4.690000e-17 100.0
103 TraesCS7D01G152800 chr6D 95.161 62 3 0 6672 6733 291236988 291236927 1.690000e-16 99.0
104 TraesCS7D01G152800 chr6D 95.161 62 3 0 6672 6733 299191324 299191263 1.690000e-16 99.0
105 TraesCS7D01G152800 chr6D 91.304 69 6 0 6672 6740 199210389 199210321 2.180000e-15 95.3
106 TraesCS7D01G152800 chr6D 94.340 53 1 2 6618 6670 469492329 469492379 6.100000e-11 80.5
107 TraesCS7D01G152800 chr6D 94.340 53 1 2 6618 6670 469511137 469511187 6.100000e-11 80.5
108 TraesCS7D01G152800 chr6D 94.231 52 2 1 6629 6680 25878828 25878778 2.200000e-10 78.7
109 TraesCS7D01G152800 chr6D 97.778 45 1 0 6627 6671 196357996 196357952 2.200000e-10 78.7
110 TraesCS7D01G152800 chr6D 92.157 51 3 1 6628 6677 8901114 8901064 3.670000e-08 71.3
111 TraesCS7D01G152800 chr6D 95.000 40 2 0 2657 2696 456822700 456822739 6.150000e-06 63.9
112 TraesCS7D01G152800 chr6D 97.059 34 0 1 2668 2700 119147691 119147658 1.000000e-03 56.5
113 TraesCS7D01G152800 chr2A 90.000 110 6 2 6625 6733 748086303 748086408 3.570000e-28 137.0
114 TraesCS7D01G152800 chr6B 79.891 184 31 5 1094 1275 471313823 471313644 5.980000e-26 130.0
115 TraesCS7D01G152800 chr6B 97.368 38 1 0 2656 2693 618132623 618132660 1.710000e-06 65.8
116 TraesCS7D01G152800 chr6A 84.127 126 18 2 1151 1275 409135868 409135744 3.600000e-23 121.0
117 TraesCS7D01G152800 chr6A 96.970 66 2 0 6671 6736 560616691 560616626 2.160000e-20 111.0
118 TraesCS7D01G152800 chr6A 92.857 56 3 1 6619 6673 190660446 190660391 6.100000e-11 80.5
119 TraesCS7D01G152800 chr6A 92.857 56 3 1 6619 6673 190738369 190738314 6.100000e-11 80.5
120 TraesCS7D01G152800 chr4B 88.462 104 7 1 6630 6733 544445376 544445278 3.600000e-23 121.0
121 TraesCS7D01G152800 chr4B 95.522 67 3 0 6672 6738 454515466 454515532 2.800000e-19 108.0
122 TraesCS7D01G152800 chr4B 86.275 102 5 9 6638 6733 111788055 111787957 1.300000e-17 102.0
123 TraesCS7D01G152800 chr4B 88.506 87 4 1 6643 6723 111787967 111788053 4.690000e-17 100.0
124 TraesCS7D01G152800 chr4B 91.379 58 2 3 6615 6671 4233615 4233560 7.900000e-10 76.8
125 TraesCS7D01G152800 chr4B 100.000 29 0 0 2668 2696 379727214 379727186 4.000000e-03 54.7
126 TraesCS7D01G152800 chr4B 100.000 29 0 0 2668 2696 471476114 471476086 4.000000e-03 54.7
127 TraesCS7D01G152800 chr4B 100.000 29 0 0 2668 2696 529059832 529059804 4.000000e-03 54.7
128 TraesCS7D01G152800 chr4B 100.000 28 0 0 2668 2695 633779408 633779435 1.300000e-02 52.8
129 TraesCS7D01G152800 chr1A 85.849 106 10 1 6628 6733 563590739 563590839 2.800000e-19 108.0
130 TraesCS7D01G152800 chr1A 84.211 114 12 3 6626 6733 486342405 486342292 1.010000e-18 106.0
131 TraesCS7D01G152800 chr1A 82.143 112 17 2 6622 6732 219112375 219112484 7.840000e-15 93.5
132 TraesCS7D01G152800 chr1A 92.453 53 4 0 629 681 552346431 552346379 7.900000e-10 76.8
133 TraesCS7D01G152800 chr1A 96.875 32 1 0 2668 2699 371088978 371088947 4.000000e-03 54.7
134 TraesCS7D01G152800 chrUn 83.478 115 9 5 6628 6733 15903396 15903283 1.690000e-16 99.0
135 TraesCS7D01G152800 chrUn 93.750 64 4 0 6672 6735 316200600 316200537 6.060000e-16 97.1
136 TraesCS7D01G152800 chrUn 93.651 63 4 0 6672 6734 16901648 16901710 2.180000e-15 95.3
137 TraesCS7D01G152800 chrUn 91.304 69 6 0 6672 6740 67407089 67407021 2.180000e-15 95.3
138 TraesCS7D01G152800 chrUn 93.548 62 4 0 6672 6733 8111473 8111534 7.840000e-15 93.5
139 TraesCS7D01G152800 chrUn 92.424 66 3 2 6672 6737 320256158 320256095 7.840000e-15 93.5
140 TraesCS7D01G152800 chrUn 92.424 66 3 2 6672 6737 357700808 357700745 7.840000e-15 93.5
141 TraesCS7D01G152800 chrUn 92.063 63 5 0 6672 6734 29029225 29029287 1.010000e-13 89.8
142 TraesCS7D01G152800 chrUn 91.935 62 5 0 6672 6733 55723673 55723612 3.650000e-13 87.9
143 TraesCS7D01G152800 chrUn 83.019 106 5 6 6629 6733 26701823 26701916 4.720000e-12 84.2
144 TraesCS7D01G152800 chrUn 90.476 63 6 0 6672 6734 28955459 28955521 4.720000e-12 84.2
145 TraesCS7D01G152800 chrUn 92.593 54 4 0 6618 6671 37403230 37403283 2.200000e-10 78.7
146 TraesCS7D01G152800 chrUn 97.619 42 1 0 6629 6670 37028996 37028955 1.020000e-08 73.1
147 TraesCS7D01G152800 chrUn 97.619 42 1 0 6630 6671 103121688 103121729 1.020000e-08 73.1
148 TraesCS7D01G152800 chrUn 95.455 44 2 0 6628 6671 10254802 10254759 3.670000e-08 71.3
149 TraesCS7D01G152800 chrUn 93.617 47 3 0 6627 6673 83668107 83668061 3.670000e-08 71.3
150 TraesCS7D01G152800 chrUn 95.455 44 2 0 6628 6671 253929079 253929122 3.670000e-08 71.3
151 TraesCS7D01G152800 chrUn 95.349 43 2 0 6629 6671 29722132 29722090 1.320000e-07 69.4
152 TraesCS7D01G152800 chrUn 95.349 43 2 0 6628 6670 101630798 101630840 1.320000e-07 69.4
153 TraesCS7D01G152800 chrUn 95.455 44 1 1 6627 6670 135058573 135058615 1.320000e-07 69.4
154 TraesCS7D01G152800 chrUn 95.455 44 1 1 6627 6670 152655427 152655469 1.320000e-07 69.4
155 TraesCS7D01G152800 chr4A 95.349 43 1 1 2658 2700 32052731 32052772 4.750000e-07 67.6


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 TraesCS7D01G152800 chr7D 101394597 101401935 7338 True 13553.000000 13553 100.000000 1 7339 1 chr7D.!!$R2 7338
1 TraesCS7D01G152800 chr7B 58248374 58254848 6474 True 1125.500000 4621 90.675143 725 7337 7 chr7B.!!$R6 6612
2 TraesCS7D01G152800 chr7B 57870400 57871017 617 True 612.000000 612 84.906000 6012 6631 1 chr7B.!!$R1 619
3 TraesCS7D01G152800 chr7A 104803261 104806999 3738 True 892.800000 1655 91.664600 3728 7338 5 chr7A.!!$R5 3610
4 TraesCS7D01G152800 chr7A 104812144 104815207 3063 True 807.750000 1537 88.934250 690 3732 4 chr7A.!!$R6 3042
5 TraesCS7D01G152800 chr7A 104276898 104278385 1487 True 439.666667 852 86.278000 6012 7339 3 chr7A.!!$R3 1327
6 TraesCS7D01G152800 chr7A 104241997 104244031 2034 True 426.250000 869 85.703500 5507 7339 4 chr7A.!!$R2 1832
7 TraesCS7D01G152800 chr7A 104729481 104733376 3895 True 357.666667 472 87.016667 5130 6341 3 chr7A.!!$R4 1211
8 TraesCS7D01G152800 chr3D 31429025 31429535 510 False 747.000000 747 93.359000 182 683 1 chr3D.!!$F1 501
9 TraesCS7D01G152800 chr2D 498110350 498110851 501 True 699.000000 699 92.063000 182 675 1 chr2D.!!$R3 493
10 TraesCS7D01G152800 chr3A 65871332 65871836 504 False 695.000000 695 91.881000 182 675 1 chr3A.!!$F1 493
11 TraesCS7D01G152800 chr1B 639060803 639061304 501 True 682.000000 682 91.633000 182 669 1 chr1B.!!$R1 487
12 TraesCS7D01G152800 chr5D 450383820 450384328 508 True 660.000000 660 90.570000 182 675 1 chr5D.!!$R7 493
13 TraesCS7D01G152800 chr5A 520561187 520561695 508 True 627.000000 627 89.216000 182 681 1 chr5A.!!$R2 499

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
70 71 0.095935 CACTTGAATGCTTCCGCTCG 59.904 55.000 0.00 0.0 36.97 5.03 F
80 81 0.248498 CTTCCGCTCGCGATCTACAA 60.248 55.000 10.36 0.0 42.83 2.41 F
1329 1375 0.101399 CGCTCCTGCAATCTCGTACT 59.899 55.000 0.00 0.0 39.64 2.73 F
1616 1749 1.054406 GGGGGCCTAGCACATACTGA 61.054 60.000 0.84 0.0 30.93 3.41 F
3018 3245 1.271597 GCAACCCCATTCACTCTGTCT 60.272 52.381 0.00 0.0 0.00 3.41 F
4040 4274 0.255033 GGTGAAAAGGCTCCGGGTAT 59.745 55.000 0.00 0.0 0.00 2.73 F
4886 5203 0.105658 TTCCCCTCCCGTCATCTAGG 60.106 60.000 0.00 0.0 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1306 1348 0.315251 CGAGATTGCAGGAGCGGATA 59.685 55.000 0.00 0.0 46.23 2.59 R
1587 1719 1.114627 CTAGGCCCCCAAGCATTTTC 58.885 55.000 0.00 0.0 0.00 2.29 R
2600 2802 1.068610 TGCGGTACATTCAAGCTTTGC 60.069 47.619 0.00 0.0 0.00 3.68 R
3510 3740 0.107410 AAGCCGACAACAGAACACCA 60.107 50.000 0.00 0.0 0.00 4.17 R
4224 4470 0.248289 GCAACAGTCCCCGCTTAGTA 59.752 55.000 0.00 0.0 0.00 1.82 R
5074 5430 0.037590 TGTTGGCGGACCTGCTTATT 59.962 50.000 7.98 0.0 36.63 1.40 R
6382 9578 0.610232 GCATTGGTGAGCTGGAACCT 60.610 55.000 10.36 0.0 37.36 3.50 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
18 19 3.451793 TCGGTCATCGGTGATTTGG 57.548 52.632 0.00 0.00 39.77 3.28
19 20 0.899019 TCGGTCATCGGTGATTTGGA 59.101 50.000 0.00 0.00 39.77 3.53
20 21 1.484653 TCGGTCATCGGTGATTTGGAT 59.515 47.619 0.00 0.00 39.77 3.41
21 22 1.867233 CGGTCATCGGTGATTTGGATC 59.133 52.381 0.00 0.00 36.60 3.36
22 23 2.741553 CGGTCATCGGTGATTTGGATCA 60.742 50.000 0.00 0.00 36.60 2.92
32 33 3.766151 TGATTTGGATCACGACGAGTAC 58.234 45.455 0.00 0.00 37.37 2.73
33 34 2.251869 TTTGGATCACGACGAGTACG 57.748 50.000 0.00 0.00 45.75 3.67
34 35 1.441738 TTGGATCACGACGAGTACGA 58.558 50.000 0.00 0.00 42.66 3.43
35 36 0.723414 TGGATCACGACGAGTACGAC 59.277 55.000 0.00 0.00 42.66 4.34
36 37 1.005340 GGATCACGACGAGTACGACT 58.995 55.000 0.00 0.00 42.66 4.18
37 38 1.005137 GGATCACGACGAGTACGACTC 60.005 57.143 0.00 0.00 41.71 3.36
38 39 1.005137 GATCACGACGAGTACGACTCC 60.005 57.143 0.00 0.00 42.12 3.85
39 40 0.319813 TCACGACGAGTACGACTCCA 60.320 55.000 0.00 0.00 42.12 3.86
40 41 0.725686 CACGACGAGTACGACTCCAT 59.274 55.000 0.00 0.00 42.12 3.41
41 42 1.005340 ACGACGAGTACGACTCCATC 58.995 55.000 0.00 6.63 42.12 3.51
42 43 1.004595 CGACGAGTACGACTCCATCA 58.995 55.000 8.73 0.00 42.12 3.07
43 44 1.395954 CGACGAGTACGACTCCATCAA 59.604 52.381 8.73 0.00 42.12 2.57
44 45 2.783333 GACGAGTACGACTCCATCAAC 58.217 52.381 8.73 0.00 42.12 3.18
45 46 1.471684 ACGAGTACGACTCCATCAACC 59.528 52.381 8.73 0.00 42.12 3.77
46 47 1.202268 CGAGTACGACTCCATCAACCC 60.202 57.143 8.73 0.00 42.12 4.11
47 48 2.100989 GAGTACGACTCCATCAACCCT 58.899 52.381 0.00 0.00 39.28 4.34
48 49 1.825474 AGTACGACTCCATCAACCCTG 59.175 52.381 0.00 0.00 0.00 4.45
49 50 1.549170 GTACGACTCCATCAACCCTGT 59.451 52.381 0.00 0.00 0.00 4.00
50 51 1.056660 ACGACTCCATCAACCCTGTT 58.943 50.000 0.00 0.00 0.00 3.16
51 52 1.002087 ACGACTCCATCAACCCTGTTC 59.998 52.381 0.00 0.00 0.00 3.18
52 53 1.001974 CGACTCCATCAACCCTGTTCA 59.998 52.381 0.00 0.00 0.00 3.18
53 54 2.427506 GACTCCATCAACCCTGTTCAC 58.572 52.381 0.00 0.00 0.00 3.18
54 55 2.039084 GACTCCATCAACCCTGTTCACT 59.961 50.000 0.00 0.00 0.00 3.41
55 56 2.443255 ACTCCATCAACCCTGTTCACTT 59.557 45.455 0.00 0.00 0.00 3.16
56 57 2.816087 CTCCATCAACCCTGTTCACTTG 59.184 50.000 0.00 0.00 0.00 3.16
57 58 2.441375 TCCATCAACCCTGTTCACTTGA 59.559 45.455 0.00 0.00 0.00 3.02
58 59 3.117701 TCCATCAACCCTGTTCACTTGAA 60.118 43.478 0.00 0.00 0.00 2.69
59 60 3.828451 CCATCAACCCTGTTCACTTGAAT 59.172 43.478 0.00 0.00 36.33 2.57
60 61 4.321452 CCATCAACCCTGTTCACTTGAATG 60.321 45.833 0.00 0.00 36.33 2.67
61 62 2.622942 TCAACCCTGTTCACTTGAATGC 59.377 45.455 0.00 0.00 36.33 3.56
62 63 2.624838 CAACCCTGTTCACTTGAATGCT 59.375 45.455 0.00 0.00 36.33 3.79
63 64 2.949447 ACCCTGTTCACTTGAATGCTT 58.051 42.857 0.00 0.00 36.33 3.91
64 65 2.887152 ACCCTGTTCACTTGAATGCTTC 59.113 45.455 0.00 0.00 36.33 3.86
65 66 2.229784 CCCTGTTCACTTGAATGCTTCC 59.770 50.000 0.00 0.00 36.33 3.46
66 67 2.095567 CCTGTTCACTTGAATGCTTCCG 60.096 50.000 0.00 0.00 36.33 4.30
67 68 1.266718 TGTTCACTTGAATGCTTCCGC 59.733 47.619 0.00 0.00 36.33 5.54
68 69 1.537202 GTTCACTTGAATGCTTCCGCT 59.463 47.619 0.00 0.00 36.33 5.52
69 70 1.442769 TCACTTGAATGCTTCCGCTC 58.557 50.000 0.00 0.00 36.97 5.03
70 71 0.095935 CACTTGAATGCTTCCGCTCG 59.904 55.000 0.00 0.00 36.97 5.03
71 72 1.061570 CTTGAATGCTTCCGCTCGC 59.938 57.895 0.00 0.00 36.97 5.03
72 73 2.622722 CTTGAATGCTTCCGCTCGCG 62.623 60.000 0.00 0.00 36.97 5.87
73 74 2.885644 GAATGCTTCCGCTCGCGA 60.886 61.111 9.26 9.26 42.83 5.87
74 75 2.202932 AATGCTTCCGCTCGCGAT 60.203 55.556 10.36 0.00 42.83 4.58
75 76 2.152013 GAATGCTTCCGCTCGCGATC 62.152 60.000 10.36 3.96 42.83 3.69
76 77 2.635229 AATGCTTCCGCTCGCGATCT 62.635 55.000 10.36 0.00 42.83 2.75
77 78 1.796190 ATGCTTCCGCTCGCGATCTA 61.796 55.000 10.36 0.00 42.83 1.98
78 79 2.011881 GCTTCCGCTCGCGATCTAC 61.012 63.158 10.36 0.00 42.83 2.59
79 80 1.355563 CTTCCGCTCGCGATCTACA 59.644 57.895 10.36 0.00 42.83 2.74
80 81 0.248498 CTTCCGCTCGCGATCTACAA 60.248 55.000 10.36 0.00 42.83 2.41
81 82 0.248498 TTCCGCTCGCGATCTACAAG 60.248 55.000 10.36 0.00 42.83 3.16
82 83 1.658717 CCGCTCGCGATCTACAAGG 60.659 63.158 10.36 0.00 42.83 3.61
83 84 1.658717 CGCTCGCGATCTACAAGGG 60.659 63.158 10.36 0.00 42.83 3.95
84 85 1.437986 GCTCGCGATCTACAAGGGT 59.562 57.895 10.36 0.00 0.00 4.34
85 86 0.666913 GCTCGCGATCTACAAGGGTA 59.333 55.000 10.36 0.00 0.00 3.69
86 87 1.269998 GCTCGCGATCTACAAGGGTAT 59.730 52.381 10.36 0.00 0.00 2.73
87 88 2.922758 GCTCGCGATCTACAAGGGTATG 60.923 54.545 10.36 0.00 0.00 2.39
88 89 2.293677 CTCGCGATCTACAAGGGTATGT 59.706 50.000 10.36 0.00 37.32 2.29
89 90 3.479489 TCGCGATCTACAAGGGTATGTA 58.521 45.455 3.71 0.00 34.75 2.29
99 100 5.615925 ACAAGGGTATGTAGATGAACTCC 57.384 43.478 0.00 0.00 0.00 3.85
100 101 5.281314 ACAAGGGTATGTAGATGAACTCCT 58.719 41.667 0.00 0.00 0.00 3.69
101 102 5.726793 ACAAGGGTATGTAGATGAACTCCTT 59.273 40.000 0.00 0.00 32.94 3.36
102 103 6.127026 ACAAGGGTATGTAGATGAACTCCTTC 60.127 42.308 0.00 0.00 30.62 3.46
103 104 4.902448 AGGGTATGTAGATGAACTCCTTCC 59.098 45.833 0.00 0.00 0.00 3.46
104 105 4.902448 GGGTATGTAGATGAACTCCTTCCT 59.098 45.833 0.00 0.00 0.00 3.36
105 106 5.367060 GGGTATGTAGATGAACTCCTTCCTT 59.633 44.000 0.00 0.00 0.00 3.36
106 107 6.463190 GGGTATGTAGATGAACTCCTTCCTTC 60.463 46.154 0.00 0.00 0.00 3.46
107 108 6.325286 GGTATGTAGATGAACTCCTTCCTTCT 59.675 42.308 0.00 0.00 0.00 2.85
108 109 5.923733 TGTAGATGAACTCCTTCCTTCTC 57.076 43.478 0.00 0.00 0.00 2.87
109 110 4.399618 TGTAGATGAACTCCTTCCTTCTCG 59.600 45.833 0.00 0.00 0.00 4.04
110 111 3.436243 AGATGAACTCCTTCCTTCTCGT 58.564 45.455 0.00 0.00 0.00 4.18
111 112 3.835395 AGATGAACTCCTTCCTTCTCGTT 59.165 43.478 0.00 0.00 0.00 3.85
112 113 3.386768 TGAACTCCTTCCTTCTCGTTG 57.613 47.619 0.00 0.00 0.00 4.10
113 114 2.070028 GAACTCCTTCCTTCTCGTTGC 58.930 52.381 0.00 0.00 0.00 4.17
114 115 1.343069 ACTCCTTCCTTCTCGTTGCT 58.657 50.000 0.00 0.00 0.00 3.91
115 116 2.526432 ACTCCTTCCTTCTCGTTGCTA 58.474 47.619 0.00 0.00 0.00 3.49
116 117 2.494073 ACTCCTTCCTTCTCGTTGCTAG 59.506 50.000 0.00 0.00 0.00 3.42
117 118 2.494073 CTCCTTCCTTCTCGTTGCTAGT 59.506 50.000 0.00 0.00 0.00 2.57
118 119 3.693807 TCCTTCCTTCTCGTTGCTAGTA 58.306 45.455 0.00 0.00 0.00 1.82
119 120 4.084287 TCCTTCCTTCTCGTTGCTAGTAA 58.916 43.478 0.00 0.00 0.00 2.24
120 121 4.525487 TCCTTCCTTCTCGTTGCTAGTAAA 59.475 41.667 0.00 0.00 0.00 2.01
121 122 4.626172 CCTTCCTTCTCGTTGCTAGTAAAC 59.374 45.833 0.00 0.00 0.00 2.01
122 123 5.464030 TTCCTTCTCGTTGCTAGTAAACT 57.536 39.130 0.00 0.00 0.00 2.66
123 124 5.056894 TCCTTCTCGTTGCTAGTAAACTC 57.943 43.478 0.00 0.00 0.00 3.01
124 125 4.082354 TCCTTCTCGTTGCTAGTAAACTCC 60.082 45.833 0.00 0.00 0.00 3.85
125 126 4.321750 CCTTCTCGTTGCTAGTAAACTCCA 60.322 45.833 0.00 0.00 0.00 3.86
126 127 5.401531 TTCTCGTTGCTAGTAAACTCCAT 57.598 39.130 0.00 0.00 0.00 3.41
127 128 6.405508 CCTTCTCGTTGCTAGTAAACTCCATA 60.406 42.308 0.00 0.00 0.00 2.74
128 129 6.132791 TCTCGTTGCTAGTAAACTCCATAG 57.867 41.667 0.00 0.00 0.00 2.23
129 130 5.884232 TCTCGTTGCTAGTAAACTCCATAGA 59.116 40.000 0.00 0.00 0.00 1.98
130 131 6.546403 TCTCGTTGCTAGTAAACTCCATAGAT 59.454 38.462 0.00 0.00 0.00 1.98
131 132 6.504398 TCGTTGCTAGTAAACTCCATAGATG 58.496 40.000 0.00 0.00 0.00 2.90
146 147 2.251409 AGATGGATCTTGGTGATGCG 57.749 50.000 0.00 0.00 45.05 4.73
147 148 1.487976 AGATGGATCTTGGTGATGCGT 59.512 47.619 0.00 0.00 45.05 5.24
148 149 2.700371 AGATGGATCTTGGTGATGCGTA 59.300 45.455 0.00 0.00 45.05 4.42
149 150 2.602257 TGGATCTTGGTGATGCGTAG 57.398 50.000 0.00 0.00 45.05 3.51
150 151 2.107366 TGGATCTTGGTGATGCGTAGA 58.893 47.619 0.00 0.00 45.05 2.59
151 152 2.499693 TGGATCTTGGTGATGCGTAGAA 59.500 45.455 0.00 0.00 45.05 2.10
152 153 3.055458 TGGATCTTGGTGATGCGTAGAAA 60.055 43.478 0.00 0.00 45.05 2.52
153 154 4.130118 GGATCTTGGTGATGCGTAGAAAT 58.870 43.478 0.00 0.00 35.14 2.17
154 155 4.576463 GGATCTTGGTGATGCGTAGAAATT 59.424 41.667 0.00 0.00 35.14 1.82
155 156 5.066505 GGATCTTGGTGATGCGTAGAAATTT 59.933 40.000 0.00 0.00 35.14 1.82
156 157 5.957842 TCTTGGTGATGCGTAGAAATTTT 57.042 34.783 0.00 0.00 0.00 1.82
157 158 6.325919 TCTTGGTGATGCGTAGAAATTTTT 57.674 33.333 0.00 0.00 0.00 1.94
176 177 5.560966 TTTTTGATTTCTGCTACGATCCC 57.439 39.130 0.00 0.00 0.00 3.85
177 178 2.910688 TGATTTCTGCTACGATCCCC 57.089 50.000 0.00 0.00 0.00 4.81
178 179 2.115427 TGATTTCTGCTACGATCCCCA 58.885 47.619 0.00 0.00 0.00 4.96
179 180 2.503765 TGATTTCTGCTACGATCCCCAA 59.496 45.455 0.00 0.00 0.00 4.12
180 181 2.396590 TTTCTGCTACGATCCCCAAC 57.603 50.000 0.00 0.00 0.00 3.77
213 214 0.319555 TCCAGCTGTCACTTGCGTAC 60.320 55.000 13.81 0.00 0.00 3.67
378 379 1.991121 ACCCTAACATCGCCGATCTA 58.009 50.000 0.00 0.00 0.00 1.98
476 477 3.450817 TGAGGCAGATTTATTCGTCCAGA 59.549 43.478 0.00 0.00 0.00 3.86
685 704 2.973945 GGAACGCTTCCTGTGTATTCT 58.026 47.619 8.87 0.00 46.57 2.40
686 705 4.119442 GGAACGCTTCCTGTGTATTCTA 57.881 45.455 8.87 0.00 46.57 2.10
687 706 4.501071 GGAACGCTTCCTGTGTATTCTAA 58.499 43.478 8.87 0.00 46.57 2.10
688 707 4.329256 GGAACGCTTCCTGTGTATTCTAAC 59.671 45.833 8.87 0.00 46.57 2.34
689 708 3.858247 ACGCTTCCTGTGTATTCTAACC 58.142 45.455 0.00 0.00 37.67 2.85
690 709 2.858344 CGCTTCCTGTGTATTCTAACCG 59.142 50.000 0.00 0.00 0.00 4.44
691 710 3.195661 GCTTCCTGTGTATTCTAACCGG 58.804 50.000 0.00 0.00 0.00 5.28
692 711 2.973694 TCCTGTGTATTCTAACCGGC 57.026 50.000 0.00 0.00 0.00 6.13
693 712 2.463752 TCCTGTGTATTCTAACCGGCT 58.536 47.619 0.00 0.00 0.00 5.52
694 713 3.634504 TCCTGTGTATTCTAACCGGCTA 58.365 45.455 0.00 0.00 0.00 3.93
697 716 3.634504 TGTGTATTCTAACCGGCTAGGA 58.365 45.455 11.91 3.42 45.00 2.94
875 899 3.941188 CACCCCACACCACTCGCT 61.941 66.667 0.00 0.00 0.00 4.93
1049 1079 3.847602 CCTGCTCCTGCTCCTCGG 61.848 72.222 0.00 0.00 40.48 4.63
1173 1212 3.101209 CACTACGCGGGCTACGTA 58.899 61.111 12.47 11.03 46.52 3.57
1306 1348 2.439156 GCGCCCATTCCTTCTGCT 60.439 61.111 0.00 0.00 0.00 4.24
1328 1374 0.872021 CCGCTCCTGCAATCTCGTAC 60.872 60.000 0.00 0.00 39.64 3.67
1329 1375 0.101399 CGCTCCTGCAATCTCGTACT 59.899 55.000 0.00 0.00 39.64 2.73
1330 1376 1.333931 CGCTCCTGCAATCTCGTACTA 59.666 52.381 0.00 0.00 39.64 1.82
1331 1377 2.603412 CGCTCCTGCAATCTCGTACTAG 60.603 54.545 0.00 0.00 39.64 2.57
1423 1549 1.104577 TCTTTGTCCGGGCCAAACAC 61.105 55.000 2.12 0.00 0.00 3.32
1434 1560 1.501169 GCCAAACACATGAAACTGCC 58.499 50.000 0.00 0.00 0.00 4.85
1470 1596 9.042008 GTTTCTTTTGTCTGTGATACAACTAGA 57.958 33.333 0.00 0.00 36.61 2.43
1490 1616 3.647113 AGAGTACTAGGCCTCGTATCTGA 59.353 47.826 19.21 0.00 32.88 3.27
1526 1654 6.820656 AGATTGTGGTATTGCTTCAGAAGTAG 59.179 38.462 11.94 0.00 0.00 2.57
1527 1655 5.738619 TGTGGTATTGCTTCAGAAGTAGA 57.261 39.130 11.94 0.00 0.00 2.59
1528 1656 6.109156 TGTGGTATTGCTTCAGAAGTAGAA 57.891 37.500 11.94 3.40 0.00 2.10
1529 1657 6.530120 TGTGGTATTGCTTCAGAAGTAGAAA 58.470 36.000 11.94 2.74 0.00 2.52
1587 1719 5.625150 CCTATTCAGGTTCTTTATCTGGGG 58.375 45.833 0.00 0.00 37.15 4.96
1616 1749 1.054406 GGGGGCCTAGCACATACTGA 61.054 60.000 0.84 0.00 30.93 3.41
1627 1760 7.335422 GCCTAGCACATACTGAAGCATATTATT 59.665 37.037 0.00 0.00 0.00 1.40
1628 1761 9.875691 CCTAGCACATACTGAAGCATATTATTA 57.124 33.333 0.00 0.00 0.00 0.98
1713 1846 6.007703 GCCTTATGGGTTATGGCATTAACTA 58.992 40.000 4.78 0.00 45.91 2.24
1714 1847 6.492087 GCCTTATGGGTTATGGCATTAACTAA 59.508 38.462 4.78 0.00 45.91 2.24
1715 1848 7.178451 GCCTTATGGGTTATGGCATTAACTAAT 59.822 37.037 4.78 0.49 45.91 1.73
1716 1849 9.088987 CCTTATGGGTTATGGCATTAACTAATT 57.911 33.333 4.78 0.00 33.49 1.40
1717 1850 9.912634 CTTATGGGTTATGGCATTAACTAATTG 57.087 33.333 4.78 0.00 33.49 2.32
1718 1851 7.912778 ATGGGTTATGGCATTAACTAATTGT 57.087 32.000 4.78 0.00 33.49 2.71
1719 1852 7.106439 TGGGTTATGGCATTAACTAATTGTG 57.894 36.000 4.78 0.00 33.49 3.33
1720 1853 6.892456 TGGGTTATGGCATTAACTAATTGTGA 59.108 34.615 4.78 0.00 33.49 3.58
1721 1854 7.397476 TGGGTTATGGCATTAACTAATTGTGAA 59.603 33.333 4.78 0.00 33.49 3.18
1722 1855 8.254508 GGGTTATGGCATTAACTAATTGTGAAA 58.745 33.333 4.78 0.00 33.49 2.69
1723 1856 9.816354 GGTTATGGCATTAACTAATTGTGAAAT 57.184 29.630 4.78 0.00 33.49 2.17
1727 1860 8.121305 TGGCATTAACTAATTGTGAAATCAGT 57.879 30.769 0.00 0.00 0.00 3.41
1728 1861 8.584157 TGGCATTAACTAATTGTGAAATCAGTT 58.416 29.630 0.00 0.00 0.00 3.16
1747 1880 9.799106 AATCAGTTAAATTATATACTGCTGCCT 57.201 29.630 0.00 0.00 38.26 4.75
1748 1881 9.799106 ATCAGTTAAATTATATACTGCTGCCTT 57.201 29.630 0.00 0.00 38.26 4.35
1772 1905 9.467258 CTTATGGCATTAACTAATTGTGGAATG 57.533 33.333 4.78 1.10 36.58 2.67
1799 1932 9.543783 AGTTAACTTATTATAGTGCTGCCTTAC 57.456 33.333 1.12 0.00 0.00 2.34
1819 1952 3.267483 ACGGCGTTAGCTAATTGTTCAT 58.733 40.909 6.77 0.00 44.37 2.57
2055 2189 5.376854 CTTGGAACCAAGGTAACATTCAG 57.623 43.478 21.70 0.00 46.88 3.02
2064 2198 5.765182 CCAAGGTAACATTCAGACAGAAACT 59.235 40.000 0.00 0.00 40.22 2.66
2065 2199 6.934645 CCAAGGTAACATTCAGACAGAAACTA 59.065 38.462 0.00 0.00 40.22 2.24
2066 2200 7.444183 CCAAGGTAACATTCAGACAGAAACTAA 59.556 37.037 0.00 0.00 40.22 2.24
2067 2201 7.964604 AGGTAACATTCAGACAGAAACTAAC 57.035 36.000 0.00 0.00 40.22 2.34
2068 2202 7.736893 AGGTAACATTCAGACAGAAACTAACT 58.263 34.615 0.00 0.00 40.22 2.24
2145 2280 9.047371 GCTACTTTCTTATTCCAACCTTCTATC 57.953 37.037 0.00 0.00 0.00 2.08
2214 2382 7.122799 CCTTTTATTGGGAAAGAGACCCTTAAG 59.877 40.741 0.00 0.00 46.82 1.85
2221 2389 7.574607 TGGGAAAGAGACCCTTAAGAAATATC 58.425 38.462 3.36 0.00 46.82 1.63
2256 2424 7.331791 AGTTCCTAAACTAGCCAACTCTAATG 58.668 38.462 0.00 0.00 43.98 1.90
2362 2563 4.520492 TCTGAAAGAGCTTTCCCATGTTTC 59.480 41.667 17.57 0.00 46.15 2.78
2374 2575 7.415653 GCTTTCCCATGTTTCCTGTATTAGAAG 60.416 40.741 0.00 0.00 0.00 2.85
2445 2647 8.725148 TCTTCTTCTAAAGAATTGCAAGCTAAG 58.275 33.333 4.94 5.79 45.75 2.18
2448 2650 6.992063 TCTAAAGAATTGCAAGCTAAGGAG 57.008 37.500 4.94 0.00 0.00 3.69
2600 2802 4.706476 TGGAAAGTGCCAGATTAGATTTGG 59.294 41.667 0.00 0.00 33.10 3.28
2758 2985 3.206150 CGCATATTGGAGTACAGCCTTT 58.794 45.455 0.00 0.00 0.00 3.11
2767 2994 3.304726 GGAGTACAGCCTTTGTTTTCAGC 60.305 47.826 0.00 0.00 41.29 4.26
2810 3037 8.506168 TGTTTCATATCACTACCCATTTTCTC 57.494 34.615 0.00 0.00 0.00 2.87
2843 3070 3.324846 TCTGATAGTGTGCTGTTCCTTGT 59.675 43.478 0.00 0.00 0.00 3.16
3018 3245 1.271597 GCAACCCCATTCACTCTGTCT 60.272 52.381 0.00 0.00 0.00 3.41
3035 3262 8.230486 CACTCTGTCTTATCATTTGGTTTACAC 58.770 37.037 0.00 0.00 0.00 2.90
3144 3371 4.139038 GGTGTTCCTAACAAAGTGGCTTA 58.861 43.478 0.00 0.00 44.16 3.09
3220 3447 6.109156 TGCTGGTCTGTAGAATCTTTACAA 57.891 37.500 0.00 0.00 31.17 2.41
3234 3461 9.875691 AGAATCTTTACAAGCTTTTGTTTCTTT 57.124 25.926 0.00 0.00 36.44 2.52
3291 3518 8.166422 TCCTTTATGGAAAGTTTCTGAAACTC 57.834 34.615 29.86 20.43 44.29 3.01
3410 3640 3.509967 GGGTTATATGGTATGGCTTTGGC 59.490 47.826 0.00 0.00 37.82 4.52
3434 3664 7.201496 GGCACTTCTGCATTTTGATTATTGAAG 60.201 37.037 0.00 0.00 46.28 3.02
3455 3685 9.695526 TTGAAGTCCATCATGTATTTTCTTTTG 57.304 29.630 0.00 0.00 0.00 2.44
3486 3716 8.818141 TTAAGATCGAACTATATTTCTGCTGG 57.182 34.615 0.00 0.00 0.00 4.85
3493 3723 2.283143 ATATTTCTGCTGGCGGGCCA 62.283 55.000 12.54 12.54 45.02 5.36
3510 3740 2.562738 GGCCACAGACTAAAATGCCTTT 59.437 45.455 0.00 0.00 34.61 3.11
3541 3771 1.094785 GTCGGCTTGTTGCATACCAT 58.905 50.000 0.00 0.00 45.15 3.55
3544 3774 1.202114 CGGCTTGTTGCATACCATTGT 59.798 47.619 0.00 0.00 45.15 2.71
3551 3781 3.687212 TGTTGCATACCATTGTCCTTACG 59.313 43.478 0.00 0.00 0.00 3.18
3555 3785 5.189928 TGCATACCATTGTCCTTACGAATT 58.810 37.500 0.00 0.00 0.00 2.17
3557 3787 6.995686 TGCATACCATTGTCCTTACGAATTAT 59.004 34.615 0.00 0.00 0.00 1.28
3567 3797 8.234136 TGTCCTTACGAATTATCTATGACACT 57.766 34.615 0.00 0.00 0.00 3.55
3605 3835 3.418684 ACCAAGTCCAATAGCGTTTCT 57.581 42.857 0.00 0.00 0.00 2.52
3614 3844 5.638234 GTCCAATAGCGTTTCTTCAACTACT 59.362 40.000 0.00 0.00 32.53 2.57
3633 3863 5.770162 ACTACTTTGTAGCTTGCCTTTTGAT 59.230 36.000 0.00 0.00 0.00 2.57
3637 3867 4.255833 TGTAGCTTGCCTTTTGATTTGG 57.744 40.909 0.00 0.00 0.00 3.28
3641 3871 4.886579 AGCTTGCCTTTTGATTTGGTTAG 58.113 39.130 0.00 0.00 0.00 2.34
3650 3880 8.884726 GCCTTTTGATTTGGTTAGTTTGTTTAA 58.115 29.630 0.00 0.00 0.00 1.52
3705 3935 8.601476 GTTGAGTTATAAAATTCGTAGGGACAG 58.399 37.037 0.00 0.00 0.00 3.51
3717 3947 4.051922 CGTAGGGACAGCAATCAGATAAC 58.948 47.826 0.00 0.00 0.00 1.89
3739 3973 7.881775 AACCAATAAGTTCACTCAACTCTTT 57.118 32.000 0.00 0.00 45.32 2.52
3740 3974 7.881775 ACCAATAAGTTCACTCAACTCTTTT 57.118 32.000 0.00 0.00 45.32 2.27
3741 3975 8.293699 ACCAATAAGTTCACTCAACTCTTTTT 57.706 30.769 0.00 0.00 45.32 1.94
3883 4117 5.931441 AGCTACTGAACATTTTCTGTGAC 57.069 39.130 12.77 6.16 42.21 3.67
3902 4136 3.006430 TGACTTCGAGTCCTTTGTGCATA 59.994 43.478 11.01 0.00 44.44 3.14
4033 4267 3.490933 GGAACAAAGTGGTGAAAAGGCTC 60.491 47.826 0.00 0.00 0.00 4.70
4040 4274 0.255033 GGTGAAAAGGCTCCGGGTAT 59.745 55.000 0.00 0.00 0.00 2.73
4070 4306 1.467734 CTCCTGCAACTCAAGTCATGC 59.532 52.381 0.82 0.82 39.22 4.06
4071 4307 0.524862 CCTGCAACTCAAGTCATGCC 59.475 55.000 4.78 0.00 38.00 4.40
4085 4321 3.951037 AGTCATGCCAAACAAACAGTGTA 59.049 39.130 0.00 0.00 40.60 2.90
4101 4337 7.611213 AACAGTGTAGCATTTTACCTGATAC 57.389 36.000 0.00 0.00 36.33 2.24
4166 4404 5.945784 TGAGGAGTTGCTAAGTTTTATGCAT 59.054 36.000 3.79 3.79 35.27 3.96
4169 4407 6.030228 GGAGTTGCTAAGTTTTATGCATCAC 58.970 40.000 0.19 0.00 35.27 3.06
4174 4416 8.427774 GTTGCTAAGTTTTATGCATCACTTTTC 58.572 33.333 18.80 13.19 35.27 2.29
4187 4433 9.635520 ATGCATCACTTTTCAAGAAAATCTTAG 57.364 29.630 8.28 0.02 39.29 2.18
4224 4470 9.630098 CTTTAGCATGAAAATTGACTTGTATGT 57.370 29.630 0.00 0.00 0.00 2.29
4237 4484 3.131755 ACTTGTATGTACTAAGCGGGGAC 59.868 47.826 0.00 0.00 0.00 4.46
4259 4506 3.664107 TGTTGCCTTGATCTGTACTGTC 58.336 45.455 0.00 0.00 0.00 3.51
4278 4526 7.553504 ACTGTCCATATAAGTGCATACCATA 57.446 36.000 0.00 0.00 0.00 2.74
4291 4539 9.807649 AAGTGCATACCATATTTCAATTCTTTC 57.192 29.630 0.00 0.00 0.00 2.62
4321 4569 4.782691 TCAAAGATAAGGGTCCTCATCACA 59.217 41.667 3.21 0.00 0.00 3.58
4340 4596 5.518812 TCACAAAATTCATCAACAGAACCG 58.481 37.500 0.00 0.00 0.00 4.44
4345 4601 5.964958 AATTCATCAACAGAACCGTGAAT 57.035 34.783 0.00 0.00 37.76 2.57
4358 4614 8.041323 ACAGAACCGTGAATGAGAAATACTTAT 58.959 33.333 0.00 0.00 0.00 1.73
4359 4615 9.529325 CAGAACCGTGAATGAGAAATACTTATA 57.471 33.333 0.00 0.00 0.00 0.98
4389 4645 1.233950 TGCCATGTACCGCACACTTG 61.234 55.000 0.00 0.00 40.86 3.16
4390 4646 1.501741 CCATGTACCGCACACTTGC 59.498 57.895 0.00 0.00 46.21 4.01
4404 4687 3.058708 CACACTTGCTCACGAATTCACAT 60.059 43.478 6.22 0.00 0.00 3.21
4451 4735 6.426980 TCATGATGTGTTTTGATAGTCTGC 57.573 37.500 0.00 0.00 0.00 4.26
4596 4880 3.313526 CCTGCAGGTAATGTATTGAGCAC 59.686 47.826 25.53 0.00 0.00 4.40
4604 4888 8.184192 CAGGTAATGTATTGAGCACCTTTTTAG 58.816 37.037 0.00 0.00 34.18 1.85
4606 4890 4.678509 TGTATTGAGCACCTTTTTAGCG 57.321 40.909 0.00 0.00 0.00 4.26
4607 4891 3.438781 TGTATTGAGCACCTTTTTAGCGG 59.561 43.478 0.00 0.00 0.00 5.52
4608 4892 0.596082 TTGAGCACCTTTTTAGCGGC 59.404 50.000 0.00 0.00 0.00 6.53
4620 4904 5.639082 CCTTTTTAGCGGCTGAATTGATTTT 59.361 36.000 13.86 0.00 0.00 1.82
4769 5057 6.164176 ACGTAGGGTTGTTCTGAATTCTTAG 58.836 40.000 7.05 0.00 0.00 2.18
4774 5062 5.586643 GGGTTGTTCTGAATTCTTAGCCTAG 59.413 44.000 7.05 0.00 0.00 3.02
4886 5203 0.105658 TTCCCCTCCCGTCATCTAGG 60.106 60.000 0.00 0.00 0.00 3.02
4899 5216 6.346096 CCGTCATCTAGGGAAGACAATAAAA 58.654 40.000 0.00 0.00 39.34 1.52
4969 5323 6.486248 TGTTCGCATGTCTCTAAATTTATGC 58.514 36.000 10.13 10.13 37.98 3.14
5071 5427 3.000041 TGAACGCCAGTGACATGTAATC 59.000 45.455 0.00 0.00 0.00 1.75
5074 5430 1.406751 CGCCAGTGACATGTAATCCCA 60.407 52.381 0.00 0.00 0.00 4.37
5083 5439 5.009010 GTGACATGTAATCCCAATAAGCAGG 59.991 44.000 0.00 0.00 0.00 4.85
5089 5445 1.823899 CCCAATAAGCAGGTCCGCC 60.824 63.158 2.61 0.00 0.00 6.13
5101 5457 0.893727 GGTCCGCCAACATGTTTCCT 60.894 55.000 8.77 0.00 34.09 3.36
5105 5461 1.068434 CCGCCAACATGTTTCCTGTTT 59.932 47.619 8.77 0.00 34.69 2.83
5107 5463 2.794350 CGCCAACATGTTTCCTGTTTTC 59.206 45.455 8.77 0.00 34.69 2.29
5184 5540 1.141053 ACCAACTGGAAGGACTGTGAC 59.859 52.381 1.86 0.00 39.30 3.67
5276 5632 6.312529 TCCTTACTCTCTGAAGTCTTTACCA 58.687 40.000 0.00 0.00 0.00 3.25
5291 5647 3.788227 TTACCAACTCAGGCACTCAAT 57.212 42.857 0.00 0.00 34.60 2.57
5320 5676 7.893833 TGGCTCTATACTAAACTATGCTCCATA 59.106 37.037 0.00 0.00 0.00 2.74
5322 5678 8.740906 GCTCTATACTAAACTATGCTCCATACA 58.259 37.037 0.00 0.00 0.00 2.29
5329 5685 9.765795 ACTAAACTATGCTCCATACAATAGTTC 57.234 33.333 7.23 0.00 34.80 3.01
5330 5686 7.715265 AAACTATGCTCCATACAATAGTTCG 57.285 36.000 7.23 0.00 34.80 3.95
5331 5687 6.650427 ACTATGCTCCATACAATAGTTCGA 57.350 37.500 0.00 0.00 0.00 3.71
5332 5688 7.233389 ACTATGCTCCATACAATAGTTCGAT 57.767 36.000 0.00 0.00 0.00 3.59
5333 5689 8.349568 ACTATGCTCCATACAATAGTTCGATA 57.650 34.615 0.00 0.00 0.00 2.92
5334 5690 8.803235 ACTATGCTCCATACAATAGTTCGATAA 58.197 33.333 0.00 0.00 0.00 1.75
5335 5691 9.295214 CTATGCTCCATACAATAGTTCGATAAG 57.705 37.037 0.00 0.00 0.00 1.73
5336 5692 7.284919 TGCTCCATACAATAGTTCGATAAGA 57.715 36.000 0.00 0.00 0.00 2.10
5337 5693 7.896811 TGCTCCATACAATAGTTCGATAAGAT 58.103 34.615 0.00 0.00 0.00 2.40
5338 5694 7.814587 TGCTCCATACAATAGTTCGATAAGATG 59.185 37.037 0.00 0.00 0.00 2.90
5339 5695 7.276658 GCTCCATACAATAGTTCGATAAGATGG 59.723 40.741 0.00 0.00 33.00 3.51
5340 5696 8.190326 TCCATACAATAGTTCGATAAGATGGT 57.810 34.615 0.00 0.00 33.40 3.55
5341 5697 8.647796 TCCATACAATAGTTCGATAAGATGGTT 58.352 33.333 0.00 0.00 33.40 3.67
5342 5698 8.712363 CCATACAATAGTTCGATAAGATGGTTG 58.288 37.037 0.00 0.00 0.00 3.77
5343 5699 9.261180 CATACAATAGTTCGATAAGATGGTTGT 57.739 33.333 0.00 0.00 0.00 3.32
5344 5700 7.539712 ACAATAGTTCGATAAGATGGTTGTG 57.460 36.000 0.00 0.00 0.00 3.33
5345 5701 7.103641 ACAATAGTTCGATAAGATGGTTGTGT 58.896 34.615 0.00 0.00 0.00 3.72
5346 5702 8.255206 ACAATAGTTCGATAAGATGGTTGTGTA 58.745 33.333 0.00 0.00 0.00 2.90
5347 5703 9.093970 CAATAGTTCGATAAGATGGTTGTGTAA 57.906 33.333 0.00 0.00 0.00 2.41
5348 5704 9.661563 AATAGTTCGATAAGATGGTTGTGTAAA 57.338 29.630 0.00 0.00 0.00 2.01
5349 5705 7.972832 AGTTCGATAAGATGGTTGTGTAAAA 57.027 32.000 0.00 0.00 0.00 1.52
5350 5706 7.803724 AGTTCGATAAGATGGTTGTGTAAAAC 58.196 34.615 0.00 0.00 0.00 2.43
5388 5747 9.343539 CTTAGGATTCTAGTTTATTTCCCCAAG 57.656 37.037 0.00 0.00 0.00 3.61
5402 5761 7.881775 ATTTCCCCAAGACTGTTAACATATC 57.118 36.000 9.13 10.03 0.00 1.63
5409 5768 5.916661 AGACTGTTAACATATCGTCACCT 57.083 39.130 21.14 4.94 0.00 4.00
5410 5769 7.255569 CAAGACTGTTAACATATCGTCACCTA 58.744 38.462 21.14 0.00 0.00 3.08
5414 5783 7.033791 ACTGTTAACATATCGTCACCTAGTTG 58.966 38.462 9.13 0.00 0.00 3.16
5422 5791 8.516234 ACATATCGTCACCTAGTTGATAAGATC 58.484 37.037 8.38 0.00 0.00 2.75
5431 5800 7.921214 CACCTAGTTGATAAGATCGTTGTGTAT 59.079 37.037 0.00 0.00 0.00 2.29
5453 5822 9.961265 TGTATAACCTAGTTCGATGTCAATTAG 57.039 33.333 0.00 0.00 0.00 1.73
5456 5825 7.829378 AACCTAGTTCGATGTCAATTAGTTC 57.171 36.000 0.00 0.00 0.00 3.01
5490 5874 5.009510 TCTGTTCACATTTACATGGTTGTGG 59.990 40.000 15.15 4.57 39.86 4.17
5667 6056 3.609853 TGCAGTGATTCCAGTAACATCC 58.390 45.455 0.00 0.00 0.00 3.51
5746 6135 4.322725 GGTATGATGATGATGGCGAGGTAA 60.323 45.833 0.00 0.00 0.00 2.85
5843 6237 6.540189 GTGCATAATTTGTACATCCTCAGACT 59.460 38.462 0.00 0.00 40.35 3.24
5862 6258 7.801104 TCAGACTATCATATGTTTTGGCCTTA 58.199 34.615 3.32 0.00 0.00 2.69
5902 6321 5.836358 GGAACCTCTGTCCTTATAGTCTGAT 59.164 44.000 0.00 0.00 0.00 2.90
5926 6347 3.264193 AGTCTTGCAATCTGTGATACCCA 59.736 43.478 0.00 0.00 0.00 4.51
5975 6432 5.981088 TTTTGATTTCTAGCTTGCCATGA 57.019 34.783 0.00 0.00 0.00 3.07
5981 6438 1.136305 TCTAGCTTGCCATGACGGTAC 59.864 52.381 0.00 0.00 36.97 3.34
5997 7722 5.047590 TGACGGTACCTTGCTATATACATGG 60.048 44.000 10.90 11.99 38.11 3.66
6055 9223 5.941948 AGTTGTGTTCTATGTGCCTTTAC 57.058 39.130 0.00 0.00 0.00 2.01
6084 9252 6.761242 GCAACCTTTGTGTTCTCCTTTATTTT 59.239 34.615 0.00 0.00 0.00 1.82
6362 9558 1.272212 GTCGCCCACAATTGGTTTCAT 59.728 47.619 10.83 0.00 42.10 2.57
6378 9574 2.584492 TCATACACGACCAGCATCAG 57.416 50.000 0.00 0.00 0.00 2.90
6379 9575 2.099405 TCATACACGACCAGCATCAGA 58.901 47.619 0.00 0.00 0.00 3.27
6380 9576 2.099756 TCATACACGACCAGCATCAGAG 59.900 50.000 0.00 0.00 0.00 3.35
6382 9578 0.969149 ACACGACCAGCATCAGAGAA 59.031 50.000 0.00 0.00 0.00 2.87
6413 9610 3.402110 TCACCAATGCAGTCAGTAGTTG 58.598 45.455 0.00 0.00 0.00 3.16
6426 9623 2.802816 CAGTAGTTGAAGCTCCACACAC 59.197 50.000 0.00 0.00 0.00 3.82
6498 9699 0.463833 GGCACCAATCCCCTAAGACG 60.464 60.000 0.00 0.00 0.00 4.18
6567 9769 4.682787 GGCACTGCCTGTTAAATTAATCC 58.317 43.478 13.28 0.00 46.69 3.01
6614 9816 5.462068 CGAATTTCAGCATCCGTCTTATACA 59.538 40.000 0.00 0.00 0.00 2.29
6635 9847 6.308015 ACACCATTTATAGCAAGTACTCCA 57.692 37.500 0.00 0.00 0.00 3.86
6638 9850 7.147479 ACACCATTTATAGCAAGTACTCCATCT 60.147 37.037 0.00 0.00 0.00 2.90
6641 9853 8.367911 CCATTTATAGCAAGTACTCCATCTGTA 58.632 37.037 0.00 0.00 0.00 2.74
6642 9854 9.764363 CATTTATAGCAAGTACTCCATCTGTAA 57.236 33.333 0.00 0.00 0.00 2.41
6644 9856 9.817809 TTTATAGCAAGTACTCCATCTGTAAAG 57.182 33.333 0.00 0.00 0.00 1.85
6657 9869 8.818141 TCCATCTGTAAAGAAATATAAGAGCG 57.182 34.615 0.00 0.00 0.00 5.03
6675 9887 4.035278 AGCGTTTAGATCACTACAGAGC 57.965 45.455 0.00 0.00 0.00 4.09
6678 9890 4.413087 CGTTTAGATCACTACAGAGCGTT 58.587 43.478 0.00 0.00 0.00 4.84
6679 9891 4.857588 CGTTTAGATCACTACAGAGCGTTT 59.142 41.667 0.00 0.00 0.00 3.60
6681 9893 6.194876 CGTTTAGATCACTACAGAGCGTTTAG 59.805 42.308 0.00 0.00 0.00 1.85
6684 9896 6.067263 AGATCACTACAGAGCGTTTAGATC 57.933 41.667 0.00 0.00 35.01 2.75
6685 9897 5.590663 AGATCACTACAGAGCGTTTAGATCA 59.409 40.000 0.00 0.00 37.82 2.92
6689 9901 6.373495 TCACTACAGAGCGTTTAGATCACTAA 59.627 38.462 0.00 0.00 37.82 2.24
6691 9903 7.219154 CACTACAGAGCGTTTAGATCACTAAAG 59.781 40.741 0.00 0.00 45.42 1.85
6692 9904 6.026947 ACAGAGCGTTTAGATCACTAAAGT 57.973 37.500 0.00 0.00 45.42 2.66
6693 9905 7.154435 ACAGAGCGTTTAGATCACTAAAGTA 57.846 36.000 0.00 0.00 45.42 2.24
6694 9906 7.251994 ACAGAGCGTTTAGATCACTAAAGTAG 58.748 38.462 0.00 0.00 45.42 2.57
6695 9907 7.094291 ACAGAGCGTTTAGATCACTAAAGTAGT 60.094 37.037 0.00 0.00 45.42 2.73
6710 9922 8.828688 ACTAAAGTAGTGATCTAAACGCTTTT 57.171 30.769 10.23 0.00 37.69 2.27
6734 9946 8.773033 TTATATTTCTTTACGGAGGGAGTAGT 57.227 34.615 0.00 0.00 0.00 2.73
6816 10048 5.046910 CATCCGTTGCAACATTAGTCTTT 57.953 39.130 28.01 0.60 0.00 2.52
6841 10073 1.961133 TCTCGGAACCAGGGGTTATT 58.039 50.000 0.00 0.00 46.95 1.40
6939 10229 3.652057 ACTTCAATGGGATCCGAATGT 57.348 42.857 11.17 4.68 0.00 2.71
6951 10241 5.244178 GGGATCCGAATGTAGATACTGTTCT 59.756 44.000 5.45 0.00 0.00 3.01
6963 10253 8.675504 TGTAGATACTGTTCTTAGCTGTTAGAC 58.324 37.037 0.00 0.00 0.00 2.59
6966 10256 9.409918 AGATACTGTTCTTAGCTGTTAGACATA 57.590 33.333 0.00 0.00 0.00 2.29
6978 10268 4.665212 TGTTAGACATAGACGCCTTAACG 58.335 43.478 0.00 0.00 39.50 3.18
7000 10290 0.188342 ACCAAATGGCTGGAGTGGTT 59.812 50.000 0.00 0.00 39.59 3.67
7015 10305 1.654105 GTGGTTAACTGACGCTCATCG 59.346 52.381 5.42 0.00 45.38 3.84
7169 10610 8.704849 TTAATGTAACCTAATCCATTCCCATG 57.295 34.615 0.00 0.00 0.00 3.66
7208 10649 6.127758 GCCTCCATAGTATGATAGTCTGTCTG 60.128 46.154 11.91 0.00 0.00 3.51
7212 10653 7.880713 TCCATAGTATGATAGTCTGTCTGTCTC 59.119 40.741 11.91 0.00 35.69 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.899019 TCCAAATCACCGATGACCGA 59.101 50.000 0.00 0.00 41.76 4.69
1 2 1.867233 GATCCAAATCACCGATGACCG 59.133 52.381 0.00 0.00 37.79 4.79
10 11 7.861595 TCGTACTCGTCGTGATCCAAATCAC 62.862 48.000 8.20 8.20 45.52 3.06
11 12 3.729762 CGTACTCGTCGTGATCCAAATCA 60.730 47.826 0.56 0.00 39.63 2.57
12 13 2.782192 CGTACTCGTCGTGATCCAAATC 59.218 50.000 0.56 0.00 0.00 2.17
13 14 2.421073 TCGTACTCGTCGTGATCCAAAT 59.579 45.455 0.56 0.00 38.33 2.32
14 15 1.805943 TCGTACTCGTCGTGATCCAAA 59.194 47.619 0.56 0.00 38.33 3.28
15 16 1.129251 GTCGTACTCGTCGTGATCCAA 59.871 52.381 0.56 0.00 38.33 3.53
16 17 0.723414 GTCGTACTCGTCGTGATCCA 59.277 55.000 0.56 0.00 38.33 3.41
17 18 1.005137 GAGTCGTACTCGTCGTGATCC 60.005 57.143 0.56 0.00 35.28 3.36
18 19 1.005137 GGAGTCGTACTCGTCGTGATC 60.005 57.143 0.56 0.00 45.96 2.92
19 20 1.005340 GGAGTCGTACTCGTCGTGAT 58.995 55.000 0.56 0.00 45.96 3.06
20 21 0.319813 TGGAGTCGTACTCGTCGTGA 60.320 55.000 0.56 0.00 45.96 4.35
21 22 0.725686 ATGGAGTCGTACTCGTCGTG 59.274 55.000 8.33 0.00 45.96 4.35
22 23 1.005340 GATGGAGTCGTACTCGTCGT 58.995 55.000 8.33 0.00 45.96 4.34
23 24 1.004595 TGATGGAGTCGTACTCGTCG 58.995 55.000 8.33 0.00 45.96 5.12
24 25 2.477525 GGTTGATGGAGTCGTACTCGTC 60.478 54.545 8.33 9.13 45.96 4.20
25 26 1.471684 GGTTGATGGAGTCGTACTCGT 59.528 52.381 8.33 1.85 45.96 4.18
26 27 1.202268 GGGTTGATGGAGTCGTACTCG 60.202 57.143 8.33 0.00 45.96 4.18
27 28 2.100989 AGGGTTGATGGAGTCGTACTC 58.899 52.381 6.50 6.50 44.32 2.59
28 29 1.825474 CAGGGTTGATGGAGTCGTACT 59.175 52.381 0.00 0.00 0.00 2.73
29 30 1.549170 ACAGGGTTGATGGAGTCGTAC 59.451 52.381 0.00 0.00 0.00 3.67
30 31 1.933021 ACAGGGTTGATGGAGTCGTA 58.067 50.000 0.00 0.00 0.00 3.43
31 32 1.002087 GAACAGGGTTGATGGAGTCGT 59.998 52.381 0.00 0.00 0.00 4.34
32 33 1.001974 TGAACAGGGTTGATGGAGTCG 59.998 52.381 0.00 0.00 0.00 4.18
33 34 2.039084 AGTGAACAGGGTTGATGGAGTC 59.961 50.000 0.00 0.00 0.00 3.36
34 35 2.057922 AGTGAACAGGGTTGATGGAGT 58.942 47.619 0.00 0.00 0.00 3.85
35 36 2.816087 CAAGTGAACAGGGTTGATGGAG 59.184 50.000 0.00 0.00 0.00 3.86
36 37 2.441375 TCAAGTGAACAGGGTTGATGGA 59.559 45.455 0.00 0.00 0.00 3.41
37 38 2.862541 TCAAGTGAACAGGGTTGATGG 58.137 47.619 0.00 0.00 0.00 3.51
38 39 4.801891 CATTCAAGTGAACAGGGTTGATG 58.198 43.478 0.00 0.00 36.80 3.07
39 40 3.256631 GCATTCAAGTGAACAGGGTTGAT 59.743 43.478 0.00 0.00 36.80 2.57
40 41 2.622942 GCATTCAAGTGAACAGGGTTGA 59.377 45.455 0.00 0.00 36.80 3.18
41 42 2.624838 AGCATTCAAGTGAACAGGGTTG 59.375 45.455 0.00 0.00 36.80 3.77
42 43 2.949447 AGCATTCAAGTGAACAGGGTT 58.051 42.857 0.00 0.00 36.80 4.11
43 44 2.664402 AGCATTCAAGTGAACAGGGT 57.336 45.000 0.00 0.00 36.80 4.34
44 45 3.565905 GAAGCATTCAAGTGAACAGGG 57.434 47.619 0.00 0.00 46.62 4.45
61 62 0.248498 TTGTAGATCGCGAGCGGAAG 60.248 55.000 19.77 0.00 40.25 3.46
62 63 0.248498 CTTGTAGATCGCGAGCGGAA 60.248 55.000 19.77 11.67 40.25 4.30
63 64 1.355563 CTTGTAGATCGCGAGCGGA 59.644 57.895 19.77 8.43 40.25 5.54
64 65 1.658717 CCTTGTAGATCGCGAGCGG 60.659 63.158 19.77 9.89 40.25 5.52
65 66 1.658717 CCCTTGTAGATCGCGAGCG 60.659 63.158 19.77 11.64 41.35 5.03
66 67 0.666913 TACCCTTGTAGATCGCGAGC 59.333 55.000 18.21 18.21 0.00 5.03
67 68 2.293677 ACATACCCTTGTAGATCGCGAG 59.706 50.000 16.66 0.00 0.00 5.03
68 69 2.304092 ACATACCCTTGTAGATCGCGA 58.696 47.619 13.09 13.09 0.00 5.87
69 70 2.795175 ACATACCCTTGTAGATCGCG 57.205 50.000 0.00 0.00 0.00 5.87
75 76 6.551601 AGGAGTTCATCTACATACCCTTGTAG 59.448 42.308 5.47 5.47 46.85 2.74
76 77 6.441222 AGGAGTTCATCTACATACCCTTGTA 58.559 40.000 0.00 0.00 0.00 2.41
77 78 5.281314 AGGAGTTCATCTACATACCCTTGT 58.719 41.667 0.00 0.00 0.00 3.16
78 79 5.878406 AGGAGTTCATCTACATACCCTTG 57.122 43.478 0.00 0.00 0.00 3.61
79 80 5.367060 GGAAGGAGTTCATCTACATACCCTT 59.633 44.000 0.00 0.00 33.93 3.95
80 81 4.902448 GGAAGGAGTTCATCTACATACCCT 59.098 45.833 0.00 0.00 33.93 4.34
81 82 4.902448 AGGAAGGAGTTCATCTACATACCC 59.098 45.833 0.00 0.00 33.93 3.69
82 83 6.325286 AGAAGGAAGGAGTTCATCTACATACC 59.675 42.308 0.00 0.00 31.85 2.73
83 84 7.354751 AGAAGGAAGGAGTTCATCTACATAC 57.645 40.000 0.00 0.00 31.85 2.39
84 85 6.263392 CGAGAAGGAAGGAGTTCATCTACATA 59.737 42.308 0.00 0.00 33.07 2.29
85 86 5.068460 CGAGAAGGAAGGAGTTCATCTACAT 59.932 44.000 0.00 0.00 33.07 2.29
86 87 4.399618 CGAGAAGGAAGGAGTTCATCTACA 59.600 45.833 0.00 0.00 33.07 2.74
87 88 4.399934 ACGAGAAGGAAGGAGTTCATCTAC 59.600 45.833 0.00 0.00 33.07 2.59
88 89 4.601084 ACGAGAAGGAAGGAGTTCATCTA 58.399 43.478 0.00 0.00 33.07 1.98
89 90 3.436243 ACGAGAAGGAAGGAGTTCATCT 58.564 45.455 0.00 0.00 34.68 2.90
90 91 3.878160 ACGAGAAGGAAGGAGTTCATC 57.122 47.619 0.00 0.00 33.93 2.92
91 92 3.866449 GCAACGAGAAGGAAGGAGTTCAT 60.866 47.826 0.00 0.00 33.93 2.57
92 93 2.548067 GCAACGAGAAGGAAGGAGTTCA 60.548 50.000 0.00 0.00 33.93 3.18
93 94 2.070028 GCAACGAGAAGGAAGGAGTTC 58.930 52.381 0.00 0.00 0.00 3.01
94 95 1.694696 AGCAACGAGAAGGAAGGAGTT 59.305 47.619 0.00 0.00 0.00 3.01
95 96 1.343069 AGCAACGAGAAGGAAGGAGT 58.657 50.000 0.00 0.00 0.00 3.85
96 97 2.494073 ACTAGCAACGAGAAGGAAGGAG 59.506 50.000 0.00 0.00 0.00 3.69
97 98 2.526432 ACTAGCAACGAGAAGGAAGGA 58.474 47.619 0.00 0.00 0.00 3.36
98 99 4.451629 TTACTAGCAACGAGAAGGAAGG 57.548 45.455 0.00 0.00 0.00 3.46
99 100 5.471257 AGTTTACTAGCAACGAGAAGGAAG 58.529 41.667 0.00 0.00 0.00 3.46
100 101 5.464030 AGTTTACTAGCAACGAGAAGGAA 57.536 39.130 0.00 0.00 0.00 3.36
101 102 4.082354 GGAGTTTACTAGCAACGAGAAGGA 60.082 45.833 0.00 0.00 0.00 3.36
102 103 4.174762 GGAGTTTACTAGCAACGAGAAGG 58.825 47.826 0.00 0.00 0.00 3.46
103 104 4.806330 TGGAGTTTACTAGCAACGAGAAG 58.194 43.478 0.00 0.00 0.00 2.85
104 105 4.859304 TGGAGTTTACTAGCAACGAGAA 57.141 40.909 0.00 0.00 0.00 2.87
105 106 5.884232 TCTATGGAGTTTACTAGCAACGAGA 59.116 40.000 0.00 0.00 0.00 4.04
106 107 6.132791 TCTATGGAGTTTACTAGCAACGAG 57.867 41.667 0.00 0.00 0.00 4.18
107 108 6.504398 CATCTATGGAGTTTACTAGCAACGA 58.496 40.000 0.00 0.00 0.00 3.85
108 109 6.755461 CATCTATGGAGTTTACTAGCAACG 57.245 41.667 0.00 0.00 0.00 4.10
124 125 3.683340 CGCATCACCAAGATCCATCTATG 59.317 47.826 0.00 0.00 35.76 2.23
125 126 3.326006 ACGCATCACCAAGATCCATCTAT 59.674 43.478 0.00 0.00 35.76 1.98
126 127 2.700371 ACGCATCACCAAGATCCATCTA 59.300 45.455 0.00 0.00 35.76 1.98
127 128 1.487976 ACGCATCACCAAGATCCATCT 59.512 47.619 0.00 0.00 39.22 2.90
128 129 1.959042 ACGCATCACCAAGATCCATC 58.041 50.000 0.00 0.00 33.72 3.51
129 130 2.700371 TCTACGCATCACCAAGATCCAT 59.300 45.455 0.00 0.00 33.72 3.41
130 131 2.107366 TCTACGCATCACCAAGATCCA 58.893 47.619 0.00 0.00 33.72 3.41
131 132 2.890808 TCTACGCATCACCAAGATCC 57.109 50.000 0.00 0.00 33.72 3.36
132 133 5.741388 AATTTCTACGCATCACCAAGATC 57.259 39.130 0.00 0.00 33.72 2.75
133 134 6.515272 AAAATTTCTACGCATCACCAAGAT 57.485 33.333 0.00 0.00 37.48 2.40
134 135 5.957842 AAAATTTCTACGCATCACCAAGA 57.042 34.783 0.00 0.00 0.00 3.02
154 155 4.398044 GGGGATCGTAGCAGAAATCAAAAA 59.602 41.667 0.00 0.00 0.00 1.94
155 156 3.945285 GGGGATCGTAGCAGAAATCAAAA 59.055 43.478 0.00 0.00 0.00 2.44
156 157 3.054728 TGGGGATCGTAGCAGAAATCAAA 60.055 43.478 0.00 0.00 0.00 2.69
157 158 2.503765 TGGGGATCGTAGCAGAAATCAA 59.496 45.455 0.00 0.00 0.00 2.57
158 159 2.115427 TGGGGATCGTAGCAGAAATCA 58.885 47.619 0.00 0.00 0.00 2.57
159 160 2.872858 GTTGGGGATCGTAGCAGAAATC 59.127 50.000 0.00 0.00 0.00 2.17
160 161 2.238646 TGTTGGGGATCGTAGCAGAAAT 59.761 45.455 0.00 0.00 0.00 2.17
161 162 1.626321 TGTTGGGGATCGTAGCAGAAA 59.374 47.619 0.00 0.00 0.00 2.52
162 163 1.207089 CTGTTGGGGATCGTAGCAGAA 59.793 52.381 0.00 0.00 0.00 3.02
163 164 0.824109 CTGTTGGGGATCGTAGCAGA 59.176 55.000 0.00 0.00 0.00 4.26
164 165 0.824109 TCTGTTGGGGATCGTAGCAG 59.176 55.000 0.00 0.00 0.00 4.24
165 166 1.138859 CATCTGTTGGGGATCGTAGCA 59.861 52.381 0.00 0.00 0.00 3.49
166 167 1.871080 CATCTGTTGGGGATCGTAGC 58.129 55.000 0.00 0.00 0.00 3.58
167 168 1.138859 TGCATCTGTTGGGGATCGTAG 59.861 52.381 0.00 0.00 0.00 3.51
168 169 1.134521 GTGCATCTGTTGGGGATCGTA 60.135 52.381 0.00 0.00 0.00 3.43
169 170 0.392998 GTGCATCTGTTGGGGATCGT 60.393 55.000 0.00 0.00 0.00 3.73
170 171 1.097547 GGTGCATCTGTTGGGGATCG 61.098 60.000 0.00 0.00 0.00 3.69
171 172 0.034186 TGGTGCATCTGTTGGGGATC 60.034 55.000 0.00 0.00 0.00 3.36
172 173 0.632835 ATGGTGCATCTGTTGGGGAT 59.367 50.000 0.00 0.00 0.00 3.85
173 174 0.034186 GATGGTGCATCTGTTGGGGA 60.034 55.000 0.00 0.00 37.82 4.81
174 175 2.496942 GATGGTGCATCTGTTGGGG 58.503 57.895 0.00 0.00 37.82 4.96
234 235 2.322830 GGGAGGTTTTGTCGTCCGC 61.323 63.158 0.00 0.00 41.55 5.54
235 236 0.949105 CAGGGAGGTTTTGTCGTCCG 60.949 60.000 0.00 0.00 41.55 4.79
378 379 2.828877 TCGTGTGTTTGTCGATCCTTT 58.171 42.857 0.00 0.00 0.00 3.11
675 694 3.635373 TCCTAGCCGGTTAGAATACACAG 59.365 47.826 25.38 7.20 0.00 3.66
683 702 4.028131 TGAAAGAATCCTAGCCGGTTAGA 58.972 43.478 25.38 12.45 0.00 2.10
684 703 4.402056 TGAAAGAATCCTAGCCGGTTAG 57.598 45.455 17.81 17.81 0.00 2.34
685 704 4.703897 CATGAAAGAATCCTAGCCGGTTA 58.296 43.478 1.90 0.00 0.00 2.85
686 705 3.545703 CATGAAAGAATCCTAGCCGGTT 58.454 45.455 1.90 0.00 0.00 4.44
687 706 2.746472 GCATGAAAGAATCCTAGCCGGT 60.746 50.000 1.90 0.00 0.00 5.28
688 707 1.876156 GCATGAAAGAATCCTAGCCGG 59.124 52.381 0.00 0.00 0.00 6.13
689 708 2.564771 TGCATGAAAGAATCCTAGCCG 58.435 47.619 0.00 0.00 0.00 5.52
690 709 3.243334 GCTTGCATGAAAGAATCCTAGCC 60.243 47.826 18.26 0.00 0.00 3.93
691 710 3.379372 TGCTTGCATGAAAGAATCCTAGC 59.621 43.478 18.26 0.00 0.00 3.42
692 711 4.036498 CCTGCTTGCATGAAAGAATCCTAG 59.964 45.833 18.26 4.79 0.00 3.02
693 712 3.949754 CCTGCTTGCATGAAAGAATCCTA 59.050 43.478 18.26 0.00 0.00 2.94
694 713 2.758979 CCTGCTTGCATGAAAGAATCCT 59.241 45.455 18.26 0.00 0.00 3.24
697 716 3.192844 CAGACCTGCTTGCATGAAAGAAT 59.807 43.478 18.26 0.00 0.00 2.40
795 815 1.691196 AGAAGCCCAGATCTCTCGAG 58.309 55.000 5.93 5.93 0.00 4.04
796 816 2.028130 GAAGAAGCCCAGATCTCTCGA 58.972 52.381 0.00 0.00 0.00 4.04
799 819 0.463620 GCGAAGAAGCCCAGATCTCT 59.536 55.000 0.00 0.00 0.00 3.10
807 827 3.435186 GTGGCAGCGAAGAAGCCC 61.435 66.667 0.00 0.00 46.12 5.19
1030 1060 4.173924 GAGGAGCAGGAGCAGGGC 62.174 72.222 0.00 0.00 45.49 5.19
1031 1061 3.847602 CGAGGAGCAGGAGCAGGG 61.848 72.222 0.00 0.00 45.49 4.45
1032 1062 3.847602 CCGAGGAGCAGGAGCAGG 61.848 72.222 0.00 0.00 45.49 4.85
1033 1063 4.527583 GCCGAGGAGCAGGAGCAG 62.528 72.222 0.00 0.00 45.49 4.24
1036 1066 3.535962 GAGGCCGAGGAGCAGGAG 61.536 72.222 0.00 0.00 0.00 3.69
1173 1212 4.421479 CGCTCCTCGCTGACGGTT 62.421 66.667 0.00 0.00 40.63 4.44
1306 1348 0.315251 CGAGATTGCAGGAGCGGATA 59.685 55.000 0.00 0.00 46.23 2.59
1328 1374 6.018180 GCCGTAAAATCCCAACAGATTACTAG 60.018 42.308 0.00 0.00 35.40 2.57
1329 1375 5.818857 GCCGTAAAATCCCAACAGATTACTA 59.181 40.000 0.00 0.00 35.40 1.82
1330 1376 4.638865 GCCGTAAAATCCCAACAGATTACT 59.361 41.667 0.00 0.00 35.40 2.24
1331 1377 4.638865 AGCCGTAAAATCCCAACAGATTAC 59.361 41.667 0.00 0.00 35.40 1.89
1377 1423 1.806461 ATCACGATGGTCGATCCCGG 61.806 60.000 11.38 0.00 43.74 5.73
1423 1549 2.095567 CCTTTCTGACGGCAGTTTCATG 60.096 50.000 19.93 3.99 42.84 3.07
1434 1560 5.163754 ACAGACAAAAGAAACCTTTCTGACG 60.164 40.000 10.53 0.00 46.22 4.35
1470 1596 3.496515 GGTCAGATACGAGGCCTAGTACT 60.497 52.174 25.80 20.44 0.00 2.73
1480 1606 1.202348 TGTGCAGTGGTCAGATACGAG 59.798 52.381 0.00 0.00 0.00 4.18
1587 1719 1.114627 CTAGGCCCCCAAGCATTTTC 58.885 55.000 0.00 0.00 0.00 2.29
1627 1760 5.011943 GGAGGTCGTCTTCTAGTCCTAGATA 59.988 48.000 4.93 0.00 41.37 1.98
1628 1761 4.202388 GGAGGTCGTCTTCTAGTCCTAGAT 60.202 50.000 4.93 0.00 41.37 1.98
1630 1763 3.135167 AGGAGGTCGTCTTCTAGTCCTAG 59.865 52.174 0.00 0.00 30.99 3.02
1631 1764 3.113824 AGGAGGTCGTCTTCTAGTCCTA 58.886 50.000 0.00 0.00 30.99 2.94
1632 1765 1.917568 AGGAGGTCGTCTTCTAGTCCT 59.082 52.381 0.00 0.00 26.83 3.85
1644 1777 3.611766 ATGGACAAGTTTAGGAGGTCG 57.388 47.619 0.00 0.00 0.00 4.79
1721 1854 9.799106 AGGCAGCAGTATATAATTTAACTGATT 57.201 29.630 9.80 0.00 41.47 2.57
1722 1855 9.799106 AAGGCAGCAGTATATAATTTAACTGAT 57.201 29.630 9.80 2.41 41.47 2.90
1745 1878 7.581213 TCCACAATTAGTTAATGCCATAAGG 57.419 36.000 0.00 0.00 38.23 2.69
1746 1879 9.467258 CATTCCACAATTAGTTAATGCCATAAG 57.533 33.333 0.00 0.00 29.34 1.73
1747 1880 9.194972 TCATTCCACAATTAGTTAATGCCATAA 57.805 29.630 0.00 0.00 33.81 1.90
1748 1881 8.759481 TCATTCCACAATTAGTTAATGCCATA 57.241 30.769 0.00 0.00 33.81 2.74
1749 1882 7.342799 ACTCATTCCACAATTAGTTAATGCCAT 59.657 33.333 0.00 0.00 33.81 4.40
1750 1883 6.663093 ACTCATTCCACAATTAGTTAATGCCA 59.337 34.615 0.00 0.00 33.81 4.92
1751 1884 7.100458 ACTCATTCCACAATTAGTTAATGCC 57.900 36.000 0.00 0.00 33.81 4.40
1772 1905 8.664211 AAGGCAGCACTATAATAAGTTAACTC 57.336 34.615 8.95 0.00 0.00 3.01
1799 1932 3.063452 ACATGAACAATTAGCTAACGCCG 59.937 43.478 8.70 0.14 36.60 6.46
1887 2020 9.209175 CACCATTATACTCTCAAGCTATTTACC 57.791 37.037 0.00 0.00 0.00 2.85
2048 2181 9.429359 CAATAGAGTTAGTTTCTGTCTGAATGT 57.571 33.333 0.00 0.00 34.24 2.71
2055 2189 9.862371 TCATCTTCAATAGAGTTAGTTTCTGTC 57.138 33.333 0.00 0.00 36.02 3.51
2065 2199 9.553064 GTGGTGATATTCATCTTCAATAGAGTT 57.447 33.333 0.00 0.00 36.02 3.01
2066 2200 8.932610 AGTGGTGATATTCATCTTCAATAGAGT 58.067 33.333 0.00 0.00 36.02 3.24
2067 2201 9.775854 AAGTGGTGATATTCATCTTCAATAGAG 57.224 33.333 0.00 0.00 36.02 2.43
2111 2245 7.466746 TGGAATAAGAAAGTAGCAGCATTTT 57.533 32.000 0.00 0.00 0.00 1.82
2113 2247 6.127619 GGTTGGAATAAGAAAGTAGCAGCATT 60.128 38.462 0.00 0.00 0.00 3.56
2145 2280 3.138304 TCGTTCATTGTGGAAACCAGAG 58.862 45.455 0.00 0.00 32.34 3.35
2214 2382 9.449719 TTTAGGAACTTCTGGTCAAGATATTTC 57.550 33.333 0.00 0.00 41.75 2.17
2221 2389 5.639931 GCTAGTTTAGGAACTTCTGGTCAAG 59.360 44.000 0.00 0.00 43.48 3.02
2256 2424 6.318648 TGCTGTGATCCATTAACAAACCTATC 59.681 38.462 0.00 0.00 0.00 2.08
2362 2563 5.582665 GTGAAACCTCAGCTTCTAATACAGG 59.417 44.000 0.00 0.00 30.14 4.00
2374 2575 2.017049 ACAACACTGTGAAACCTCAGC 58.983 47.619 15.86 0.00 33.30 4.26
2448 2650 2.813042 GCAGACTCAGCCGTCAGC 60.813 66.667 1.23 1.23 38.84 4.26
2537 2739 3.029320 TCATGGTCAATTGCAAGCAAC 57.971 42.857 9.97 2.28 38.88 4.17
2600 2802 1.068610 TGCGGTACATTCAAGCTTTGC 60.069 47.619 0.00 0.00 0.00 3.68
2758 2985 5.669164 AAAAGGTTGTAAGGCTGAAAACA 57.331 34.783 7.23 0.00 0.00 2.83
2797 3024 7.391833 AGAAGTTTAGCAAGAGAAAATGGGTAG 59.608 37.037 0.00 0.00 0.00 3.18
2810 3037 5.641209 AGCACACTATCAGAAGTTTAGCAAG 59.359 40.000 0.00 0.00 0.00 4.01
2843 3070 2.708861 TCTTCCAAACCAAGCTGGAGTA 59.291 45.455 8.91 0.00 42.61 2.59
3018 3245 8.024285 GTGGATTTCGTGTAAACCAAATGATAA 58.976 33.333 0.00 0.00 33.15 1.75
3035 3262 4.989279 ATTTTGGAGGATGTGGATTTCG 57.011 40.909 0.00 0.00 0.00 3.46
3144 3371 5.123979 GCTCCTTGTATTGAGGAAATCGTTT 59.876 40.000 0.00 0.00 42.50 3.60
3220 3447 8.115490 AGACTGCATATAAAGAAACAAAAGCT 57.885 30.769 0.00 0.00 0.00 3.74
3291 3518 5.104527 TGTCCTAACCCCAGAGTCATAAATG 60.105 44.000 0.00 0.00 0.00 2.32
3410 3640 8.752766 ACTTCAATAATCAAAATGCAGAAGTG 57.247 30.769 8.28 0.00 40.90 3.16
3434 3664 9.643693 ACAATCAAAAGAAAATACATGATGGAC 57.356 29.630 0.00 0.00 0.00 4.02
3464 3694 5.233988 GCCAGCAGAAATATAGTTCGATCT 58.766 41.667 7.24 0.97 32.50 2.75
3468 3698 2.476619 CCGCCAGCAGAAATATAGTTCG 59.523 50.000 7.24 4.31 32.50 3.95
3486 3716 0.451783 CATTTTAGTCTGTGGCCCGC 59.548 55.000 0.00 0.00 0.00 6.13
3493 3723 4.215109 ACACCAAAGGCATTTTAGTCTGT 58.785 39.130 0.00 0.00 0.00 3.41
3494 3724 4.853924 ACACCAAAGGCATTTTAGTCTG 57.146 40.909 0.00 0.00 0.00 3.51
3495 3725 5.010012 CAGAACACCAAAGGCATTTTAGTCT 59.990 40.000 0.00 0.00 0.00 3.24
3510 3740 0.107410 AAGCCGACAACAGAACACCA 60.107 50.000 0.00 0.00 0.00 4.17
3541 3771 8.692710 AGTGTCATAGATAATTCGTAAGGACAA 58.307 33.333 0.00 0.00 31.47 3.18
3561 3791 8.567948 GGTTGAGAATCTTTTCATTAAGTGTCA 58.432 33.333 0.00 0.00 34.08 3.58
3567 3797 8.576442 GGACTTGGTTGAGAATCTTTTCATTAA 58.424 33.333 0.00 0.00 34.08 1.40
3576 3806 5.189180 GCTATTGGACTTGGTTGAGAATCT 58.811 41.667 0.00 0.00 34.92 2.40
3605 3835 4.714632 AGGCAAGCTACAAAGTAGTTGAA 58.285 39.130 16.40 0.00 39.87 2.69
3614 3844 5.055812 CCAAATCAAAAGGCAAGCTACAAA 58.944 37.500 0.00 0.00 0.00 2.83
3633 3863 8.834749 ACAAAAGCTTAAACAAACTAACCAAA 57.165 26.923 0.00 0.00 0.00 3.28
3678 3908 8.316214 TGTCCCTACGAATTTTATAACTCAACT 58.684 33.333 0.00 0.00 0.00 3.16
3695 3925 2.898729 ATCTGATTGCTGTCCCTACG 57.101 50.000 0.00 0.00 0.00 3.51
3696 3926 4.141711 TGGTTATCTGATTGCTGTCCCTAC 60.142 45.833 0.00 0.00 0.00 3.18
3705 3935 7.989826 AGTGAACTTATTGGTTATCTGATTGC 58.010 34.615 0.00 0.00 0.00 3.56
3754 3988 7.094377 GCATTTCCTACCTGTAAGAAATGACAA 60.094 37.037 28.74 3.12 46.60 3.18
3883 4117 3.325870 TGTATGCACAAAGGACTCGAAG 58.674 45.455 0.00 0.00 0.00 3.79
3902 4136 5.946942 ATCTTATCACACTGTGGAGATGT 57.053 39.130 20.95 6.21 32.02 3.06
4033 4267 1.743394 GGAGCTTCAAAACATACCCGG 59.257 52.381 0.00 0.00 0.00 5.73
4040 4274 2.358898 GAGTTGCAGGAGCTTCAAAACA 59.641 45.455 0.00 0.00 42.74 2.83
4070 4306 6.200097 GGTAAAATGCTACACTGTTTGTTTGG 59.800 38.462 0.00 0.00 39.91 3.28
4071 4307 6.978080 AGGTAAAATGCTACACTGTTTGTTTG 59.022 34.615 0.00 0.00 39.91 2.93
4126 4362 1.115467 CTCAGATAGGAAGGCACGGT 58.885 55.000 0.00 0.00 0.00 4.83
4161 4399 9.635520 CTAAGATTTTCTTGAAAAGTGATGCAT 57.364 29.630 0.00 0.00 46.34 3.96
4166 4404 8.980481 ACTCCTAAGATTTTCTTGAAAAGTGA 57.020 30.769 12.99 4.24 46.34 3.41
4193 4439 9.630098 CAAGTCAATTTTCATGCTAAAGTACAT 57.370 29.630 0.00 0.00 0.00 2.29
4197 4443 9.630098 CATACAAGTCAATTTTCATGCTAAAGT 57.370 29.630 0.00 0.00 0.00 2.66
4202 4448 8.340618 AGTACATACAAGTCAATTTTCATGCT 57.659 30.769 0.00 0.00 0.00 3.79
4224 4470 0.248289 GCAACAGTCCCCGCTTAGTA 59.752 55.000 0.00 0.00 0.00 1.82
4237 4484 3.668447 ACAGTACAGATCAAGGCAACAG 58.332 45.455 0.00 0.00 41.41 3.16
4299 4547 5.102953 TGTGATGAGGACCCTTATCTTTG 57.897 43.478 18.00 0.00 39.08 2.77
4305 4553 5.886609 TGAATTTTGTGATGAGGACCCTTA 58.113 37.500 0.00 0.00 0.00 2.69
4311 4559 6.716173 TCTGTTGATGAATTTTGTGATGAGGA 59.284 34.615 0.00 0.00 0.00 3.71
4315 4563 6.088483 CGGTTCTGTTGATGAATTTTGTGATG 59.912 38.462 0.00 0.00 0.00 3.07
4316 4564 6.151691 CGGTTCTGTTGATGAATTTTGTGAT 58.848 36.000 0.00 0.00 0.00 3.06
4321 4569 5.766150 TCACGGTTCTGTTGATGAATTTT 57.234 34.783 0.00 0.00 0.00 1.82
4358 4614 5.000591 CGGTACATGGCATGAAATATGGTA 58.999 41.667 32.74 10.05 0.00 3.25
4359 4615 3.820467 CGGTACATGGCATGAAATATGGT 59.180 43.478 32.74 11.07 0.00 3.55
4371 4627 1.501741 CAAGTGTGCGGTACATGGC 59.498 57.895 1.41 0.00 42.24 4.40
4389 4645 4.614284 CAGAAAACATGTGAATTCGTGAGC 59.386 41.667 0.00 0.00 0.00 4.26
4390 4646 5.751680 ACAGAAAACATGTGAATTCGTGAG 58.248 37.500 0.00 1.87 0.00 3.51
4394 4677 7.479603 CAGATGTACAGAAAACATGTGAATTCG 59.520 37.037 0.00 4.75 46.24 3.34
4404 4687 9.889128 TGATATGAATCAGATGTACAGAAAACA 57.111 29.630 0.33 0.00 37.20 2.83
4451 4735 5.595542 TCATATTGCTCTCCCATTTTTCCAG 59.404 40.000 0.00 0.00 0.00 3.86
4596 4880 3.848272 TCAATTCAGCCGCTAAAAAGG 57.152 42.857 0.00 0.00 0.00 3.11
4604 4888 3.502191 TGGTAAAATCAATTCAGCCGC 57.498 42.857 0.00 0.00 0.00 6.53
4606 4890 5.859205 AGGATGGTAAAATCAATTCAGCC 57.141 39.130 0.00 0.00 0.00 4.85
4607 4891 6.912591 CGTAAGGATGGTAAAATCAATTCAGC 59.087 38.462 0.00 0.00 0.00 4.26
4608 4892 8.122952 GTCGTAAGGATGGTAAAATCAATTCAG 58.877 37.037 0.00 0.00 38.47 3.02
4620 4904 5.048083 ACAAACTTACGTCGTAAGGATGGTA 60.048 40.000 35.87 9.05 46.69 3.25
4725 5009 6.767524 ACGTTATGGAGCATGGAATTAAAA 57.232 33.333 0.00 0.00 0.00 1.52
4729 5013 4.389374 CCTACGTTATGGAGCATGGAATT 58.611 43.478 0.00 0.00 0.00 2.17
4736 5020 1.903860 ACAACCCTACGTTATGGAGCA 59.096 47.619 0.00 0.00 31.77 4.26
4746 5030 5.063564 GCTAAGAATTCAGAACAACCCTACG 59.936 44.000 8.44 0.00 0.00 3.51
4813 5130 5.971202 CGCCCTTAATACTGCAAAACATAAG 59.029 40.000 0.00 0.00 0.00 1.73
4819 5136 3.150767 ACACGCCCTTAATACTGCAAAA 58.849 40.909 0.00 0.00 0.00 2.44
4869 5186 1.534235 CCCTAGATGACGGGAGGGG 60.534 68.421 0.00 0.00 44.41 4.79
4939 5293 5.723492 TTAGAGACATGCGAACATTGATG 57.277 39.130 0.00 0.00 32.87 3.07
5002 5357 6.786959 AGAATAACCTCTAGATGCCATCTCTT 59.213 38.462 11.20 0.00 40.76 2.85
5071 5427 1.823899 GGCGGACCTGCTTATTGGG 60.824 63.158 7.98 0.00 34.52 4.12
5074 5430 0.037590 TGTTGGCGGACCTGCTTATT 59.962 50.000 7.98 0.00 36.63 1.40
5083 5439 0.240945 CAGGAAACATGTTGGCGGAC 59.759 55.000 12.82 0.00 0.00 4.79
5089 5445 6.750039 AGTAAACGAAAACAGGAAACATGTTG 59.250 34.615 12.82 2.41 39.91 3.33
5101 5457 9.843334 AACATGTTAAAAGAGTAAACGAAAACA 57.157 25.926 9.97 0.00 0.00 2.83
5105 5461 7.987649 ACCAACATGTTAAAAGAGTAAACGAA 58.012 30.769 11.53 0.00 0.00 3.85
5107 5463 8.553696 AGTACCAACATGTTAAAAGAGTAAACG 58.446 33.333 11.53 0.00 0.00 3.60
5223 5579 2.743636 ACATCCATATACGAAGCCCG 57.256 50.000 0.00 0.00 45.44 6.13
5276 5632 2.719739 CCATCATTGAGTGCCTGAGTT 58.280 47.619 0.00 0.00 0.00 3.01
5291 5647 7.093727 GGAGCATAGTTTAGTATAGAGCCATCA 60.094 40.741 0.00 0.00 0.00 3.07
5320 5676 7.103641 ACACAACCATCTTATCGAACTATTGT 58.896 34.615 0.00 0.00 0.00 2.71
5322 5678 9.661563 TTTACACAACCATCTTATCGAACTATT 57.338 29.630 0.00 0.00 0.00 1.73
5323 5679 9.661563 TTTTACACAACCATCTTATCGAACTAT 57.338 29.630 0.00 0.00 0.00 2.12
5326 5682 7.019418 GGTTTTACACAACCATCTTATCGAAC 58.981 38.462 0.00 0.00 45.12 3.95
5327 5683 7.136289 GGTTTTACACAACCATCTTATCGAA 57.864 36.000 0.00 0.00 45.12 3.71
5328 5684 6.730960 GGTTTTACACAACCATCTTATCGA 57.269 37.500 0.00 0.00 45.12 3.59
5337 5693 9.271557 AGTCATGGACTAGGTTTTACACAACCA 62.272 40.741 5.43 0.00 42.34 3.67
5338 5694 5.180680 GTCATGGACTAGGTTTTACACAACC 59.819 44.000 0.00 0.00 46.02 3.77
5339 5695 5.995897 AGTCATGGACTAGGTTTTACACAAC 59.004 40.000 0.00 0.00 41.51 3.32
5340 5696 6.182507 AGTCATGGACTAGGTTTTACACAA 57.817 37.500 0.00 0.00 41.51 3.33
5341 5697 5.818678 AGTCATGGACTAGGTTTTACACA 57.181 39.130 0.00 0.00 41.51 3.72
5342 5698 6.817140 CCTAAGTCATGGACTAGGTTTTACAC 59.183 42.308 0.00 0.00 42.59 2.90
5343 5699 6.727231 TCCTAAGTCATGGACTAGGTTTTACA 59.273 38.462 15.28 0.00 42.59 2.41
5344 5700 7.179076 TCCTAAGTCATGGACTAGGTTTTAC 57.821 40.000 15.28 0.00 42.59 2.01
5345 5701 7.989947 ATCCTAAGTCATGGACTAGGTTTTA 57.010 36.000 15.28 0.20 42.59 1.52
5346 5702 6.893020 ATCCTAAGTCATGGACTAGGTTTT 57.107 37.500 15.28 0.00 42.59 2.43
5347 5703 6.674419 AGAATCCTAAGTCATGGACTAGGTTT 59.326 38.462 15.28 13.93 42.59 3.27
5348 5704 6.206042 AGAATCCTAAGTCATGGACTAGGTT 58.794 40.000 15.28 11.40 42.59 3.50
5349 5705 5.782925 AGAATCCTAAGTCATGGACTAGGT 58.217 41.667 15.28 0.33 42.59 3.08
5350 5706 7.007723 ACTAGAATCCTAAGTCATGGACTAGG 58.992 42.308 0.00 7.26 42.59 3.02
5351 5707 8.472007 AACTAGAATCCTAAGTCATGGACTAG 57.528 38.462 0.00 0.00 42.59 2.57
5352 5708 8.840200 AAACTAGAATCCTAAGTCATGGACTA 57.160 34.615 0.00 0.00 42.59 2.59
5353 5709 7.741554 AAACTAGAATCCTAAGTCATGGACT 57.258 36.000 0.00 0.00 45.64 3.85
5359 5715 8.491958 GGGGAAATAAACTAGAATCCTAAGTCA 58.508 37.037 0.00 0.00 0.00 3.41
5388 5747 6.793349 ACTAGGTGACGATATGTTAACAGTC 58.207 40.000 14.65 15.03 0.00 3.51
5402 5761 5.171147 ACGATCTTATCAACTAGGTGACG 57.829 43.478 13.97 13.36 0.00 4.35
5409 5768 9.740239 GGTTATACACAACGATCTTATCAACTA 57.260 33.333 0.00 0.00 0.00 2.24
5410 5769 8.475639 AGGTTATACACAACGATCTTATCAACT 58.524 33.333 0.00 0.00 0.00 3.16
5414 5783 9.962783 AACTAGGTTATACACAACGATCTTATC 57.037 33.333 0.00 0.00 0.00 1.75
5422 5791 6.032094 ACATCGAACTAGGTTATACACAACG 58.968 40.000 0.00 0.00 0.00 4.10
5431 5800 8.746530 AGAACTAATTGACATCGAACTAGGTTA 58.253 33.333 0.00 0.00 0.00 2.85
5453 5822 4.433615 TGTGAACAGAGACTGACAAGAAC 58.566 43.478 5.76 0.00 35.18 3.01
5456 5825 5.998454 AAATGTGAACAGAGACTGACAAG 57.002 39.130 5.76 0.00 35.18 3.16
5490 5874 7.420800 CAGCATCTTATGGTAGGTCAAAATTC 58.579 38.462 0.00 0.00 39.29 2.17
5629 6018 0.392193 GCATCTGTGTCTCCACTGGG 60.392 60.000 0.00 0.00 42.34 4.45
5746 6135 4.610945 CGTTTTGATCAAGAACAAGCCTT 58.389 39.130 22.13 0.00 0.00 4.35
5843 6237 9.860650 ACATAACTAAGGCCAAAACATATGATA 57.139 29.630 10.38 0.00 0.00 2.15
5862 6258 5.721960 AGAGGTTCCACATAGACACATAACT 59.278 40.000 0.00 0.00 0.00 2.24
5902 6321 5.045942 TGGGTATCACAGATTGCAAGACTTA 60.046 40.000 4.94 0.00 0.00 2.24
5975 6432 5.081728 TCCATGTATATAGCAAGGTACCGT 58.918 41.667 6.18 0.00 0.00 4.83
5981 6438 7.101652 ACTACGATCCATGTATATAGCAAGG 57.898 40.000 0.00 0.00 0.00 3.61
5997 7722 7.172019 TGAAAAGGGAACAAAAGTACTACGATC 59.828 37.037 0.00 0.00 0.00 3.69
6033 9144 5.373222 TGTAAAGGCACATAGAACACAACT 58.627 37.500 0.00 0.00 0.00 3.16
6055 9223 3.068590 AGGAGAACACAAAGGTTGCATTG 59.931 43.478 0.00 0.00 0.00 2.82
6362 9558 1.834188 TCTCTGATGCTGGTCGTGTA 58.166 50.000 0.00 0.00 0.00 2.90
6378 9574 0.687354 TGGTGAGCTGGAACCTTCTC 59.313 55.000 10.36 0.00 37.36 2.87
6379 9575 1.140312 TTGGTGAGCTGGAACCTTCT 58.860 50.000 10.36 0.00 37.36 2.85
6380 9576 1.815003 CATTGGTGAGCTGGAACCTTC 59.185 52.381 10.36 0.00 37.36 3.46
6382 9578 0.610232 GCATTGGTGAGCTGGAACCT 60.610 55.000 10.36 0.00 37.36 3.50
6413 9610 2.682856 TGAAAGTTGTGTGTGGAGCTTC 59.317 45.455 0.00 0.00 0.00 3.86
6426 9623 6.096705 TGGCCATCCTTATATTGTGAAAGTTG 59.903 38.462 0.00 0.00 0.00 3.16
6498 9699 2.586648 ATTCCACAGTTCTGTTCCCC 57.413 50.000 2.47 0.00 0.00 4.81
6614 9816 7.147479 ACAGATGGAGTACTTGCTATAAATGGT 60.147 37.037 0.00 0.00 0.00 3.55
6651 9863 5.677598 GCTCTGTAGTGATCTAAACGCTCTT 60.678 44.000 0.00 0.00 0.00 2.85
6657 9869 7.249147 TCTAAACGCTCTGTAGTGATCTAAAC 58.751 38.462 0.00 0.00 36.68 2.01
6662 9874 5.683743 GTGATCTAAACGCTCTGTAGTGATC 59.316 44.000 0.00 0.00 36.68 2.92
6664 9876 4.700692 AGTGATCTAAACGCTCTGTAGTGA 59.299 41.667 0.00 0.00 36.68 3.41
6665 9877 4.987832 AGTGATCTAAACGCTCTGTAGTG 58.012 43.478 0.00 0.00 39.25 2.74
6667 9879 7.251994 ACTTTAGTGATCTAAACGCTCTGTAG 58.748 38.462 0.00 0.00 40.05 2.74
6668 9880 7.154435 ACTTTAGTGATCTAAACGCTCTGTA 57.846 36.000 0.00 0.00 40.05 2.74
6670 9882 7.251994 ACTACTTTAGTGATCTAAACGCTCTG 58.748 38.462 0.00 0.00 40.05 3.35
6685 9897 8.828688 AAAAGCGTTTAGATCACTACTTTAGT 57.171 30.769 0.00 0.00 40.28 2.24
6702 9914 7.201670 CCCTCCGTAAAGAAATATAAAAGCGTT 60.202 37.037 0.00 0.00 0.00 4.84
6703 9915 6.259387 CCCTCCGTAAAGAAATATAAAAGCGT 59.741 38.462 0.00 0.00 0.00 5.07
6704 9916 6.480981 TCCCTCCGTAAAGAAATATAAAAGCG 59.519 38.462 0.00 0.00 0.00 4.68
6705 9917 7.498239 ACTCCCTCCGTAAAGAAATATAAAAGC 59.502 37.037 0.00 0.00 0.00 3.51
6706 9918 8.959705 ACTCCCTCCGTAAAGAAATATAAAAG 57.040 34.615 0.00 0.00 0.00 2.27
6709 9921 8.773033 ACTACTCCCTCCGTAAAGAAATATAA 57.227 34.615 0.00 0.00 0.00 0.98
6710 9922 9.866655 TTACTACTCCCTCCGTAAAGAAATATA 57.133 33.333 0.00 0.00 0.00 0.86
6713 9925 6.666980 ACTTACTACTCCCTCCGTAAAGAAAT 59.333 38.462 0.00 0.00 0.00 2.17
6714 9926 6.012745 ACTTACTACTCCCTCCGTAAAGAAA 58.987 40.000 0.00 0.00 0.00 2.52
6715 9927 5.574188 ACTTACTACTCCCTCCGTAAAGAA 58.426 41.667 0.00 0.00 0.00 2.52
6716 9928 5.184892 ACTTACTACTCCCTCCGTAAAGA 57.815 43.478 0.00 0.00 0.00 2.52
6717 9929 5.008514 GCTACTTACTACTCCCTCCGTAAAG 59.991 48.000 0.00 0.00 0.00 1.85
6734 9946 5.533528 TGCTATCCGTTCTGTATGCTACTTA 59.466 40.000 0.00 0.00 0.00 2.24
6816 10048 1.557832 CCCCTGGTTCCGAGAAACATA 59.442 52.381 5.07 0.00 0.00 2.29
6939 10229 8.803397 TGTCTAACAGCTAAGAACAGTATCTA 57.197 34.615 0.00 0.00 0.00 1.98
6951 10241 3.952323 AGGCGTCTATGTCTAACAGCTAA 59.048 43.478 0.00 0.00 0.00 3.09
6963 10253 4.233123 TGGTATCGTTAAGGCGTCTATG 57.767 45.455 0.00 0.00 0.00 2.23
6966 10256 3.598019 TTTGGTATCGTTAAGGCGTCT 57.402 42.857 0.00 0.00 0.00 4.18
6978 10268 2.301346 CCACTCCAGCCATTTGGTATC 58.699 52.381 0.00 0.00 39.35 2.24
7015 10305 2.481952 CTCTTACCTTGTGCTGCTCAAC 59.518 50.000 12.62 0.00 0.00 3.18
7016 10306 2.550855 CCTCTTACCTTGTGCTGCTCAA 60.551 50.000 15.38 15.38 0.00 3.02
7208 10649 4.213564 ACACATGAGGGAGAAATGAGAC 57.786 45.455 0.00 0.00 0.00 3.36
7212 10653 3.367703 GGCAAACACATGAGGGAGAAATG 60.368 47.826 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.