Multiple sequence alignment - TraesCS6D01G187000

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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 TraesCS6D01G187000 chr6D 100.000 5213 0 0 1 5213 249953173 249958385 0.000000e+00 9627.0
1 TraesCS6D01G187000 chr6D 100.000 3864 0 0 5421 9284 249958593 249962456 0.000000e+00 7136.0
2 TraesCS6D01G187000 chr6D 79.747 474 82 14 4658 5121 445059258 445058789 1.930000e-86 331.0
3 TraesCS6D01G187000 chr6D 76.163 516 96 24 4660 5164 332957452 332957951 7.200000e-61 246.0
4 TraesCS6D01G187000 chr6D 75.586 512 99 17 4659 5162 402874740 402875233 7.250000e-56 230.0
5 TraesCS6D01G187000 chr6D 76.160 474 80 26 4659 5122 357743032 357743482 1.570000e-52 219.0
6 TraesCS6D01G187000 chr6D 74.779 452 92 19 4687 5121 395034407 395033961 5.730000e-42 183.0
7 TraesCS6D01G187000 chr6D 74.558 452 93 19 4687 5121 395023859 395023413 2.660000e-40 178.0
8 TraesCS6D01G187000 chr6D 76.524 328 68 9 4672 4993 462183748 462184072 4.460000e-38 171.0
9 TraesCS6D01G187000 chr6D 73.783 267 51 16 4830 5086 359527288 359527545 4.620000e-13 87.9
10 TraesCS6D01G187000 chr6D 95.652 46 2 0 5985 6030 67530281 67530326 3.600000e-09 75.0
11 TraesCS6D01G187000 chr6D 84.507 71 9 2 6116 6184 59201605 59201535 1.670000e-07 69.4
12 TraesCS6D01G187000 chr6D 100.000 32 0 0 6000 6031 449268077 449268046 1.010000e-04 60.2
13 TraesCS6D01G187000 chr6D 85.185 54 8 0 6398 6451 457538179 457538126 1.000000e-03 56.5
14 TraesCS6D01G187000 chr6D 86.000 50 7 0 6398 6447 457542575 457542526 5.000000e-03 54.7
15 TraesCS6D01G187000 chr6B 96.857 2704 53 13 5421 8118 337858393 337861070 0.000000e+00 4494.0
16 TraesCS6D01G187000 chr6B 95.734 2719 80 15 2229 4936 337843842 337846535 0.000000e+00 4346.0
17 TraesCS6D01G187000 chr6B 95.095 1101 29 6 636 1731 337836066 337837146 0.000000e+00 1711.0
18 TraesCS6D01G187000 chr6B 94.660 824 43 1 8401 9224 124425260 124424438 0.000000e+00 1277.0
19 TraesCS6D01G187000 chr6B 92.170 447 15 5 1727 2154 337843083 337843528 1.710000e-171 614.0
20 TraesCS6D01G187000 chr6B 80.822 730 130 9 8405 9129 697923515 697922791 1.750000e-156 564.0
21 TraesCS6D01G187000 chr6B 98.288 292 5 0 8110 8401 337863802 337864093 6.430000e-141 512.0
22 TraesCS6D01G187000 chr6B 78.415 732 141 13 8405 9129 646152824 646153545 2.360000e-125 460.0
23 TraesCS6D01G187000 chr6B 92.754 276 12 5 4922 5189 337847442 337847717 8.740000e-105 392.0
24 TraesCS6D01G187000 chr6B 78.723 517 86 23 4659 5162 578687204 578686699 3.230000e-84 324.0
25 TraesCS6D01G187000 chr6B 79.070 172 36 0 6411 6582 164746177 164746006 1.640000e-22 119.0
26 TraesCS6D01G187000 chr6B 97.143 70 2 0 575 644 337834129 337834198 1.640000e-22 119.0
27 TraesCS6D01G187000 chr6B 95.588 68 3 0 9217 9284 124393726 124393659 9.860000e-20 110.0
28 TraesCS6D01G187000 chr6B 80.000 110 18 3 530 639 251385074 251384969 2.780000e-10 78.7
29 TraesCS6D01G187000 chr6B 80.000 110 18 3 530 639 251546641 251546536 2.780000e-10 78.7
30 TraesCS6D01G187000 chr6B 90.196 51 5 0 6128 6178 132498224 132498274 6.020000e-07 67.6
31 TraesCS6D01G187000 chr6A 96.776 1923 44 7 1655 3561 346598040 346596120 0.000000e+00 3192.0
32 TraesCS6D01G187000 chr6A 98.051 1642 25 4 5787 7422 346592370 346590730 0.000000e+00 2848.0
33 TraesCS6D01G187000 chr6A 97.476 1030 23 3 4162 5189 346594296 346593268 0.000000e+00 1755.0
34 TraesCS6D01G187000 chr6A 96.305 893 15 5 772 1663 346599074 346598199 0.000000e+00 1450.0
35 TraesCS6D01G187000 chr6A 98.151 703 11 2 7699 8401 346590627 346589927 0.000000e+00 1225.0
36 TraesCS6D01G187000 chr6A 96.910 356 9 2 3569 3923 346595213 346594859 6.210000e-166 595.0
37 TraesCS6D01G187000 chr6A 98.347 242 4 0 3922 4163 346594698 346594457 8.620000e-115 425.0
38 TraesCS6D01G187000 chr6A 85.946 370 30 7 413 780 346600461 346600112 8.800000e-100 375.0
39 TraesCS6D01G187000 chr6A 76.840 462 79 26 4716 5160 109146531 109146081 1.560000e-57 235.0
40 TraesCS6D01G187000 chr6A 90.654 107 8 2 3689 3794 610518772 610518877 3.500000e-29 141.0
41 TraesCS6D01G187000 chr6A 93.617 47 2 1 5991 6037 411097788 411097743 1.670000e-07 69.4
42 TraesCS6D01G187000 chr2B 81.370 730 126 9 8405 9129 69370050 69370774 3.740000e-163 586.0
43 TraesCS6D01G187000 chr2B 80.977 389 74 0 7885 8273 482736654 482736266 9.050000e-80 309.0
44 TraesCS6D01G187000 chr2B 91.228 57 5 0 6128 6184 697730605 697730661 2.780000e-10 78.7
45 TraesCS6D01G187000 chr5B 80.548 730 132 9 8405 9129 473188368 473187644 3.790000e-153 553.0
46 TraesCS6D01G187000 chr5B 81.349 504 93 1 8658 9161 212648420 212648922 8.680000e-110 409.0
47 TraesCS6D01G187000 chr5B 100.000 28 0 0 422 449 163256991 163257018 1.700000e-02 52.8
48 TraesCS6D01G187000 chr7D 99.628 269 1 0 9016 9284 342401870 342402138 8.380000e-135 492.0
49 TraesCS6D01G187000 chr7D 79.191 519 84 23 4657 5162 379318069 379318576 1.150000e-88 339.0
50 TraesCS6D01G187000 chr7D 78.558 513 93 17 4659 5162 419813043 419812539 1.160000e-83 322.0
51 TraesCS6D01G187000 chr7D 98.113 159 3 0 1 159 327925483 327925641 2.550000e-70 278.0
52 TraesCS6D01G187000 chr7D 98.101 158 3 0 1 158 392691301 392691144 9.180000e-70 276.0
53 TraesCS6D01G187000 chr7D 92.935 184 12 1 159 342 239512265 239512447 5.530000e-67 267.0
54 TraesCS6D01G187000 chr7D 91.743 109 5 4 3695 3800 22964357 22964250 2.090000e-31 148.0
55 TraesCS6D01G187000 chr7D 93.137 102 5 2 3709 3810 24045710 24045611 2.090000e-31 148.0
56 TraesCS6D01G187000 chr7D 93.939 99 5 1 3705 3802 41837673 41837771 2.090000e-31 148.0
57 TraesCS6D01G187000 chr7D 93.333 45 3 0 5986 6030 416626631 416626587 6.020000e-07 67.6
58 TraesCS6D01G187000 chr7D 85.938 64 5 3 4593 4655 590416404 590416344 2.160000e-06 65.8
59 TraesCS6D01G187000 chr7D 78.302 106 17 5 416 519 613892695 613892796 7.780000e-06 63.9
60 TraesCS6D01G187000 chr3D 79.815 540 97 11 4661 5192 273383285 273382750 5.260000e-102 383.0
61 TraesCS6D01G187000 chr3D 78.678 469 90 10 4659 5121 496100969 496100505 4.210000e-78 303.0
62 TraesCS6D01G187000 chr3D 92.896 183 11 2 159 339 454005947 454005765 1.990000e-66 265.0
63 TraesCS6D01G187000 chr3D 90.909 66 4 2 6117 6182 335667508 335667445 4.620000e-13 87.9
64 TraesCS6D01G187000 chr3D 96.078 51 2 0 6131 6181 447575044 447574994 5.970000e-12 84.2
65 TraesCS6D01G187000 chr3D 91.489 47 4 0 5985 6031 158456071 158456025 2.160000e-06 65.8
66 TraesCS6D01G187000 chr3D 85.185 54 8 0 6398 6451 543099555 543099502 1.000000e-03 56.5
67 TraesCS6D01G187000 chr3D 100.000 29 0 0 6139 6167 292372544 292372572 5.000000e-03 54.7
68 TraesCS6D01G187000 chr3B 79.368 538 101 9 4657 5187 360118136 360118670 4.090000e-98 370.0
69 TraesCS6D01G187000 chr3B 78.752 513 91 15 4659 5161 783114934 783114430 2.500000e-85 327.0
70 TraesCS6D01G187000 chr3B 81.379 145 27 0 1514 1658 671266197 671266053 1.640000e-22 119.0
71 TraesCS6D01G187000 chr3B 91.525 59 4 1 6117 6175 434055051 434054994 7.730000e-11 80.5
72 TraesCS6D01G187000 chr5D 80.043 466 87 5 8699 9161 201898397 201898859 3.210000e-89 340.0
73 TraesCS6D01G187000 chr5D 98.101 158 3 0 1 158 143753641 143753798 9.180000e-70 276.0
74 TraesCS6D01G187000 chr5D 90.909 55 5 0 6127 6181 395733865 395733811 3.600000e-09 75.0
75 TraesCS6D01G187000 chr5D 100.000 33 0 0 5998 6030 45171905 45171937 2.800000e-05 62.1
76 TraesCS6D01G187000 chr1B 87.919 298 23 8 38 329 173814520 173814810 1.150000e-88 339.0
77 TraesCS6D01G187000 chr4D 78.752 513 94 15 4659 5162 507690173 507690679 6.950000e-86 329.0
78 TraesCS6D01G187000 chr4D 78.222 450 87 11 4659 5101 471155221 471155666 2.550000e-70 278.0
79 TraesCS6D01G187000 chr4D 98.101 158 3 0 1 158 303313638 303313795 9.180000e-70 276.0
80 TraesCS6D01G187000 chr4D 98.101 158 3 0 1 158 303321769 303321926 9.180000e-70 276.0
81 TraesCS6D01G187000 chr4D 93.889 180 10 1 159 337 373861261 373861082 4.270000e-68 270.0
82 TraesCS6D01G187000 chr4D 89.744 117 6 6 3701 3816 403409522 403409633 2.700000e-30 145.0
83 TraesCS6D01G187000 chr4D 92.553 94 7 0 1532 1625 509661740 509661647 1.630000e-27 135.0
84 TraesCS6D01G187000 chr4D 96.154 52 0 2 6132 6181 22940949 22941000 5.970000e-12 84.2
85 TraesCS6D01G187000 chr4D 97.778 45 1 0 5986 6030 499394171 499394215 2.780000e-10 78.7
86 TraesCS6D01G187000 chr4D 97.674 43 1 0 5986 6028 455290432 455290474 3.600000e-09 75.0
87 TraesCS6D01G187000 chr4D 90.741 54 5 0 6128 6181 421340074 421340127 1.290000e-08 73.1
88 TraesCS6D01G187000 chr4D 90.741 54 4 1 5976 6029 6920581 6920633 4.650000e-08 71.3
89 TraesCS6D01G187000 chr4D 93.478 46 3 0 5985 6030 44436265 44436310 1.670000e-07 69.4
90 TraesCS6D01G187000 chr1A 78.835 515 88 20 4659 5162 362019972 362019468 2.500000e-85 327.0
91 TraesCS6D01G187000 chr1A 77.691 511 95 16 4659 5158 492055841 492055339 2.540000e-75 294.0
92 TraesCS6D01G187000 chr4A 78.571 518 88 22 4657 5162 629356820 629357326 4.180000e-83 320.0
93 TraesCS6D01G187000 chr4A 79.032 186 37 2 6398 6582 656786084 656785900 9.790000e-25 126.0
94 TraesCS6D01G187000 chr4A 96.078 51 0 2 6133 6181 579436598 579436548 2.150000e-11 82.4
95 TraesCS6D01G187000 chr4A 92.727 55 2 2 6128 6182 693279030 693279082 2.780000e-10 78.7
96 TraesCS6D01G187000 chrUn 77.886 511 91 21 4660 5161 30690545 30691042 1.960000e-76 298.0
97 TraesCS6D01G187000 chrUn 75.954 524 94 25 4659 5162 45711974 45711463 3.350000e-59 241.0
98 TraesCS6D01G187000 chrUn 79.570 186 36 2 6398 6582 231456095 231456279 2.100000e-26 132.0
99 TraesCS6D01G187000 chrUn 79.570 186 36 2 6398 6582 301211252 301211068 2.100000e-26 132.0
100 TraesCS6D01G187000 chrUn 79.570 186 36 2 6398 6582 397272210 397272026 2.100000e-26 132.0
101 TraesCS6D01G187000 chrUn 80.220 91 16 2 6398 6487 362937373 362937462 6.020000e-07 67.6
102 TraesCS6D01G187000 chr2D 80.463 389 76 0 7885 8273 406955964 406955576 1.960000e-76 298.0
103 TraesCS6D01G187000 chr2D 97.006 167 3 1 1 165 159111829 159111663 7.100000e-71 279.0
104 TraesCS6D01G187000 chr2D 98.101 158 3 0 1 158 506490673 506490516 9.180000e-70 276.0
105 TraesCS6D01G187000 chr2D 93.220 59 4 0 6125 6183 453760574 453760632 4.620000e-13 87.9
106 TraesCS6D01G187000 chr2D 96.078 51 2 0 5986 6036 565956137 565956087 5.970000e-12 84.2
107 TraesCS6D01G187000 chr2D 90.741 54 4 1 413 466 5387630 5387682 4.650000e-08 71.3
108 TraesCS6D01G187000 chr4B 78.647 473 82 19 4659 5121 599397262 599397725 7.050000e-76 296.0
109 TraesCS6D01G187000 chr4B 78.070 456 82 18 4671 5119 391155030 391154586 1.190000e-68 272.0
110 TraesCS6D01G187000 chr4B 97.619 42 1 0 5986 6027 12236150 12236109 1.290000e-08 73.1
111 TraesCS6D01G187000 chr4B 90.566 53 2 2 6132 6181 34717088 34717140 6.020000e-07 67.6
112 TraesCS6D01G187000 chr2A 79.949 389 78 0 7885 8273 574976833 574976445 4.240000e-73 287.0
113 TraesCS6D01G187000 chr2A 95.882 170 7 0 159 328 374245826 374245995 9.180000e-70 276.0
114 TraesCS6D01G187000 chr2A 92.857 42 2 1 4593 4634 29780357 29780397 1.010000e-04 60.2
115 TraesCS6D01G187000 chr1D 77.966 472 89 15 4659 5121 457046030 457046495 1.970000e-71 281.0
116 TraesCS6D01G187000 chr1D 78.097 452 84 14 4671 5115 276752888 276752445 1.190000e-68 272.0
117 TraesCS6D01G187000 chr1D 95.322 171 8 0 159 329 319447080 319446910 1.190000e-68 272.0
118 TraesCS6D01G187000 chr1D 94.318 176 9 1 159 334 487473532 487473358 1.540000e-67 268.0
119 TraesCS6D01G187000 chr1D 96.703 91 3 0 3707 3797 106843295 106843205 1.610000e-32 152.0
120 TraesCS6D01G187000 chr1D 91.589 107 8 1 3697 3803 143254051 143254156 7.510000e-31 147.0
121 TraesCS6D01G187000 chr1D 92.857 42 3 0 5986 6027 376260326 376260367 2.800000e-05 62.1
122 TraesCS6D01G187000 chr1D 100.000 30 0 0 6002 6031 323672086 323672057 1.000000e-03 56.5
123 TraesCS6D01G187000 chr3A 89.604 202 19 2 129 328 378878572 378878371 1.200000e-63 255.0
124 TraesCS6D01G187000 chr3A 82.119 302 35 11 38 329 84462482 84462774 3.350000e-59 241.0
125 TraesCS6D01G187000 chr3A 90.909 66 4 2 6117 6182 453656409 453656346 4.620000e-13 87.9
126 TraesCS6D01G187000 chr3A 92.982 57 3 1 6127 6182 582348885 582348829 2.150000e-11 82.4
127 TraesCS6D01G187000 chr3A 95.652 46 2 0 5986 6031 652018363 652018408 3.600000e-09 75.0
128 TraesCS6D01G187000 chr5A 88.889 63 7 0 4593 4655 477574139 477574201 2.780000e-10 78.7
129 TraesCS6D01G187000 chr7A 95.556 45 2 0 4593 4637 70142930 70142886 1.290000e-08 73.1


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 TraesCS6D01G187000 chr6D 249953173 249962456 9283 False 8381.500 9627 100.000000 1 9284 2 chr6D.!!$F7 9283
1 TraesCS6D01G187000 chr6B 337858393 337864093 5700 False 2503.000 4494 97.572500 5421 8401 2 chr6B.!!$F5 2980
2 TraesCS6D01G187000 chr6B 337843083 337847717 4634 False 1784.000 4346 93.552667 1727 5189 3 chr6B.!!$F4 3462
3 TraesCS6D01G187000 chr6B 124424438 124425260 822 True 1277.000 1277 94.660000 8401 9224 1 chr6B.!!$R2 823
4 TraesCS6D01G187000 chr6B 337834129 337837146 3017 False 915.000 1711 96.119000 575 1731 2 chr6B.!!$F3 1156
5 TraesCS6D01G187000 chr6B 697922791 697923515 724 True 564.000 564 80.822000 8405 9129 1 chr6B.!!$R7 724
6 TraesCS6D01G187000 chr6B 646152824 646153545 721 False 460.000 460 78.415000 8405 9129 1 chr6B.!!$F2 724
7 TraesCS6D01G187000 chr6B 578686699 578687204 505 True 324.000 324 78.723000 4659 5162 1 chr6B.!!$R6 503
8 TraesCS6D01G187000 chr6A 346589927 346600461 10534 True 1483.125 3192 95.995250 413 8401 8 chr6A.!!$R3 7988
9 TraesCS6D01G187000 chr2B 69370050 69370774 724 False 586.000 586 81.370000 8405 9129 1 chr2B.!!$F1 724
10 TraesCS6D01G187000 chr5B 473187644 473188368 724 True 553.000 553 80.548000 8405 9129 1 chr5B.!!$R1 724
11 TraesCS6D01G187000 chr5B 212648420 212648922 502 False 409.000 409 81.349000 8658 9161 1 chr5B.!!$F2 503
12 TraesCS6D01G187000 chr7D 379318069 379318576 507 False 339.000 339 79.191000 4657 5162 1 chr7D.!!$F5 505
13 TraesCS6D01G187000 chr7D 419812539 419813043 504 True 322.000 322 78.558000 4659 5162 1 chr7D.!!$R5 503
14 TraesCS6D01G187000 chr3D 273382750 273383285 535 True 383.000 383 79.815000 4661 5192 1 chr3D.!!$R2 531
15 TraesCS6D01G187000 chr3B 360118136 360118670 534 False 370.000 370 79.368000 4657 5187 1 chr3B.!!$F1 530
16 TraesCS6D01G187000 chr3B 783114430 783114934 504 True 327.000 327 78.752000 4659 5161 1 chr3B.!!$R3 502
17 TraesCS6D01G187000 chr4D 507690173 507690679 506 False 329.000 329 78.752000 4659 5162 1 chr4D.!!$F11 503
18 TraesCS6D01G187000 chr1A 362019468 362019972 504 True 327.000 327 78.835000 4659 5162 1 chr1A.!!$R1 503
19 TraesCS6D01G187000 chr1A 492055339 492055841 502 True 294.000 294 77.691000 4659 5158 1 chr1A.!!$R2 499
20 TraesCS6D01G187000 chr4A 629356820 629357326 506 False 320.000 320 78.571000 4657 5162 1 chr4A.!!$F1 505
21 TraesCS6D01G187000 chrUn 45711463 45711974 511 True 241.000 241 75.954000 4659 5162 1 chrUn.!!$R1 503

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
263 264 0.107456 CCCCTCTCGTTGCTATGCAT 59.893 55.000 3.79 3.79 38.76 3.96 F
374 375 0.249911 GCGAGCTAACCACCCCATAG 60.250 60.000 0.00 0.00 0.00 2.23 F
850 3779 0.387622 CCGAATGTGCTGCACCAAAG 60.388 55.000 28.17 16.98 32.73 2.77 F
1885 5001 1.537202 CAACTGGTTTGCTACTCCTGC 59.463 52.381 0.00 0.00 0.00 4.85 F
2437 5792 0.893727 CAGGGAAGGGGGTTGTTTCG 60.894 60.000 0.00 0.00 0.00 3.46 F
3389 6745 2.229784 CAGGTCCTCCAACAAATCAAGC 59.770 50.000 0.00 0.00 35.89 4.01 F
4034 8460 1.953559 TGGTTTGTCTCAGCTGTCAC 58.046 50.000 14.67 11.86 0.00 3.67 F
4966 10504 1.443802 GTTTCCCCTGAGCTCGAAAG 58.556 55.000 9.64 0.44 0.00 2.62 F
5078 10619 0.254178 TCTCCTTGGCCTGATTCTGC 59.746 55.000 3.32 0.00 0.00 4.26 F
6451 12303 0.457851 AGAGTGGCATGACTAGCGAC 59.542 55.000 0.00 0.00 40.44 5.19 F
7459 13315 2.400399 TCGTTATGGCGCTACTTATGC 58.600 47.619 7.64 0.00 0.00 3.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1361 4291 1.073177 CAACCAACGCTACCCTAACG 58.927 55.000 0.00 0.00 0.00 3.18 R
1614 4544 2.030540 ACTAGCTCGCAAGTTACACGAA 60.031 45.455 0.00 0.00 35.07 3.85 R
2067 5183 2.484264 ACCGACATTGCAACTCTAAAGC 59.516 45.455 0.00 0.00 0.00 3.51 R
3124 6480 3.561960 CCCATTCCCTTCATGACTTGACA 60.562 47.826 0.00 0.00 32.84 3.58 R
3765 8027 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03 R
4966 10504 0.252197 ACGGCTTTCATCTACACCCC 59.748 55.000 0.00 0.00 0.00 4.95 R
4970 10508 0.323302 TGCCACGGCTTTCATCTACA 59.677 50.000 9.92 0.00 42.51 2.74 R
6451 12303 4.302455 CGCATATGGTACTTCTCTTCCTG 58.698 47.826 4.56 0.00 0.00 3.86 R
6794 12650 6.980978 AGCCATGTAATATAGTCATCGCATAC 59.019 38.462 0.00 0.00 30.49 2.39 R
7565 13421 0.104855 AGACAGCAGCAACGTCAAGA 59.895 50.000 11.06 0.00 31.92 3.02 R
8666 17320 0.102120 CGAGCAGTTTGTTTGGCCAA 59.898 50.000 16.05 16.05 0.00 4.52 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
23 24 6.919775 ATTCCGCTGGTATACTCTTAGAAT 57.080 37.500 2.25 4.41 0.00 2.40
24 25 6.726490 TTCCGCTGGTATACTCTTAGAATT 57.274 37.500 2.25 0.00 0.00 2.17
25 26 6.085555 TCCGCTGGTATACTCTTAGAATTG 57.914 41.667 2.25 0.00 0.00 2.32
26 27 4.686554 CCGCTGGTATACTCTTAGAATTGC 59.313 45.833 2.25 0.00 0.00 3.56
27 28 5.289595 CGCTGGTATACTCTTAGAATTGCA 58.710 41.667 2.25 0.00 0.00 4.08
28 29 5.928839 CGCTGGTATACTCTTAGAATTGCAT 59.071 40.000 2.25 0.00 0.00 3.96
29 30 6.128715 CGCTGGTATACTCTTAGAATTGCATG 60.129 42.308 2.25 0.00 0.00 4.06
30 31 6.708054 GCTGGTATACTCTTAGAATTGCATGT 59.292 38.462 2.25 0.00 0.00 3.21
31 32 7.307632 GCTGGTATACTCTTAGAATTGCATGTG 60.308 40.741 2.25 0.00 0.00 3.21
32 33 7.564793 TGGTATACTCTTAGAATTGCATGTGT 58.435 34.615 2.25 0.00 0.00 3.72
33 34 8.700973 TGGTATACTCTTAGAATTGCATGTGTA 58.299 33.333 2.25 0.00 0.00 2.90
34 35 9.197694 GGTATACTCTTAGAATTGCATGTGTAG 57.802 37.037 2.25 0.00 0.00 2.74
35 36 9.197694 GTATACTCTTAGAATTGCATGTGTAGG 57.802 37.037 0.00 0.00 0.00 3.18
36 37 6.054860 ACTCTTAGAATTGCATGTGTAGGT 57.945 37.500 0.00 0.00 0.00 3.08
37 38 6.476378 ACTCTTAGAATTGCATGTGTAGGTT 58.524 36.000 0.00 0.00 0.00 3.50
38 39 6.372659 ACTCTTAGAATTGCATGTGTAGGTTG 59.627 38.462 0.00 0.00 0.00 3.77
39 40 6.472016 TCTTAGAATTGCATGTGTAGGTTGA 58.528 36.000 0.00 0.00 0.00 3.18
40 41 7.112122 TCTTAGAATTGCATGTGTAGGTTGAT 58.888 34.615 0.00 0.00 0.00 2.57
41 42 7.611467 TCTTAGAATTGCATGTGTAGGTTGATT 59.389 33.333 0.00 0.00 0.00 2.57
42 43 8.800370 TTAGAATTGCATGTGTAGGTTGATTA 57.200 30.769 0.00 0.00 0.00 1.75
43 44 7.088589 AGAATTGCATGTGTAGGTTGATTAC 57.911 36.000 0.00 0.00 0.00 1.89
44 45 6.886459 AGAATTGCATGTGTAGGTTGATTACT 59.114 34.615 0.00 0.00 0.00 2.24
45 46 7.394359 AGAATTGCATGTGTAGGTTGATTACTT 59.606 33.333 0.00 0.00 0.00 2.24
46 47 5.878332 TGCATGTGTAGGTTGATTACTTG 57.122 39.130 0.00 0.00 0.00 3.16
47 48 5.555966 TGCATGTGTAGGTTGATTACTTGA 58.444 37.500 0.00 0.00 0.00 3.02
48 49 6.179756 TGCATGTGTAGGTTGATTACTTGAT 58.820 36.000 0.00 0.00 0.00 2.57
49 50 6.658816 TGCATGTGTAGGTTGATTACTTGATT 59.341 34.615 0.00 0.00 0.00 2.57
50 51 7.176515 TGCATGTGTAGGTTGATTACTTGATTT 59.823 33.333 0.00 0.00 0.00 2.17
51 52 7.485913 GCATGTGTAGGTTGATTACTTGATTTG 59.514 37.037 0.00 0.00 0.00 2.32
52 53 8.514594 CATGTGTAGGTTGATTACTTGATTTGT 58.485 33.333 0.00 0.00 0.00 2.83
53 54 7.870826 TGTGTAGGTTGATTACTTGATTTGTG 58.129 34.615 0.00 0.00 0.00 3.33
54 55 6.801862 GTGTAGGTTGATTACTTGATTTGTGC 59.198 38.462 0.00 0.00 0.00 4.57
55 56 6.714810 TGTAGGTTGATTACTTGATTTGTGCT 59.285 34.615 0.00 0.00 0.00 4.40
56 57 7.880713 TGTAGGTTGATTACTTGATTTGTGCTA 59.119 33.333 0.00 0.00 0.00 3.49
57 58 7.759489 AGGTTGATTACTTGATTTGTGCTAA 57.241 32.000 0.00 0.00 0.00 3.09
58 59 7.820648 AGGTTGATTACTTGATTTGTGCTAAG 58.179 34.615 0.00 0.00 0.00 2.18
59 60 7.448469 AGGTTGATTACTTGATTTGTGCTAAGT 59.552 33.333 0.00 0.00 37.21 2.24
60 61 8.082242 GGTTGATTACTTGATTTGTGCTAAGTT 58.918 33.333 0.00 0.00 35.26 2.66
61 62 8.905702 GTTGATTACTTGATTTGTGCTAAGTTG 58.094 33.333 0.00 0.00 35.26 3.16
62 63 7.083858 TGATTACTTGATTTGTGCTAAGTTGC 58.916 34.615 0.00 0.00 35.26 4.17
63 64 6.633500 TTACTTGATTTGTGCTAAGTTGCT 57.367 33.333 0.00 0.00 35.26 3.91
64 65 7.737972 TTACTTGATTTGTGCTAAGTTGCTA 57.262 32.000 0.00 0.00 35.26 3.49
65 66 6.633500 ACTTGATTTGTGCTAAGTTGCTAA 57.367 33.333 0.00 0.00 29.65 3.09
66 67 7.038154 ACTTGATTTGTGCTAAGTTGCTAAA 57.962 32.000 0.00 0.00 29.65 1.85
67 68 7.488322 ACTTGATTTGTGCTAAGTTGCTAAAA 58.512 30.769 0.00 0.00 29.65 1.52
68 69 8.143835 ACTTGATTTGTGCTAAGTTGCTAAAAT 58.856 29.630 0.00 0.00 34.18 1.82
69 70 8.519492 TTGATTTGTGCTAAGTTGCTAAAATC 57.481 30.769 18.11 18.11 40.94 2.17
70 71 7.885297 TGATTTGTGCTAAGTTGCTAAAATCT 58.115 30.769 21.21 6.01 41.03 2.40
71 72 7.809331 TGATTTGTGCTAAGTTGCTAAAATCTG 59.191 33.333 21.21 0.00 41.03 2.90
72 73 5.046910 TGTGCTAAGTTGCTAAAATCTGC 57.953 39.130 0.00 0.00 0.00 4.26
73 74 4.082787 TGTGCTAAGTTGCTAAAATCTGCC 60.083 41.667 0.00 0.00 0.00 4.85
74 75 4.078537 TGCTAAGTTGCTAAAATCTGCCA 58.921 39.130 0.00 0.00 0.00 4.92
75 76 4.522405 TGCTAAGTTGCTAAAATCTGCCAA 59.478 37.500 0.00 0.00 0.00 4.52
76 77 5.098211 GCTAAGTTGCTAAAATCTGCCAAG 58.902 41.667 0.00 0.00 0.00 3.61
77 78 5.106157 GCTAAGTTGCTAAAATCTGCCAAGA 60.106 40.000 0.00 0.00 36.69 3.02
78 79 4.773323 AGTTGCTAAAATCTGCCAAGAC 57.227 40.909 0.00 0.00 34.48 3.01
79 80 4.401925 AGTTGCTAAAATCTGCCAAGACT 58.598 39.130 0.00 0.00 34.48 3.24
80 81 4.829492 AGTTGCTAAAATCTGCCAAGACTT 59.171 37.500 0.00 0.00 34.48 3.01
81 82 6.003950 AGTTGCTAAAATCTGCCAAGACTTA 58.996 36.000 0.00 0.00 34.48 2.24
82 83 6.490040 AGTTGCTAAAATCTGCCAAGACTTAA 59.510 34.615 0.00 0.00 34.48 1.85
83 84 6.892658 TGCTAAAATCTGCCAAGACTTAAA 57.107 33.333 0.00 0.00 34.48 1.52
84 85 7.283625 TGCTAAAATCTGCCAAGACTTAAAA 57.716 32.000 0.00 0.00 34.48 1.52
85 86 7.895759 TGCTAAAATCTGCCAAGACTTAAAAT 58.104 30.769 0.00 0.00 34.48 1.82
86 87 8.367156 TGCTAAAATCTGCCAAGACTTAAAATT 58.633 29.630 0.00 0.00 34.48 1.82
87 88 8.650714 GCTAAAATCTGCCAAGACTTAAAATTG 58.349 33.333 0.00 0.00 34.48 2.32
88 89 7.967890 AAAATCTGCCAAGACTTAAAATTGG 57.032 32.000 8.10 8.10 45.16 3.16
89 90 5.665916 ATCTGCCAAGACTTAAAATTGGG 57.334 39.130 12.48 0.00 43.06 4.12
90 91 4.735369 TCTGCCAAGACTTAAAATTGGGA 58.265 39.130 12.48 9.75 43.06 4.37
91 92 5.144100 TCTGCCAAGACTTAAAATTGGGAA 58.856 37.500 12.48 2.40 42.82 3.97
92 93 5.600484 TCTGCCAAGACTTAAAATTGGGAAA 59.400 36.000 12.48 0.00 42.82 3.13
93 94 6.098982 TCTGCCAAGACTTAAAATTGGGAAAA 59.901 34.615 12.48 2.20 42.82 2.29
94 95 6.287525 TGCCAAGACTTAAAATTGGGAAAAG 58.712 36.000 12.48 0.00 40.87 2.27
95 96 5.700832 GCCAAGACTTAAAATTGGGAAAAGG 59.299 40.000 12.48 0.00 43.06 3.11
96 97 5.700832 CCAAGACTTAAAATTGGGAAAAGGC 59.299 40.000 5.48 0.00 39.87 4.35
97 98 6.464322 CCAAGACTTAAAATTGGGAAAAGGCT 60.464 38.462 5.48 0.00 39.87 4.58
98 99 7.256154 CCAAGACTTAAAATTGGGAAAAGGCTA 60.256 37.037 0.00 0.00 39.87 3.93
99 100 7.468141 AGACTTAAAATTGGGAAAAGGCTAG 57.532 36.000 0.00 0.00 33.76 3.42
100 101 7.238710 AGACTTAAAATTGGGAAAAGGCTAGA 58.761 34.615 0.00 0.00 33.76 2.43
101 102 7.895962 AGACTTAAAATTGGGAAAAGGCTAGAT 59.104 33.333 0.00 0.00 33.76 1.98
102 103 8.435931 ACTTAAAATTGGGAAAAGGCTAGATT 57.564 30.769 0.00 0.00 0.00 2.40
103 104 8.880244 ACTTAAAATTGGGAAAAGGCTAGATTT 58.120 29.630 0.00 0.00 0.00 2.17
104 105 9.725019 CTTAAAATTGGGAAAAGGCTAGATTTT 57.275 29.630 0.00 0.00 32.68 1.82
110 111 9.671279 ATTGGGAAAAGGCTAGATTTTTATTTG 57.329 29.630 0.00 0.00 30.22 2.32
111 112 7.619965 TGGGAAAAGGCTAGATTTTTATTTGG 58.380 34.615 0.00 0.00 30.22 3.28
112 113 7.236640 TGGGAAAAGGCTAGATTTTTATTTGGT 59.763 33.333 0.00 0.00 30.22 3.67
113 114 7.764443 GGGAAAAGGCTAGATTTTTATTTGGTC 59.236 37.037 0.00 0.00 30.22 4.02
114 115 8.311109 GGAAAAGGCTAGATTTTTATTTGGTCA 58.689 33.333 0.00 0.00 30.22 4.02
115 116 9.705290 GAAAAGGCTAGATTTTTATTTGGTCAA 57.295 29.630 0.00 0.00 30.22 3.18
116 117 9.710900 AAAAGGCTAGATTTTTATTTGGTCAAG 57.289 29.630 0.00 0.00 0.00 3.02
117 118 8.422577 AAGGCTAGATTTTTATTTGGTCAAGT 57.577 30.769 0.00 0.00 0.00 3.16
118 119 9.528489 AAGGCTAGATTTTTATTTGGTCAAGTA 57.472 29.630 0.00 0.00 0.00 2.24
119 120 9.178758 AGGCTAGATTTTTATTTGGTCAAGTAG 57.821 33.333 0.00 0.00 0.00 2.57
120 121 8.957466 GGCTAGATTTTTATTTGGTCAAGTAGT 58.043 33.333 0.00 0.00 0.00 2.73
121 122 9.989869 GCTAGATTTTTATTTGGTCAAGTAGTC 57.010 33.333 0.00 0.00 0.00 2.59
129 130 9.444600 TTTATTTGGTCAAGTAGTCTAATCACC 57.555 33.333 2.72 2.72 0.00 4.02
130 131 5.416271 TTGGTCAAGTAGTCTAATCACCC 57.584 43.478 6.13 0.00 0.00 4.61
131 132 3.773119 TGGTCAAGTAGTCTAATCACCCC 59.227 47.826 6.13 0.00 0.00 4.95
132 133 3.134262 GGTCAAGTAGTCTAATCACCCCC 59.866 52.174 0.00 0.00 0.00 5.40
149 150 2.257207 CCCCCTCTAGACACACTTTCA 58.743 52.381 0.00 0.00 0.00 2.69
150 151 2.637872 CCCCCTCTAGACACACTTTCAA 59.362 50.000 0.00 0.00 0.00 2.69
151 152 3.264450 CCCCCTCTAGACACACTTTCAAT 59.736 47.826 0.00 0.00 0.00 2.57
152 153 4.508662 CCCCTCTAGACACACTTTCAATC 58.491 47.826 0.00 0.00 0.00 2.67
153 154 4.508662 CCCTCTAGACACACTTTCAATCC 58.491 47.826 0.00 0.00 0.00 3.01
154 155 4.223923 CCCTCTAGACACACTTTCAATCCT 59.776 45.833 0.00 0.00 0.00 3.24
155 156 5.422331 CCCTCTAGACACACTTTCAATCCTA 59.578 44.000 0.00 0.00 0.00 2.94
156 157 6.334202 CCTCTAGACACACTTTCAATCCTAC 58.666 44.000 0.00 0.00 0.00 3.18
157 158 6.071334 CCTCTAGACACACTTTCAATCCTACA 60.071 42.308 0.00 0.00 0.00 2.74
158 159 6.925211 TCTAGACACACTTTCAATCCTACAG 58.075 40.000 0.00 0.00 0.00 2.74
159 160 5.552870 AGACACACTTTCAATCCTACAGT 57.447 39.130 0.00 0.00 0.00 3.55
160 161 5.542779 AGACACACTTTCAATCCTACAGTC 58.457 41.667 0.00 0.00 0.00 3.51
161 162 4.307432 ACACACTTTCAATCCTACAGTCG 58.693 43.478 0.00 0.00 0.00 4.18
162 163 3.679980 CACACTTTCAATCCTACAGTCGG 59.320 47.826 0.00 0.00 0.00 4.79
163 164 3.576982 ACACTTTCAATCCTACAGTCGGA 59.423 43.478 0.00 0.00 34.52 4.55
164 165 4.039973 ACACTTTCAATCCTACAGTCGGAA 59.960 41.667 0.00 0.00 33.55 4.30
165 166 4.389077 CACTTTCAATCCTACAGTCGGAAC 59.611 45.833 0.00 0.00 33.55 3.62
184 185 6.192234 GGAACGAGAAGAAGTATGACTACA 57.808 41.667 0.00 0.00 0.00 2.74
185 186 6.797454 GGAACGAGAAGAAGTATGACTACAT 58.203 40.000 0.00 0.00 40.16 2.29
186 187 6.913673 GGAACGAGAAGAAGTATGACTACATC 59.086 42.308 0.00 0.00 37.87 3.06
187 188 7.392494 AACGAGAAGAAGTATGACTACATCA 57.608 36.000 0.00 0.00 43.13 3.07
188 189 7.392494 ACGAGAAGAAGTATGACTACATCAA 57.608 36.000 0.00 0.00 41.93 2.57
189 190 7.251994 ACGAGAAGAAGTATGACTACATCAAC 58.748 38.462 0.00 0.00 41.93 3.18
190 191 7.121463 ACGAGAAGAAGTATGACTACATCAACT 59.879 37.037 0.00 0.00 41.93 3.16
191 192 7.430793 CGAGAAGAAGTATGACTACATCAACTG 59.569 40.741 0.00 0.00 41.93 3.16
192 193 8.128322 AGAAGAAGTATGACTACATCAACTGT 57.872 34.615 0.00 0.00 41.93 3.55
193 194 8.031864 AGAAGAAGTATGACTACATCAACTGTG 58.968 37.037 0.00 0.00 41.93 3.66
194 195 7.233389 AGAAGTATGACTACATCAACTGTGT 57.767 36.000 0.00 0.00 41.93 3.72
195 196 7.671302 AGAAGTATGACTACATCAACTGTGTT 58.329 34.615 0.00 0.00 41.93 3.32
196 197 7.600375 AGAAGTATGACTACATCAACTGTGTTG 59.400 37.037 4.25 4.25 41.93 3.33
197 198 6.759272 AGTATGACTACATCAACTGTGTTGT 58.241 36.000 9.78 0.00 41.93 3.32
198 199 6.868864 AGTATGACTACATCAACTGTGTTGTC 59.131 38.462 11.87 11.87 45.83 3.18
200 201 5.984233 GACTACATCAACTGTGTTGTCAA 57.016 39.130 13.26 0.00 45.34 3.18
201 202 6.358118 GACTACATCAACTGTGTTGTCAAA 57.642 37.500 13.26 0.00 45.34 2.69
202 203 6.119144 ACTACATCAACTGTGTTGTCAAAC 57.881 37.500 9.78 0.00 38.39 2.93
203 204 4.014847 ACATCAACTGTGTTGTCAAACG 57.985 40.909 9.78 0.00 39.30 3.60
204 205 2.535934 TCAACTGTGTTGTCAAACGC 57.464 45.000 9.78 0.00 45.27 4.84
205 206 2.080693 TCAACTGTGTTGTCAAACGCT 58.919 42.857 9.78 0.00 45.28 5.07
206 207 2.486203 TCAACTGTGTTGTCAAACGCTT 59.514 40.909 9.78 0.00 45.28 4.68
207 208 2.825086 ACTGTGTTGTCAAACGCTTC 57.175 45.000 4.06 0.00 45.28 3.86
208 209 1.400494 ACTGTGTTGTCAAACGCTTCC 59.600 47.619 4.06 0.00 45.28 3.46
209 210 0.375454 TGTGTTGTCAAACGCTTCCG 59.625 50.000 4.06 0.00 45.28 4.30
210 211 0.653636 GTGTTGTCAAACGCTTCCGA 59.346 50.000 0.00 0.00 42.40 4.55
211 212 1.263217 GTGTTGTCAAACGCTTCCGAT 59.737 47.619 0.00 0.00 42.40 4.18
212 213 1.944024 TGTTGTCAAACGCTTCCGATT 59.056 42.857 0.00 0.00 39.30 3.34
213 214 2.356382 TGTTGTCAAACGCTTCCGATTT 59.644 40.909 0.00 0.00 39.30 2.17
214 215 2.961522 TGTCAAACGCTTCCGATTTC 57.038 45.000 0.00 0.00 38.29 2.17
215 216 1.193650 TGTCAAACGCTTCCGATTTCG 59.806 47.619 0.00 0.00 38.29 3.46
236 237 3.813443 GGTCTACGAGGGTACATAGACA 58.187 50.000 15.98 0.00 43.51 3.41
237 238 4.396522 GGTCTACGAGGGTACATAGACAT 58.603 47.826 15.98 0.00 43.51 3.06
238 239 5.555017 GGTCTACGAGGGTACATAGACATA 58.445 45.833 15.98 0.00 43.51 2.29
239 240 5.411053 GGTCTACGAGGGTACATAGACATAC 59.589 48.000 15.98 0.34 43.51 2.39
240 241 6.229733 GTCTACGAGGGTACATAGACATACT 58.770 44.000 12.11 0.00 42.02 2.12
241 242 6.368516 GTCTACGAGGGTACATAGACATACTC 59.631 46.154 12.11 0.00 42.02 2.59
242 243 5.307544 ACGAGGGTACATAGACATACTCT 57.692 43.478 0.00 0.00 34.72 3.24
243 244 5.307204 ACGAGGGTACATAGACATACTCTC 58.693 45.833 0.00 1.85 42.98 3.20
244 245 4.696402 CGAGGGTACATAGACATACTCTCC 59.304 50.000 5.85 0.00 43.34 3.71
245 246 5.000570 AGGGTACATAGACATACTCTCCC 57.999 47.826 0.00 0.00 24.44 4.30
246 247 4.087907 GGGTACATAGACATACTCTCCCC 58.912 52.174 0.00 0.00 0.00 4.81
247 248 4.087907 GGTACATAGACATACTCTCCCCC 58.912 52.174 0.00 0.00 0.00 5.40
248 249 4.202695 GGTACATAGACATACTCTCCCCCT 60.203 50.000 0.00 0.00 0.00 4.79
249 250 4.120946 ACATAGACATACTCTCCCCCTC 57.879 50.000 0.00 0.00 0.00 4.30
250 251 3.730059 ACATAGACATACTCTCCCCCTCT 59.270 47.826 0.00 0.00 0.00 3.69
251 252 4.202631 ACATAGACATACTCTCCCCCTCTC 60.203 50.000 0.00 0.00 0.00 3.20
252 253 1.144093 AGACATACTCTCCCCCTCTCG 59.856 57.143 0.00 0.00 0.00 4.04
253 254 0.927767 ACATACTCTCCCCCTCTCGT 59.072 55.000 0.00 0.00 0.00 4.18
254 255 1.288335 ACATACTCTCCCCCTCTCGTT 59.712 52.381 0.00 0.00 0.00 3.85
255 256 1.683917 CATACTCTCCCCCTCTCGTTG 59.316 57.143 0.00 0.00 0.00 4.10
256 257 0.683504 TACTCTCCCCCTCTCGTTGC 60.684 60.000 0.00 0.00 0.00 4.17
257 258 1.684049 CTCTCCCCCTCTCGTTGCT 60.684 63.158 0.00 0.00 0.00 3.91
258 259 0.395862 CTCTCCCCCTCTCGTTGCTA 60.396 60.000 0.00 0.00 0.00 3.49
259 260 0.261991 TCTCCCCCTCTCGTTGCTAT 59.738 55.000 0.00 0.00 0.00 2.97
260 261 0.390860 CTCCCCCTCTCGTTGCTATG 59.609 60.000 0.00 0.00 0.00 2.23
261 262 1.227674 CCCCCTCTCGTTGCTATGC 60.228 63.158 0.00 0.00 0.00 3.14
262 263 1.522092 CCCCTCTCGTTGCTATGCA 59.478 57.895 0.00 0.00 36.47 3.96
263 264 0.107456 CCCCTCTCGTTGCTATGCAT 59.893 55.000 3.79 3.79 38.76 3.96
264 265 1.506493 CCCTCTCGTTGCTATGCATC 58.494 55.000 0.19 0.00 38.76 3.91
265 266 1.069823 CCCTCTCGTTGCTATGCATCT 59.930 52.381 0.19 0.00 38.76 2.90
266 267 2.402305 CCTCTCGTTGCTATGCATCTC 58.598 52.381 0.19 0.00 38.76 2.75
267 268 2.402305 CTCTCGTTGCTATGCATCTCC 58.598 52.381 0.19 0.00 38.76 3.71
268 269 2.034878 TCTCGTTGCTATGCATCTCCT 58.965 47.619 0.19 0.00 38.76 3.69
269 270 3.222603 TCTCGTTGCTATGCATCTCCTA 58.777 45.455 0.19 0.00 38.76 2.94
270 271 3.254411 TCTCGTTGCTATGCATCTCCTAG 59.746 47.826 0.19 0.00 38.76 3.02
271 272 3.222603 TCGTTGCTATGCATCTCCTAGA 58.777 45.455 0.19 0.00 38.76 2.43
272 273 3.829026 TCGTTGCTATGCATCTCCTAGAT 59.171 43.478 0.19 0.00 38.76 1.98
273 274 5.010282 TCGTTGCTATGCATCTCCTAGATA 58.990 41.667 0.19 0.00 38.76 1.98
274 275 5.124617 TCGTTGCTATGCATCTCCTAGATAG 59.875 44.000 0.19 0.00 38.76 2.08
275 276 5.124617 CGTTGCTATGCATCTCCTAGATAGA 59.875 44.000 0.19 0.00 38.76 1.98
276 277 6.183360 CGTTGCTATGCATCTCCTAGATAGAT 60.183 42.308 0.19 0.00 38.76 1.98
277 278 6.957920 TGCTATGCATCTCCTAGATAGATC 57.042 41.667 0.19 0.00 32.12 2.75
278 279 6.671605 TGCTATGCATCTCCTAGATAGATCT 58.328 40.000 0.19 0.00 32.12 2.75
279 280 7.124721 TGCTATGCATCTCCTAGATAGATCTT 58.875 38.462 0.19 0.00 32.12 2.40
280 281 7.068470 TGCTATGCATCTCCTAGATAGATCTTG 59.932 40.741 0.19 0.00 32.12 3.02
281 282 5.657826 TGCATCTCCTAGATAGATCTTGC 57.342 43.478 0.00 0.69 38.32 4.01
282 283 4.157472 TGCATCTCCTAGATAGATCTTGCG 59.843 45.833 0.00 0.00 36.48 4.85
283 284 4.157656 GCATCTCCTAGATAGATCTTGCGT 59.842 45.833 0.00 0.00 38.32 5.24
284 285 5.639757 CATCTCCTAGATAGATCTTGCGTG 58.360 45.833 0.00 0.00 38.32 5.34
285 286 4.974399 TCTCCTAGATAGATCTTGCGTGA 58.026 43.478 0.00 0.00 38.32 4.35
286 287 5.000591 TCTCCTAGATAGATCTTGCGTGAG 58.999 45.833 0.00 1.23 38.32 3.51
320 321 6.595772 TTTTTGAAATTGCATGCTACGTTT 57.404 29.167 20.33 13.51 0.00 3.60
321 322 5.820926 TTTGAAATTGCATGCTACGTTTC 57.179 34.783 20.33 20.42 0.00 2.78
322 323 3.832276 TGAAATTGCATGCTACGTTTCC 58.168 40.909 20.33 8.84 0.00 3.13
323 324 2.939460 AATTGCATGCTACGTTTCCC 57.061 45.000 20.33 0.00 0.00 3.97
324 325 1.832883 ATTGCATGCTACGTTTCCCA 58.167 45.000 20.33 0.00 0.00 4.37
325 326 1.610363 TTGCATGCTACGTTTCCCAA 58.390 45.000 20.33 0.00 0.00 4.12
326 327 0.878416 TGCATGCTACGTTTCCCAAC 59.122 50.000 20.33 0.00 0.00 3.77
327 328 0.878416 GCATGCTACGTTTCCCAACA 59.122 50.000 11.37 0.00 32.54 3.33
328 329 1.135689 GCATGCTACGTTTCCCAACAG 60.136 52.381 11.37 0.00 32.54 3.16
329 330 1.468520 CATGCTACGTTTCCCAACAGG 59.531 52.381 0.00 0.00 32.54 4.00
330 331 0.250553 TGCTACGTTTCCCAACAGGG 60.251 55.000 0.00 0.00 44.52 4.45
337 338 3.854582 TCCCAACAGGGATGCCAT 58.145 55.556 5.86 0.00 46.79 4.40
338 339 1.307309 TCCCAACAGGGATGCCATG 59.693 57.895 5.86 3.53 46.79 3.66
339 340 1.213619 TCCCAACAGGGATGCCATGA 61.214 55.000 5.86 0.00 46.79 3.07
340 341 0.324552 CCCAACAGGGATGCCATGAA 60.325 55.000 5.86 0.00 46.20 2.57
341 342 1.108776 CCAACAGGGATGCCATGAAG 58.891 55.000 5.86 0.10 37.52 3.02
342 343 1.108776 CAACAGGGATGCCATGAAGG 58.891 55.000 5.86 0.00 37.52 3.46
367 368 4.386245 CTCGAGCGAGCTAACCAC 57.614 61.111 6.99 0.00 35.31 4.16
368 369 1.226717 CTCGAGCGAGCTAACCACC 60.227 63.158 6.99 0.00 35.31 4.61
369 370 2.202756 CGAGCGAGCTAACCACCC 60.203 66.667 0.00 0.00 0.00 4.61
370 371 2.187163 GAGCGAGCTAACCACCCC 59.813 66.667 0.00 0.00 0.00 4.95
371 372 2.606519 AGCGAGCTAACCACCCCA 60.607 61.111 0.00 0.00 0.00 4.96
372 373 1.972660 GAGCGAGCTAACCACCCCAT 61.973 60.000 0.00 0.00 0.00 4.00
373 374 0.689745 AGCGAGCTAACCACCCCATA 60.690 55.000 0.00 0.00 0.00 2.74
374 375 0.249911 GCGAGCTAACCACCCCATAG 60.250 60.000 0.00 0.00 0.00 2.23
375 376 1.410004 CGAGCTAACCACCCCATAGA 58.590 55.000 0.00 0.00 0.00 1.98
376 377 1.341531 CGAGCTAACCACCCCATAGAG 59.658 57.143 0.00 0.00 0.00 2.43
377 378 2.399580 GAGCTAACCACCCCATAGAGT 58.600 52.381 0.00 0.00 0.00 3.24
378 379 2.103263 GAGCTAACCACCCCATAGAGTG 59.897 54.545 0.00 0.00 0.00 3.51
379 380 1.475213 GCTAACCACCCCATAGAGTGC 60.475 57.143 0.00 0.00 32.48 4.40
380 381 1.141053 CTAACCACCCCATAGAGTGCC 59.859 57.143 0.00 0.00 32.48 5.01
381 382 1.571773 AACCACCCCATAGAGTGCCC 61.572 60.000 0.00 0.00 32.48 5.36
382 383 1.694169 CCACCCCATAGAGTGCCCT 60.694 63.158 0.00 0.00 32.48 5.19
383 384 1.700042 CCACCCCATAGAGTGCCCTC 61.700 65.000 0.00 0.00 38.04 4.30
385 386 0.399233 ACCCCATAGAGTGCCCTCTC 60.399 60.000 0.51 0.00 45.08 3.20
386 387 1.467678 CCCCATAGAGTGCCCTCTCG 61.468 65.000 0.51 0.00 45.08 4.04
387 388 1.365633 CCATAGAGTGCCCTCTCGC 59.634 63.158 0.51 0.00 45.08 5.03
388 389 1.395045 CCATAGAGTGCCCTCTCGCA 61.395 60.000 0.51 0.00 45.08 5.10
396 397 4.069232 CCCTCTCGCACGAGCCAA 62.069 66.667 15.04 0.00 41.71 4.52
397 398 2.811317 CCTCTCGCACGAGCCAAC 60.811 66.667 15.04 0.00 41.71 3.77
398 399 3.175240 CTCTCGCACGAGCCAACG 61.175 66.667 15.04 0.00 41.71 4.10
515 516 2.715005 CACGTGTTGTGTGGGCAG 59.285 61.111 7.58 0.00 43.88 4.85
525 526 1.913262 TGTGGGCAGATCGGACAGT 60.913 57.895 0.00 0.00 0.00 3.55
531 532 1.226802 CAGATCGGACAGTGCGGAG 60.227 63.158 15.10 0.00 0.00 4.63
555 556 2.669569 CTGTTGGACGCCACCTGG 60.670 66.667 0.00 0.00 30.78 4.45
563 564 2.438434 CGCCACCTGGGAATGGAC 60.438 66.667 6.03 0.00 38.34 4.02
568 569 4.096003 CCTGGGAATGGACGGCGT 62.096 66.667 14.65 14.65 0.00 5.68
569 570 2.727392 CCTGGGAATGGACGGCGTA 61.727 63.158 14.74 0.00 0.00 4.42
570 571 1.227263 CTGGGAATGGACGGCGTAG 60.227 63.158 14.74 0.00 0.00 3.51
599 600 2.785389 ACCCTCAAAGGCCCCCAA 60.785 61.111 0.00 0.00 32.73 4.12
837 3762 2.383245 ATAGACCTGGGCGCCGAATG 62.383 60.000 22.54 13.23 0.00 2.67
849 3778 1.659233 CCGAATGTGCTGCACCAAA 59.341 52.632 28.17 11.88 32.73 3.28
850 3779 0.387622 CCGAATGTGCTGCACCAAAG 60.388 55.000 28.17 16.98 32.73 2.77
877 3806 5.950549 TCAACTAGAGTCTATTCCGTTTCCT 59.049 40.000 0.00 0.00 0.00 3.36
885 3814 8.541234 AGAGTCTATTCCGTTTCCTTTAAGAAT 58.459 33.333 0.00 0.00 0.00 2.40
1275 4205 2.359900 TCCCCTCTACTACGTCGTTTC 58.640 52.381 1.78 0.00 0.00 2.78
1287 4217 4.418401 CGTTTCGACCGGCCCGTA 62.418 66.667 15.14 4.60 0.00 4.02
1361 4291 1.875009 AGGTCGTTCCTTTCGAAACC 58.125 50.000 6.47 5.63 45.67 3.27
1377 4307 4.507879 CCGTTAGGGTAGCGTTGG 57.492 61.111 0.00 0.00 0.00 3.77
1427 4357 6.535508 GGGACTAGCTAGTGAATTTTGTGTAG 59.464 42.308 30.70 0.00 36.50 2.74
1614 4544 2.166459 TCAGATTCAAACTCGGCTCGAT 59.834 45.455 0.00 0.00 34.61 3.59
1771 4868 1.899054 CCGCTAGCTCATCCTCCGA 60.899 63.158 13.93 0.00 0.00 4.55
1777 4874 2.835431 CTCATCCTCCGACCGGCT 60.835 66.667 0.00 0.00 34.68 5.52
1885 5001 1.537202 CAACTGGTTTGCTACTCCTGC 59.463 52.381 0.00 0.00 0.00 4.85
2009 5125 8.908786 TGAATCAACTATGACTTGAACTCTTT 57.091 30.769 0.00 0.00 38.69 2.52
2067 5183 3.476552 TGACTGTTCCAAGCAGGTTTAG 58.523 45.455 0.00 0.00 38.22 1.85
2164 5280 3.111853 TGCTCTTGCATTCTATACCCG 57.888 47.619 0.00 0.00 45.31 5.28
2260 5615 4.937620 TCTTATCCATGTTCAAGAGTGCAC 59.062 41.667 9.40 9.40 0.00 4.57
2437 5792 0.893727 CAGGGAAGGGGGTTGTTTCG 60.894 60.000 0.00 0.00 0.00 3.46
3029 6385 9.772973 ATGGATTCCATGTCATCATAAAATTTG 57.227 29.630 17.52 0.00 43.39 2.32
3124 6480 3.691049 CACGGTTCAAATCACTGTGTT 57.309 42.857 7.79 0.00 43.75 3.32
3389 6745 2.229784 CAGGTCCTCCAACAAATCAAGC 59.770 50.000 0.00 0.00 35.89 4.01
3561 6924 5.500234 AGTGGTAGCAGCAATTCATTCTAA 58.500 37.500 0.00 0.00 0.00 2.10
3563 6926 6.434028 AGTGGTAGCAGCAATTCATTCTAAAA 59.566 34.615 0.00 0.00 0.00 1.52
3564 6927 7.039784 AGTGGTAGCAGCAATTCATTCTAAAAA 60.040 33.333 0.00 0.00 0.00 1.94
3653 7914 5.717078 AGTGATACTTTTGAGACCGTGTA 57.283 39.130 0.00 0.00 0.00 2.90
4034 8460 1.953559 TGGTTTGTCTCAGCTGTCAC 58.046 50.000 14.67 11.86 0.00 3.67
4265 8853 7.589954 GCACATTTTTGTTCGTCTAGTAACAAT 59.410 33.333 16.09 5.08 43.14 2.71
4560 9148 6.272318 TGAAAACCAAAGCTTGACTAATGTG 58.728 36.000 0.00 0.00 0.00 3.21
4966 10504 1.443802 GTTTCCCCTGAGCTCGAAAG 58.556 55.000 9.64 0.44 0.00 2.62
5078 10619 0.254178 TCTCCTTGGCCTGATTCTGC 59.746 55.000 3.32 0.00 0.00 4.26
5192 10739 4.263572 CACCTGCCACCACCGGAA 62.264 66.667 9.46 0.00 0.00 4.30
5193 10740 3.953775 ACCTGCCACCACCGGAAG 61.954 66.667 9.46 0.00 0.00 3.46
5194 10741 3.636231 CCTGCCACCACCGGAAGA 61.636 66.667 9.46 0.00 32.66 2.87
5195 10742 2.358737 CTGCCACCACCGGAAGAC 60.359 66.667 9.46 0.00 32.66 3.01
5196 10743 2.847234 TGCCACCACCGGAAGACT 60.847 61.111 9.46 0.00 0.00 3.24
5197 10744 2.397413 CTGCCACCACCGGAAGACTT 62.397 60.000 9.46 0.00 32.66 3.01
5198 10745 1.671379 GCCACCACCGGAAGACTTC 60.671 63.158 9.46 6.66 0.00 3.01
5199 10746 1.003718 CCACCACCGGAAGACTTCC 60.004 63.158 22.44 22.44 46.62 3.46
5206 10753 2.125633 GGAAGACTTCCCGACGGC 60.126 66.667 21.88 0.00 44.30 5.68
5207 10754 2.654877 GAAGACTTCCCGACGGCA 59.345 61.111 8.86 0.00 0.00 5.69
5209 10756 2.156051 GAAGACTTCCCGACGGCAGT 62.156 60.000 14.93 14.93 0.00 4.40
5211 10758 0.896940 AGACTTCCCGACGGCAGTAA 60.897 55.000 14.98 3.64 0.00 2.24
5212 10759 0.458025 GACTTCCCGACGGCAGTAAG 60.458 60.000 14.98 13.50 0.00 2.34
5453 11000 5.445142 CGTTCACTGACTAAGCAATCATCAC 60.445 44.000 0.00 0.00 0.00 3.06
5522 11069 1.070445 ACCACAACACCAAATGGCATG 59.930 47.619 0.00 0.00 39.32 4.06
5539 11086 2.098117 GCATGCTACCATCAGTTTCCAC 59.902 50.000 11.37 0.00 0.00 4.02
5550 11097 5.335127 CATCAGTTTCCACCAATTCGATTC 58.665 41.667 0.00 0.00 0.00 2.52
5783 11330 7.444792 TGCAAATCAAAATAATTCAACCAAGCT 59.555 29.630 0.00 0.00 0.00 3.74
5784 11331 8.934825 GCAAATCAAAATAATTCAACCAAGCTA 58.065 29.630 0.00 0.00 0.00 3.32
6011 11857 2.870411 CCTCCGGTCCGAATTAATTGAC 59.130 50.000 14.39 7.68 0.00 3.18
6137 11985 2.769602 TAGTGATGGTACTCCCTCCC 57.230 55.000 0.00 0.00 32.19 4.30
6451 12303 0.457851 AGAGTGGCATGACTAGCGAC 59.542 55.000 0.00 0.00 40.44 5.19
6794 12650 3.869065 TGCAGAAAACCCCTTATACGAG 58.131 45.455 0.00 0.00 0.00 4.18
7161 13017 4.220382 TCACCATTTTCATTTGCAGGGTAG 59.780 41.667 0.00 0.00 0.00 3.18
7405 13261 4.769488 TGTCTCTCAGAGCAACAATAGAGT 59.231 41.667 0.00 0.00 33.72 3.24
7459 13315 2.400399 TCGTTATGGCGCTACTTATGC 58.600 47.619 7.64 0.00 0.00 3.14
7527 13383 8.149973 ACGTTCAAAACAGCTATTCTTAAAGA 57.850 30.769 0.00 0.00 0.00 2.52
7553 13409 6.749923 AGCTTGTAGATCCATTTTCTCAAC 57.250 37.500 0.00 0.00 0.00 3.18
7554 13410 6.240894 AGCTTGTAGATCCATTTTCTCAACA 58.759 36.000 0.00 0.00 0.00 3.33
7555 13411 6.716628 AGCTTGTAGATCCATTTTCTCAACAA 59.283 34.615 0.00 0.00 0.00 2.83
7556 13412 6.803807 GCTTGTAGATCCATTTTCTCAACAAC 59.196 38.462 0.00 0.00 0.00 3.32
7559 13415 8.231692 TGTAGATCCATTTTCTCAACAACAAA 57.768 30.769 0.00 0.00 0.00 2.83
7592 13448 0.464193 TTGCTGCTGTCTTGCACTCA 60.464 50.000 0.00 0.00 38.12 3.41
7593 13449 0.883370 TGCTGCTGTCTTGCACTCAG 60.883 55.000 0.00 7.38 38.12 3.35
7594 13450 0.602106 GCTGCTGTCTTGCACTCAGA 60.602 55.000 13.78 0.00 38.12 3.27
7596 13452 2.424557 CTGCTGTCTTGCACTCAGATT 58.575 47.619 13.78 0.00 38.12 2.40
7597 13453 2.148768 TGCTGTCTTGCACTCAGATTG 58.851 47.619 13.78 1.88 38.12 2.67
7598 13454 2.149578 GCTGTCTTGCACTCAGATTGT 58.850 47.619 13.78 0.00 0.00 2.71
7599 13455 2.095869 GCTGTCTTGCACTCAGATTGTG 60.096 50.000 13.78 0.00 38.36 3.33
7612 13468 2.890311 CAGATTGTGGGCAAGGTTAACA 59.110 45.455 8.10 0.00 38.10 2.41
7671 13527 6.751514 TTTTGTTCCTCGTACATATTGCAT 57.248 33.333 0.00 0.00 0.00 3.96
7676 13532 7.213678 TGTTCCTCGTACATATTGCATAATCA 58.786 34.615 0.00 0.00 0.00 2.57
7737 13646 2.502142 ATGATTGCTCAGTGCCTCAA 57.498 45.000 2.12 0.00 42.00 3.02
8485 17136 4.716784 TCCTTGCTGTACTTATCTCCACAT 59.283 41.667 0.00 0.00 0.00 3.21
8497 17148 6.326064 ACTTATCTCCACATCTGAAGCATAGT 59.674 38.462 0.00 0.00 0.00 2.12
8550 17201 3.002791 TCTCACGACCAAAATCATCAGC 58.997 45.455 0.00 0.00 0.00 4.26
8611 17262 0.740737 GCATGGTCTGTATTGGTGCC 59.259 55.000 0.00 0.00 0.00 5.01
8620 17271 2.234661 CTGTATTGGTGCCTGTCTCTGA 59.765 50.000 0.00 0.00 0.00 3.27
8666 17320 6.865834 TCTCTAGCTCTTCTTCCTGAATTT 57.134 37.500 0.00 0.00 33.71 1.82
8710 17364 2.521465 CTGGTGGGTGCCTGCAAA 60.521 61.111 0.00 0.00 0.00 3.68
8716 17370 2.622962 GGGTGCCTGCAAACGTACC 61.623 63.158 6.77 6.77 0.00 3.34
8922 17576 5.620879 GCCCAAATTCTGACTCAATCTCAAC 60.621 44.000 0.00 0.00 0.00 3.18
9010 17664 0.460284 CATCCAGGTACAGTGTCGCC 60.460 60.000 0.00 3.63 0.00 5.54
9133 17787 0.244721 GCTTGGGTGGCTTGATGAAC 59.755 55.000 0.00 0.00 0.00 3.18
9180 17834 1.663702 CACGACGGTGGTCTGGAAC 60.664 63.158 0.00 0.00 41.16 3.62
9188 17842 0.935196 GTGGTCTGGAACGTGTTCAC 59.065 55.000 14.16 4.46 41.20 3.18
9226 17880 4.244463 CGTGGTTCCGGTGGTGGT 62.244 66.667 0.00 0.00 0.00 4.16
9227 17881 2.593436 GTGGTTCCGGTGGTGGTG 60.593 66.667 0.00 0.00 0.00 4.17
9228 17882 4.572571 TGGTTCCGGTGGTGGTGC 62.573 66.667 0.00 0.00 0.00 5.01
9241 17895 4.813235 GGTGCCCGCCCAAGCATA 62.813 66.667 0.00 0.00 41.86 3.14
9242 17896 3.211963 GTGCCCGCCCAAGCATAG 61.212 66.667 0.00 0.00 41.86 2.23
9243 17897 4.504596 TGCCCGCCCAAGCATAGG 62.505 66.667 0.00 0.00 39.83 2.57
9254 17908 4.547859 GCATAGGCTCCACAGGTG 57.452 61.111 0.00 0.00 36.96 4.00
9255 17909 1.907739 GCATAGGCTCCACAGGTGA 59.092 57.895 0.00 0.00 36.96 4.02
9256 17910 0.471617 GCATAGGCTCCACAGGTGAT 59.528 55.000 0.00 0.00 36.96 3.06
9257 17911 1.813092 GCATAGGCTCCACAGGTGATG 60.813 57.143 0.00 0.00 36.96 3.07
9258 17912 1.135094 ATAGGCTCCACAGGTGATGG 58.865 55.000 0.00 0.00 38.71 3.51
9259 17913 0.982852 TAGGCTCCACAGGTGATGGG 60.983 60.000 0.00 0.00 37.85 4.00
9276 17930 4.337060 GGGCGCCGTGGTGAAAAC 62.337 66.667 22.54 0.00 0.00 2.43
9277 17931 4.337060 GGCGCCGTGGTGAAAACC 62.337 66.667 12.58 0.00 0.00 3.27
9278 17932 3.284449 GCGCCGTGGTGAAAACCT 61.284 61.111 3.07 0.00 0.00 3.50
9279 17933 2.637025 CGCCGTGGTGAAAACCTG 59.363 61.111 0.00 0.00 0.00 4.00
9280 17934 1.890041 CGCCGTGGTGAAAACCTGA 60.890 57.895 0.00 0.00 0.00 3.86
9281 17935 1.652563 GCCGTGGTGAAAACCTGAC 59.347 57.895 0.00 0.00 0.00 3.51
9282 17936 1.792118 GCCGTGGTGAAAACCTGACC 61.792 60.000 0.00 0.00 0.00 4.02
9283 17937 1.170290 CCGTGGTGAAAACCTGACCC 61.170 60.000 0.00 0.00 0.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 6.513180 CAATTCTAAGAGTATACCAGCGGAA 58.487 40.000 0.00 0.52 0.00 4.30
2 3 5.509163 GCAATTCTAAGAGTATACCAGCGGA 60.509 44.000 0.00 0.00 0.00 5.54
4 5 5.289595 TGCAATTCTAAGAGTATACCAGCG 58.710 41.667 0.00 0.00 0.00 5.18
7 8 7.564793 ACACATGCAATTCTAAGAGTATACCA 58.435 34.615 0.00 0.00 0.00 3.25
8 9 9.197694 CTACACATGCAATTCTAAGAGTATACC 57.802 37.037 0.00 0.00 0.00 2.73
9 10 9.197694 CCTACACATGCAATTCTAAGAGTATAC 57.802 37.037 0.00 0.00 0.00 1.47
10 11 8.924303 ACCTACACATGCAATTCTAAGAGTATA 58.076 33.333 0.00 0.00 0.00 1.47
11 12 7.796054 ACCTACACATGCAATTCTAAGAGTAT 58.204 34.615 0.00 0.00 0.00 2.12
12 13 7.182817 ACCTACACATGCAATTCTAAGAGTA 57.817 36.000 0.00 0.00 0.00 2.59
13 14 6.054860 ACCTACACATGCAATTCTAAGAGT 57.945 37.500 0.00 0.00 0.00 3.24
14 15 6.595326 TCAACCTACACATGCAATTCTAAGAG 59.405 38.462 0.00 0.00 0.00 2.85
15 16 6.472016 TCAACCTACACATGCAATTCTAAGA 58.528 36.000 0.00 0.00 0.00 2.10
16 17 6.741992 TCAACCTACACATGCAATTCTAAG 57.258 37.500 0.00 0.00 0.00 2.18
17 18 7.701539 AATCAACCTACACATGCAATTCTAA 57.298 32.000 0.00 0.00 0.00 2.10
18 19 8.046708 AGTAATCAACCTACACATGCAATTCTA 58.953 33.333 0.00 0.00 0.00 2.10
19 20 6.886459 AGTAATCAACCTACACATGCAATTCT 59.114 34.615 0.00 0.00 0.00 2.40
20 21 7.088589 AGTAATCAACCTACACATGCAATTC 57.911 36.000 0.00 0.00 0.00 2.17
21 22 7.176515 TCAAGTAATCAACCTACACATGCAATT 59.823 33.333 0.00 0.00 0.00 2.32
22 23 6.658816 TCAAGTAATCAACCTACACATGCAAT 59.341 34.615 0.00 0.00 0.00 3.56
23 24 6.000840 TCAAGTAATCAACCTACACATGCAA 58.999 36.000 0.00 0.00 0.00 4.08
24 25 5.555966 TCAAGTAATCAACCTACACATGCA 58.444 37.500 0.00 0.00 0.00 3.96
25 26 6.683974 ATCAAGTAATCAACCTACACATGC 57.316 37.500 0.00 0.00 0.00 4.06
26 27 8.514594 ACAAATCAAGTAATCAACCTACACATG 58.485 33.333 0.00 0.00 0.00 3.21
27 28 8.514594 CACAAATCAAGTAATCAACCTACACAT 58.485 33.333 0.00 0.00 0.00 3.21
28 29 7.521423 GCACAAATCAAGTAATCAACCTACACA 60.521 37.037 0.00 0.00 0.00 3.72
29 30 6.801862 GCACAAATCAAGTAATCAACCTACAC 59.198 38.462 0.00 0.00 0.00 2.90
30 31 6.714810 AGCACAAATCAAGTAATCAACCTACA 59.285 34.615 0.00 0.00 0.00 2.74
31 32 7.145932 AGCACAAATCAAGTAATCAACCTAC 57.854 36.000 0.00 0.00 0.00 3.18
32 33 8.856153 TTAGCACAAATCAAGTAATCAACCTA 57.144 30.769 0.00 0.00 0.00 3.08
33 34 7.448469 ACTTAGCACAAATCAAGTAATCAACCT 59.552 33.333 0.00 0.00 29.67 3.50
34 35 7.593825 ACTTAGCACAAATCAAGTAATCAACC 58.406 34.615 0.00 0.00 29.67 3.77
35 36 8.905702 CAACTTAGCACAAATCAAGTAATCAAC 58.094 33.333 0.00 0.00 31.20 3.18
36 37 7.594758 GCAACTTAGCACAAATCAAGTAATCAA 59.405 33.333 0.00 0.00 31.20 2.57
37 38 7.040478 AGCAACTTAGCACAAATCAAGTAATCA 60.040 33.333 0.00 0.00 36.85 2.57
38 39 7.308435 AGCAACTTAGCACAAATCAAGTAATC 58.692 34.615 0.00 0.00 36.85 1.75
39 40 7.219484 AGCAACTTAGCACAAATCAAGTAAT 57.781 32.000 0.00 0.00 36.85 1.89
40 41 6.633500 AGCAACTTAGCACAAATCAAGTAA 57.367 33.333 0.00 0.00 36.85 2.24
41 42 7.737972 TTAGCAACTTAGCACAAATCAAGTA 57.262 32.000 0.00 0.00 36.85 2.24
42 43 6.633500 TTAGCAACTTAGCACAAATCAAGT 57.367 33.333 0.00 0.00 36.85 3.16
43 44 7.928908 TTTTAGCAACTTAGCACAAATCAAG 57.071 32.000 0.00 0.00 36.85 3.02
44 45 8.359642 AGATTTTAGCAACTTAGCACAAATCAA 58.640 29.630 17.51 0.00 42.12 2.57
45 46 7.809331 CAGATTTTAGCAACTTAGCACAAATCA 59.191 33.333 17.51 0.00 42.12 2.57
46 47 7.201384 GCAGATTTTAGCAACTTAGCACAAATC 60.201 37.037 11.68 11.68 41.14 2.17
47 48 6.587608 GCAGATTTTAGCAACTTAGCACAAAT 59.412 34.615 0.00 0.00 36.85 2.32
48 49 5.920273 GCAGATTTTAGCAACTTAGCACAAA 59.080 36.000 0.00 0.00 36.85 2.83
49 50 5.460646 GCAGATTTTAGCAACTTAGCACAA 58.539 37.500 0.00 0.00 36.85 3.33
50 51 4.082787 GGCAGATTTTAGCAACTTAGCACA 60.083 41.667 0.00 0.00 36.85 4.57
51 52 4.082787 TGGCAGATTTTAGCAACTTAGCAC 60.083 41.667 0.00 0.00 36.85 4.40
52 53 4.078537 TGGCAGATTTTAGCAACTTAGCA 58.921 39.130 0.00 0.00 36.85 3.49
53 54 4.701956 TGGCAGATTTTAGCAACTTAGC 57.298 40.909 0.00 0.00 0.00 3.09
54 55 6.150140 AGTCTTGGCAGATTTTAGCAACTTAG 59.850 38.462 0.00 0.00 0.00 2.18
55 56 6.003950 AGTCTTGGCAGATTTTAGCAACTTA 58.996 36.000 0.00 0.00 0.00 2.24
56 57 4.829492 AGTCTTGGCAGATTTTAGCAACTT 59.171 37.500 0.00 0.00 0.00 2.66
57 58 4.401925 AGTCTTGGCAGATTTTAGCAACT 58.598 39.130 0.00 0.00 0.00 3.16
58 59 4.773323 AGTCTTGGCAGATTTTAGCAAC 57.227 40.909 0.00 0.00 0.00 4.17
59 60 6.892658 TTAAGTCTTGGCAGATTTTAGCAA 57.107 33.333 0.00 0.00 31.67 3.91
60 61 6.892658 TTTAAGTCTTGGCAGATTTTAGCA 57.107 33.333 0.00 0.00 31.67 3.49
61 62 8.650714 CAATTTTAAGTCTTGGCAGATTTTAGC 58.349 33.333 0.00 0.00 31.67 3.09
62 63 9.143631 CCAATTTTAAGTCTTGGCAGATTTTAG 57.856 33.333 0.00 0.00 33.59 1.85
63 64 8.093927 CCCAATTTTAAGTCTTGGCAGATTTTA 58.906 33.333 0.00 0.00 38.47 1.52
64 65 6.936335 CCCAATTTTAAGTCTTGGCAGATTTT 59.064 34.615 0.00 0.00 38.47 1.82
65 66 6.269769 TCCCAATTTTAAGTCTTGGCAGATTT 59.730 34.615 0.00 0.00 38.47 2.17
66 67 5.779771 TCCCAATTTTAAGTCTTGGCAGATT 59.220 36.000 0.00 0.00 38.47 2.40
67 68 5.332743 TCCCAATTTTAAGTCTTGGCAGAT 58.667 37.500 0.00 0.00 38.47 2.90
68 69 4.735369 TCCCAATTTTAAGTCTTGGCAGA 58.265 39.130 0.00 0.00 38.47 4.26
69 70 5.467035 TTCCCAATTTTAAGTCTTGGCAG 57.533 39.130 0.00 0.00 38.47 4.85
70 71 5.878406 TTTCCCAATTTTAAGTCTTGGCA 57.122 34.783 0.00 0.00 38.47 4.92
71 72 5.700832 CCTTTTCCCAATTTTAAGTCTTGGC 59.299 40.000 0.00 0.00 38.47 4.52
72 73 5.700832 GCCTTTTCCCAATTTTAAGTCTTGG 59.299 40.000 0.00 6.02 39.31 3.61
73 74 6.524734 AGCCTTTTCCCAATTTTAAGTCTTG 58.475 36.000 0.00 0.00 0.00 3.02
74 75 6.747414 AGCCTTTTCCCAATTTTAAGTCTT 57.253 33.333 0.00 0.00 0.00 3.01
75 76 7.238710 TCTAGCCTTTTCCCAATTTTAAGTCT 58.761 34.615 0.00 0.00 0.00 3.24
76 77 7.462571 TCTAGCCTTTTCCCAATTTTAAGTC 57.537 36.000 0.00 0.00 0.00 3.01
77 78 8.435931 AATCTAGCCTTTTCCCAATTTTAAGT 57.564 30.769 0.00 0.00 0.00 2.24
78 79 9.725019 AAAATCTAGCCTTTTCCCAATTTTAAG 57.275 29.630 0.00 0.00 0.00 1.85
84 85 9.671279 CAAATAAAAATCTAGCCTTTTCCCAAT 57.329 29.630 5.25 0.00 0.00 3.16
85 86 8.100164 CCAAATAAAAATCTAGCCTTTTCCCAA 58.900 33.333 5.25 0.00 0.00 4.12
86 87 7.236640 ACCAAATAAAAATCTAGCCTTTTCCCA 59.763 33.333 5.25 0.00 0.00 4.37
87 88 7.620880 ACCAAATAAAAATCTAGCCTTTTCCC 58.379 34.615 5.25 0.00 0.00 3.97
88 89 8.311109 TGACCAAATAAAAATCTAGCCTTTTCC 58.689 33.333 5.25 0.00 0.00 3.13
89 90 9.705290 TTGACCAAATAAAAATCTAGCCTTTTC 57.295 29.630 5.25 0.00 0.00 2.29
90 91 9.710900 CTTGACCAAATAAAAATCTAGCCTTTT 57.289 29.630 6.78 6.78 0.00 2.27
91 92 8.870116 ACTTGACCAAATAAAAATCTAGCCTTT 58.130 29.630 0.00 0.00 0.00 3.11
92 93 8.422577 ACTTGACCAAATAAAAATCTAGCCTT 57.577 30.769 0.00 0.00 0.00 4.35
93 94 9.178758 CTACTTGACCAAATAAAAATCTAGCCT 57.821 33.333 0.00 0.00 0.00 4.58
94 95 8.957466 ACTACTTGACCAAATAAAAATCTAGCC 58.043 33.333 0.00 0.00 0.00 3.93
95 96 9.989869 GACTACTTGACCAAATAAAAATCTAGC 57.010 33.333 0.00 0.00 0.00 3.42
103 104 9.444600 GGTGATTAGACTACTTGACCAAATAAA 57.555 33.333 0.00 0.00 0.00 1.40
104 105 8.044908 GGGTGATTAGACTACTTGACCAAATAA 58.955 37.037 0.00 0.00 0.00 1.40
105 106 7.365295 GGGGTGATTAGACTACTTGACCAAATA 60.365 40.741 0.00 0.00 0.00 1.40
106 107 6.415573 GGGTGATTAGACTACTTGACCAAAT 58.584 40.000 0.00 0.00 0.00 2.32
107 108 5.280317 GGGGTGATTAGACTACTTGACCAAA 60.280 44.000 0.00 0.00 0.00 3.28
108 109 4.224370 GGGGTGATTAGACTACTTGACCAA 59.776 45.833 0.00 0.00 0.00 3.67
109 110 3.773119 GGGGTGATTAGACTACTTGACCA 59.227 47.826 0.00 0.00 0.00 4.02
110 111 3.134262 GGGGGTGATTAGACTACTTGACC 59.866 52.174 0.00 0.00 0.00 4.02
111 112 4.403585 GGGGGTGATTAGACTACTTGAC 57.596 50.000 0.00 0.00 0.00 3.18
129 130 2.257207 TGAAAGTGTGTCTAGAGGGGG 58.743 52.381 0.00 0.00 0.00 5.40
130 131 4.508662 GATTGAAAGTGTGTCTAGAGGGG 58.491 47.826 0.00 0.00 0.00 4.79
131 132 4.223923 AGGATTGAAAGTGTGTCTAGAGGG 59.776 45.833 0.00 0.00 0.00 4.30
132 133 5.413309 AGGATTGAAAGTGTGTCTAGAGG 57.587 43.478 0.00 0.00 0.00 3.69
133 134 6.925211 TGTAGGATTGAAAGTGTGTCTAGAG 58.075 40.000 0.00 0.00 0.00 2.43
134 135 6.493802 ACTGTAGGATTGAAAGTGTGTCTAGA 59.506 38.462 0.00 0.00 0.00 2.43
135 136 6.692486 ACTGTAGGATTGAAAGTGTGTCTAG 58.308 40.000 0.00 0.00 0.00 2.43
136 137 6.569801 CGACTGTAGGATTGAAAGTGTGTCTA 60.570 42.308 0.00 0.00 0.00 2.59
137 138 5.542779 GACTGTAGGATTGAAAGTGTGTCT 58.457 41.667 0.00 0.00 0.00 3.41
138 139 4.386049 CGACTGTAGGATTGAAAGTGTGTC 59.614 45.833 0.00 0.00 0.00 3.67
139 140 4.307432 CGACTGTAGGATTGAAAGTGTGT 58.693 43.478 0.00 0.00 0.00 3.72
140 141 3.679980 CCGACTGTAGGATTGAAAGTGTG 59.320 47.826 0.00 0.00 0.00 3.82
141 142 3.576982 TCCGACTGTAGGATTGAAAGTGT 59.423 43.478 5.47 0.00 31.86 3.55
142 143 4.188247 TCCGACTGTAGGATTGAAAGTG 57.812 45.455 5.47 0.00 31.86 3.16
143 144 4.566987 GTTCCGACTGTAGGATTGAAAGT 58.433 43.478 10.53 0.00 37.65 2.66
144 145 3.612860 CGTTCCGACTGTAGGATTGAAAG 59.387 47.826 10.53 0.00 37.65 2.62
145 146 3.256383 TCGTTCCGACTGTAGGATTGAAA 59.744 43.478 10.53 0.00 37.65 2.69
146 147 2.821378 TCGTTCCGACTGTAGGATTGAA 59.179 45.455 10.53 0.00 37.65 2.69
147 148 2.422479 CTCGTTCCGACTGTAGGATTGA 59.578 50.000 10.53 10.16 37.65 2.57
148 149 2.422479 TCTCGTTCCGACTGTAGGATTG 59.578 50.000 10.53 6.55 37.65 2.67
149 150 2.719739 TCTCGTTCCGACTGTAGGATT 58.280 47.619 10.53 0.00 37.65 3.01
150 151 2.414994 TCTCGTTCCGACTGTAGGAT 57.585 50.000 10.53 0.00 37.65 3.24
151 152 2.082231 CTTCTCGTTCCGACTGTAGGA 58.918 52.381 5.47 5.47 35.69 2.94
152 153 2.082231 TCTTCTCGTTCCGACTGTAGG 58.918 52.381 0.00 0.00 0.00 3.18
153 154 3.188873 ACTTCTTCTCGTTCCGACTGTAG 59.811 47.826 0.00 0.00 0.00 2.74
154 155 3.144506 ACTTCTTCTCGTTCCGACTGTA 58.855 45.455 0.00 0.00 0.00 2.74
155 156 1.955080 ACTTCTTCTCGTTCCGACTGT 59.045 47.619 0.00 0.00 0.00 3.55
156 157 2.708386 ACTTCTTCTCGTTCCGACTG 57.292 50.000 0.00 0.00 0.00 3.51
157 158 4.008330 TCATACTTCTTCTCGTTCCGACT 58.992 43.478 0.00 0.00 0.00 4.18
158 159 4.097012 GTCATACTTCTTCTCGTTCCGAC 58.903 47.826 0.00 0.00 0.00 4.79
159 160 4.008330 AGTCATACTTCTTCTCGTTCCGA 58.992 43.478 0.00 0.00 0.00 4.55
160 161 4.358494 AGTCATACTTCTTCTCGTTCCG 57.642 45.455 0.00 0.00 0.00 4.30
161 162 6.192234 TGTAGTCATACTTCTTCTCGTTCC 57.808 41.667 0.00 0.00 32.75 3.62
162 163 7.473366 TGATGTAGTCATACTTCTTCTCGTTC 58.527 38.462 0.00 0.00 37.12 3.95
163 164 7.392494 TGATGTAGTCATACTTCTTCTCGTT 57.608 36.000 0.00 0.00 37.12 3.85
164 165 7.121463 AGTTGATGTAGTCATACTTCTTCTCGT 59.879 37.037 0.00 0.00 37.12 4.18
165 166 7.430793 CAGTTGATGTAGTCATACTTCTTCTCG 59.569 40.741 0.00 0.00 37.12 4.04
166 167 8.247562 ACAGTTGATGTAGTCATACTTCTTCTC 58.752 37.037 0.00 0.00 41.60 2.87
167 168 8.031864 CACAGTTGATGTAGTCATACTTCTTCT 58.968 37.037 0.00 0.00 41.41 2.85
168 169 7.815068 ACACAGTTGATGTAGTCATACTTCTTC 59.185 37.037 0.00 0.00 41.41 2.87
169 170 7.671302 ACACAGTTGATGTAGTCATACTTCTT 58.329 34.615 0.00 0.00 41.41 2.52
170 171 7.233389 ACACAGTTGATGTAGTCATACTTCT 57.767 36.000 0.00 0.00 41.41 2.85
171 172 7.385205 ACAACACAGTTGATGTAGTCATACTTC 59.615 37.037 15.99 0.00 41.41 3.01
172 173 7.217200 ACAACACAGTTGATGTAGTCATACTT 58.783 34.615 15.99 0.00 41.41 2.24
173 174 6.759272 ACAACACAGTTGATGTAGTCATACT 58.241 36.000 15.99 0.00 41.41 2.12
174 175 6.645003 TGACAACACAGTTGATGTAGTCATAC 59.355 38.462 15.99 0.00 41.41 2.39
175 176 6.754193 TGACAACACAGTTGATGTAGTCATA 58.246 36.000 15.99 0.00 41.41 2.15
176 177 5.610398 TGACAACACAGTTGATGTAGTCAT 58.390 37.500 15.99 0.00 41.41 3.06
177 178 5.017294 TGACAACACAGTTGATGTAGTCA 57.983 39.130 15.99 5.85 41.41 3.41
178 179 5.984233 TTGACAACACAGTTGATGTAGTC 57.016 39.130 15.99 3.50 41.41 2.59
179 180 5.220586 CGTTTGACAACACAGTTGATGTAGT 60.221 40.000 15.99 0.00 41.41 2.73
180 181 5.197549 CGTTTGACAACACAGTTGATGTAG 58.802 41.667 15.99 0.70 41.41 2.74
181 182 4.495019 GCGTTTGACAACACAGTTGATGTA 60.495 41.667 15.99 0.00 41.41 2.29
182 183 3.730662 GCGTTTGACAACACAGTTGATGT 60.731 43.478 15.99 0.00 45.43 3.06
183 184 2.783284 GCGTTTGACAACACAGTTGATG 59.217 45.455 15.99 1.41 32.54 3.07
184 185 2.682856 AGCGTTTGACAACACAGTTGAT 59.317 40.909 15.99 1.48 32.54 2.57
185 186 2.080693 AGCGTTTGACAACACAGTTGA 58.919 42.857 15.99 0.00 32.54 3.18
186 187 2.542766 AGCGTTTGACAACACAGTTG 57.457 45.000 8.24 8.24 32.54 3.16
187 188 2.159435 GGAAGCGTTTGACAACACAGTT 60.159 45.455 0.00 0.00 32.54 3.16
188 189 1.400494 GGAAGCGTTTGACAACACAGT 59.600 47.619 0.00 0.00 32.54 3.55
189 190 1.594518 CGGAAGCGTTTGACAACACAG 60.595 52.381 0.00 0.00 32.54 3.66
190 191 0.375454 CGGAAGCGTTTGACAACACA 59.625 50.000 0.00 0.00 32.54 3.72
191 192 0.653636 TCGGAAGCGTTTGACAACAC 59.346 50.000 0.00 0.00 32.54 3.32
192 193 1.588674 ATCGGAAGCGTTTGACAACA 58.411 45.000 0.00 0.00 32.54 3.33
193 194 2.681152 AATCGGAAGCGTTTGACAAC 57.319 45.000 0.00 0.00 0.00 3.32
194 195 2.349060 CGAAATCGGAAGCGTTTGACAA 60.349 45.455 0.00 0.00 35.37 3.18
195 196 1.193650 CGAAATCGGAAGCGTTTGACA 59.806 47.619 0.00 0.00 35.37 3.58
196 197 1.865725 CGAAATCGGAAGCGTTTGAC 58.134 50.000 0.00 0.00 35.37 3.18
208 209 0.737219 ACCCTCGTAGACCGAAATCG 59.263 55.000 0.00 0.00 46.75 3.34
209 210 2.684881 TGTACCCTCGTAGACCGAAATC 59.315 50.000 0.00 0.00 46.75 2.17
210 211 2.726821 TGTACCCTCGTAGACCGAAAT 58.273 47.619 0.00 0.00 46.75 2.17
211 212 2.198827 TGTACCCTCGTAGACCGAAA 57.801 50.000 0.00 0.00 46.75 3.46
212 213 2.425143 ATGTACCCTCGTAGACCGAA 57.575 50.000 0.00 0.00 46.75 4.30
213 214 2.700371 TCTATGTACCCTCGTAGACCGA 59.300 50.000 0.00 0.00 45.00 4.69
214 215 2.805099 GTCTATGTACCCTCGTAGACCG 59.195 54.545 12.36 0.00 44.54 4.79
217 218 6.269538 AGAGTATGTCTATGTACCCTCGTAGA 59.730 42.308 0.00 0.00 34.71 2.59
218 219 6.465948 AGAGTATGTCTATGTACCCTCGTAG 58.534 44.000 0.00 0.00 31.71 3.51
219 220 6.430962 AGAGTATGTCTATGTACCCTCGTA 57.569 41.667 0.00 0.00 31.71 3.43
220 221 5.307204 GAGAGTATGTCTATGTACCCTCGT 58.693 45.833 0.00 0.00 34.71 4.18
221 222 4.696402 GGAGAGTATGTCTATGTACCCTCG 59.304 50.000 0.00 0.00 34.71 4.63
222 223 5.011586 GGGAGAGTATGTCTATGTACCCTC 58.988 50.000 0.00 0.00 34.71 4.30
223 224 4.202695 GGGGAGAGTATGTCTATGTACCCT 60.203 50.000 0.00 0.00 34.71 4.34
224 225 4.087907 GGGGAGAGTATGTCTATGTACCC 58.912 52.174 0.00 0.00 34.71 3.69
225 226 4.087907 GGGGGAGAGTATGTCTATGTACC 58.912 52.174 0.00 0.00 34.71 3.34
226 227 5.000570 AGGGGGAGAGTATGTCTATGTAC 57.999 47.826 0.00 0.00 34.71 2.90
227 228 4.920749 AGAGGGGGAGAGTATGTCTATGTA 59.079 45.833 0.00 0.00 34.71 2.29
228 229 3.730059 AGAGGGGGAGAGTATGTCTATGT 59.270 47.826 0.00 0.00 34.71 2.29
229 230 4.340617 GAGAGGGGGAGAGTATGTCTATG 58.659 52.174 0.00 0.00 34.71 2.23
230 231 3.009695 CGAGAGGGGGAGAGTATGTCTAT 59.990 52.174 0.00 0.00 34.71 1.98
231 232 2.372504 CGAGAGGGGGAGAGTATGTCTA 59.627 54.545 0.00 0.00 34.71 2.59
232 233 1.144093 CGAGAGGGGGAGAGTATGTCT 59.856 57.143 0.00 0.00 38.71 3.41
233 234 1.133730 ACGAGAGGGGGAGAGTATGTC 60.134 57.143 0.00 0.00 0.00 3.06
234 235 0.927767 ACGAGAGGGGGAGAGTATGT 59.072 55.000 0.00 0.00 0.00 2.29
235 236 1.683917 CAACGAGAGGGGGAGAGTATG 59.316 57.143 0.00 0.00 0.00 2.39
236 237 2.030045 GCAACGAGAGGGGGAGAGTAT 61.030 57.143 0.00 0.00 0.00 2.12
237 238 0.683504 GCAACGAGAGGGGGAGAGTA 60.684 60.000 0.00 0.00 0.00 2.59
238 239 1.985116 GCAACGAGAGGGGGAGAGT 60.985 63.158 0.00 0.00 0.00 3.24
239 240 0.395862 TAGCAACGAGAGGGGGAGAG 60.396 60.000 0.00 0.00 0.00 3.20
240 241 0.261991 ATAGCAACGAGAGGGGGAGA 59.738 55.000 0.00 0.00 0.00 3.71
241 242 0.390860 CATAGCAACGAGAGGGGGAG 59.609 60.000 0.00 0.00 0.00 4.30
242 243 1.686325 GCATAGCAACGAGAGGGGGA 61.686 60.000 0.00 0.00 0.00 4.81
243 244 1.227674 GCATAGCAACGAGAGGGGG 60.228 63.158 0.00 0.00 0.00 5.40
244 245 0.107456 ATGCATAGCAACGAGAGGGG 59.893 55.000 0.00 0.00 43.62 4.79
245 246 1.069823 AGATGCATAGCAACGAGAGGG 59.930 52.381 0.00 0.00 43.62 4.30
246 247 2.402305 GAGATGCATAGCAACGAGAGG 58.598 52.381 0.00 0.00 43.62 3.69
247 248 2.035704 AGGAGATGCATAGCAACGAGAG 59.964 50.000 0.00 0.00 43.62 3.20
248 249 2.034878 AGGAGATGCATAGCAACGAGA 58.965 47.619 0.00 0.00 43.62 4.04
249 250 2.522836 AGGAGATGCATAGCAACGAG 57.477 50.000 0.00 0.00 43.62 4.18
250 251 3.222603 TCTAGGAGATGCATAGCAACGA 58.777 45.455 0.00 0.00 43.62 3.85
251 252 3.650070 TCTAGGAGATGCATAGCAACG 57.350 47.619 0.00 0.00 43.62 4.10
252 253 6.522625 TCTATCTAGGAGATGCATAGCAAC 57.477 41.667 0.00 0.00 43.62 4.17
253 254 7.124721 AGATCTATCTAGGAGATGCATAGCAA 58.875 38.462 0.00 0.00 37.47 3.91
254 255 6.671605 AGATCTATCTAGGAGATGCATAGCA 58.328 40.000 0.00 0.00 38.03 3.49
255 256 7.428020 CAAGATCTATCTAGGAGATGCATAGC 58.572 42.308 0.00 0.00 35.37 2.97
256 257 7.428020 GCAAGATCTATCTAGGAGATGCATAG 58.572 42.308 0.00 0.00 35.37 2.23
257 258 6.039159 CGCAAGATCTATCTAGGAGATGCATA 59.961 42.308 0.00 0.00 35.65 3.14
258 259 5.163530 CGCAAGATCTATCTAGGAGATGCAT 60.164 44.000 0.00 0.00 35.65 3.96
259 260 4.157472 CGCAAGATCTATCTAGGAGATGCA 59.843 45.833 11.48 0.00 35.65 3.96
260 261 4.157656 ACGCAAGATCTATCTAGGAGATGC 59.842 45.833 11.48 9.81 36.70 3.91
261 262 5.414144 TCACGCAAGATCTATCTAGGAGATG 59.586 44.000 11.48 2.82 36.70 2.90
262 263 5.565509 TCACGCAAGATCTATCTAGGAGAT 58.434 41.667 0.00 7.55 38.77 2.75
263 264 4.974399 TCACGCAAGATCTATCTAGGAGA 58.026 43.478 0.00 0.00 43.62 3.71
264 265 4.379394 GCTCACGCAAGATCTATCTAGGAG 60.379 50.000 0.00 0.94 43.62 3.69
265 266 3.504134 GCTCACGCAAGATCTATCTAGGA 59.496 47.826 0.00 0.00 43.62 2.94
266 267 3.669290 CGCTCACGCAAGATCTATCTAGG 60.669 52.174 0.00 0.00 43.62 3.02
267 268 3.058570 ACGCTCACGCAAGATCTATCTAG 60.059 47.826 0.00 0.00 45.53 2.43
268 269 2.879026 ACGCTCACGCAAGATCTATCTA 59.121 45.455 0.00 0.00 45.53 1.98
269 270 1.678627 ACGCTCACGCAAGATCTATCT 59.321 47.619 0.00 0.00 45.53 1.98
270 271 2.126914 ACGCTCACGCAAGATCTATC 57.873 50.000 0.00 0.00 45.53 2.08
271 272 2.030717 CCTACGCTCACGCAAGATCTAT 60.031 50.000 0.00 0.00 45.53 1.98
272 273 1.333931 CCTACGCTCACGCAAGATCTA 59.666 52.381 0.00 0.00 45.53 1.98
273 274 0.101399 CCTACGCTCACGCAAGATCT 59.899 55.000 0.00 0.00 45.53 2.75
274 275 0.100682 TCCTACGCTCACGCAAGATC 59.899 55.000 0.00 0.00 45.53 2.75
275 276 0.530744 TTCCTACGCTCACGCAAGAT 59.469 50.000 0.00 0.00 45.53 2.40
276 277 0.530744 ATTCCTACGCTCACGCAAGA 59.469 50.000 0.00 0.00 45.53 3.02
277 278 1.359848 AATTCCTACGCTCACGCAAG 58.640 50.000 0.00 0.00 45.53 4.01
278 279 1.803334 AAATTCCTACGCTCACGCAA 58.197 45.000 0.00 0.00 45.53 4.85
279 280 1.803334 AAAATTCCTACGCTCACGCA 58.197 45.000 0.00 0.00 45.53 5.24
280 281 2.894307 AAAAATTCCTACGCTCACGC 57.106 45.000 0.00 0.00 45.53 5.34
297 298 6.292596 GGAAACGTAGCATGCAATTTCAAAAA 60.293 34.615 21.98 0.00 0.00 1.94
298 299 5.176590 GGAAACGTAGCATGCAATTTCAAAA 59.823 36.000 21.98 0.00 0.00 2.44
299 300 4.683781 GGAAACGTAGCATGCAATTTCAAA 59.316 37.500 21.98 0.00 0.00 2.69
300 301 4.233789 GGAAACGTAGCATGCAATTTCAA 58.766 39.130 21.98 0.00 0.00 2.69
301 302 3.366883 GGGAAACGTAGCATGCAATTTCA 60.367 43.478 21.98 0.00 0.00 2.69
302 303 3.179048 GGGAAACGTAGCATGCAATTTC 58.821 45.455 21.98 20.39 0.00 2.17
303 304 2.560542 TGGGAAACGTAGCATGCAATTT 59.439 40.909 21.98 13.67 0.00 1.82
304 305 2.166829 TGGGAAACGTAGCATGCAATT 58.833 42.857 21.98 6.80 0.00 2.32
305 306 1.832883 TGGGAAACGTAGCATGCAAT 58.167 45.000 21.98 1.90 0.00 3.56
306 307 1.268352 GTTGGGAAACGTAGCATGCAA 59.732 47.619 21.98 0.00 0.00 4.08
307 308 0.878416 GTTGGGAAACGTAGCATGCA 59.122 50.000 21.98 2.77 0.00 3.96
308 309 0.878416 TGTTGGGAAACGTAGCATGC 59.122 50.000 10.51 10.51 0.00 4.06
309 310 1.468520 CCTGTTGGGAAACGTAGCATG 59.531 52.381 0.00 0.00 37.23 4.06
310 311 1.821216 CCTGTTGGGAAACGTAGCAT 58.179 50.000 0.00 0.00 37.23 3.79
311 312 3.315765 CCTGTTGGGAAACGTAGCA 57.684 52.632 0.00 0.00 37.23 3.49
322 323 1.108776 CTTCATGGCATCCCTGTTGG 58.891 55.000 0.00 0.00 0.00 3.77
323 324 1.108776 CCTTCATGGCATCCCTGTTG 58.891 55.000 0.00 0.00 0.00 3.33
324 325 3.602104 CCTTCATGGCATCCCTGTT 57.398 52.632 0.00 0.00 0.00 3.16
334 335 4.431131 AGCCGGGTGCCTTCATGG 62.431 66.667 4.72 0.00 42.71 3.66
335 336 2.825836 GAGCCGGGTGCCTTCATG 60.826 66.667 12.94 0.00 42.71 3.07
336 337 4.473520 CGAGCCGGGTGCCTTCAT 62.474 66.667 12.94 0.00 42.71 2.57
338 339 4.821589 CTCGAGCCGGGTGCCTTC 62.822 72.222 12.94 0.00 42.71 3.46
350 351 1.226717 GGTGGTTAGCTCGCTCGAG 60.227 63.158 8.45 8.45 44.56 4.04
351 352 2.707849 GGGTGGTTAGCTCGCTCGA 61.708 63.158 0.00 0.00 0.00 4.04
352 353 2.202756 GGGTGGTTAGCTCGCTCG 60.203 66.667 0.00 0.00 0.00 5.03
353 354 1.972660 ATGGGGTGGTTAGCTCGCTC 61.973 60.000 0.00 0.00 0.00 5.03
354 355 0.689745 TATGGGGTGGTTAGCTCGCT 60.690 55.000 0.00 0.00 0.00 4.93
355 356 0.249911 CTATGGGGTGGTTAGCTCGC 60.250 60.000 0.00 0.00 0.00 5.03
356 357 1.341531 CTCTATGGGGTGGTTAGCTCG 59.658 57.143 0.00 0.00 0.00 5.03
357 358 2.103263 CACTCTATGGGGTGGTTAGCTC 59.897 54.545 0.06 0.00 0.00 4.09
358 359 2.119495 CACTCTATGGGGTGGTTAGCT 58.881 52.381 0.06 0.00 0.00 3.32
359 360 1.475213 GCACTCTATGGGGTGGTTAGC 60.475 57.143 11.47 0.00 34.41 3.09
360 361 1.141053 GGCACTCTATGGGGTGGTTAG 59.859 57.143 11.47 0.00 34.41 2.34
361 362 1.209621 GGCACTCTATGGGGTGGTTA 58.790 55.000 11.47 0.00 34.41 2.85
362 363 1.571773 GGGCACTCTATGGGGTGGTT 61.572 60.000 11.47 0.00 34.41 3.67
363 364 2.001269 GGGCACTCTATGGGGTGGT 61.001 63.158 11.47 0.00 34.41 4.16
364 365 1.694169 AGGGCACTCTATGGGGTGG 60.694 63.158 11.47 0.00 34.41 4.61
365 366 1.832912 GAGGGCACTCTATGGGGTG 59.167 63.158 9.30 4.39 40.68 4.61
366 367 4.401657 GAGGGCACTCTATGGGGT 57.598 61.111 9.30 0.00 40.68 4.95
379 380 4.069232 TTGGCTCGTGCGAGAGGG 62.069 66.667 23.57 0.25 44.53 4.30
380 381 2.811317 GTTGGCTCGTGCGAGAGG 60.811 66.667 23.57 0.60 44.53 3.69
381 382 3.175240 CGTTGGCTCGTGCGAGAG 61.175 66.667 23.57 3.93 44.53 3.20
458 459 1.004918 GTCCCTGACAAGTGGACCG 60.005 63.158 7.06 0.00 42.21 4.79
460 461 0.250338 GTGGTCCCTGACAAGTGGAC 60.250 60.000 9.08 9.08 46.31 4.02
461 462 1.415672 GGTGGTCCCTGACAAGTGGA 61.416 60.000 0.00 0.00 33.68 4.02
467 468 2.603473 CCTCGGTGGTCCCTGACA 60.603 66.667 0.00 0.00 33.68 3.58
502 503 1.302431 CCGATCTGCCCACACAACA 60.302 57.895 0.00 0.00 0.00 3.33
505 506 2.171209 CTGTCCGATCTGCCCACACA 62.171 60.000 0.00 0.00 0.00 3.72
508 509 1.448540 CACTGTCCGATCTGCCCAC 60.449 63.158 0.00 0.00 0.00 4.61
510 511 2.512515 GCACTGTCCGATCTGCCC 60.513 66.667 0.00 0.00 0.00 5.36
515 516 1.064946 CTCTCCGCACTGTCCGATC 59.935 63.158 0.00 0.00 0.00 3.69
555 556 1.067582 CCTCTACGCCGTCCATTCC 59.932 63.158 0.00 0.00 0.00 3.01
563 564 3.141488 AGAGTGCCCTCTACGCCG 61.141 66.667 0.00 0.00 46.39 6.46
675 2554 6.306356 CCACATGCTTTTTCTTATCGTTCAAG 59.694 38.462 0.00 0.00 0.00 3.02
837 3762 1.024271 TTGACTCTTTGGTGCAGCAC 58.976 50.000 20.03 17.97 0.00 4.40
849 3778 5.747342 ACGGAATAGACTCTAGTTGACTCT 58.253 41.667 0.00 0.00 0.00 3.24
850 3779 6.439675 AACGGAATAGACTCTAGTTGACTC 57.560 41.667 0.00 0.00 0.00 3.36
865 3794 9.387257 GACCTTATTCTTAAAGGAAACGGAATA 57.613 33.333 8.79 0.00 45.41 1.75
885 3814 7.936496 TGATGTGCATCTAAATTTGACCTTA 57.064 32.000 12.64 0.00 38.60 2.69
995 3925 2.481471 GCCGGTTTAGCCATCCAGC 61.481 63.158 1.90 0.00 36.97 4.85
1275 4205 2.603135 CTAACACTACGGGCCGGTCG 62.603 65.000 31.78 19.44 0.00 4.79
1287 4217 1.270839 ACGGAACATGCAGCTAACACT 60.271 47.619 0.00 0.00 0.00 3.55
1361 4291 1.073177 CAACCAACGCTACCCTAACG 58.927 55.000 0.00 0.00 0.00 3.18
1427 4357 7.040201 ACCATATCTATCAATGACAATGCCAAC 60.040 37.037 0.00 0.00 0.00 3.77
1614 4544 2.030540 ACTAGCTCGCAAGTTACACGAA 60.031 45.455 0.00 0.00 35.07 3.85
1672 4769 2.608988 AGGGCCCAGACACTGAGG 60.609 66.667 27.56 0.00 32.44 3.86
1777 4874 3.697747 CCCGCCAAGGTCACCGTA 61.698 66.667 0.00 0.00 38.74 4.02
1885 5001 5.588240 GTCTACAAAAAGAAAACAGGGGTG 58.412 41.667 0.00 0.00 0.00 4.61
2009 5125 9.964354 ATAACTAATATTGAAGCATATGGAGCA 57.036 29.630 4.56 0.00 0.00 4.26
2067 5183 2.484264 ACCGACATTGCAACTCTAAAGC 59.516 45.455 0.00 0.00 0.00 3.51
2260 5615 7.032580 GGATCCATTAGACTAGTCATTCATCG 58.967 42.308 24.44 5.96 0.00 3.84
2538 5893 5.871524 ACAGTGAATGCTATCAACAGTACTG 59.128 40.000 21.44 21.44 0.00 2.74
3124 6480 3.561960 CCCATTCCCTTCATGACTTGACA 60.562 47.826 0.00 0.00 32.84 3.58
3170 6526 6.846505 ACCATAATCTCCTCTAAGAATCACCA 59.153 38.462 0.00 0.00 0.00 4.17
3389 6745 7.304735 TGGTCAAAACTACGAATGATTGATTG 58.695 34.615 0.00 0.00 0.00 2.67
3765 8027 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
4265 8853 6.538742 GCTTATCTGCAAGTTATGAGTAACCA 59.461 38.462 0.00 0.00 40.88 3.67
4464 9052 5.535030 CCTGGTGAATGATCATGTGAATGAT 59.465 40.000 9.46 0.90 43.40 2.45
4966 10504 0.252197 ACGGCTTTCATCTACACCCC 59.748 55.000 0.00 0.00 0.00 4.95
4970 10508 0.323302 TGCCACGGCTTTCATCTACA 59.677 50.000 9.92 0.00 42.51 2.74
5078 10619 1.669115 CGGAGGCTATGGGATTGCG 60.669 63.158 0.00 0.00 31.65 4.85
5181 10728 1.003718 GGAAGTCTTCCGGTGGTGG 60.004 63.158 15.90 0.00 40.59 4.61
5195 10742 4.496670 CTTACTGCCGTCGGGAAG 57.503 61.111 14.38 7.03 45.66 3.46
5453 11000 4.820173 TGAATTTCCTATGCATCTGCTCAG 59.180 41.667 0.19 0.00 42.66 3.35
5522 11069 2.489938 TGGTGGAAACTGATGGTAGC 57.510 50.000 0.00 0.00 0.00 3.58
5539 11086 8.909708 TTGTATTTTGCTTAGAATCGAATTGG 57.090 30.769 0.00 0.00 0.00 3.16
5784 11331 8.466798 GGTGCTTTTGTAGGTTGATTATGTAAT 58.533 33.333 0.00 0.00 0.00 1.89
5785 11332 7.668052 AGGTGCTTTTGTAGGTTGATTATGTAA 59.332 33.333 0.00 0.00 0.00 2.41
6451 12303 4.302455 CGCATATGGTACTTCTCTTCCTG 58.698 47.826 4.56 0.00 0.00 3.86
6633 12489 8.519492 TCATTTTCGGTCTTCAATCAAATTTC 57.481 30.769 0.00 0.00 0.00 2.17
6634 12490 8.359642 TCTCATTTTCGGTCTTCAATCAAATTT 58.640 29.630 0.00 0.00 0.00 1.82
6794 12650 6.980978 AGCCATGTAATATAGTCATCGCATAC 59.019 38.462 0.00 0.00 30.49 2.39
7161 13017 4.033932 GGCACTTTGTTTCATTGGTCAAAC 59.966 41.667 0.00 0.00 33.78 2.93
7495 13351 9.216117 AGAATAGCTGTTTTGAACGTATTTACT 57.784 29.630 0.00 0.00 0.00 2.24
7514 13370 7.493367 TCTACAAGCTCCTCTTTAAGAATAGC 58.507 38.462 16.01 16.01 34.20 2.97
7527 13383 5.190528 TGAGAAAATGGATCTACAAGCTCCT 59.809 40.000 0.00 0.00 31.94 3.69
7565 13421 0.104855 AGACAGCAGCAACGTCAAGA 59.895 50.000 11.06 0.00 31.92 3.02
7592 13448 3.157087 CTGTTAACCTTGCCCACAATCT 58.843 45.455 2.48 0.00 34.61 2.40
7593 13449 2.890945 ACTGTTAACCTTGCCCACAATC 59.109 45.455 2.48 0.00 34.61 2.67
7594 13450 2.890945 GACTGTTAACCTTGCCCACAAT 59.109 45.455 2.48 0.00 34.61 2.71
7596 13452 1.493022 AGACTGTTAACCTTGCCCACA 59.507 47.619 2.48 0.00 0.00 4.17
7597 13453 2.152016 GAGACTGTTAACCTTGCCCAC 58.848 52.381 2.48 0.00 0.00 4.61
7598 13454 1.771854 TGAGACTGTTAACCTTGCCCA 59.228 47.619 2.48 0.00 0.00 5.36
7599 13455 2.561478 TGAGACTGTTAACCTTGCCC 57.439 50.000 2.48 0.00 0.00 5.36
7612 13468 7.715657 TGCAGAAAACATAACAAATTGAGACT 58.284 30.769 0.00 0.00 0.00 3.24
7737 13646 7.642669 CAGAACATACTGAACAAACAGACATT 58.357 34.615 0.00 0.00 40.63 2.71
8497 17148 5.241506 ACGAGATTTCAGAAAAGCAAATGGA 59.758 36.000 0.00 0.00 33.17 3.41
8550 17201 0.243095 GCAAGCAGGGAAGAAAGCAG 59.757 55.000 0.00 0.00 0.00 4.24
8611 17262 3.113322 TCGACAACGTTTTCAGAGACAG 58.887 45.455 14.35 0.00 40.69 3.51
8620 17271 2.888998 GCGGCCTCGACAACGTTTT 61.889 57.895 0.00 0.00 40.69 2.43
8666 17320 0.102120 CGAGCAGTTTGTTTGGCCAA 59.898 50.000 16.05 16.05 0.00 4.52
8716 17370 0.675083 AGGATGAGATCAGAGCAGCG 59.325 55.000 0.00 0.00 0.00 5.18
8922 17576 1.926511 GCCGTGGGATGACTTTGCAG 61.927 60.000 0.00 0.00 0.00 4.41
9010 17664 2.746904 TGTGCATCAATGGGTTTCTACG 59.253 45.455 0.00 0.00 0.00 3.51
9133 17787 1.678627 CAGGATAGAGACCGTGTCCAG 59.321 57.143 0.00 0.00 32.18 3.86
9162 17816 1.663702 GTTCCAGACCACCGTCGTG 60.664 63.158 0.00 0.00 44.28 4.35
9166 17820 1.963464 AACACGTTCCAGACCACCGT 61.963 55.000 0.00 0.00 0.00 4.83
9211 17865 4.572571 GCACCACCACCGGAACCA 62.573 66.667 9.46 0.00 0.00 3.67
9225 17879 3.211963 CTATGCTTGGGCGGGCAC 61.212 66.667 3.27 0.00 41.39 5.01
9226 17880 4.504596 CCTATGCTTGGGCGGGCA 62.505 66.667 3.27 0.67 42.25 5.36
9237 17891 0.471617 ATCACCTGTGGAGCCTATGC 59.528 55.000 0.00 0.00 37.95 3.14
9238 17892 1.202734 CCATCACCTGTGGAGCCTATG 60.203 57.143 0.00 0.00 39.12 2.23
9239 17893 1.135094 CCATCACCTGTGGAGCCTAT 58.865 55.000 0.00 0.00 39.12 2.57
9240 17894 0.982852 CCCATCACCTGTGGAGCCTA 60.983 60.000 0.00 0.00 39.12 3.93
9241 17895 2.304056 CCCATCACCTGTGGAGCCT 61.304 63.158 0.00 0.00 39.12 4.58
9242 17896 2.273449 CCCATCACCTGTGGAGCC 59.727 66.667 0.00 0.00 39.12 4.70
9243 17897 2.273449 CCCCATCACCTGTGGAGC 59.727 66.667 0.00 0.00 39.12 4.70
9244 17898 3.001514 CCCCCATCACCTGTGGAG 58.998 66.667 0.00 0.00 39.12 3.86
9245 17899 3.338250 GCCCCCATCACCTGTGGA 61.338 66.667 0.00 0.00 39.12 4.02
9246 17900 4.802051 CGCCCCCATCACCTGTGG 62.802 72.222 0.00 0.00 36.47 4.17
9259 17913 4.337060 GTTTTCACCACGGCGCCC 62.337 66.667 23.46 2.84 0.00 6.13
9260 17914 4.337060 GGTTTTCACCACGGCGCC 62.337 66.667 19.07 19.07 43.61 6.53


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

AutoCloner maintained by Alex Coulton.