Multiple sequence alignment - TraesCS3A01G211400

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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 TraesCS3A01G211400 chr3A 100.000 5477 0 0 1979 7455 379820884 379826360 0.000000e+00 10115.0
1 TraesCS3A01G211400 chr3A 100.000 1643 0 0 1 1643 379818906 379820548 0.000000e+00 3035.0
2 TraesCS3A01G211400 chr3A 90.756 119 5 3 6589 6707 648549021 648548909 3.600000e-33 154.0
3 TraesCS3A01G211400 chr3A 90.164 122 5 4 6590 6711 256934798 256934684 1.300000e-32 152.0
4 TraesCS3A01G211400 chr3A 89.431 123 7 3 6583 6705 205714752 205714868 4.660000e-32 150.0
5 TraesCS3A01G211400 chr3A 97.872 47 1 0 6839 6885 147557879 147557833 1.720000e-11 82.4
6 TraesCS3A01G211400 chr3D 96.269 3940 97 21 2681 6595 289103630 289107544 0.000000e+00 6416.0
7 TraesCS3A01G211400 chr3D 96.560 814 20 7 832 1643 289102157 289102964 0.000000e+00 1341.0
8 TraesCS3A01G211400 chr3D 94.768 669 12 4 1979 2644 289102987 289103635 0.000000e+00 1020.0
9 TraesCS3A01G211400 chr3D 87.846 650 51 11 1 640 289101496 289102127 0.000000e+00 737.0
10 TraesCS3A01G211400 chr3D 79.899 398 63 14 3193 3582 544771068 544770680 7.370000e-70 276.0
11 TraesCS3A01G211400 chr3D 78.621 435 59 21 4068 4490 98596335 98595923 2.670000e-64 257.0
12 TraesCS3A01G211400 chr3D 94.964 139 6 1 6704 6841 289107542 289107680 4.530000e-52 217.0
13 TraesCS3A01G211400 chr3D 91.803 122 10 0 3749 3870 289104753 289104874 3.580000e-38 171.0
14 TraesCS3A01G211400 chr3D 94.595 74 4 0 6880 6953 289107681 289107754 1.700000e-21 115.0
15 TraesCS3A01G211400 chr3D 83.621 116 11 1 6952 7067 289107789 289107896 1.320000e-17 102.0
16 TraesCS3A01G211400 chr3D 82.857 105 18 0 4861 4965 429780640 429780536 2.210000e-15 95.3
17 TraesCS3A01G211400 chr3B 94.371 3837 104 34 2681 6475 381754743 381758509 0.000000e+00 5786.0
18 TraesCS3A01G211400 chr3B 96.883 738 17 4 832 1568 381752984 381753716 0.000000e+00 1230.0
19 TraesCS3A01G211400 chr3B 96.206 659 17 4 1989 2644 381754095 381754748 0.000000e+00 1072.0
20 TraesCS3A01G211400 chr3B 87.556 675 53 13 1 664 381752336 381752990 0.000000e+00 752.0
21 TraesCS3A01G211400 chr3B 98.324 179 3 0 660 838 43050588 43050766 1.560000e-81 315.0
22 TraesCS3A01G211400 chr3B 77.722 395 65 19 3485 3870 381755603 381755983 3.500000e-53 220.0
23 TraesCS3A01G211400 chr3B 95.000 140 6 1 6703 6841 381758826 381758965 1.260000e-52 219.0
24 TraesCS3A01G211400 chr3B 94.595 74 4 0 6880 6953 381758966 381759039 1.700000e-21 115.0
25 TraesCS3A01G211400 chr3B 95.556 45 1 1 6946 6989 381759067 381759111 3.730000e-08 71.3
26 TraesCS3A01G211400 chr3B 93.333 45 3 0 6839 6883 23733968 23733924 4.830000e-07 67.6
27 TraesCS3A01G211400 chr3B 79.000 100 8 5 2698 2785 803604991 803605089 1.000000e-03 56.5
28 TraesCS3A01G211400 chr6A 93.299 388 26 0 7067 7454 118285466 118285079 2.330000e-159 573.0
29 TraesCS3A01G211400 chr6A 80.658 517 65 21 3156 3652 521859973 521860474 1.180000e-97 368.0
30 TraesCS3A01G211400 chr6A 80.769 494 63 21 3099 3575 211713898 211714376 2.560000e-94 357.0
31 TraesCS3A01G211400 chr6A 99.401 167 1 0 668 834 55332984 55332818 3.380000e-78 303.0
32 TraesCS3A01G211400 chr6A 98.193 166 3 0 668 833 13903978 13903813 2.630000e-74 291.0
33 TraesCS3A01G211400 chr6A 78.151 476 69 25 4051 4508 539183217 539183675 3.430000e-68 270.0
34 TraesCS3A01G211400 chr6A 79.851 268 43 6 3550 3813 521860306 521860566 1.280000e-42 185.0
35 TraesCS3A01G211400 chr6A 86.250 160 22 0 3669 3828 211714338 211714497 2.760000e-39 174.0
36 TraesCS3A01G211400 chr6A 100.000 28 0 0 3511 3538 184395715 184395688 1.400000e-02 52.8
37 TraesCS3A01G211400 chr1A 93.095 391 26 1 7065 7454 277406872 277407262 8.390000e-159 571.0
38 TraesCS3A01G211400 chr1A 91.816 391 31 1 7065 7454 529255251 529254861 1.830000e-150 544.0
39 TraesCS3A01G211400 chr1A 91.371 394 32 2 7063 7454 8310849 8311242 8.510000e-149 538.0
40 TraesCS3A01G211400 chr1A 79.357 746 115 30 3157 3876 575588291 575589023 8.690000e-134 488.0
41 TraesCS3A01G211400 chr1A 99.408 169 1 0 666 834 22487182 22487350 2.610000e-79 307.0
42 TraesCS3A01G211400 chr1A 98.204 167 3 0 668 834 23307674 23307840 7.320000e-75 292.0
43 TraesCS3A01G211400 chr1A 75.271 461 68 20 4096 4521 302640635 302640186 2.140000e-40 178.0
44 TraesCS3A01G211400 chr1A 83.784 148 16 8 4834 4975 267143240 267143095 4.690000e-27 134.0
45 TraesCS3A01G211400 chr1A 80.952 168 21 3 3495 3652 575588699 575588865 1.020000e-23 122.0
46 TraesCS3A01G211400 chr1A 87.500 80 10 0 3984 4063 582516624 582516703 7.960000e-15 93.5
47 TraesCS3A01G211400 chr1A 95.745 47 2 0 6839 6885 535027524 535027478 8.020000e-10 76.8
48 TraesCS3A01G211400 chr1A 92.157 51 2 2 667 716 567813311 567813262 3.730000e-08 71.3
49 TraesCS3A01G211400 chr1A 90.000 50 5 0 667 716 567829771 567829722 1.740000e-06 65.8
50 TraesCS3A01G211400 chr1A 90.000 50 5 0 667 716 567856175 567856126 1.740000e-06 65.8
51 TraesCS3A01G211400 chr1A 90.000 50 5 0 667 716 567884189 567884140 1.740000e-06 65.8
52 TraesCS3A01G211400 chrUn 91.858 393 30 1 7064 7454 338566979 338567371 1.410000e-151 547.0
53 TraesCS3A01G211400 chrUn 91.858 393 30 1 7064 7454 338569574 338569966 1.410000e-151 547.0
54 TraesCS3A01G211400 chrUn 91.858 393 30 1 7064 7454 382095842 382096234 1.410000e-151 547.0
55 TraesCS3A01G211400 chrUn 79.208 101 21 0 4862 4962 68510644 68510544 3.730000e-08 71.3
56 TraesCS3A01G211400 chr6D 76.748 1101 170 47 3469 4521 127485237 127484175 3.060000e-148 536.0
57 TraesCS3A01G211400 chr6D 81.238 501 62 22 3092 3575 157159012 157158527 7.060000e-100 375.0
58 TraesCS3A01G211400 chr6D 87.004 277 24 8 4074 4342 157158168 157157896 1.220000e-77 302.0
59 TraesCS3A01G211400 chr6D 78.634 454 67 19 4065 4504 31804509 31804946 2.650000e-69 274.0
60 TraesCS3A01G211400 chr6D 78.788 429 61 21 4073 4487 221221866 221222278 2.060000e-65 261.0
61 TraesCS3A01G211400 chr6D 77.538 463 76 22 4036 4485 131697524 131697971 3.450000e-63 254.0
62 TraesCS3A01G211400 chr6D 77.982 436 72 18 4060 4485 397362523 397362102 1.240000e-62 252.0
63 TraesCS3A01G211400 chr6D 77.904 439 69 22 4060 4485 131700736 131700313 1.610000e-61 248.0
64 TraesCS3A01G211400 chr6D 77.961 363 60 14 4069 4422 124846478 124846829 7.580000e-50 209.0
65 TraesCS3A01G211400 chr6D 88.344 163 19 0 3669 3831 157158565 157158403 5.900000e-46 196.0
66 TraesCS3A01G211400 chr6D 77.431 288 46 8 3499 3777 383332649 383332926 3.600000e-33 154.0
67 TraesCS3A01G211400 chr6D 82.482 137 23 1 657 793 7906987 7907122 1.310000e-22 119.0
68 TraesCS3A01G211400 chr6D 80.000 175 22 8 4796 4966 415457732 415457567 4.730000e-22 117.0
69 TraesCS3A01G211400 chr6D 84.615 104 13 3 4862 4964 127483078 127482977 4.760000e-17 100.0
70 TraesCS3A01G211400 chr6D 82.178 101 17 1 4862 4962 217883632 217883731 1.330000e-12 86.1
71 TraesCS3A01G211400 chr6D 91.489 47 4 0 668 714 445702465 445702511 1.740000e-06 65.8
72 TraesCS3A01G211400 chr6D 97.297 37 1 0 4925 4961 403794516 403794480 6.240000e-06 63.9
73 TraesCS3A01G211400 chr2A 91.349 393 33 1 7063 7454 121289249 121288857 3.060000e-148 536.0
74 TraesCS3A01G211400 chr2A 91.349 393 33 1 7063 7454 556285532 556285924 3.060000e-148 536.0
75 TraesCS3A01G211400 chr2A 77.576 990 154 36 3033 3984 744053745 744052786 3.060000e-148 536.0
76 TraesCS3A01G211400 chr2A 79.148 446 61 21 4074 4504 195742385 195741957 5.700000e-71 279.0
77 TraesCS3A01G211400 chr2A 91.525 118 4 3 6588 6705 187945896 187945785 2.780000e-34 158.0
78 TraesCS3A01G211400 chr2A 92.174 115 3 4 6591 6705 763687461 763687569 2.780000e-34 158.0
79 TraesCS3A01G211400 chr2A 95.745 47 2 0 6839 6885 208346865 208346819 8.020000e-10 76.8
80 TraesCS3A01G211400 chr2B 83.137 510 65 14 3207 3700 398710646 398710142 5.310000e-121 446.0
81 TraesCS3A01G211400 chr2B 80.708 565 73 27 3984 4521 398709972 398709417 2.500000e-109 407.0
82 TraesCS3A01G211400 chr2B 99.398 166 1 0 668 833 15098004 15098169 1.220000e-77 302.0
83 TraesCS3A01G211400 chr2B 76.415 212 36 7 4750 4958 793184226 793184426 1.320000e-17 102.0
84 TraesCS3A01G211400 chr2B 80.000 140 24 4 4827 4964 198641627 198641490 4.760000e-17 100.0
85 TraesCS3A01G211400 chr6B 82.892 491 42 21 3080 3531 184357346 184357833 3.240000e-108 403.0
86 TraesCS3A01G211400 chr6B 80.380 474 58 22 3099 3556 279923163 279922709 2.010000e-85 327.0
87 TraesCS3A01G211400 chr6B 99.405 168 1 0 666 833 114835452 114835285 9.400000e-79 305.0
88 TraesCS3A01G211400 chr6B 98.795 166 2 0 668 833 675218228 675218063 5.660000e-76 296.0
89 TraesCS3A01G211400 chr6B 80.000 275 37 5 3495 3769 313173925 313174181 3.550000e-43 187.0
90 TraesCS3A01G211400 chr6B 83.486 109 13 4 4858 4964 349465624 349465729 6.160000e-16 97.1
91 TraesCS3A01G211400 chr6B 89.831 59 5 1 2732 2790 239360833 239360890 2.880000e-09 75.0
92 TraesCS3A01G211400 chr6B 83.750 80 9 4 4744 4821 227825122 227825199 1.040000e-08 73.1
93 TraesCS3A01G211400 chr7D 81.893 486 64 18 4050 4521 138281902 138282377 9.070000e-104 388.0
94 TraesCS3A01G211400 chr7D 79.592 343 42 20 3015 3352 10926916 10927235 3.500000e-53 220.0
95 TraesCS3A01G211400 chr7D 75.588 340 63 11 3486 3813 586743444 586743775 4.660000e-32 150.0
96 TraesCS3A01G211400 chr7D 82.677 127 13 6 3495 3612 460112735 460112609 3.680000e-18 104.0
97 TraesCS3A01G211400 chr7D 93.478 46 3 0 2739 2784 419411838 419411883 1.340000e-07 69.4
98 TraesCS3A01G211400 chr1D 84.973 366 47 5 4060 4418 485128970 485129334 1.530000e-96 364.0
99 TraesCS3A01G211400 chr1D 80.749 374 54 13 4142 4507 139903054 139903417 7.370000e-70 276.0
100 TraesCS3A01G211400 chr1D 78.384 458 71 17 4060 4504 493700445 493700003 9.530000e-69 272.0
101 TraesCS3A01G211400 chr1D 78.242 455 65 26 4072 4504 51044978 51045420 2.060000e-65 261.0
102 TraesCS3A01G211400 chr1D 72.391 1054 184 65 3495 4516 221923133 221924111 1.250000e-57 235.0
103 TraesCS3A01G211400 chr1D 76.644 441 75 22 4077 4504 440421548 440421973 1.260000e-52 219.0
104 TraesCS3A01G211400 chr1D 78.010 191 31 5 4773 4962 246946780 246946600 7.910000e-20 110.0
105 TraesCS3A01G211400 chr1D 88.750 80 9 0 3984 4063 485128852 485128931 1.710000e-16 99.0
106 TraesCS3A01G211400 chr1D 82.178 101 17 1 4862 4962 468986583 468986484 1.330000e-12 86.1
107 TraesCS3A01G211400 chr1D 80.000 100 17 3 4864 4962 365843019 365842922 3.730000e-08 71.3
108 TraesCS3A01G211400 chr1D 84.848 66 8 2 4898 4962 53402700 53402764 1.740000e-06 65.8
109 TraesCS3A01G211400 chr7A 79.385 553 84 20 3984 4521 138179868 138180405 5.500000e-96 363.0
110 TraesCS3A01G211400 chr7A 92.174 115 3 4 6591 6705 25411002 25411110 2.780000e-34 158.0
111 TraesCS3A01G211400 chr7A 85.556 90 5 1 2695 2784 85081720 85081801 3.710000e-13 87.9
112 TraesCS3A01G211400 chr5D 80.000 460 65 20 4060 4508 326906313 326906756 1.560000e-81 315.0
113 TraesCS3A01G211400 chr5D 79.249 453 58 26 4073 4508 370944191 370944624 4.400000e-72 283.0
114 TraesCS3A01G211400 chr5D 76.754 456 62 24 4060 4503 519207502 519207079 1.630000e-51 215.0
115 TraesCS3A01G211400 chr5D 74.888 446 63 28 3384 3789 92172738 92172302 2.780000e-34 158.0
116 TraesCS3A01G211400 chr5D 89.764 127 7 4 6590 6716 547442038 547442158 2.780000e-34 158.0
117 TraesCS3A01G211400 chr5D 76.190 210 32 11 3387 3579 473365102 473364894 2.210000e-15 95.3
118 TraesCS3A01G211400 chr5D 79.577 142 16 11 3495 3628 92172506 92172370 1.030000e-13 89.8
119 TraesCS3A01G211400 chr5D 82.178 101 17 1 4864 4964 458155453 458155552 1.330000e-12 86.1
120 TraesCS3A01G211400 chr7B 96.774 186 5 1 656 841 666704875 666705059 7.260000e-80 309.0
121 TraesCS3A01G211400 chr7B 99.398 166 1 0 668 833 228787179 228787344 1.220000e-77 302.0
122 TraesCS3A01G211400 chr7B 99.398 166 1 0 668 833 610460205 610460040 1.220000e-77 302.0
123 TraesCS3A01G211400 chr7B 97.110 173 4 1 665 836 120742970 120742798 2.630000e-74 291.0
124 TraesCS3A01G211400 chr5B 100.000 165 0 0 668 832 88211297 88211461 9.400000e-79 305.0
125 TraesCS3A01G211400 chr5B 98.193 166 3 0 668 833 381057615 381057780 2.630000e-74 291.0
126 TraesCS3A01G211400 chr5B 98.171 164 3 0 668 831 373215509 373215672 3.400000e-73 287.0
127 TraesCS3A01G211400 chr5B 78.070 456 71 21 4075 4517 379599491 379599930 2.060000e-65 261.0
128 TraesCS3A01G211400 chr5B 97.826 46 1 0 6839 6884 311554692 311554737 6.200000e-11 80.5
129 TraesCS3A01G211400 chr5B 86.538 52 5 2 2702 2752 533098732 533098682 1.000000e-03 56.5
130 TraesCS3A01G211400 chr4A 79.684 443 64 16 4074 4504 585593956 585593528 5.660000e-76 296.0
131 TraesCS3A01G211400 chr4A 86.667 75 10 0 2999 3073 175216401 175216327 4.790000e-12 84.2
132 TraesCS3A01G211400 chr4A 94.231 52 2 1 6839 6889 528813950 528814001 2.230000e-10 78.7
133 TraesCS3A01G211400 chr4A 93.182 44 3 0 6839 6882 343923628 343923585 1.740000e-06 65.8
134 TraesCS3A01G211400 chr4A 78.431 102 9 5 2696 2785 229468996 229468896 4.000000e-03 54.7
135 TraesCS3A01G211400 chr1B 98.795 166 2 0 668 833 659781166 659781331 5.660000e-76 296.0
136 TraesCS3A01G211400 chr1B 81.148 366 42 19 3984 4340 667470958 667471305 1.230000e-67 268.0
137 TraesCS3A01G211400 chr1B 82.967 182 25 4 3644 3819 667439319 667439500 7.740000e-35 159.0
138 TraesCS3A01G211400 chr1B 84.800 125 18 1 3497 3621 443991237 443991114 2.820000e-24 124.0
139 TraesCS3A01G211400 chr1B 79.167 144 19 8 3845 3984 198860776 198860640 1.030000e-13 89.8
140 TraesCS3A01G211400 chr4D 78.523 447 66 24 4072 4504 439787548 439787118 4.430000e-67 267.0
141 TraesCS3A01G211400 chr4B 76.400 500 78 15 3289 3773 262827726 262828200 4.500000e-57 233.0
142 TraesCS3A01G211400 chr4B 80.682 176 24 8 4336 4504 580524975 580525147 2.180000e-25 128.0
143 TraesCS3A01G211400 chr4B 78.169 142 22 8 4827 4965 53552619 53552484 1.720000e-11 82.4
144 TraesCS3A01G211400 chr4B 94.872 39 2 0 4926 4964 468663119 468663157 2.250000e-05 62.1
145 TraesCS3A01G211400 chr5A 92.982 114 2 4 6592 6705 88349829 88349722 2.150000e-35 161.0
146 TraesCS3A01G211400 chr5A 92.105 114 3 4 6593 6706 505508839 505508732 1.000000e-33 156.0
147 TraesCS3A01G211400 chr5A 97.727 44 1 0 6839 6882 431546725 431546682 8.020000e-10 76.8
148 TraesCS3A01G211400 chr5A 93.478 46 3 0 6839 6884 65002784 65002829 1.340000e-07 69.4
149 TraesCS3A01G211400 chr2D 84.127 126 19 1 2999 3124 580111155 580111279 3.650000e-23 121.0
150 TraesCS3A01G211400 chr2D 80.916 131 18 6 4838 4965 208844253 208844379 6.160000e-16 97.1
151 TraesCS3A01G211400 chr2D 100.000 30 0 0 3094 3123 279081183 279081154 1.000000e-03 56.5


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 TraesCS3A01G211400 chr3A 379818906 379826360 7454 False 6575.0000 10115 100.000000 1 7455 2 chr3A.!!$F2 7454
1 TraesCS3A01G211400 chr3D 289101496 289107896 6400 False 1264.8750 6416 92.553250 1 7067 8 chr3D.!!$F1 7066
2 TraesCS3A01G211400 chr3B 381752336 381759111 6775 False 1183.1625 5786 92.236125 1 6989 8 chr3B.!!$F3 6988
3 TraesCS3A01G211400 chr6A 521859973 521860566 593 False 276.5000 368 80.254500 3156 3813 2 chr6A.!!$F3 657
4 TraesCS3A01G211400 chr6A 211713898 211714497 599 False 265.5000 357 83.509500 3099 3828 2 chr6A.!!$F2 729
5 TraesCS3A01G211400 chr1A 575588291 575589023 732 False 305.0000 488 80.154500 3157 3876 2 chr1A.!!$F6 719
6 TraesCS3A01G211400 chrUn 338566979 338569966 2987 False 547.0000 547 91.858000 7064 7454 2 chrUn.!!$F2 390
7 TraesCS3A01G211400 chr6D 127482977 127485237 2260 True 318.0000 536 80.681500 3469 4964 2 chr6D.!!$R5 1495
8 TraesCS3A01G211400 chr6D 157157896 157159012 1116 True 291.0000 375 85.528667 3092 4342 3 chr6D.!!$R6 1250
9 TraesCS3A01G211400 chr2A 744052786 744053745 959 True 536.0000 536 77.576000 3033 3984 1 chr2A.!!$R5 951
10 TraesCS3A01G211400 chr2B 398709417 398710646 1229 True 426.5000 446 81.922500 3207 4521 2 chr2B.!!$R2 1314
11 TraesCS3A01G211400 chr1D 221923133 221924111 978 False 235.0000 235 72.391000 3495 4516 1 chr1D.!!$F4 1021
12 TraesCS3A01G211400 chr7A 138179868 138180405 537 False 363.0000 363 79.385000 3984 4521 1 chr7A.!!$F3 537

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
667 691 0.107165 GCTTCATGGTGGACCCTACC 60.107 60.0 0.00 0.00 38.71 3.18 F
797 821 0.394762 CTTGCAGCCTGGCCTATTCA 60.395 55.0 16.57 3.46 0.00 2.57 F
1595 1622 0.315251 GCAAGGCAGGTTTTGTCCTC 59.685 55.0 0.00 0.00 35.37 3.71 F
2882 2931 0.091344 CGCGTTGAGACTTTGTAGCG 59.909 55.0 0.00 0.00 40.37 4.26 F
3600 3884 0.472471 TTTCAACGAAGCCACCTCCT 59.528 50.0 0.00 0.00 0.00 3.69 F
4063 4687 0.494551 TAGTTCCACCTTCCCCTCCA 59.505 55.0 0.00 0.00 0.00 3.86 F
5154 6581 1.070821 TTGATTTCACTGCGAGCTCG 58.929 50.0 31.37 31.37 43.27 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1595 1622 0.947244 GGAAGTGCACACTGTGAAGG 59.053 55.000 21.04 4.75 41.58 3.46 R
1607 1634 3.149196 TCAGAATTTCAGGTGGAAGTGC 58.851 45.455 0.00 0.00 36.72 4.40 R
3092 3145 2.650322 TCTGTTGGAGTTGGGTGTTTC 58.350 47.619 0.00 0.00 0.00 2.78 R
4024 4564 0.252284 GAGGAGAGGAAGGTGGTGGA 60.252 60.000 0.00 0.00 0.00 4.02 R
5307 6734 1.061546 TGTACCTTCTGTTGGTCCCC 58.938 55.000 0.00 0.00 38.88 4.81 R
5861 7291 1.060713 CGCTTACTGACAAGACACGG 58.939 55.000 0.00 0.00 0.00 4.94 R
6688 8326 0.038744 AGGTACTTCCTCCGTTCCGA 59.961 55.000 0.00 0.00 44.42 4.55 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
54 55 1.303643 CCTTGTGAAGACCCCAGGC 60.304 63.158 0.00 0.00 0.00 4.85
56 57 0.984230 CTTGTGAAGACCCCAGGCTA 59.016 55.000 0.00 0.00 0.00 3.93
65 66 0.630673 ACCCCAGGCTATTTGCATCA 59.369 50.000 0.00 0.00 45.15 3.07
122 124 2.712057 CAAACTTTGCCTACAGCTGG 57.288 50.000 19.93 0.51 44.23 4.85
135 137 1.076044 AGCTGGCCACTTTGGTTGT 60.076 52.632 0.00 0.00 40.46 3.32
152 154 4.473196 TGGTTGTATATGAGCTTTCTCCCA 59.527 41.667 0.00 0.00 38.58 4.37
153 155 5.132648 TGGTTGTATATGAGCTTTCTCCCAT 59.867 40.000 0.00 0.00 38.58 4.00
170 172 5.483231 TCTCCCATGGATCTTCATAGATGAC 59.517 44.000 15.22 0.00 41.23 3.06
207 209 2.505819 GTCCATCAACACCATACCTCCT 59.494 50.000 0.00 0.00 0.00 3.69
208 210 3.709653 GTCCATCAACACCATACCTCCTA 59.290 47.826 0.00 0.00 0.00 2.94
213 215 2.089600 ACACCATACCTCCTAGCCTC 57.910 55.000 0.00 0.00 0.00 4.70
215 217 0.851469 ACCATACCTCCTAGCCTCGA 59.149 55.000 0.00 0.00 0.00 4.04
239 241 1.751927 GGCTCGAAGTAGGGTCCGA 60.752 63.158 0.00 0.00 0.00 4.55
251 253 2.885616 AGGGTCCGAAGTCTTGTTCTA 58.114 47.619 0.00 0.00 0.00 2.10
252 254 3.442076 AGGGTCCGAAGTCTTGTTCTAT 58.558 45.455 0.00 0.00 0.00 1.98
267 269 1.709578 TCTATGCGGGAGATTCAGCT 58.290 50.000 0.00 0.00 0.00 4.24
279 281 2.697751 AGATTCAGCTGATCTACCGCTT 59.302 45.455 19.04 0.00 36.97 4.68
281 283 1.186200 TCAGCTGATCTACCGCTTGT 58.814 50.000 13.74 0.00 36.97 3.16
283 285 1.662629 CAGCTGATCTACCGCTTGTTG 59.337 52.381 8.42 0.00 36.97 3.33
306 308 1.321743 GCATCTGAACGTCGTGTCATC 59.678 52.381 0.00 0.00 0.00 2.92
368 370 1.514443 CGAGGTCGACGCCTTCTTC 60.514 63.158 9.92 0.00 43.02 2.87
383 386 0.395312 TCTTCTGGTTGTTCGTCCCC 59.605 55.000 0.00 0.00 0.00 4.81
384 387 0.949105 CTTCTGGTTGTTCGTCCCCG 60.949 60.000 0.00 0.00 0.00 5.73
385 388 2.999739 TTCTGGTTGTTCGTCCCCGC 63.000 60.000 0.00 0.00 0.00 6.13
386 389 4.629523 TGGTTGTTCGTCCCCGCC 62.630 66.667 0.00 0.00 0.00 6.13
533 537 0.385598 GGCGAAGGAAAGAACGTTGC 60.386 55.000 5.00 0.00 0.00 4.17
543 547 1.132640 GAACGTTGCCGATCTGTGC 59.867 57.895 5.00 0.00 37.88 4.57
578 582 1.541310 CGCCTCCCTAGACACAACCA 61.541 60.000 0.00 0.00 0.00 3.67
583 587 2.039084 CTCCCTAGACACAACCAAAGCT 59.961 50.000 0.00 0.00 0.00 3.74
592 596 1.341976 ACAACCAAAGCTTCACCACCT 60.342 47.619 0.00 0.00 0.00 4.00
616 628 1.695242 TCAGCCGAAACCCTAACAAGA 59.305 47.619 0.00 0.00 0.00 3.02
618 630 0.794473 GCCGAAACCCTAACAAGACG 59.206 55.000 0.00 0.00 0.00 4.18
664 688 1.488705 TTCGCTTCATGGTGGACCCT 61.489 55.000 0.00 0.00 34.29 4.34
665 689 0.616395 TCGCTTCATGGTGGACCCTA 60.616 55.000 0.00 0.00 34.29 3.53
666 690 0.462047 CGCTTCATGGTGGACCCTAC 60.462 60.000 0.00 0.00 34.29 3.18
667 691 0.107165 GCTTCATGGTGGACCCTACC 60.107 60.000 0.00 0.00 38.71 3.18
674 698 3.000819 TGGACCCTACCACTGGCG 61.001 66.667 0.00 0.00 34.77 5.69
675 699 3.782443 GGACCCTACCACTGGCGG 61.782 72.222 0.00 0.00 0.00 6.13
676 700 2.682494 GACCCTACCACTGGCGGA 60.682 66.667 0.00 0.00 0.00 5.54
677 701 2.683933 ACCCTACCACTGGCGGAG 60.684 66.667 0.00 0.00 0.00 4.63
731 755 2.328655 GCTCTGCAGCTTTTTCTCAC 57.671 50.000 9.47 0.00 43.09 3.51
732 756 1.605710 GCTCTGCAGCTTTTTCTCACA 59.394 47.619 9.47 0.00 43.09 3.58
733 757 2.033801 GCTCTGCAGCTTTTTCTCACAA 59.966 45.455 9.47 0.00 43.09 3.33
734 758 3.305199 GCTCTGCAGCTTTTTCTCACAAT 60.305 43.478 9.47 0.00 43.09 2.71
735 759 4.083110 GCTCTGCAGCTTTTTCTCACAATA 60.083 41.667 9.47 0.00 43.09 1.90
736 760 5.392811 GCTCTGCAGCTTTTTCTCACAATAT 60.393 40.000 9.47 0.00 43.09 1.28
737 761 6.183360 GCTCTGCAGCTTTTTCTCACAATATA 60.183 38.462 9.47 0.00 43.09 0.86
738 762 7.312657 TCTGCAGCTTTTTCTCACAATATAG 57.687 36.000 9.47 0.00 0.00 1.31
739 763 5.883661 TGCAGCTTTTTCTCACAATATAGC 58.116 37.500 0.00 0.00 0.00 2.97
740 764 5.649395 TGCAGCTTTTTCTCACAATATAGCT 59.351 36.000 0.00 0.00 38.18 3.32
741 765 6.823182 TGCAGCTTTTTCTCACAATATAGCTA 59.177 34.615 0.00 0.00 36.08 3.32
742 766 7.011763 TGCAGCTTTTTCTCACAATATAGCTAG 59.988 37.037 0.00 0.00 36.08 3.42
743 767 7.351223 CAGCTTTTTCTCACAATATAGCTAGC 58.649 38.462 6.62 6.62 36.08 3.42
744 768 6.484977 AGCTTTTTCTCACAATATAGCTAGCC 59.515 38.462 12.13 0.00 36.08 3.93
745 769 6.293680 GCTTTTTCTCACAATATAGCTAGCCC 60.294 42.308 12.13 0.00 0.00 5.19
746 770 5.887214 TTTCTCACAATATAGCTAGCCCA 57.113 39.130 12.13 0.00 0.00 5.36
747 771 6.439636 TTTCTCACAATATAGCTAGCCCAT 57.560 37.500 12.13 7.90 0.00 4.00
748 772 5.411831 TCTCACAATATAGCTAGCCCATG 57.588 43.478 12.13 6.58 0.00 3.66
749 773 4.223700 TCTCACAATATAGCTAGCCCATGG 59.776 45.833 12.13 4.14 0.00 3.66
750 774 3.264193 TCACAATATAGCTAGCCCATGGG 59.736 47.826 27.87 27.87 38.57 4.00
751 775 3.009473 CACAATATAGCTAGCCCATGGGT 59.991 47.826 31.58 20.05 37.65 4.51
752 776 3.657727 ACAATATAGCTAGCCCATGGGTT 59.342 43.478 31.58 28.26 37.65 4.11
753 777 4.012374 CAATATAGCTAGCCCATGGGTTG 58.988 47.826 31.58 19.62 37.65 3.77
754 778 1.522900 ATAGCTAGCCCATGGGTTGT 58.477 50.000 31.58 18.70 37.65 3.32
755 779 2.184088 TAGCTAGCCCATGGGTTGTA 57.816 50.000 31.58 18.81 37.65 2.41
756 780 0.839946 AGCTAGCCCATGGGTTGTAG 59.160 55.000 31.58 26.47 37.65 2.74
757 781 0.837272 GCTAGCCCATGGGTTGTAGA 59.163 55.000 31.58 10.17 37.65 2.59
758 782 1.211949 GCTAGCCCATGGGTTGTAGAA 59.788 52.381 31.58 9.77 37.65 2.10
759 783 2.158608 GCTAGCCCATGGGTTGTAGAAT 60.159 50.000 31.58 10.25 37.65 2.40
760 784 2.442236 AGCCCATGGGTTGTAGAATG 57.558 50.000 31.58 2.64 37.65 2.67
761 785 0.746659 GCCCATGGGTTGTAGAATGC 59.253 55.000 31.58 9.57 37.65 3.56
762 786 1.402787 CCCATGGGTTGTAGAATGCC 58.597 55.000 23.93 0.00 0.00 4.40
763 787 1.341877 CCCATGGGTTGTAGAATGCCA 60.342 52.381 23.93 0.00 0.00 4.92
764 788 2.026641 CCATGGGTTGTAGAATGCCAG 58.973 52.381 2.85 0.00 0.00 4.85
765 789 1.406539 CATGGGTTGTAGAATGCCAGC 59.593 52.381 0.00 0.00 0.00 4.85
766 790 0.698238 TGGGTTGTAGAATGCCAGCT 59.302 50.000 0.00 0.00 0.00 4.24
767 791 1.912731 TGGGTTGTAGAATGCCAGCTA 59.087 47.619 0.00 0.00 0.00 3.32
768 792 2.092968 TGGGTTGTAGAATGCCAGCTAG 60.093 50.000 0.00 0.00 0.00 3.42
769 793 2.092914 GGGTTGTAGAATGCCAGCTAGT 60.093 50.000 0.00 0.00 0.00 2.57
770 794 3.134081 GGGTTGTAGAATGCCAGCTAGTA 59.866 47.826 0.00 0.00 0.00 1.82
771 795 4.372656 GGTTGTAGAATGCCAGCTAGTAG 58.627 47.826 0.00 0.00 0.00 2.57
772 796 4.141914 GGTTGTAGAATGCCAGCTAGTAGT 60.142 45.833 0.00 0.00 0.00 2.73
773 797 5.068723 GGTTGTAGAATGCCAGCTAGTAGTA 59.931 44.000 0.00 0.00 0.00 1.82
774 798 6.406624 GGTTGTAGAATGCCAGCTAGTAGTAA 60.407 42.308 0.00 0.00 0.00 2.24
775 799 6.978674 TGTAGAATGCCAGCTAGTAGTAAT 57.021 37.500 0.00 0.00 0.00 1.89
776 800 7.361457 TGTAGAATGCCAGCTAGTAGTAATT 57.639 36.000 0.00 0.00 0.00 1.40
777 801 7.434492 TGTAGAATGCCAGCTAGTAGTAATTC 58.566 38.462 0.00 2.63 0.00 2.17
778 802 5.859495 AGAATGCCAGCTAGTAGTAATTCC 58.141 41.667 0.00 0.00 0.00 3.01
779 803 5.604650 AGAATGCCAGCTAGTAGTAATTCCT 59.395 40.000 0.00 0.00 0.00 3.36
780 804 5.896073 ATGCCAGCTAGTAGTAATTCCTT 57.104 39.130 0.00 0.00 0.00 3.36
781 805 5.023533 TGCCAGCTAGTAGTAATTCCTTG 57.976 43.478 0.00 0.00 0.00 3.61
782 806 3.810386 GCCAGCTAGTAGTAATTCCTTGC 59.190 47.826 0.00 0.00 0.00 4.01
783 807 4.683400 GCCAGCTAGTAGTAATTCCTTGCA 60.683 45.833 0.00 0.00 30.85 4.08
784 808 5.053145 CCAGCTAGTAGTAATTCCTTGCAG 58.947 45.833 0.00 0.00 30.85 4.41
785 809 4.509600 CAGCTAGTAGTAATTCCTTGCAGC 59.490 45.833 0.00 0.00 30.85 5.25
786 810 3.810386 GCTAGTAGTAATTCCTTGCAGCC 59.190 47.826 0.00 0.00 0.00 4.85
787 811 4.443598 GCTAGTAGTAATTCCTTGCAGCCT 60.444 45.833 0.00 0.00 0.00 4.58
788 812 3.878778 AGTAGTAATTCCTTGCAGCCTG 58.121 45.455 0.00 0.00 0.00 4.85
789 813 2.134789 AGTAATTCCTTGCAGCCTGG 57.865 50.000 0.00 0.00 0.00 4.45
790 814 0.457443 GTAATTCCTTGCAGCCTGGC 59.543 55.000 11.65 11.65 0.00 4.85
791 815 0.684153 TAATTCCTTGCAGCCTGGCC 60.684 55.000 16.57 0.00 0.00 5.36
792 816 2.451462 AATTCCTTGCAGCCTGGCCT 62.451 55.000 16.57 0.00 0.00 5.19
793 817 1.574526 ATTCCTTGCAGCCTGGCCTA 61.575 55.000 16.57 0.00 0.00 3.93
794 818 1.574526 TTCCTTGCAGCCTGGCCTAT 61.575 55.000 16.57 0.00 0.00 2.57
795 819 1.076485 CCTTGCAGCCTGGCCTATT 60.076 57.895 16.57 0.00 0.00 1.73
796 820 1.105759 CCTTGCAGCCTGGCCTATTC 61.106 60.000 16.57 0.64 0.00 1.75
797 821 0.394762 CTTGCAGCCTGGCCTATTCA 60.395 55.000 16.57 3.46 0.00 2.57
798 822 0.394762 TTGCAGCCTGGCCTATTCAG 60.395 55.000 16.57 0.00 0.00 3.02
799 823 2.192187 GCAGCCTGGCCTATTCAGC 61.192 63.158 16.57 4.75 0.00 4.26
805 829 4.956932 GGCCTATTCAGCCCGCCC 62.957 72.222 0.00 0.00 45.16 6.13
806 830 4.189580 GCCTATTCAGCCCGCCCA 62.190 66.667 0.00 0.00 0.00 5.36
807 831 2.111878 CCTATTCAGCCCGCCCAG 59.888 66.667 0.00 0.00 0.00 4.45
808 832 2.592861 CTATTCAGCCCGCCCAGC 60.593 66.667 0.00 0.00 0.00 4.85
809 833 3.089874 TATTCAGCCCGCCCAGCT 61.090 61.111 0.00 0.00 42.70 4.24
810 834 2.615227 CTATTCAGCCCGCCCAGCTT 62.615 60.000 0.00 0.00 38.95 3.74
811 835 2.210144 TATTCAGCCCGCCCAGCTTT 62.210 55.000 0.00 0.00 38.95 3.51
812 836 3.690624 TATTCAGCCCGCCCAGCTTTT 62.691 52.381 0.00 0.00 38.95 2.27
813 837 3.305516 CAGCCCGCCCAGCTTTTT 61.306 61.111 0.00 0.00 38.95 1.94
834 858 4.704833 GCAAGCTCCGCCACTGGA 62.705 66.667 0.00 0.00 36.37 3.86
835 859 2.743928 CAAGCTCCGCCACTGGAC 60.744 66.667 0.00 0.00 33.48 4.02
836 860 4.021925 AAGCTCCGCCACTGGACC 62.022 66.667 0.00 0.00 33.48 4.46
853 877 2.199236 GACCCTACTGTTTATTCCGCG 58.801 52.381 0.00 0.00 0.00 6.46
873 897 1.153549 GTCTGGGACCGAGATGTGC 60.154 63.158 9.67 0.00 0.00 4.57
876 900 0.531532 CTGGGACCGAGATGTGCATC 60.532 60.000 0.00 4.12 38.09 3.91
923 948 3.813166 TGACATTTCGGTGAAAGAACCTC 59.187 43.478 0.00 0.00 38.14 3.85
929 954 5.587388 TTCGGTGAAAGAACCTCGTATAT 57.413 39.130 0.00 0.00 38.14 0.86
994 1021 2.983592 GGGACGGCCAAACCACTG 60.984 66.667 11.00 0.00 39.03 3.66
1234 1261 1.591863 GGGCACTACGATCCGAAGC 60.592 63.158 0.00 0.00 0.00 3.86
1595 1622 0.315251 GCAAGGCAGGTTTTGTCCTC 59.685 55.000 0.00 0.00 35.37 3.71
1607 1634 2.620251 TTGTCCTCCTTCACAGTGTG 57.380 50.000 17.53 17.53 34.45 3.82
1610 1637 0.106708 TCCTCCTTCACAGTGTGCAC 59.893 55.000 18.80 10.75 32.98 4.57
2012 2039 5.066968 TGACAGACATGCGACACTAATAA 57.933 39.130 0.00 0.00 0.00 1.40
2013 2040 5.660460 TGACAGACATGCGACACTAATAAT 58.340 37.500 0.00 0.00 0.00 1.28
2014 2041 5.519927 TGACAGACATGCGACACTAATAATG 59.480 40.000 0.00 0.00 0.00 1.90
2069 2098 1.734465 CTTGACGAGCCAATTGAGGTC 59.266 52.381 7.12 10.98 0.00 3.85
2102 2131 2.551270 TGGAATACTGGAGGACTGCTT 58.449 47.619 0.00 0.00 0.00 3.91
2148 2196 9.946165 AGAACTTACTTTCTTTCATTTTTACCG 57.054 29.630 0.00 0.00 31.39 4.02
2149 2197 9.726232 GAACTTACTTTCTTTCATTTTTACCGT 57.274 29.630 0.00 0.00 0.00 4.83
2150 2198 9.726232 AACTTACTTTCTTTCATTTTTACCGTC 57.274 29.630 0.00 0.00 0.00 4.79
2151 2199 9.117183 ACTTACTTTCTTTCATTTTTACCGTCT 57.883 29.630 0.00 0.00 0.00 4.18
2152 2200 9.946165 CTTACTTTCTTTCATTTTTACCGTCTT 57.054 29.630 0.00 0.00 0.00 3.01
2155 2203 9.946165 ACTTTCTTTCATTTTTACCGTCTTTAG 57.054 29.630 0.00 0.00 0.00 1.85
2156 2204 9.946165 CTTTCTTTCATTTTTACCGTCTTTAGT 57.054 29.630 0.00 0.00 0.00 2.24
2157 2205 9.940166 TTTCTTTCATTTTTACCGTCTTTAGTC 57.060 29.630 0.00 0.00 0.00 2.59
2158 2206 8.665643 TCTTTCATTTTTACCGTCTTTAGTCA 57.334 30.769 0.00 0.00 0.00 3.41
2159 2207 9.280174 TCTTTCATTTTTACCGTCTTTAGTCAT 57.720 29.630 0.00 0.00 0.00 3.06
2321 2369 3.575965 AATCGAATTTGTGCCCAGTTC 57.424 42.857 0.00 0.00 0.00 3.01
2455 2503 4.734917 AGACGAAGAAACTAATGACCTCG 58.265 43.478 0.00 0.00 0.00 4.63
2538 2586 6.811253 TTTTCGCTATTATTGTGGAAGTGT 57.189 33.333 0.00 0.00 0.00 3.55
2780 2828 3.299503 CACTTATTTTGGGATGGAGGGG 58.700 50.000 0.00 0.00 0.00 4.79
2882 2931 0.091344 CGCGTTGAGACTTTGTAGCG 59.909 55.000 0.00 0.00 40.37 4.26
2886 2935 1.461127 GTTGAGACTTTGTAGCGGCAG 59.539 52.381 1.45 0.00 0.00 4.85
3567 3830 1.360393 TTCCACCAAAGCCACCTCCT 61.360 55.000 0.00 0.00 0.00 3.69
3600 3884 0.472471 TTTCAACGAAGCCACCTCCT 59.528 50.000 0.00 0.00 0.00 3.69
3614 3907 2.092753 CACCTCCTGTGCCACTCATATT 60.093 50.000 0.00 0.00 38.34 1.28
3682 4023 2.285024 GCACCACCCATGTTGCCAT 61.285 57.895 0.00 0.00 0.00 4.40
3794 4243 1.565759 CATTCCTCCTCCCATTCCACA 59.434 52.381 0.00 0.00 0.00 4.17
4024 4564 1.135083 CCACCGTCTTAAGCTCATCGT 60.135 52.381 0.00 0.00 0.00 3.73
4058 4640 2.112190 CTCCTCTAGTTCCACCTTCCC 58.888 57.143 0.00 0.00 0.00 3.97
4063 4687 0.494551 TAGTTCCACCTTCCCCTCCA 59.505 55.000 0.00 0.00 0.00 3.86
4118 4743 4.574013 CCTCTCCTCCATCTTTCAATTTCG 59.426 45.833 0.00 0.00 0.00 3.46
4194 4821 9.972106 AATTCTTCTTTAAGATCATTGTCTCCT 57.028 29.630 0.00 0.00 41.36 3.69
4428 5070 5.133941 GGTTTCCTTTCTTCTTCTTGTCCT 58.866 41.667 0.00 0.00 0.00 3.85
4789 6184 2.025418 CTGTTTTACTCGGCCGCGT 61.025 57.895 25.78 25.78 0.00 6.01
4820 6247 6.947258 TGATGTATATTTGCATCACTTCGTG 58.053 36.000 11.75 0.00 46.10 4.35
4821 6248 6.538381 TGATGTATATTTGCATCACTTCGTGT 59.462 34.615 11.75 0.00 46.10 4.49
4983 6410 6.925934 TCTAATGGGGATGAAGATGGAAAAT 58.074 36.000 0.00 0.00 0.00 1.82
5154 6581 1.070821 TTGATTTCACTGCGAGCTCG 58.929 50.000 31.37 31.37 43.27 5.03
5307 6734 1.326548 GGTGCGCAAGTTAGGATAACG 59.673 52.381 14.00 0.00 41.68 3.18
5637 7067 4.134563 ACCTTGACGTGTCATAGCTTTTT 58.865 39.130 3.14 0.00 39.64 1.94
5861 7291 4.095483 CACATCTCCAACATTAGTCAAGGC 59.905 45.833 0.00 0.00 0.00 4.35
5900 7330 6.412362 AGCGACATCCTAAAAGTAGATGAT 57.588 37.500 6.25 0.00 0.00 2.45
6015 7453 6.019881 GCTGCCAACTAACAGTTTTAAAACAG 60.020 38.462 28.03 23.36 41.30 3.16
6027 7465 8.403236 ACAGTTTTAAAACAGTGTAGTGGAATC 58.597 33.333 28.03 0.73 41.30 2.52
6052 7490 7.431084 TCAGCTTTCAAAATTCTTTGTTCGTAC 59.569 33.333 0.00 0.00 42.26 3.67
6053 7491 7.432252 CAGCTTTCAAAATTCTTTGTTCGTACT 59.568 33.333 0.00 0.00 42.26 2.73
6054 7492 8.617809 AGCTTTCAAAATTCTTTGTTCGTACTA 58.382 29.630 0.00 0.00 42.26 1.82
6059 7497 9.710979 TCAAAATTCTTTGTTCGTACTAGTTTG 57.289 29.630 0.00 0.00 42.26 2.93
6085 7523 7.273320 AGCAAGATTTTGTCATCAGATATGG 57.727 36.000 0.00 0.00 36.65 2.74
6163 7601 4.154918 GTGCTCCTGGTTTATTTCTGTCAG 59.845 45.833 0.00 0.00 0.00 3.51
6183 7621 4.160439 TCAGATAAAGCGGTGAGACTGAAT 59.840 41.667 10.67 0.00 31.69 2.57
6250 7688 6.999950 TCTTAGTACCATTTGTCTTGTGCTA 58.000 36.000 0.00 0.00 0.00 3.49
6275 7713 3.304324 GCAGAAGGTGTTTTCAGAAGCTC 60.304 47.826 0.00 0.00 0.00 4.09
6438 7876 1.452110 CATGCCAAATCTGGTGACGA 58.548 50.000 0.00 0.00 45.53 4.20
6489 7927 8.732413 ATGTTTATTTCATGCGCTGTATATTG 57.268 30.769 9.73 0.00 0.00 1.90
6504 7942 7.226720 CGCTGTATATTGTAAGGAGAATTTGGT 59.773 37.037 0.00 0.00 0.00 3.67
6558 7996 7.148705 CGACCTGAATTGAAACAGTATTAACGA 60.149 37.037 0.00 0.00 32.93 3.85
6595 8233 1.129998 CGCGTGCTGTACAGTACTACT 59.870 52.381 32.36 0.00 41.09 2.57
6596 8234 2.783333 GCGTGCTGTACAGTACTACTC 58.217 52.381 32.36 19.03 41.09 2.59
6597 8235 2.477525 GCGTGCTGTACAGTACTACTCC 60.478 54.545 32.36 16.65 41.09 3.85
6599 8237 3.354467 GTGCTGTACAGTACTACTCCCT 58.646 50.000 29.98 0.00 40.28 4.20
6600 8238 3.377798 GTGCTGTACAGTACTACTCCCTC 59.622 52.174 29.98 8.87 40.28 4.30
6601 8239 2.950975 GCTGTACAGTACTACTCCCTCC 59.049 54.545 23.44 0.00 0.00 4.30
6602 8240 3.204526 CTGTACAGTACTACTCCCTCCG 58.795 54.545 15.06 0.00 0.00 4.63
6603 8241 2.573462 TGTACAGTACTACTCCCTCCGT 59.427 50.000 12.07 0.00 0.00 4.69
6604 8242 2.895242 ACAGTACTACTCCCTCCGTT 57.105 50.000 0.00 0.00 0.00 4.44
6605 8243 2.720915 ACAGTACTACTCCCTCCGTTC 58.279 52.381 0.00 0.00 0.00 3.95
6606 8244 2.022934 CAGTACTACTCCCTCCGTTCC 58.977 57.143 0.00 0.00 0.00 3.62
6607 8245 1.637553 AGTACTACTCCCTCCGTTCCA 59.362 52.381 0.00 0.00 0.00 3.53
6608 8246 2.042162 AGTACTACTCCCTCCGTTCCAA 59.958 50.000 0.00 0.00 0.00 3.53
6609 8247 2.019807 ACTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
6610 8248 2.547990 ACTACTCCCTCCGTTCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
6611 8249 2.910977 ACTACTCCCTCCGTTCCAAATT 59.089 45.455 0.00 0.00 0.00 1.82
6612 8250 4.098894 ACTACTCCCTCCGTTCCAAATTA 58.901 43.478 0.00 0.00 0.00 1.40
6613 8251 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
6614 8252 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
6615 8253 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
6616 8254 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
6617 8255 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
6618 8256 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
6619 8257 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
6620 8258 1.060122 CCGTTCCAAATTACTCGTCGC 59.940 52.381 0.00 0.00 0.00 5.19
6621 8259 1.722464 CGTTCCAAATTACTCGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
6622 8260 2.222508 CGTTCCAAATTACTCGTCGCAG 60.223 50.000 0.00 0.00 0.00 5.18
6623 8261 2.991190 GTTCCAAATTACTCGTCGCAGA 59.009 45.455 0.00 0.00 0.00 4.26
6624 8262 3.306917 TCCAAATTACTCGTCGCAGAA 57.693 42.857 0.00 0.00 39.69 3.02
6625 8263 3.655486 TCCAAATTACTCGTCGCAGAAA 58.345 40.909 0.00 0.00 39.69 2.52
6626 8264 4.250464 TCCAAATTACTCGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
6627 8265 4.092821 TCCAAATTACTCGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
6628 8266 4.334443 CAAATTACTCGTCGCAGAAATGG 58.666 43.478 0.00 0.00 39.69 3.16
6629 8267 3.520290 ATTACTCGTCGCAGAAATGGA 57.480 42.857 0.00 0.00 39.69 3.41
6630 8268 3.520290 TTACTCGTCGCAGAAATGGAT 57.480 42.857 0.00 0.00 39.69 3.41
6631 8269 1.645034 ACTCGTCGCAGAAATGGATG 58.355 50.000 0.00 0.00 39.69 3.51
6632 8270 1.066858 ACTCGTCGCAGAAATGGATGT 60.067 47.619 0.00 0.00 39.69 3.06
6633 8271 1.590238 CTCGTCGCAGAAATGGATGTC 59.410 52.381 0.00 0.00 39.69 3.06
6634 8272 1.204704 TCGTCGCAGAAATGGATGTCT 59.795 47.619 0.00 0.00 39.69 3.41
6635 8273 1.590238 CGTCGCAGAAATGGATGTCTC 59.410 52.381 0.00 0.00 39.69 3.36
6636 8274 2.736719 CGTCGCAGAAATGGATGTCTCT 60.737 50.000 0.00 0.00 39.69 3.10
6637 8275 3.489229 CGTCGCAGAAATGGATGTCTCTA 60.489 47.826 0.00 0.00 39.69 2.43
6638 8276 4.047822 GTCGCAGAAATGGATGTCTCTAG 58.952 47.826 0.00 0.00 39.69 2.43
6639 8277 3.954258 TCGCAGAAATGGATGTCTCTAGA 59.046 43.478 0.00 0.00 0.00 2.43
6640 8278 4.402474 TCGCAGAAATGGATGTCTCTAGAA 59.598 41.667 0.00 0.00 0.00 2.10
6641 8279 4.505922 CGCAGAAATGGATGTCTCTAGAAC 59.494 45.833 0.00 0.00 0.00 3.01
6642 8280 5.669477 GCAGAAATGGATGTCTCTAGAACT 58.331 41.667 0.00 0.00 0.00 3.01
6643 8281 6.460261 CGCAGAAATGGATGTCTCTAGAACTA 60.460 42.308 0.00 0.00 0.00 2.24
6644 8282 7.268586 GCAGAAATGGATGTCTCTAGAACTAA 58.731 38.462 0.00 0.00 0.00 2.24
6645 8283 7.766278 GCAGAAATGGATGTCTCTAGAACTAAA 59.234 37.037 0.00 0.00 0.00 1.85
6646 8284 9.658799 CAGAAATGGATGTCTCTAGAACTAAAA 57.341 33.333 0.00 0.00 0.00 1.52
6673 8311 8.341892 ACATCTAGATACATCTATTTCTGCGA 57.658 34.615 4.54 0.00 38.60 5.10
6674 8312 8.240682 ACATCTAGATACATCTATTTCTGCGAC 58.759 37.037 4.54 0.00 38.60 5.19
6675 8313 7.987750 TCTAGATACATCTATTTCTGCGACT 57.012 36.000 0.00 0.00 38.60 4.18
6676 8314 7.811653 TCTAGATACATCTATTTCTGCGACTG 58.188 38.462 0.00 0.00 38.60 3.51
6677 8315 5.226396 AGATACATCTATTTCTGCGACTGC 58.774 41.667 0.00 0.00 37.16 4.40
6678 8316 5.221322 AGATACATCTATTTCTGCGACTGCA 60.221 40.000 0.00 0.00 41.74 4.41
6679 8317 6.683861 AGATACATCTATTTCTGCGACTGCAA 60.684 38.462 0.00 0.00 42.75 4.08
6680 8318 8.631559 AGATACATCTATTTCTGCGACTGCAAC 61.632 40.741 0.00 0.00 42.75 4.17
6829 8467 5.637006 TTCTGGTCCGTTAAATTTCATGG 57.363 39.130 4.47 4.47 0.00 3.66
6830 8468 3.442273 TCTGGTCCGTTAAATTTCATGGC 59.558 43.478 5.83 2.26 0.00 4.40
6838 8476 6.090088 TCCGTTAAATTTCATGGCAAAATTCG 59.910 34.615 9.62 9.10 35.75 3.34
6839 8477 6.090088 CCGTTAAATTTCATGGCAAAATTCGA 59.910 34.615 9.62 0.88 35.75 3.71
6840 8478 7.201513 CCGTTAAATTTCATGGCAAAATTCGAT 60.202 33.333 9.62 0.00 35.75 3.59
6841 8479 8.802856 CGTTAAATTTCATGGCAAAATTCGATA 58.197 29.630 9.62 0.00 35.75 2.92
6842 8480 9.900264 GTTAAATTTCATGGCAAAATTCGATAC 57.100 29.630 9.62 4.07 35.75 2.24
6843 8481 9.645059 TTAAATTTCATGGCAAAATTCGATACA 57.355 25.926 9.62 0.00 35.75 2.29
6844 8482 8.721019 AAATTTCATGGCAAAATTCGATACAT 57.279 26.923 9.62 0.00 35.75 2.29
6845 8483 7.935338 ATTTCATGGCAAAATTCGATACATC 57.065 32.000 0.00 0.00 0.00 3.06
6846 8484 5.437289 TCATGGCAAAATTCGATACATCC 57.563 39.130 0.00 0.00 0.00 3.51
6847 8485 4.886489 TCATGGCAAAATTCGATACATCCA 59.114 37.500 0.00 0.00 0.00 3.41
6848 8486 5.535783 TCATGGCAAAATTCGATACATCCAT 59.464 36.000 0.00 0.00 32.53 3.41
6849 8487 6.714356 TCATGGCAAAATTCGATACATCCATA 59.286 34.615 0.00 0.00 31.30 2.74
6850 8488 6.312399 TGGCAAAATTCGATACATCCATAC 57.688 37.500 0.00 0.00 0.00 2.39
6851 8489 5.240623 TGGCAAAATTCGATACATCCATACC 59.759 40.000 0.00 0.00 0.00 2.73
6852 8490 5.335661 GGCAAAATTCGATACATCCATACCC 60.336 44.000 0.00 0.00 0.00 3.69
6853 8491 5.616866 GCAAAATTCGATACATCCATACCCG 60.617 44.000 0.00 0.00 0.00 5.28
6854 8492 4.884668 AATTCGATACATCCATACCCGT 57.115 40.909 0.00 0.00 0.00 5.28
6855 8493 3.653539 TTCGATACATCCATACCCGTG 57.346 47.619 0.00 0.00 0.00 4.94
6856 8494 2.866351 TCGATACATCCATACCCGTGA 58.134 47.619 0.00 0.00 0.00 4.35
6857 8495 2.555325 TCGATACATCCATACCCGTGAC 59.445 50.000 0.00 0.00 0.00 3.67
6858 8496 2.295070 CGATACATCCATACCCGTGACA 59.705 50.000 0.00 0.00 0.00 3.58
6859 8497 3.243602 CGATACATCCATACCCGTGACAA 60.244 47.826 0.00 0.00 0.00 3.18
6860 8498 2.691409 ACATCCATACCCGTGACAAG 57.309 50.000 0.00 0.00 0.00 3.16
6861 8499 1.906574 ACATCCATACCCGTGACAAGT 59.093 47.619 0.00 0.00 0.00 3.16
6862 8500 3.101437 ACATCCATACCCGTGACAAGTA 58.899 45.455 0.00 0.00 0.00 2.24
6863 8501 3.516300 ACATCCATACCCGTGACAAGTAA 59.484 43.478 0.00 0.00 0.00 2.24
6864 8502 4.163458 ACATCCATACCCGTGACAAGTAAT 59.837 41.667 0.00 0.00 0.00 1.89
6865 8503 4.829872 TCCATACCCGTGACAAGTAATT 57.170 40.909 0.00 0.00 0.00 1.40
6866 8504 5.168647 TCCATACCCGTGACAAGTAATTT 57.831 39.130 0.00 0.00 0.00 1.82
6867 8505 4.938832 TCCATACCCGTGACAAGTAATTTG 59.061 41.667 0.00 0.00 42.68 2.32
6868 8506 4.095782 CCATACCCGTGACAAGTAATTTGG 59.904 45.833 0.00 0.00 41.25 3.28
6869 8507 3.495434 ACCCGTGACAAGTAATTTGGA 57.505 42.857 0.00 0.00 41.25 3.53
6870 8508 3.822940 ACCCGTGACAAGTAATTTGGAA 58.177 40.909 0.00 0.00 41.25 3.53
6871 8509 3.566742 ACCCGTGACAAGTAATTTGGAAC 59.433 43.478 0.00 0.00 41.25 3.62
6872 8510 3.364565 CCCGTGACAAGTAATTTGGAACG 60.365 47.826 8.63 8.63 43.50 3.95
6873 8511 3.495377 CCGTGACAAGTAATTTGGAACGA 59.505 43.478 14.16 0.00 45.13 3.85
6874 8512 4.024725 CCGTGACAAGTAATTTGGAACGAA 60.025 41.667 14.16 0.00 45.13 3.85
6875 8513 5.137403 CGTGACAAGTAATTTGGAACGAAG 58.863 41.667 9.53 0.00 45.13 3.79
6876 8514 5.449304 GTGACAAGTAATTTGGAACGAAGG 58.551 41.667 0.00 0.00 41.25 3.46
6877 8515 4.517453 TGACAAGTAATTTGGAACGAAGGG 59.483 41.667 0.00 0.00 41.25 3.95
6878 8516 4.721132 ACAAGTAATTTGGAACGAAGGGA 58.279 39.130 0.00 0.00 41.25 4.20
6887 8525 2.225091 TGGAACGAAGGGAGTACTACCA 60.225 50.000 26.49 0.00 35.45 3.25
6891 8529 3.830121 ACGAAGGGAGTACTACCATAGG 58.170 50.000 26.49 13.93 35.45 2.57
6908 8546 5.191722 ACCATAGGTCATACTGTTGTGGATT 59.808 40.000 0.00 0.00 0.00 3.01
6989 8663 1.454663 GGATTTGCCTCCCCTCTGC 60.455 63.158 0.00 0.00 0.00 4.26
6990 8664 1.611965 GATTTGCCTCCCCTCTGCT 59.388 57.895 0.00 0.00 0.00 4.24
6991 8665 0.750911 GATTTGCCTCCCCTCTGCTG 60.751 60.000 0.00 0.00 0.00 4.41
6992 8666 2.850828 ATTTGCCTCCCCTCTGCTGC 62.851 60.000 0.00 0.00 0.00 5.25
6994 8668 3.726144 GCCTCCCCTCTGCTGCTT 61.726 66.667 0.00 0.00 0.00 3.91
6995 8669 2.588989 CCTCCCCTCTGCTGCTTC 59.411 66.667 0.00 0.00 0.00 3.86
6996 8670 2.186384 CTCCCCTCTGCTGCTTCG 59.814 66.667 0.00 0.00 0.00 3.79
7023 8697 1.615124 TGGCCGGGAGAGAAATCCA 60.615 57.895 2.18 0.00 41.52 3.41
7027 8701 0.179000 CCGGGAGAGAAATCCAGGTG 59.821 60.000 0.00 0.00 46.34 4.00
7030 8704 1.210722 GGGAGAGAAATCCAGGTGTCC 59.789 57.143 0.00 0.00 41.52 4.02
7036 8710 2.108952 AGAAATCCAGGTGTCCTTGCTT 59.891 45.455 0.00 0.00 0.00 3.91
7037 8711 2.206576 AATCCAGGTGTCCTTGCTTC 57.793 50.000 0.00 0.00 0.00 3.86
7088 8762 1.071471 CTGTTTGGGACTGCTCCGT 59.929 57.895 0.00 0.00 37.46 4.69
7093 8767 0.400213 TTGGGACTGCTCCGTTTCAT 59.600 50.000 0.00 0.00 37.46 2.57
7100 11369 5.332707 GGACTGCTCCGTTTCATAAAAATC 58.667 41.667 0.00 0.00 0.00 2.17
7102 11371 4.693566 ACTGCTCCGTTTCATAAAAATCGA 59.306 37.500 0.00 0.00 0.00 3.59
7110 11379 8.293867 TCCGTTTCATAAAAATCGATTTCACTT 58.706 29.630 22.93 15.88 0.00 3.16
7131 11400 6.306356 CACTTCACTAAATTCATTTTGGAGCG 59.694 38.462 0.00 0.00 30.81 5.03
7139 11408 4.599047 TTCATTTTGGAGCGGTTTCATT 57.401 36.364 0.00 0.00 0.00 2.57
7174 11443 9.676861 GTAGTACTATTAAAGGGAATGTTTGGT 57.323 33.333 5.75 0.00 0.00 3.67
7242 11511 5.399038 GGATCTATTTGATTGGTTGAGGGGA 60.399 44.000 0.00 0.00 35.14 4.81
7249 11518 3.895041 TGATTGGTTGAGGGGAAAGAAAC 59.105 43.478 0.00 0.00 0.00 2.78
7250 11519 1.975660 TGGTTGAGGGGAAAGAAACG 58.024 50.000 0.00 0.00 0.00 3.60
7256 11525 1.350019 GAGGGGAAAGAAACGAAGGGA 59.650 52.381 0.00 0.00 0.00 4.20
7304 11573 2.309136 AATTTCCACCCAACTCCAGG 57.691 50.000 0.00 0.00 0.00 4.45
7407 11678 1.065126 GGCATATCATGGAGCTACCCC 60.065 57.143 0.00 0.00 38.00 4.95
7430 11701 2.435372 TGGCTTGTGTTTTCTGGAGT 57.565 45.000 0.00 0.00 0.00 3.85
7454 11725 5.769662 TGAAGCTGAATTTTAAGGAGCAGAA 59.230 36.000 0.00 0.00 31.80 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 4.260784 GGGCTAGAACGTTGATGCAAATAG 60.261 45.833 5.00 0.00 0.00 1.73
56 57 2.423538 GGGCTAGAACGTTGATGCAAAT 59.576 45.455 5.00 0.00 0.00 2.32
65 66 4.161565 TGAATATGACTGGGCTAGAACGTT 59.838 41.667 4.33 0.00 0.00 3.99
116 118 1.364901 CAACCAAAGTGGCCAGCTG 59.635 57.895 5.11 6.78 42.67 4.24
117 119 0.184933 TACAACCAAAGTGGCCAGCT 59.815 50.000 5.11 3.37 42.67 4.24
122 124 3.947834 AGCTCATATACAACCAAAGTGGC 59.052 43.478 0.00 0.00 42.67 5.01
135 137 6.028131 AGATCCATGGGAGAAAGCTCATATA 58.972 40.000 13.02 0.00 43.14 0.86
152 154 5.663631 AGGGAGTCATCTATGAAGATCCAT 58.336 41.667 16.15 10.08 40.65 3.41
153 155 5.083122 GAGGGAGTCATCTATGAAGATCCA 58.917 45.833 16.15 0.00 40.65 3.41
170 172 0.251634 GGACAAGGAAGCTGAGGGAG 59.748 60.000 0.00 0.00 0.00 4.30
213 215 2.531206 CCTACTTCGAGCCTTTCTTCG 58.469 52.381 0.00 0.00 0.00 3.79
215 217 2.234168 GACCCTACTTCGAGCCTTTCTT 59.766 50.000 0.00 0.00 0.00 2.52
239 241 2.832129 TCTCCCGCATAGAACAAGACTT 59.168 45.455 0.00 0.00 0.00 3.01
251 253 0.763652 ATCAGCTGAATCTCCCGCAT 59.236 50.000 22.50 0.00 0.00 4.73
252 254 0.105593 GATCAGCTGAATCTCCCGCA 59.894 55.000 22.50 0.00 0.00 5.69
267 269 1.990799 CGACAACAAGCGGTAGATCA 58.009 50.000 0.00 0.00 0.00 2.92
279 281 1.136690 GACGTTCAGATGCGACAACA 58.863 50.000 0.00 0.00 0.00 3.33
281 283 0.318360 ACGACGTTCAGATGCGACAA 60.318 50.000 0.00 0.00 0.00 3.18
283 285 1.002250 ACACGACGTTCAGATGCGAC 61.002 55.000 0.00 0.00 0.00 5.19
339 341 4.436998 GACCTCGACCACTGGCGG 62.437 72.222 10.69 0.00 0.00 6.13
340 342 4.778415 CGACCTCGACCACTGGCG 62.778 72.222 0.00 0.20 43.02 5.69
341 343 3.371063 TCGACCTCGACCACTGGC 61.371 66.667 0.00 0.00 44.22 4.85
350 352 1.514443 GAAGAAGGCGTCGACCTCG 60.514 63.158 10.58 0.00 39.93 4.63
395 398 4.459089 GCTTCCTCGGCTTCGGCT 62.459 66.667 0.00 0.00 41.44 5.52
400 403 2.997897 AGACGGCTTCCTCGGCTT 60.998 61.111 0.00 0.00 44.46 4.35
402 405 2.509561 GAAGACGGCTTCCTCGGC 60.510 66.667 20.95 0.00 43.80 5.54
484 488 1.364171 CTAATGGCGGAGAGGACGG 59.636 63.158 0.00 0.00 0.00 4.79
578 582 0.250338 GACGGAGGTGGTGAAGCTTT 60.250 55.000 0.00 0.00 36.52 3.51
583 587 2.741092 GCTGACGGAGGTGGTGAA 59.259 61.111 0.00 0.00 0.00 3.18
592 596 1.186917 TTAGGGTTTCGGCTGACGGA 61.187 55.000 1.72 0.00 44.45 4.69
664 688 1.327690 CCTAAGCTCCGCCAGTGGTA 61.328 60.000 11.74 0.00 0.00 3.25
665 689 2.660064 CCTAAGCTCCGCCAGTGGT 61.660 63.158 11.74 0.00 0.00 4.16
666 690 2.187946 CCTAAGCTCCGCCAGTGG 59.812 66.667 4.20 4.20 0.00 4.00
667 691 2.512515 GCCTAAGCTCCGCCAGTG 60.513 66.667 0.00 0.00 35.50 3.66
668 692 2.527951 CTTGCCTAAGCTCCGCCAGT 62.528 60.000 0.00 0.00 40.80 4.00
669 693 1.817099 CTTGCCTAAGCTCCGCCAG 60.817 63.158 0.00 0.00 40.80 4.85
670 694 2.268920 CTTGCCTAAGCTCCGCCA 59.731 61.111 0.00 0.00 40.80 5.69
671 695 2.514824 CCTTGCCTAAGCTCCGCC 60.515 66.667 0.00 0.00 40.80 6.13
672 696 3.205536 GCCTTGCCTAAGCTCCGC 61.206 66.667 0.00 0.00 40.80 5.54
673 697 2.514824 GGCCTTGCCTAAGCTCCG 60.515 66.667 0.00 0.00 46.69 4.63
712 736 1.605710 TGTGAGAAAAAGCTGCAGAGC 59.394 47.619 20.43 3.23 46.64 4.09
713 737 3.976793 TTGTGAGAAAAAGCTGCAGAG 57.023 42.857 20.43 0.00 0.00 3.35
714 738 6.183360 GCTATATTGTGAGAAAAAGCTGCAGA 60.183 38.462 20.43 0.00 0.00 4.26
715 739 5.970023 GCTATATTGTGAGAAAAAGCTGCAG 59.030 40.000 10.11 10.11 0.00 4.41
716 740 5.649395 AGCTATATTGTGAGAAAAAGCTGCA 59.351 36.000 1.02 0.00 37.65 4.41
717 741 6.129053 AGCTATATTGTGAGAAAAAGCTGC 57.871 37.500 0.00 0.00 37.65 5.25
718 742 7.351223 GCTAGCTATATTGTGAGAAAAAGCTG 58.649 38.462 7.70 0.00 39.29 4.24
719 743 6.484977 GGCTAGCTATATTGTGAGAAAAAGCT 59.515 38.462 15.72 0.00 41.61 3.74
720 744 6.293680 GGGCTAGCTATATTGTGAGAAAAAGC 60.294 42.308 15.72 0.00 0.00 3.51
721 745 6.767902 TGGGCTAGCTATATTGTGAGAAAAAG 59.232 38.462 15.72 0.00 0.00 2.27
722 746 6.658849 TGGGCTAGCTATATTGTGAGAAAAA 58.341 36.000 15.72 0.00 0.00 1.94
723 747 6.247229 TGGGCTAGCTATATTGTGAGAAAA 57.753 37.500 15.72 0.00 0.00 2.29
724 748 5.887214 TGGGCTAGCTATATTGTGAGAAA 57.113 39.130 15.72 0.00 0.00 2.52
725 749 5.280164 CCATGGGCTAGCTATATTGTGAGAA 60.280 44.000 15.72 0.00 0.00 2.87
726 750 4.223700 CCATGGGCTAGCTATATTGTGAGA 59.776 45.833 15.72 0.00 0.00 3.27
727 751 4.511527 CCATGGGCTAGCTATATTGTGAG 58.488 47.826 15.72 0.00 0.00 3.51
728 752 3.264193 CCCATGGGCTAGCTATATTGTGA 59.736 47.826 20.41 0.00 0.00 3.58
729 753 3.009473 ACCCATGGGCTAGCTATATTGTG 59.991 47.826 31.73 0.98 39.32 3.33
730 754 3.260205 ACCCATGGGCTAGCTATATTGT 58.740 45.455 31.73 2.88 39.32 2.71
731 755 4.012374 CAACCCATGGGCTAGCTATATTG 58.988 47.826 31.73 19.23 39.32 1.90
732 756 3.657727 ACAACCCATGGGCTAGCTATATT 59.342 43.478 31.73 11.26 39.32 1.28
733 757 3.260205 ACAACCCATGGGCTAGCTATAT 58.740 45.455 31.73 4.58 39.32 0.86
734 758 2.701551 ACAACCCATGGGCTAGCTATA 58.298 47.619 31.73 1.44 39.32 1.31
735 759 1.522900 ACAACCCATGGGCTAGCTAT 58.477 50.000 31.73 6.30 39.32 2.97
736 760 2.047061 CTACAACCCATGGGCTAGCTA 58.953 52.381 31.73 11.80 39.32 3.32
737 761 0.839946 CTACAACCCATGGGCTAGCT 59.160 55.000 31.73 8.03 39.32 3.32
738 762 0.837272 TCTACAACCCATGGGCTAGC 59.163 55.000 31.73 6.04 39.32 3.42
739 763 3.480470 CATTCTACAACCCATGGGCTAG 58.520 50.000 31.73 23.92 39.32 3.42
740 764 2.422803 GCATTCTACAACCCATGGGCTA 60.423 50.000 31.73 16.05 39.32 3.93
741 765 1.686115 GCATTCTACAACCCATGGGCT 60.686 52.381 31.73 17.32 39.32 5.19
742 766 0.746659 GCATTCTACAACCCATGGGC 59.253 55.000 31.73 8.69 39.32 5.36
743 767 1.341877 TGGCATTCTACAACCCATGGG 60.342 52.381 30.23 30.23 42.03 4.00
744 768 2.026641 CTGGCATTCTACAACCCATGG 58.973 52.381 4.14 4.14 0.00 3.66
745 769 1.406539 GCTGGCATTCTACAACCCATG 59.593 52.381 0.00 0.00 0.00 3.66
746 770 1.285962 AGCTGGCATTCTACAACCCAT 59.714 47.619 0.00 0.00 0.00 4.00
747 771 0.698238 AGCTGGCATTCTACAACCCA 59.302 50.000 0.00 0.00 0.00 4.51
748 772 2.092914 ACTAGCTGGCATTCTACAACCC 60.093 50.000 0.00 0.00 0.00 4.11
749 773 3.268023 ACTAGCTGGCATTCTACAACC 57.732 47.619 0.00 0.00 0.00 3.77
750 774 5.012328 ACTACTAGCTGGCATTCTACAAC 57.988 43.478 0.00 0.00 0.00 3.32
751 775 6.785337 TTACTACTAGCTGGCATTCTACAA 57.215 37.500 0.00 0.00 0.00 2.41
752 776 6.978674 ATTACTACTAGCTGGCATTCTACA 57.021 37.500 0.00 0.00 0.00 2.74
753 777 6.869388 GGAATTACTACTAGCTGGCATTCTAC 59.131 42.308 0.00 0.00 0.00 2.59
754 778 6.782988 AGGAATTACTACTAGCTGGCATTCTA 59.217 38.462 0.00 0.00 0.00 2.10
755 779 5.604650 AGGAATTACTACTAGCTGGCATTCT 59.395 40.000 0.00 0.00 0.00 2.40
756 780 5.859495 AGGAATTACTACTAGCTGGCATTC 58.141 41.667 0.00 0.00 0.00 2.67
757 781 5.896073 AGGAATTACTACTAGCTGGCATT 57.104 39.130 0.00 0.00 0.00 3.56
758 782 5.615289 CAAGGAATTACTACTAGCTGGCAT 58.385 41.667 0.00 0.00 0.00 4.40
759 783 4.683400 GCAAGGAATTACTACTAGCTGGCA 60.683 45.833 0.00 0.00 0.00 4.92
760 784 3.810386 GCAAGGAATTACTACTAGCTGGC 59.190 47.826 0.00 0.00 0.00 4.85
761 785 5.023533 TGCAAGGAATTACTACTAGCTGG 57.976 43.478 0.00 0.00 0.00 4.85
762 786 4.509600 GCTGCAAGGAATTACTACTAGCTG 59.490 45.833 10.95 8.79 0.00 4.24
763 787 4.443598 GGCTGCAAGGAATTACTACTAGCT 60.444 45.833 15.49 0.00 0.00 3.32
764 788 3.810386 GGCTGCAAGGAATTACTACTAGC 59.190 47.826 0.50 10.12 0.00 3.42
765 789 5.053145 CAGGCTGCAAGGAATTACTACTAG 58.947 45.833 0.00 0.00 0.00 2.57
766 790 4.141711 CCAGGCTGCAAGGAATTACTACTA 60.142 45.833 9.56 0.00 0.00 1.82
767 791 3.370953 CCAGGCTGCAAGGAATTACTACT 60.371 47.826 9.56 0.00 0.00 2.57
768 792 2.945668 CCAGGCTGCAAGGAATTACTAC 59.054 50.000 9.56 0.00 0.00 2.73
769 793 2.683742 GCCAGGCTGCAAGGAATTACTA 60.684 50.000 9.56 0.00 0.00 1.82
770 794 1.957113 GCCAGGCTGCAAGGAATTACT 60.957 52.381 9.56 0.00 0.00 2.24
771 795 0.457443 GCCAGGCTGCAAGGAATTAC 59.543 55.000 9.56 0.00 0.00 1.89
772 796 0.684153 GGCCAGGCTGCAAGGAATTA 60.684 55.000 12.43 0.00 0.00 1.40
773 797 1.986210 GGCCAGGCTGCAAGGAATT 60.986 57.895 12.43 0.00 0.00 2.17
774 798 1.574526 TAGGCCAGGCTGCAAGGAAT 61.575 55.000 12.43 3.68 0.00 3.01
775 799 1.574526 ATAGGCCAGGCTGCAAGGAA 61.575 55.000 12.43 0.00 0.00 3.36
776 800 1.574526 AATAGGCCAGGCTGCAAGGA 61.575 55.000 12.43 0.00 0.00 3.36
777 801 1.076485 AATAGGCCAGGCTGCAAGG 60.076 57.895 12.43 3.37 0.00 3.61
778 802 0.394762 TGAATAGGCCAGGCTGCAAG 60.395 55.000 12.43 0.00 0.00 4.01
779 803 0.394762 CTGAATAGGCCAGGCTGCAA 60.395 55.000 12.43 0.00 0.00 4.08
780 804 1.225426 CTGAATAGGCCAGGCTGCA 59.775 57.895 12.43 0.00 0.00 4.41
781 805 2.192187 GCTGAATAGGCCAGGCTGC 61.192 63.158 12.43 4.60 32.51 5.25
782 806 4.154296 GCTGAATAGGCCAGGCTG 57.846 61.111 12.43 7.75 32.51 4.85
790 814 2.111878 CTGGGCGGGCTGAATAGG 59.888 66.667 0.00 0.00 0.00 2.57
791 815 2.592861 GCTGGGCGGGCTGAATAG 60.593 66.667 0.00 0.00 0.00 1.73
792 816 2.210144 AAAGCTGGGCGGGCTGAATA 62.210 55.000 0.00 0.00 40.19 1.75
793 817 3.590466 AAAGCTGGGCGGGCTGAAT 62.590 57.895 0.00 0.00 40.19 2.57
794 818 3.808218 AAAAGCTGGGCGGGCTGAA 62.808 57.895 0.00 0.00 40.19 3.02
795 819 3.808218 AAAAAGCTGGGCGGGCTGA 62.808 57.895 0.00 0.00 40.19 4.26
796 820 3.305516 AAAAAGCTGGGCGGGCTG 61.306 61.111 0.26 0.00 40.19 4.85
822 846 2.363795 TAGGGTCCAGTGGCGGAG 60.364 66.667 3.51 0.00 35.10 4.63
823 847 2.682494 GTAGGGTCCAGTGGCGGA 60.682 66.667 3.51 0.00 0.00 5.54
824 848 2.683933 AGTAGGGTCCAGTGGCGG 60.684 66.667 3.51 0.00 0.00 6.13
825 849 1.827399 AACAGTAGGGTCCAGTGGCG 61.827 60.000 3.51 0.00 0.00 5.69
826 850 0.400594 AAACAGTAGGGTCCAGTGGC 59.599 55.000 3.51 0.00 0.00 5.01
827 851 4.514401 GAATAAACAGTAGGGTCCAGTGG 58.486 47.826 1.40 1.40 0.00 4.00
828 852 4.514401 GGAATAAACAGTAGGGTCCAGTG 58.486 47.826 0.00 0.00 0.00 3.66
829 853 3.197116 CGGAATAAACAGTAGGGTCCAGT 59.803 47.826 0.00 0.00 0.00 4.00
830 854 3.793559 CGGAATAAACAGTAGGGTCCAG 58.206 50.000 0.00 0.00 0.00 3.86
831 855 2.093341 GCGGAATAAACAGTAGGGTCCA 60.093 50.000 0.00 0.00 0.00 4.02
832 856 2.558378 GCGGAATAAACAGTAGGGTCC 58.442 52.381 0.00 0.00 0.00 4.46
833 857 2.199236 CGCGGAATAAACAGTAGGGTC 58.801 52.381 0.00 0.00 0.00 4.46
834 858 1.134610 CCGCGGAATAAACAGTAGGGT 60.135 52.381 24.07 0.00 0.00 4.34
835 859 1.578583 CCGCGGAATAAACAGTAGGG 58.421 55.000 24.07 0.00 0.00 3.53
836 860 1.134610 ACCCGCGGAATAAACAGTAGG 60.135 52.381 30.73 7.25 0.00 3.18
837 861 2.159142 AGACCCGCGGAATAAACAGTAG 60.159 50.000 30.73 7.48 0.00 2.57
838 862 1.826720 AGACCCGCGGAATAAACAGTA 59.173 47.619 30.73 0.00 0.00 2.74
946 973 4.900652 TGGCCGGTACTTTATCTGGTTATA 59.099 41.667 1.90 0.00 33.07 0.98
947 974 3.712733 TGGCCGGTACTTTATCTGGTTAT 59.287 43.478 1.90 0.00 33.07 1.89
1118 1145 3.860930 GACATGGTGGGGGCAACGT 62.861 63.158 0.00 0.00 37.60 3.99
1595 1622 0.947244 GGAAGTGCACACTGTGAAGG 59.053 55.000 21.04 4.75 41.58 3.46
1607 1634 3.149196 TCAGAATTTCAGGTGGAAGTGC 58.851 45.455 0.00 0.00 36.72 4.40
1610 1637 4.015084 AGCATCAGAATTTCAGGTGGAAG 58.985 43.478 4.48 0.00 36.72 3.46
2013 2040 9.725019 CTGCCTAACCAAGATATATGAATTACA 57.275 33.333 0.00 0.00 0.00 2.41
2014 2041 9.944376 TCTGCCTAACCAAGATATATGAATTAC 57.056 33.333 0.00 0.00 0.00 1.89
2069 2098 7.915397 CCTCCAGTATTCCATTCGTAAATTTTG 59.085 37.037 0.00 0.00 0.00 2.44
2102 2131 8.635765 AGTTCTTTATTGCCTCAATTCTTGTA 57.364 30.769 0.00 0.00 35.54 2.41
2141 2189 5.929992 CCACTGATGACTAAAGACGGTAAAA 59.070 40.000 0.00 0.00 0.00 1.52
2142 2190 5.244402 TCCACTGATGACTAAAGACGGTAAA 59.756 40.000 0.00 0.00 0.00 2.01
2143 2191 4.768448 TCCACTGATGACTAAAGACGGTAA 59.232 41.667 0.00 0.00 0.00 2.85
2144 2192 4.338012 TCCACTGATGACTAAAGACGGTA 58.662 43.478 0.00 0.00 0.00 4.02
2145 2193 3.162666 TCCACTGATGACTAAAGACGGT 58.837 45.455 0.00 0.00 0.00 4.83
2146 2194 3.868757 TCCACTGATGACTAAAGACGG 57.131 47.619 0.00 0.00 0.00 4.79
2147 2195 8.100508 TCTATATCCACTGATGACTAAAGACG 57.899 38.462 0.00 0.00 32.18 4.18
2148 2196 9.073475 ACTCTATATCCACTGATGACTAAAGAC 57.927 37.037 0.00 0.00 32.18 3.01
2149 2197 9.647918 AACTCTATATCCACTGATGACTAAAGA 57.352 33.333 0.00 0.00 32.18 2.52
2150 2198 9.689976 CAACTCTATATCCACTGATGACTAAAG 57.310 37.037 0.00 0.00 32.18 1.85
2151 2199 9.201989 ACAACTCTATATCCACTGATGACTAAA 57.798 33.333 0.00 0.00 32.18 1.85
2152 2200 8.768501 ACAACTCTATATCCACTGATGACTAA 57.231 34.615 0.00 0.00 32.18 2.24
2153 2201 9.862149 TTACAACTCTATATCCACTGATGACTA 57.138 33.333 0.00 0.00 32.18 2.59
2154 2202 8.768501 TTACAACTCTATATCCACTGATGACT 57.231 34.615 0.00 0.00 32.18 3.41
2155 2203 9.416794 CATTACAACTCTATATCCACTGATGAC 57.583 37.037 0.00 0.00 32.18 3.06
2156 2204 8.588472 CCATTACAACTCTATATCCACTGATGA 58.412 37.037 0.00 0.00 32.18 2.92
2157 2205 8.370940 ACCATTACAACTCTATATCCACTGATG 58.629 37.037 0.00 0.00 32.18 3.07
2158 2206 8.497910 ACCATTACAACTCTATATCCACTGAT 57.502 34.615 0.00 0.00 34.87 2.90
2159 2207 7.914427 ACCATTACAACTCTATATCCACTGA 57.086 36.000 0.00 0.00 0.00 3.41
2321 2369 6.929049 TCAAGCGGTCTAGATAATAACAATGG 59.071 38.462 0.00 0.00 0.00 3.16
2455 2503 4.268884 CCATGCTTTCTTCTCGCTAACTAC 59.731 45.833 0.00 0.00 0.00 2.73
2590 2638 4.525912 TGACGGAGGGAGTAAAACTTAC 57.474 45.455 0.00 0.00 0.00 2.34
2700 2748 4.045334 ACACTTATTTTGGGATGGAGGGAA 59.955 41.667 0.00 0.00 0.00 3.97
2708 2756 9.273016 CTATATCAACGACACTTATTTTGGGAT 57.727 33.333 0.00 0.00 0.00 3.85
2882 2931 6.348540 CCTTCAAAGTGTTCATAAGTACTGCC 60.349 42.308 0.00 0.00 0.00 4.85
2886 2935 7.603024 AGCTACCTTCAAAGTGTTCATAAGTAC 59.397 37.037 0.00 0.00 0.00 2.73
2926 2975 7.124052 AGGAACAGTATAGCTACCTTGTCTTA 58.876 38.462 0.00 0.00 0.00 2.10
2989 3038 4.959210 AGGAGATGCTCTTAGTGCTCTTAA 59.041 41.667 7.78 0.00 0.00 1.85
3092 3145 2.650322 TCTGTTGGAGTTGGGTGTTTC 58.350 47.619 0.00 0.00 0.00 2.78
3600 3884 3.974535 TGGCAATATGAGTGGCACA 57.025 47.368 21.41 0.00 45.61 4.57
3614 3907 3.697424 GCAACATGGATGGTGGCA 58.303 55.556 6.79 0.00 45.44 4.92
3682 4023 0.762418 AACATGGGTGGTGTCTTCGA 59.238 50.000 0.00 0.00 0.00 3.71
3794 4243 1.212935 GTGGAATAGGAGGTGCCATGT 59.787 52.381 0.00 0.00 40.02 3.21
4024 4564 0.252284 GAGGAGAGGAAGGTGGTGGA 60.252 60.000 0.00 0.00 0.00 4.02
4348 4986 3.481559 TGAGGAGAGGTGGAAGAATCT 57.518 47.619 0.00 0.00 0.00 2.40
4428 5070 4.771114 TCCAAGAAAGAGACAAGAACCA 57.229 40.909 0.00 0.00 0.00 3.67
4544 5188 4.430765 GCCGCCGACGAAGAAGGA 62.431 66.667 0.00 0.00 43.93 3.36
4616 6011 4.038080 CTTTCCCGCCACCGCAAC 62.038 66.667 0.00 0.00 34.03 4.17
4619 6014 4.397832 TACCTTTCCCGCCACCGC 62.398 66.667 0.00 0.00 0.00 5.68
4620 6015 2.125269 CTACCTTTCCCGCCACCG 60.125 66.667 0.00 0.00 0.00 4.94
4621 6016 2.253403 CTCCTACCTTTCCCGCCACC 62.253 65.000 0.00 0.00 0.00 4.61
4622 6017 1.221021 CTCCTACCTTTCCCGCCAC 59.779 63.158 0.00 0.00 0.00 5.01
4623 6018 2.666098 GCTCCTACCTTTCCCGCCA 61.666 63.158 0.00 0.00 0.00 5.69
4789 6184 3.895998 TGCAAATATACATCACCAGCCA 58.104 40.909 0.00 0.00 0.00 4.75
4814 6241 1.418373 TGCATCACGAAGACACGAAG 58.582 50.000 0.00 0.00 37.03 3.79
4815 6242 2.078849 ATGCATCACGAAGACACGAA 57.921 45.000 0.00 0.00 37.03 3.85
4816 6243 2.078849 AATGCATCACGAAGACACGA 57.921 45.000 0.00 0.00 37.03 4.35
4817 6244 2.880822 AAATGCATCACGAAGACACG 57.119 45.000 0.00 0.00 39.31 4.49
4818 6245 5.029650 TGTAAAATGCATCACGAAGACAC 57.970 39.130 0.00 0.00 0.00 3.67
4819 6246 5.643348 AGATGTAAAATGCATCACGAAGACA 59.357 36.000 0.00 0.00 43.66 3.41
4820 6247 5.961843 CAGATGTAAAATGCATCACGAAGAC 59.038 40.000 0.00 0.00 43.66 3.01
4821 6248 5.874261 TCAGATGTAAAATGCATCACGAAGA 59.126 36.000 0.00 0.00 43.66 2.87
4885 6312 1.802337 GCCCAAAAACGTCCCTCCAC 61.802 60.000 0.00 0.00 0.00 4.02
5098 6525 3.921119 TTACTTGTGCATCAAAGGCAG 57.079 42.857 10.39 0.00 42.85 4.85
5206 6633 4.356405 TTTCCTGAAGAATGTGCTCTCA 57.644 40.909 0.00 0.00 33.44 3.27
5307 6734 1.061546 TGTACCTTCTGTTGGTCCCC 58.938 55.000 0.00 0.00 38.88 4.81
5511 6939 4.661993 TGTAATCAACTGATCACAACGC 57.338 40.909 0.00 0.00 30.14 4.84
5599 7027 6.037172 ACGTCAAGGTTTAATATCTGACATGC 59.963 38.462 0.00 0.00 0.00 4.06
5605 7033 6.961359 TGACACGTCAAGGTTTAATATCTG 57.039 37.500 0.00 0.00 36.53 2.90
5641 7071 2.445565 TCTGCAACTACAGCTGTCTG 57.554 50.000 25.56 19.42 45.71 3.51
5674 7104 2.564062 CCAGGTCCTGTTGCAATCAAAT 59.436 45.455 17.85 0.00 33.37 2.32
5861 7291 1.060713 CGCTTACTGACAAGACACGG 58.939 55.000 0.00 0.00 0.00 4.94
5900 7330 3.071457 TGATCACCAGAACTTTCAGCTCA 59.929 43.478 0.00 0.00 0.00 4.26
6015 7453 5.689383 TTTGAAAGCTGATTCCACTACAC 57.311 39.130 0.00 0.00 0.00 2.90
6027 7465 6.573617 ACGAACAAAGAATTTTGAAAGCTG 57.426 33.333 6.98 0.00 45.21 4.24
6052 7490 8.506437 TGATGACAAAATCTTGCTACAAACTAG 58.494 33.333 0.00 0.00 35.84 2.57
6053 7491 8.389779 TGATGACAAAATCTTGCTACAAACTA 57.610 30.769 0.00 0.00 35.84 2.24
6054 7492 7.229306 TCTGATGACAAAATCTTGCTACAAACT 59.771 33.333 0.00 0.00 35.84 2.66
6059 7497 8.288208 CCATATCTGATGACAAAATCTTGCTAC 58.712 37.037 0.00 0.00 35.84 3.58
6163 7601 5.810587 TGTAATTCAGTCTCACCGCTTTATC 59.189 40.000 0.00 0.00 0.00 1.75
6233 7671 4.178545 GCATTAGCACAAGACAAATGGT 57.821 40.909 0.00 0.00 41.58 3.55
6240 7678 3.077359 ACCTTCTGCATTAGCACAAGAC 58.923 45.455 6.98 0.00 45.99 3.01
6250 7688 4.500375 GCTTCTGAAAACACCTTCTGCATT 60.500 41.667 0.00 0.00 0.00 3.56
6275 7713 2.755103 GGTACCTCTTTGCCATTTCCTG 59.245 50.000 4.06 0.00 0.00 3.86
6438 7876 8.689061 TCAGCTGCAATTATGTTCTATCATTTT 58.311 29.630 9.47 0.00 0.00 1.82
6504 7942 2.111384 CATTCTCTTCTTCGAGGGGGA 58.889 52.381 0.00 0.00 0.00 4.81
6558 7996 1.726853 GCGGTGCACTCAGTAAGAAT 58.273 50.000 17.98 0.00 0.00 2.40
6595 8233 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
6596 8234 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
6597 8235 2.928116 GACGAGTAATTTGGAACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
6599 8237 2.598589 CGACGAGTAATTTGGAACGGA 58.401 47.619 0.00 0.00 0.00 4.69
6600 8238 1.060122 GCGACGAGTAATTTGGAACGG 59.940 52.381 0.00 0.00 0.00 4.44
6601 8239 1.722464 TGCGACGAGTAATTTGGAACG 59.278 47.619 0.00 0.00 0.00 3.95
6602 8240 2.991190 TCTGCGACGAGTAATTTGGAAC 59.009 45.455 0.00 0.00 0.00 3.62
6603 8241 3.306917 TCTGCGACGAGTAATTTGGAA 57.693 42.857 0.00 0.00 0.00 3.53
6604 8242 3.306917 TTCTGCGACGAGTAATTTGGA 57.693 42.857 0.00 0.00 0.00 3.53
6605 8243 4.334443 CATTTCTGCGACGAGTAATTTGG 58.666 43.478 0.00 0.00 0.00 3.28
6606 8244 4.092821 TCCATTTCTGCGACGAGTAATTTG 59.907 41.667 0.00 0.00 0.00 2.32
6607 8245 4.250464 TCCATTTCTGCGACGAGTAATTT 58.750 39.130 0.00 0.00 0.00 1.82
6608 8246 3.857052 TCCATTTCTGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
6609 8247 3.520290 TCCATTTCTGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
6610 8248 3.186909 CATCCATTTCTGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
6611 8249 2.165641 ACATCCATTTCTGCGACGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
6612 8250 1.066858 ACATCCATTTCTGCGACGAGT 60.067 47.619 0.00 0.00 0.00 4.18
6613 8251 1.590238 GACATCCATTTCTGCGACGAG 59.410 52.381 0.00 0.00 0.00 4.18
6614 8252 1.204704 AGACATCCATTTCTGCGACGA 59.795 47.619 0.00 0.00 0.00 4.20
6615 8253 1.590238 GAGACATCCATTTCTGCGACG 59.410 52.381 0.00 0.00 0.00 5.12
6616 8254 2.898705 AGAGACATCCATTTCTGCGAC 58.101 47.619 0.00 0.00 0.00 5.19
6617 8255 3.954258 TCTAGAGACATCCATTTCTGCGA 59.046 43.478 0.00 0.00 0.00 5.10
6618 8256 4.313277 TCTAGAGACATCCATTTCTGCG 57.687 45.455 0.00 0.00 0.00 5.18
6619 8257 5.669477 AGTTCTAGAGACATCCATTTCTGC 58.331 41.667 0.00 0.00 0.00 4.26
6620 8258 9.658799 TTTTAGTTCTAGAGACATCCATTTCTG 57.341 33.333 0.00 0.00 0.00 3.02
6647 8285 9.449719 TCGCAGAAATAGATGTATCTAGATGTA 57.550 33.333 15.79 4.44 42.20 2.29
6648 8286 8.240682 GTCGCAGAAATAGATGTATCTAGATGT 58.759 37.037 15.79 1.25 39.84 3.06
6649 8287 8.458052 AGTCGCAGAAATAGATGTATCTAGATG 58.542 37.037 15.79 0.00 39.84 2.90
6650 8288 8.458052 CAGTCGCAGAAATAGATGTATCTAGAT 58.542 37.037 10.73 10.73 39.84 1.98
6651 8289 7.574030 GCAGTCGCAGAAATAGATGTATCTAGA 60.574 40.741 7.57 0.00 39.84 2.43
6652 8290 6.526325 GCAGTCGCAGAAATAGATGTATCTAG 59.474 42.308 7.57 0.00 39.84 2.43
6653 8291 6.016276 TGCAGTCGCAGAAATAGATGTATCTA 60.016 38.462 4.22 4.22 45.36 1.98
6654 8292 5.221322 TGCAGTCGCAGAAATAGATGTATCT 60.221 40.000 0.00 0.00 45.36 1.98
6655 8293 4.984785 TGCAGTCGCAGAAATAGATGTATC 59.015 41.667 0.00 0.00 45.36 2.24
6656 8294 4.948847 TGCAGTCGCAGAAATAGATGTAT 58.051 39.130 0.00 0.00 45.36 2.29
6657 8295 4.385358 TGCAGTCGCAGAAATAGATGTA 57.615 40.909 0.00 0.00 45.36 2.29
6658 8296 3.251479 TGCAGTCGCAGAAATAGATGT 57.749 42.857 0.00 0.00 45.36 3.06
6665 8303 8.975006 CGAATTATTCGTTGCAGTCGCAGAAA 62.975 42.308 17.98 0.00 46.55 2.52
6666 8304 7.616698 CGAATTATTCGTTGCAGTCGCAGAA 62.617 44.000 17.98 2.83 46.55 3.02
6667 8305 6.229901 CGAATTATTCGTTGCAGTCGCAGA 62.230 45.833 17.98 0.00 46.55 4.26
6668 8306 4.075688 CGAATTATTCGTTGCAGTCGCAG 61.076 47.826 17.98 0.00 46.55 5.18
6669 8307 2.222707 CGAATTATTCGTTGCAGTCGCA 60.223 45.455 17.98 0.00 46.59 5.10
6681 8319 4.439968 ACTTCCTCCGTTCCGAATTATTC 58.560 43.478 0.00 0.00 0.00 1.75
6682 8320 4.482952 ACTTCCTCCGTTCCGAATTATT 57.517 40.909 0.00 0.00 0.00 1.40
6683 8321 4.202192 GGTACTTCCTCCGTTCCGAATTAT 60.202 45.833 0.00 0.00 0.00 1.28
6684 8322 3.131046 GGTACTTCCTCCGTTCCGAATTA 59.869 47.826 0.00 0.00 0.00 1.40
6685 8323 2.093816 GGTACTTCCTCCGTTCCGAATT 60.094 50.000 0.00 0.00 0.00 2.17
6686 8324 1.479730 GGTACTTCCTCCGTTCCGAAT 59.520 52.381 0.00 0.00 0.00 3.34
6687 8325 0.890683 GGTACTTCCTCCGTTCCGAA 59.109 55.000 0.00 0.00 0.00 4.30
6688 8326 0.038744 AGGTACTTCCTCCGTTCCGA 59.961 55.000 0.00 0.00 44.42 4.55
6689 8327 2.576298 AGGTACTTCCTCCGTTCCG 58.424 57.895 0.00 0.00 44.42 4.30
6702 8340 2.460757 TGCTTGGTTACGGAAGGTAC 57.539 50.000 0.00 0.00 0.00 3.34
6703 8341 2.633967 TCTTGCTTGGTTACGGAAGGTA 59.366 45.455 0.00 0.00 30.66 3.08
6704 8342 1.418637 TCTTGCTTGGTTACGGAAGGT 59.581 47.619 0.00 0.00 30.66 3.50
6705 8343 2.178912 TCTTGCTTGGTTACGGAAGG 57.821 50.000 0.00 0.00 30.66 3.46
6706 8344 2.875933 TGTTCTTGCTTGGTTACGGAAG 59.124 45.455 0.00 0.00 0.00 3.46
6707 8345 2.920524 TGTTCTTGCTTGGTTACGGAA 58.079 42.857 0.00 0.00 0.00 4.30
6708 8346 2.623878 TGTTCTTGCTTGGTTACGGA 57.376 45.000 0.00 0.00 0.00 4.69
6709 8347 2.616842 ACTTGTTCTTGCTTGGTTACGG 59.383 45.455 0.00 0.00 0.00 4.02
6710 8348 3.963383 ACTTGTTCTTGCTTGGTTACG 57.037 42.857 0.00 0.00 0.00 3.18
6711 8349 5.518847 GGAAAACTTGTTCTTGCTTGGTTAC 59.481 40.000 0.00 0.00 0.00 2.50
6789 8427 5.355350 ACCAGAAAGTCTCTTTTGTTGTCAG 59.645 40.000 0.00 0.00 29.07 3.51
6790 8428 5.253330 ACCAGAAAGTCTCTTTTGTTGTCA 58.747 37.500 0.00 0.00 29.07 3.58
6829 8467 5.616866 CGGGTATGGATGTATCGAATTTTGC 60.617 44.000 0.00 0.00 0.00 3.68
6830 8468 5.468746 ACGGGTATGGATGTATCGAATTTTG 59.531 40.000 0.00 0.00 0.00 2.44
6838 8476 4.202223 ACTTGTCACGGGTATGGATGTATC 60.202 45.833 0.00 0.00 0.00 2.24
6839 8477 3.709653 ACTTGTCACGGGTATGGATGTAT 59.290 43.478 0.00 0.00 0.00 2.29
6840 8478 3.101437 ACTTGTCACGGGTATGGATGTA 58.899 45.455 0.00 0.00 0.00 2.29
6841 8479 1.906574 ACTTGTCACGGGTATGGATGT 59.093 47.619 0.00 0.00 0.00 3.06
6842 8480 2.691409 ACTTGTCACGGGTATGGATG 57.309 50.000 0.00 0.00 0.00 3.51
6843 8481 5.367945 AATTACTTGTCACGGGTATGGAT 57.632 39.130 0.00 0.00 0.00 3.41
6844 8482 4.829872 AATTACTTGTCACGGGTATGGA 57.170 40.909 0.00 0.00 0.00 3.41
6845 8483 4.095782 CCAAATTACTTGTCACGGGTATGG 59.904 45.833 0.00 0.00 32.65 2.74
6846 8484 4.938832 TCCAAATTACTTGTCACGGGTATG 59.061 41.667 0.00 0.00 32.65 2.39
6847 8485 5.168647 TCCAAATTACTTGTCACGGGTAT 57.831 39.130 0.00 0.00 32.65 2.73
6848 8486 4.620589 TCCAAATTACTTGTCACGGGTA 57.379 40.909 0.00 0.00 32.65 3.69
6849 8487 3.495434 TCCAAATTACTTGTCACGGGT 57.505 42.857 0.00 0.00 32.65 5.28
6850 8488 3.364565 CGTTCCAAATTACTTGTCACGGG 60.365 47.826 0.00 0.00 36.00 5.28
6851 8489 3.495377 TCGTTCCAAATTACTTGTCACGG 59.505 43.478 0.00 0.00 38.33 4.94
6852 8490 4.718858 TCGTTCCAAATTACTTGTCACG 57.281 40.909 0.00 0.00 38.78 4.35
6853 8491 5.449304 CCTTCGTTCCAAATTACTTGTCAC 58.551 41.667 0.00 0.00 32.65 3.67
6854 8492 4.517453 CCCTTCGTTCCAAATTACTTGTCA 59.483 41.667 0.00 0.00 32.65 3.58
6855 8493 4.758165 TCCCTTCGTTCCAAATTACTTGTC 59.242 41.667 0.00 0.00 32.65 3.18
6856 8494 4.721132 TCCCTTCGTTCCAAATTACTTGT 58.279 39.130 0.00 0.00 32.65 3.16
6857 8495 4.760204 ACTCCCTTCGTTCCAAATTACTTG 59.240 41.667 0.00 0.00 34.52 3.16
6858 8496 4.981812 ACTCCCTTCGTTCCAAATTACTT 58.018 39.130 0.00 0.00 0.00 2.24
6859 8497 4.635699 ACTCCCTTCGTTCCAAATTACT 57.364 40.909 0.00 0.00 0.00 2.24
6860 8498 5.485620 AGTACTCCCTTCGTTCCAAATTAC 58.514 41.667 0.00 0.00 0.00 1.89
6861 8499 5.750352 AGTACTCCCTTCGTTCCAAATTA 57.250 39.130 0.00 0.00 0.00 1.40
6862 8500 4.635699 AGTACTCCCTTCGTTCCAAATT 57.364 40.909 0.00 0.00 0.00 1.82
6863 8501 4.081254 GGTAGTACTCCCTTCGTTCCAAAT 60.081 45.833 0.00 0.00 0.00 2.32
6864 8502 3.259123 GGTAGTACTCCCTTCGTTCCAAA 59.741 47.826 0.00 0.00 0.00 3.28
6865 8503 2.827921 GGTAGTACTCCCTTCGTTCCAA 59.172 50.000 0.00 0.00 0.00 3.53
6866 8504 2.225091 TGGTAGTACTCCCTTCGTTCCA 60.225 50.000 6.02 0.00 0.00 3.53
6867 8505 2.450476 TGGTAGTACTCCCTTCGTTCC 58.550 52.381 6.02 0.00 0.00 3.62
6868 8506 4.277921 CCTATGGTAGTACTCCCTTCGTTC 59.722 50.000 6.02 0.00 0.00 3.95
6869 8507 4.213513 CCTATGGTAGTACTCCCTTCGTT 58.786 47.826 6.02 0.00 0.00 3.85
6870 8508 3.203934 ACCTATGGTAGTACTCCCTTCGT 59.796 47.826 6.02 0.00 32.11 3.85
6871 8509 3.819902 GACCTATGGTAGTACTCCCTTCG 59.180 52.174 6.02 0.00 35.25 3.79
6872 8510 4.801164 TGACCTATGGTAGTACTCCCTTC 58.199 47.826 6.02 0.00 35.25 3.46
6873 8511 4.894252 TGACCTATGGTAGTACTCCCTT 57.106 45.455 6.02 2.09 35.25 3.95
6874 8512 5.616122 AGTATGACCTATGGTAGTACTCCCT 59.384 44.000 6.02 1.02 35.25 4.20
6875 8513 5.711036 CAGTATGACCTATGGTAGTACTCCC 59.289 48.000 0.00 0.00 39.69 4.30
6876 8514 6.305411 ACAGTATGACCTATGGTAGTACTCC 58.695 44.000 0.00 1.20 39.69 3.85
6877 8515 7.284944 ACAACAGTATGACCTATGGTAGTACTC 59.715 40.741 0.00 0.00 39.69 2.59
6878 8516 7.068348 CACAACAGTATGACCTATGGTAGTACT 59.932 40.741 0.00 0.00 39.69 2.73
6887 8525 6.384015 TCTGAATCCACAACAGTATGACCTAT 59.616 38.462 0.00 0.00 39.69 2.57
6891 8529 6.595772 GATCTGAATCCACAACAGTATGAC 57.404 41.667 0.00 0.00 39.69 3.06
6908 8546 1.272490 ACGAAAGCAACGAGGATCTGA 59.728 47.619 0.00 0.00 34.70 3.27
6920 8558 1.067364 TGACAAGGACGTACGAAAGCA 59.933 47.619 24.41 7.46 0.00 3.91
7005 8679 1.615124 TGGATTTCTCTCCCGGCCA 60.615 57.895 2.24 0.00 34.12 5.36
7010 8684 1.210722 GGACACCTGGATTTCTCTCCC 59.789 57.143 0.00 0.00 34.12 4.30
7015 8689 1.707427 AGCAAGGACACCTGGATTTCT 59.293 47.619 0.00 0.00 32.13 2.52
7023 8697 1.002087 CTAACCGAAGCAAGGACACCT 59.998 52.381 0.00 0.00 33.87 4.00
7027 8701 3.589495 ACTACTAACCGAAGCAAGGAC 57.411 47.619 0.00 0.00 0.00 3.85
7030 8704 5.476614 ACCTAAACTACTAACCGAAGCAAG 58.523 41.667 0.00 0.00 0.00 4.01
7036 8710 9.777297 AAAACAATAACCTAAACTACTAACCGA 57.223 29.630 0.00 0.00 0.00 4.69
7110 11379 4.764823 ACCGCTCCAAAATGAATTTAGTGA 59.235 37.500 0.00 0.00 0.00 3.41
7122 11391 5.300792 ACTTCTAAATGAAACCGCTCCAAAA 59.699 36.000 0.00 0.00 33.79 2.44
7124 11393 4.394729 ACTTCTAAATGAAACCGCTCCAA 58.605 39.130 0.00 0.00 33.79 3.53
7126 11395 4.215613 ACAACTTCTAAATGAAACCGCTCC 59.784 41.667 0.00 0.00 33.79 4.70
7157 11426 3.711704 TGGCAACCAAACATTCCCTTTAA 59.288 39.130 0.00 0.00 0.00 1.52
7158 11427 3.309296 TGGCAACCAAACATTCCCTTTA 58.691 40.909 0.00 0.00 0.00 1.85
7163 11432 3.429410 GCTAGATGGCAACCAAACATTCC 60.429 47.826 0.00 0.00 36.95 3.01
7172 11441 0.817229 GCTGGAGCTAGATGGCAACC 60.817 60.000 0.00 0.00 38.21 3.77
7242 11511 5.437191 AGTGGATATCCCTTCGTTTCTTT 57.563 39.130 19.34 0.00 35.38 2.52
7351 11620 5.342866 ACTAGAATCTGGGGTACAACTCTT 58.657 41.667 0.00 0.00 0.00 2.85
7352 11621 4.949121 ACTAGAATCTGGGGTACAACTCT 58.051 43.478 0.00 0.00 0.00 3.24
7395 11666 1.607612 CCAAACGGGGTAGCTCCAT 59.392 57.895 0.00 0.00 38.11 3.41
7407 11678 2.159310 TCCAGAAAACACAAGCCAAACG 60.159 45.455 0.00 0.00 0.00 3.60
7430 11701 5.316167 TCTGCTCCTTAAAATTCAGCTTCA 58.684 37.500 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.