Multiple sequence alignment - TraesCS3B01G301900

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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 TraesCS3B01G301900 chr3B 100.000 6041 0 0 1 6041 485538413 485532373 0.000000e+00 11156.0
1 TraesCS3B01G301900 chr3B 94.710 794 33 7 5253 6041 647988654 647987865 0.000000e+00 1225.0
2 TraesCS3B01G301900 chr3B 86.102 626 53 19 2836 3448 790969541 790970145 1.420000e-180 643.0
3 TraesCS3B01G301900 chr3B 83.430 344 28 10 3442 3761 790970370 790970708 5.920000e-75 292.0
4 TraesCS3B01G301900 chr3B 84.266 286 26 4 2254 2536 790969080 790969349 1.670000e-65 261.0
5 TraesCS3B01G301900 chr3B 83.043 230 30 7 2963 3192 80091424 80091204 3.690000e-47 200.0
6 TraesCS3B01G301900 chr3B 89.873 79 8 0 3442 3520 80081876 80081798 1.070000e-17 102.0
7 TraesCS3B01G301900 chr5D 93.770 1557 77 9 715 2254 547843948 547845501 0.000000e+00 2320.0
8 TraesCS3B01G301900 chr5D 93.706 1557 78 9 715 2254 354746407 354744854 0.000000e+00 2314.0
9 TraesCS3B01G301900 chr5D 93.540 1486 48 16 3760 5238 354744854 354743410 0.000000e+00 2169.0
10 TraesCS3B01G301900 chr5D 94.922 1339 45 7 3760 5093 547845501 547846821 0.000000e+00 2074.0
11 TraesCS3B01G301900 chr5D 93.046 417 23 4 1 413 243931665 243931251 6.700000e-169 604.0
12 TraesCS3B01G301900 chr5D 87.302 63 5 3 2231 2291 68390870 68390809 1.090000e-07 69.4
13 TraesCS3B01G301900 chr5D 94.737 38 1 1 949 985 354745540 354745577 2.350000e-04 58.4
14 TraesCS3B01G301900 chr7D 93.642 1557 79 9 715 2254 449771211 449769658 0.000000e+00 2309.0
15 TraesCS3B01G301900 chr7D 93.418 1489 52 18 3760 5239 449769658 449768207 0.000000e+00 2165.0
16 TraesCS3B01G301900 chr7D 90.808 1349 101 9 661 1990 41370460 41371804 0.000000e+00 1783.0
17 TraesCS3B01G301900 chr7D 94.301 193 10 1 468 660 41370182 41370373 1.650000e-75 294.0
18 TraesCS3B01G301900 chr7D 94.737 38 1 1 949 985 41371399 41371362 2.350000e-04 58.4
19 TraesCS3B01G301900 chr7D 94.737 38 1 1 949 985 449770344 449770381 2.350000e-04 58.4
20 TraesCS3B01G301900 chr1D 93.646 1558 77 11 715 2254 417749276 417747723 0.000000e+00 2309.0
21 TraesCS3B01G301900 chr1D 93.854 1497 67 14 3760 5241 417747723 417746237 0.000000e+00 2231.0
22 TraesCS3B01G301900 chr1D 85.539 733 74 23 4519 5238 481612131 481612844 0.000000e+00 737.0
23 TraesCS3B01G301900 chr1D 91.647 419 29 4 1 413 458328240 458328658 5.250000e-160 575.0
24 TraesCS3B01G301900 chr1D 94.737 38 1 1 949 985 417748409 417748446 2.350000e-04 58.4
25 TraesCS3B01G301900 chr3D 93.517 1558 79 11 715 2254 14358542 14356989 0.000000e+00 2298.0
26 TraesCS3B01G301900 chr3D 96.474 1191 36 3 3947 5132 14356748 14355559 0.000000e+00 1962.0
27 TraesCS3B01G301900 chr3D 95.023 221 8 2 3760 3977 14356989 14356769 1.610000e-90 344.0
28 TraesCS3B01G301900 chr3D 78.161 609 70 31 2254 2841 578548843 578548277 4.510000e-86 329.0
29 TraesCS3B01G301900 chr3D 87.903 248 8 5 414 660 14358887 14358661 7.720000e-69 272.0
30 TraesCS3B01G301900 chr3D 94.737 38 1 1 949 985 14357675 14357712 2.350000e-04 58.4
31 TraesCS3B01G301900 chr3D 94.595 37 2 0 661 697 14358619 14358583 2.350000e-04 58.4
32 TraesCS3B01G301900 chr4A 92.141 1565 93 13 715 2254 491458786 491457227 0.000000e+00 2182.0
33 TraesCS3B01G301900 chr4A 93.186 1497 65 16 3760 5238 491457227 491455750 0.000000e+00 2165.0
34 TraesCS3B01G301900 chr4A 92.326 417 23 7 1 411 593897189 593897602 8.720000e-163 584.0
35 TraesCS3B01G301900 chr4A 84.615 78 11 1 3521 3598 642396641 642396565 6.490000e-10 76.8
36 TraesCS3B01G301900 chr4A 94.737 38 1 1 949 985 491457913 491457950 2.350000e-04 58.4
37 TraesCS3B01G301900 chr1B 93.316 1496 64 17 3760 5238 497827452 497828928 0.000000e+00 2176.0
38 TraesCS3B01G301900 chr1B 91.213 1616 86 16 661 2254 497825871 497827452 0.000000e+00 2146.0
39 TraesCS3B01G301900 chr1B 90.763 249 11 8 413 660 497825545 497825782 7.550000e-84 322.0
40 TraesCS3B01G301900 chr1B 88.393 112 9 3 3652 3761 131997624 131997733 1.370000e-26 132.0
41 TraesCS3B01G301900 chr2A 93.076 1502 63 13 3760 5238 23467518 23469001 0.000000e+00 2159.0
42 TraesCS3B01G301900 chr2A 91.918 1559 90 15 715 2254 23465977 23467518 0.000000e+00 2148.0
43 TraesCS3B01G301900 chr2A 88.810 983 88 8 661 1624 702408750 702409729 0.000000e+00 1186.0
44 TraesCS3B01G301900 chr2A 80.593 809 73 43 2648 3448 28794881 28794149 1.140000e-151 547.0
45 TraesCS3B01G301900 chr2A 83.430 344 28 10 3442 3761 28793924 28793586 5.920000e-75 292.0
46 TraesCS3B01G301900 chr2A 87.903 248 16 9 414 656 702408421 702408659 4.610000e-71 279.0
47 TraesCS3B01G301900 chr2A 87.302 252 10 11 410 660 23465621 23465851 9.980000e-68 268.0
48 TraesCS3B01G301900 chr2A 84.266 286 26 4 2254 2536 28795185 28794916 1.670000e-65 261.0
49 TraesCS3B01G301900 chr2A 88.298 94 7 3 3692 3784 394798839 394798749 6.400000e-20 110.0
50 TraesCS3B01G301900 chr2A 88.298 94 7 3 3692 3784 406410687 406410777 6.400000e-20 110.0
51 TraesCS3B01G301900 chr5A 93.150 1489 66 9 3760 5243 476064449 476062992 0.000000e+00 2152.0
52 TraesCS3B01G301900 chr5A 93.439 1387 82 5 716 2099 476065898 476064518 0.000000e+00 2049.0
53 TraesCS3B01G301900 chr5A 82.440 1213 170 29 2254 3448 130221694 130222881 0.000000e+00 1020.0
54 TraesCS3B01G301900 chr5A 79.359 281 23 8 3516 3761 130223267 130223547 1.350000e-36 165.0
55 TraesCS3B01G301900 chr5A 95.082 61 3 0 3444 3504 130223166 130223226 4.980000e-16 97.1
56 TraesCS3B01G301900 chr5A 96.491 57 2 0 2198 2254 476064505 476064449 1.790000e-15 95.3
57 TraesCS3B01G301900 chr2D 87.919 1490 141 19 3760 5238 573649379 573650840 0.000000e+00 1718.0
58 TraesCS3B01G301900 chr2D 92.823 418 22 7 1 413 615690019 615689605 3.120000e-167 599.0
59 TraesCS3B01G301900 chr2D 92.344 418 25 5 1 413 19039330 19039745 6.740000e-164 588.0
60 TraesCS3B01G301900 chr2D 92.086 417 26 4 2 413 228454835 228455249 1.130000e-161 580.0
61 TraesCS3B01G301900 chr2D 82.532 395 36 18 4844 5238 6067113 6066752 3.510000e-82 316.0
62 TraesCS3B01G301900 chr2B 94.859 1031 37 5 1240 2254 232837399 232836369 0.000000e+00 1596.0
63 TraesCS3B01G301900 chr2B 94.192 792 40 3 5253 6041 278381036 278381824 0.000000e+00 1203.0
64 TraesCS3B01G301900 chr2B 88.980 490 44 8 728 1213 232837877 232837394 1.120000e-166 597.0
65 TraesCS3B01G301900 chr2B 83.951 486 65 8 2478 2954 310623257 310623738 2.570000e-123 453.0
66 TraesCS3B01G301900 chr2B 91.045 335 10 6 3760 4092 232836369 232836053 9.300000e-118 435.0
67 TraesCS3B01G301900 chr2B 84.556 259 23 9 3516 3761 310685188 310685442 2.180000e-59 241.0
68 TraesCS3B01G301900 chr2B 84.047 257 10 12 414 660 232838245 232838010 1.020000e-52 219.0
69 TraesCS3B01G301900 chr2B 83.951 81 13 0 3695 3775 408422012 408421932 1.810000e-10 78.7
70 TraesCS3B01G301900 chr2B 83.951 81 13 0 3695 3775 408423139 408423059 1.810000e-10 78.7
71 TraesCS3B01G301900 chr2B 86.207 58 5 3 2369 2424 25073709 25073765 6.540000e-05 60.2
72 TraesCS3B01G301900 chr4B 94.571 792 36 5 5254 6041 449886122 449885334 0.000000e+00 1218.0
73 TraesCS3B01G301900 chr4B 94.214 795 39 4 5253 6041 389184813 389184020 0.000000e+00 1206.0
74 TraesCS3B01G301900 chr4B 93.742 799 37 9 5254 6041 109981706 109980910 0.000000e+00 1186.0
75 TraesCS3B01G301900 chr4B 93.821 793 41 6 5253 6041 435686073 435686861 0.000000e+00 1186.0
76 TraesCS3B01G301900 chr4B 86.560 811 93 10 2648 3448 251868902 251869706 0.000000e+00 880.0
77 TraesCS3B01G301900 chr4B 85.732 813 94 15 2648 3448 251533161 251533963 0.000000e+00 839.0
78 TraesCS3B01G301900 chr4B 84.706 680 71 18 4574 5239 349156702 349156042 0.000000e+00 649.0
79 TraesCS3B01G301900 chr4B 84.593 344 25 8 3442 3761 251869923 251870262 3.510000e-82 316.0
80 TraesCS3B01G301900 chr4B 83.430 344 29 7 3442 3761 251534186 251534525 1.650000e-75 294.0
81 TraesCS3B01G301900 chr4B 84.099 283 30 7 2254 2536 251868600 251868867 6.010000e-65 259.0
82 TraesCS3B01G301900 chr4B 88.333 60 3 4 2249 2304 475278847 475278906 1.090000e-07 69.4
83 TraesCS3B01G301900 chr5B 94.451 793 35 5 5254 6041 221594775 221595563 0.000000e+00 1212.0
84 TraesCS3B01G301900 chr5B 76.200 1021 142 52 2352 3330 542828915 542827954 4.300000e-121 446.0
85 TraesCS3B01G301900 chr5B 84.524 84 13 0 3515 3598 542814327 542814244 3.880000e-12 84.2
86 TraesCS3B01G301900 chr5B 94.118 51 3 0 3515 3565 84806874 84806924 1.810000e-10 78.7
87 TraesCS3B01G301900 chrUn 94.214 795 37 6 5254 6041 5595700 5596492 0.000000e+00 1205.0
88 TraesCS3B01G301900 chr6B 94.081 794 38 6 5253 6041 34461127 34460338 0.000000e+00 1197.0
89 TraesCS3B01G301900 chr3A 80.383 1254 164 47 2254 3448 362557160 362555930 0.000000e+00 878.0
90 TraesCS3B01G301900 chr3A 82.677 1016 122 32 2467 3448 48634602 48635597 0.000000e+00 852.0
91 TraesCS3B01G301900 chr3A 86.286 175 10 5 3601 3761 48636101 48636275 1.730000e-40 178.0
92 TraesCS3B01G301900 chr3A 80.142 282 21 8 3516 3762 362555545 362555264 1.730000e-40 178.0
93 TraesCS3B01G301900 chr3A 93.506 77 3 2 3438 3512 48635875 48635951 4.950000e-21 113.0
94 TraesCS3B01G301900 chr3A 90.141 71 5 2 3444 3512 362555645 362555575 2.320000e-14 91.6
95 TraesCS3B01G301900 chr6A 84.133 813 110 11 2648 3448 445206289 445207094 0.000000e+00 769.0
96 TraesCS3B01G301900 chr6A 86.252 611 62 11 666 1257 610214479 610215086 1.420000e-180 643.0
97 TraesCS3B01G301900 chr6A 83.721 344 28 7 3442 3761 445207349 445207688 3.540000e-77 300.0
98 TraesCS3B01G301900 chr6A 78.606 416 49 16 2346 2747 140148091 140147702 7.830000e-59 239.0
99 TraesCS3B01G301900 chr6A 81.625 283 36 8 2254 2536 445205988 445206254 2.830000e-53 220.0
100 TraesCS3B01G301900 chr6A 92.241 116 9 0 3647 3762 140146477 140146362 1.350000e-36 165.0
101 TraesCS3B01G301900 chr6D 93.556 419 21 4 1 413 418511942 418511524 2.390000e-173 619.0
102 TraesCS3B01G301900 chr6D 92.823 418 24 4 1 413 245375022 245375438 8.660000e-168 601.0
103 TraesCS3B01G301900 chr7A 92.048 415 28 4 1 412 547939499 547939911 4.060000e-161 579.0
104 TraesCS3B01G301900 chr7A 78.023 769 101 38 2314 3055 388727569 388726842 7.240000e-114 422.0
105 TraesCS3B01G301900 chr7A 91.235 251 15 6 414 660 707969600 707969847 9.700000e-88 335.0
106 TraesCS3B01G301900 chr7B 78.550 993 120 51 2254 3199 154439220 154440166 8.790000e-158 568.0
107 TraesCS3B01G301900 chr7B 78.261 989 129 45 2254 3199 154463354 154464299 1.900000e-154 556.0
108 TraesCS3B01G301900 chr7B 79.036 892 115 42 2352 3199 138599845 138600708 4.120000e-151 545.0
109 TraesCS3B01G301900 chr7B 85.417 240 31 3 3210 3448 484941362 484941126 4.680000e-61 246.0
110 TraesCS3B01G301900 chr7B 85.167 209 30 1 3233 3440 138600786 138600994 4.740000e-51 213.0
111 TraesCS3B01G301900 chr1A 92.400 250 15 4 414 661 563187446 563187199 2.680000e-93 353.0
112 TraesCS3B01G301900 chr1A 89.558 249 15 6 414 658 97260258 97260499 7.610000e-79 305.0
113 TraesCS3B01G301900 chr1A 88.933 253 17 6 410 658 353278476 353278721 9.840000e-78 302.0
114 TraesCS3B01G301900 chr1A 94.737 38 1 1 949 985 97261527 97261490 2.350000e-04 58.4
115 TraesCS3B01G301900 chr1A 94.737 38 1 1 949 985 353279750 353279713 2.350000e-04 58.4
116 TraesCS3B01G301900 chr1A 94.737 38 1 1 949 985 563186169 563186206 2.350000e-04 58.4


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 TraesCS3B01G301900 chr3B 485532373 485538413 6040 True 11156.000000 11156 100.000000 1 6041 1 chr3B.!!$R3 6040
1 TraesCS3B01G301900 chr3B 647987865 647988654 789 True 1225.000000 1225 94.710000 5253 6041 1 chr3B.!!$R4 788
2 TraesCS3B01G301900 chr3B 790969080 790970708 1628 False 398.666667 643 84.599333 2254 3761 3 chr3B.!!$F1 1507
3 TraesCS3B01G301900 chr5D 354743410 354746407 2997 True 2241.500000 2314 93.623000 715 5238 2 chr5D.!!$R3 4523
4 TraesCS3B01G301900 chr5D 547843948 547846821 2873 False 2197.000000 2320 94.346000 715 5093 2 chr5D.!!$F2 4378
5 TraesCS3B01G301900 chr7D 449768207 449771211 3004 True 2237.000000 2309 93.530000 715 5239 2 chr7D.!!$R2 4524
6 TraesCS3B01G301900 chr7D 41370182 41371804 1622 False 1038.500000 1783 92.554500 468 1990 2 chr7D.!!$F2 1522
7 TraesCS3B01G301900 chr1D 417746237 417749276 3039 True 2270.000000 2309 93.750000 715 5241 2 chr1D.!!$R1 4526
8 TraesCS3B01G301900 chr1D 481612131 481612844 713 False 737.000000 737 85.539000 4519 5238 1 chr1D.!!$F3 719
9 TraesCS3B01G301900 chr3D 14355559 14358887 3328 True 986.880000 2298 93.502400 414 5132 5 chr3D.!!$R2 4718
10 TraesCS3B01G301900 chr3D 578548277 578548843 566 True 329.000000 329 78.161000 2254 2841 1 chr3D.!!$R1 587
11 TraesCS3B01G301900 chr4A 491455750 491458786 3036 True 2173.500000 2182 92.663500 715 5238 2 chr4A.!!$R2 4523
12 TraesCS3B01G301900 chr1B 497825545 497828928 3383 False 1548.000000 2176 91.764000 413 5238 3 chr1B.!!$F2 4825
13 TraesCS3B01G301900 chr2A 23465621 23469001 3380 False 1525.000000 2159 90.765333 410 5238 3 chr2A.!!$F2 4828
14 TraesCS3B01G301900 chr2A 702408421 702409729 1308 False 732.500000 1186 88.356500 414 1624 2 chr2A.!!$F3 1210
15 TraesCS3B01G301900 chr2A 28793586 28795185 1599 True 366.666667 547 82.763000 2254 3761 3 chr2A.!!$R2 1507
16 TraesCS3B01G301900 chr5A 476062992 476065898 2906 True 1432.100000 2152 94.360000 716 5243 3 chr5A.!!$R1 4527
17 TraesCS3B01G301900 chr5A 130221694 130223547 1853 False 427.366667 1020 85.627000 2254 3761 3 chr5A.!!$F1 1507
18 TraesCS3B01G301900 chr2D 573649379 573650840 1461 False 1718.000000 1718 87.919000 3760 5238 1 chr2D.!!$F3 1478
19 TraesCS3B01G301900 chr2B 278381036 278381824 788 False 1203.000000 1203 94.192000 5253 6041 1 chr2B.!!$F2 788
20 TraesCS3B01G301900 chr2B 232836053 232838245 2192 True 711.750000 1596 89.732750 414 4092 4 chr2B.!!$R1 3678
21 TraesCS3B01G301900 chr4B 449885334 449886122 788 True 1218.000000 1218 94.571000 5254 6041 1 chr4B.!!$R4 787
22 TraesCS3B01G301900 chr4B 389184020 389184813 793 True 1206.000000 1206 94.214000 5253 6041 1 chr4B.!!$R3 788
23 TraesCS3B01G301900 chr4B 109980910 109981706 796 True 1186.000000 1186 93.742000 5254 6041 1 chr4B.!!$R1 787
24 TraesCS3B01G301900 chr4B 435686073 435686861 788 False 1186.000000 1186 93.821000 5253 6041 1 chr4B.!!$F1 788
25 TraesCS3B01G301900 chr4B 349156042 349156702 660 True 649.000000 649 84.706000 4574 5239 1 chr4B.!!$R2 665
26 TraesCS3B01G301900 chr4B 251533161 251534525 1364 False 566.500000 839 84.581000 2648 3761 2 chr4B.!!$F3 1113
27 TraesCS3B01G301900 chr4B 251868600 251870262 1662 False 485.000000 880 85.084000 2254 3761 3 chr4B.!!$F4 1507
28 TraesCS3B01G301900 chr5B 221594775 221595563 788 False 1212.000000 1212 94.451000 5254 6041 1 chr5B.!!$F2 787
29 TraesCS3B01G301900 chr5B 542827954 542828915 961 True 446.000000 446 76.200000 2352 3330 1 chr5B.!!$R2 978
30 TraesCS3B01G301900 chrUn 5595700 5596492 792 False 1205.000000 1205 94.214000 5254 6041 1 chrUn.!!$F1 787
31 TraesCS3B01G301900 chr6B 34460338 34461127 789 True 1197.000000 1197 94.081000 5253 6041 1 chr6B.!!$R1 788
32 TraesCS3B01G301900 chr3A 362555264 362557160 1896 True 382.533333 878 83.555333 2254 3762 3 chr3A.!!$R1 1508
33 TraesCS3B01G301900 chr3A 48634602 48636275 1673 False 381.000000 852 87.489667 2467 3761 3 chr3A.!!$F1 1294
34 TraesCS3B01G301900 chr6A 610214479 610215086 607 False 643.000000 643 86.252000 666 1257 1 chr6A.!!$F1 591
35 TraesCS3B01G301900 chr6A 445205988 445207688 1700 False 429.666667 769 83.159667 2254 3761 3 chr6A.!!$F2 1507
36 TraesCS3B01G301900 chr6A 140146362 140148091 1729 True 202.000000 239 85.423500 2346 3762 2 chr6A.!!$R1 1416
37 TraesCS3B01G301900 chr7A 388726842 388727569 727 True 422.000000 422 78.023000 2314 3055 1 chr7A.!!$R1 741
38 TraesCS3B01G301900 chr7B 154439220 154440166 946 False 568.000000 568 78.550000 2254 3199 1 chr7B.!!$F1 945
39 TraesCS3B01G301900 chr7B 154463354 154464299 945 False 556.000000 556 78.261000 2254 3199 1 chr7B.!!$F2 945
40 TraesCS3B01G301900 chr7B 138599845 138600994 1149 False 379.000000 545 82.101500 2352 3440 2 chr7B.!!$F3 1088

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
68 69 0.034059 CGCATCATGGGGAGTCCTAC 59.966 60.0 9.58 3.21 36.20 3.18 F
383 384 0.108138 GACTCCTTGTCATGTCCCCG 60.108 60.0 0.00 0.00 44.73 5.73 F
384 385 0.544357 ACTCCTTGTCATGTCCCCGA 60.544 55.0 0.00 0.00 0.00 5.14 F
1089 1253 0.808125 TGGTACAATCATTGCGTGGC 59.192 50.0 0.00 0.00 31.92 5.01 F
2928 3200 0.671472 GTGCCCTGCAATCAAAAGGC 60.671 55.0 0.00 0.00 41.47 4.35 F
3013 3301 0.893727 GGAAATGGAAGCCGGTGTGT 60.894 55.0 1.90 0.00 0.00 3.72 F
3625 4490 1.648467 CGGGGCAGTAGAGCAAAAGC 61.648 60.0 0.00 0.00 35.83 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1135 1300 0.615331 ATCGCCAACTCATCACCTGT 59.385 50.000 0.00 0.0 0.00 4.00 R
2175 2340 0.251341 CCACCTTCAAGAACCCCAGG 60.251 60.000 0.00 0.0 0.00 4.45 R
2336 2518 2.430610 GGCAAACCAAGTGCACCCA 61.431 57.895 14.63 0.0 44.07 4.51 R
3068 3384 0.250081 GATGAGATGGGGTTCCTCGC 60.250 60.000 0.00 0.0 0.00 5.03 R
4439 5379 2.035961 TCACCAAACTGTCTCTTCCTCG 59.964 50.000 0.00 0.0 0.00 4.63 R
4863 5815 2.550830 TTGAAAAGCTTCTCTCGGCT 57.449 45.000 0.00 0.0 40.85 5.52 R
5247 6267 0.172578 CCAGAACGCCGACAGATGTA 59.827 55.000 0.00 0.0 0.00 2.29 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
21 22 4.803098 CCCGTATATAAAGGAGTGGAGG 57.197 50.000 7.00 0.00 0.00 4.30
22 23 4.413760 CCCGTATATAAAGGAGTGGAGGA 58.586 47.826 7.00 0.00 0.00 3.71
23 24 4.463186 CCCGTATATAAAGGAGTGGAGGAG 59.537 50.000 7.00 0.00 0.00 3.69
24 25 4.463186 CCGTATATAAAGGAGTGGAGGAGG 59.537 50.000 0.37 0.00 0.00 4.30
25 26 4.463186 CGTATATAAAGGAGTGGAGGAGGG 59.537 50.000 0.00 0.00 0.00 4.30
26 27 2.198334 ATAAAGGAGTGGAGGAGGGG 57.802 55.000 0.00 0.00 0.00 4.79
27 28 0.044244 TAAAGGAGTGGAGGAGGGGG 59.956 60.000 0.00 0.00 0.00 5.40
28 29 1.761780 AAAGGAGTGGAGGAGGGGGA 61.762 60.000 0.00 0.00 0.00 4.81
29 30 2.041405 GGAGTGGAGGAGGGGGAG 60.041 72.222 0.00 0.00 0.00 4.30
30 31 2.041405 GAGTGGAGGAGGGGGAGG 60.041 72.222 0.00 0.00 0.00 4.30
31 32 3.700350 AGTGGAGGAGGGGGAGGG 61.700 72.222 0.00 0.00 0.00 4.30
48 49 2.352817 GGCCGTCCCTCTACTATGG 58.647 63.158 0.00 0.00 0.00 2.74
49 50 1.666580 GCCGTCCCTCTACTATGGC 59.333 63.158 0.00 0.00 38.08 4.40
50 51 1.957562 CCGTCCCTCTACTATGGCG 59.042 63.158 0.00 0.00 0.00 5.69
51 52 1.286260 CGTCCCTCTACTATGGCGC 59.714 63.158 0.00 0.00 0.00 6.53
52 53 1.452953 CGTCCCTCTACTATGGCGCA 61.453 60.000 10.83 0.00 0.00 6.09
53 54 0.969894 GTCCCTCTACTATGGCGCAT 59.030 55.000 10.83 3.40 0.00 4.73
54 55 1.067495 GTCCCTCTACTATGGCGCATC 60.067 57.143 10.83 0.00 0.00 3.91
55 56 0.969149 CCCTCTACTATGGCGCATCA 59.031 55.000 10.83 0.00 0.00 3.07
56 57 1.552337 CCCTCTACTATGGCGCATCAT 59.448 52.381 10.83 7.10 0.00 2.45
57 58 2.614779 CCTCTACTATGGCGCATCATG 58.385 52.381 10.83 2.47 0.00 3.07
58 59 2.614779 CTCTACTATGGCGCATCATGG 58.385 52.381 10.83 9.17 0.00 3.66
59 60 1.276138 TCTACTATGGCGCATCATGGG 59.724 52.381 10.83 0.00 31.10 4.00
60 61 0.324614 TACTATGGCGCATCATGGGG 59.675 55.000 10.83 2.59 31.10 4.96
61 62 1.376086 CTATGGCGCATCATGGGGA 59.624 57.895 10.83 0.00 0.00 4.81
62 63 0.675837 CTATGGCGCATCATGGGGAG 60.676 60.000 10.83 0.00 0.00 4.30
63 64 1.418097 TATGGCGCATCATGGGGAGT 61.418 55.000 10.83 0.00 0.00 3.85
64 65 2.592861 GGCGCATCATGGGGAGTC 60.593 66.667 10.83 0.00 0.00 3.36
65 66 2.592861 GCGCATCATGGGGAGTCC 60.593 66.667 0.30 0.00 0.00 3.85
66 67 3.112205 GCGCATCATGGGGAGTCCT 62.112 63.158 9.58 0.00 36.20 3.85
67 68 1.758440 GCGCATCATGGGGAGTCCTA 61.758 60.000 9.58 0.00 36.20 2.94
68 69 0.034059 CGCATCATGGGGAGTCCTAC 59.966 60.000 9.58 3.21 36.20 3.18
69 70 1.428869 GCATCATGGGGAGTCCTACT 58.571 55.000 9.58 0.00 36.20 2.57
70 71 1.346068 GCATCATGGGGAGTCCTACTC 59.654 57.143 9.58 0.00 44.32 2.59
77 78 3.936535 GAGTCCTACTCCCACCGG 58.063 66.667 0.00 0.00 39.28 5.28
78 79 1.757340 GAGTCCTACTCCCACCGGG 60.757 68.421 6.32 0.00 46.11 5.73
89 90 2.134092 CCACCGGGAGTAGGATTCC 58.866 63.158 6.32 0.00 35.59 3.01
109 110 2.563039 CCCCCTTCCAAGTACTAGGA 57.437 55.000 10.51 0.00 0.00 2.94
110 111 2.399580 CCCCCTTCCAAGTACTAGGAG 58.600 57.143 10.51 2.99 34.91 3.69
111 112 2.292984 CCCCCTTCCAAGTACTAGGAGT 60.293 54.545 10.51 0.00 34.91 3.85
112 113 3.052338 CCCCCTTCCAAGTACTAGGAGTA 60.052 52.174 10.51 0.00 34.91 2.59
113 114 4.216708 CCCCTTCCAAGTACTAGGAGTAG 58.783 52.174 10.51 0.00 34.91 2.57
114 115 4.216708 CCCTTCCAAGTACTAGGAGTAGG 58.783 52.174 10.51 6.40 34.91 3.18
115 116 4.079327 CCCTTCCAAGTACTAGGAGTAGGA 60.079 50.000 10.51 1.20 34.99 2.94
116 117 5.134661 CCTTCCAAGTACTAGGAGTAGGAG 58.865 50.000 3.63 0.00 34.99 3.69
117 118 5.104024 CCTTCCAAGTACTAGGAGTAGGAGA 60.104 48.000 3.63 0.00 34.99 3.71
118 119 6.398655 TTCCAAGTACTAGGAGTAGGAGAA 57.601 41.667 0.00 0.00 34.91 2.87
119 120 6.003859 TCCAAGTACTAGGAGTAGGAGAAG 57.996 45.833 0.00 0.00 30.12 2.85
120 121 5.104024 TCCAAGTACTAGGAGTAGGAGAAGG 60.104 48.000 0.00 0.00 30.12 3.46
121 122 5.104024 CCAAGTACTAGGAGTAGGAGAAGGA 60.104 48.000 0.00 0.00 30.12 3.36
122 123 6.424883 CAAGTACTAGGAGTAGGAGAAGGAA 58.575 44.000 0.00 0.00 30.12 3.36
123 124 6.256643 AGTACTAGGAGTAGGAGAAGGAAG 57.743 45.833 0.00 0.00 30.12 3.46
124 125 4.529716 ACTAGGAGTAGGAGAAGGAAGG 57.470 50.000 0.00 0.00 0.00 3.46
125 126 2.858787 AGGAGTAGGAGAAGGAAGGG 57.141 55.000 0.00 0.00 0.00 3.95
126 127 1.292546 AGGAGTAGGAGAAGGAAGGGG 59.707 57.143 0.00 0.00 0.00 4.79
127 128 1.291335 GGAGTAGGAGAAGGAAGGGGA 59.709 57.143 0.00 0.00 0.00 4.81
128 129 2.292984 GGAGTAGGAGAAGGAAGGGGAA 60.293 54.545 0.00 0.00 0.00 3.97
129 130 2.767394 GAGTAGGAGAAGGAAGGGGAAC 59.233 54.545 0.00 0.00 0.00 3.62
130 131 2.113777 AGTAGGAGAAGGAAGGGGAACA 59.886 50.000 0.00 0.00 0.00 3.18
131 132 1.662686 AGGAGAAGGAAGGGGAACAG 58.337 55.000 0.00 0.00 0.00 3.16
132 133 1.152271 AGGAGAAGGAAGGGGAACAGA 59.848 52.381 0.00 0.00 0.00 3.41
133 134 1.557371 GGAGAAGGAAGGGGAACAGAG 59.443 57.143 0.00 0.00 0.00 3.35
134 135 2.541466 GAGAAGGAAGGGGAACAGAGA 58.459 52.381 0.00 0.00 0.00 3.10
135 136 2.907042 GAGAAGGAAGGGGAACAGAGAA 59.093 50.000 0.00 0.00 0.00 2.87
136 137 2.909662 AGAAGGAAGGGGAACAGAGAAG 59.090 50.000 0.00 0.00 0.00 2.85
137 138 2.723530 AGGAAGGGGAACAGAGAAGA 57.276 50.000 0.00 0.00 0.00 2.87
138 139 2.545810 AGGAAGGGGAACAGAGAAGAG 58.454 52.381 0.00 0.00 0.00 2.85
139 140 2.112691 AGGAAGGGGAACAGAGAAGAGA 59.887 50.000 0.00 0.00 0.00 3.10
140 141 2.907042 GGAAGGGGAACAGAGAAGAGAA 59.093 50.000 0.00 0.00 0.00 2.87
141 142 3.055458 GGAAGGGGAACAGAGAAGAGAAG 60.055 52.174 0.00 0.00 0.00 2.85
142 143 2.545810 AGGGGAACAGAGAAGAGAAGG 58.454 52.381 0.00 0.00 0.00 3.46
143 144 2.112691 AGGGGAACAGAGAAGAGAAGGA 59.887 50.000 0.00 0.00 0.00 3.36
144 145 2.907042 GGGGAACAGAGAAGAGAAGGAA 59.093 50.000 0.00 0.00 0.00 3.36
145 146 3.055458 GGGGAACAGAGAAGAGAAGGAAG 60.055 52.174 0.00 0.00 0.00 3.46
146 147 3.055458 GGGAACAGAGAAGAGAAGGAAGG 60.055 52.174 0.00 0.00 0.00 3.46
147 148 3.835395 GGAACAGAGAAGAGAAGGAAGGA 59.165 47.826 0.00 0.00 0.00 3.36
148 149 4.081697 GGAACAGAGAAGAGAAGGAAGGAG 60.082 50.000 0.00 0.00 0.00 3.69
149 150 3.440127 ACAGAGAAGAGAAGGAAGGAGG 58.560 50.000 0.00 0.00 0.00 4.30
150 151 2.765699 CAGAGAAGAGAAGGAAGGAGGG 59.234 54.545 0.00 0.00 0.00 4.30
151 152 2.115427 GAGAAGAGAAGGAAGGAGGGG 58.885 57.143 0.00 0.00 0.00 4.79
152 153 1.208706 GAAGAGAAGGAAGGAGGGGG 58.791 60.000 0.00 0.00 0.00 5.40
153 154 0.916845 AAGAGAAGGAAGGAGGGGGC 60.917 60.000 0.00 0.00 0.00 5.80
154 155 2.689034 AGAAGGAAGGAGGGGGCG 60.689 66.667 0.00 0.00 0.00 6.13
155 156 4.491409 GAAGGAAGGAGGGGGCGC 62.491 72.222 0.00 0.00 0.00 6.53
170 171 3.480133 CGCCACCCCTTCCCCTAG 61.480 72.222 0.00 0.00 0.00 3.02
171 172 2.286197 GCCACCCCTTCCCCTAGT 60.286 66.667 0.00 0.00 0.00 2.57
172 173 2.376165 GCCACCCCTTCCCCTAGTC 61.376 68.421 0.00 0.00 0.00 2.59
173 174 1.693103 CCACCCCTTCCCCTAGTCC 60.693 68.421 0.00 0.00 0.00 3.85
174 175 1.082206 CACCCCTTCCCCTAGTCCA 59.918 63.158 0.00 0.00 0.00 4.02
175 176 0.549169 CACCCCTTCCCCTAGTCCAA 60.549 60.000 0.00 0.00 0.00 3.53
176 177 0.426022 ACCCCTTCCCCTAGTCCAAT 59.574 55.000 0.00 0.00 0.00 3.16
177 178 1.203701 ACCCCTTCCCCTAGTCCAATT 60.204 52.381 0.00 0.00 0.00 2.32
178 179 1.495148 CCCCTTCCCCTAGTCCAATTC 59.505 57.143 0.00 0.00 0.00 2.17
179 180 1.141053 CCCTTCCCCTAGTCCAATTCG 59.859 57.143 0.00 0.00 0.00 3.34
180 181 1.141053 CCTTCCCCTAGTCCAATTCGG 59.859 57.143 0.00 0.00 0.00 4.30
181 182 2.116238 CTTCCCCTAGTCCAATTCGGA 58.884 52.381 0.00 0.00 43.61 4.55
189 190 3.317280 TCCAATTCGGACTAGGCCT 57.683 52.632 14.26 11.78 39.64 5.19
190 191 1.580059 TCCAATTCGGACTAGGCCTT 58.420 50.000 12.58 0.00 39.64 4.35
191 192 1.209504 TCCAATTCGGACTAGGCCTTG 59.790 52.381 12.58 12.86 39.64 3.61
192 193 1.668419 CAATTCGGACTAGGCCTTGG 58.332 55.000 12.58 7.30 0.00 3.61
193 194 0.546598 AATTCGGACTAGGCCTTGGG 59.453 55.000 12.58 4.33 0.00 4.12
194 195 1.345715 ATTCGGACTAGGCCTTGGGG 61.346 60.000 12.58 2.52 0.00 4.96
195 196 3.480133 CGGACTAGGCCTTGGGGG 61.480 72.222 12.58 0.00 38.36 5.40
213 214 2.203181 GCATGGCCTGCCTCTCTC 60.203 66.667 14.21 0.00 45.66 3.20
214 215 2.744243 GCATGGCCTGCCTCTCTCT 61.744 63.158 14.21 0.00 45.66 3.10
215 216 1.446791 CATGGCCTGCCTCTCTCTC 59.553 63.158 9.97 0.00 36.94 3.20
216 217 1.049855 CATGGCCTGCCTCTCTCTCT 61.050 60.000 9.97 0.00 36.94 3.10
217 218 0.760189 ATGGCCTGCCTCTCTCTCTC 60.760 60.000 9.97 0.00 36.94 3.20
218 219 2.133641 GGCCTGCCTCTCTCTCTCC 61.134 68.421 0.00 0.00 0.00 3.71
219 220 2.133641 GCCTGCCTCTCTCTCTCCC 61.134 68.421 0.00 0.00 0.00 4.30
220 221 1.457455 CCTGCCTCTCTCTCTCCCC 60.457 68.421 0.00 0.00 0.00 4.81
221 222 1.620259 CTGCCTCTCTCTCTCCCCT 59.380 63.158 0.00 0.00 0.00 4.79
222 223 0.850100 CTGCCTCTCTCTCTCCCCTA 59.150 60.000 0.00 0.00 0.00 3.53
223 224 1.216678 CTGCCTCTCTCTCTCCCCTAA 59.783 57.143 0.00 0.00 0.00 2.69
224 225 1.646447 TGCCTCTCTCTCTCCCCTAAA 59.354 52.381 0.00 0.00 0.00 1.85
225 226 2.316108 GCCTCTCTCTCTCCCCTAAAG 58.684 57.143 0.00 0.00 0.00 1.85
226 227 2.316108 CCTCTCTCTCTCCCCTAAAGC 58.684 57.143 0.00 0.00 0.00 3.51
227 228 2.316108 CTCTCTCTCTCCCCTAAAGCC 58.684 57.143 0.00 0.00 0.00 4.35
228 229 1.062810 TCTCTCTCTCCCCTAAAGCCC 60.063 57.143 0.00 0.00 0.00 5.19
229 230 0.716591 TCTCTCTCCCCTAAAGCCCA 59.283 55.000 0.00 0.00 0.00 5.36
230 231 1.080498 TCTCTCTCCCCTAAAGCCCAA 59.920 52.381 0.00 0.00 0.00 4.12
231 232 2.131023 CTCTCTCCCCTAAAGCCCAAT 58.869 52.381 0.00 0.00 0.00 3.16
232 233 3.051341 TCTCTCTCCCCTAAAGCCCAATA 60.051 47.826 0.00 0.00 0.00 1.90
233 234 3.716872 CTCTCTCCCCTAAAGCCCAATAA 59.283 47.826 0.00 0.00 0.00 1.40
234 235 3.716872 TCTCTCCCCTAAAGCCCAATAAG 59.283 47.826 0.00 0.00 0.00 1.73
235 236 2.783510 TCTCCCCTAAAGCCCAATAAGG 59.216 50.000 0.00 0.00 37.03 2.69
247 248 4.236527 CCCAATAAGGCCCATATACTCC 57.763 50.000 0.00 0.00 35.39 3.85
248 249 3.053619 CCCAATAAGGCCCATATACTCCC 60.054 52.174 0.00 0.00 35.39 4.30
249 250 3.053619 CCAATAAGGCCCATATACTCCCC 60.054 52.174 0.00 0.00 0.00 4.81
250 251 1.946984 TAAGGCCCATATACTCCCCG 58.053 55.000 0.00 0.00 0.00 5.73
251 252 0.840722 AAGGCCCATATACTCCCCGG 60.841 60.000 0.00 0.00 0.00 5.73
252 253 2.669240 GCCCATATACTCCCCGGC 59.331 66.667 0.00 0.00 0.00 6.13
253 254 2.978824 CCCATATACTCCCCGGCG 59.021 66.667 0.00 0.00 0.00 6.46
254 255 1.608336 CCCATATACTCCCCGGCGA 60.608 63.158 9.30 0.00 0.00 5.54
255 256 1.189524 CCCATATACTCCCCGGCGAA 61.190 60.000 9.30 0.00 0.00 4.70
256 257 0.902531 CCATATACTCCCCGGCGAAT 59.097 55.000 9.30 0.00 0.00 3.34
257 258 1.278127 CCATATACTCCCCGGCGAATT 59.722 52.381 9.30 0.00 0.00 2.17
258 259 2.618053 CATATACTCCCCGGCGAATTC 58.382 52.381 9.30 0.00 0.00 2.17
259 260 0.971386 TATACTCCCCGGCGAATTCC 59.029 55.000 9.30 0.00 0.00 3.01
260 261 1.765597 ATACTCCCCGGCGAATTCCC 61.766 60.000 9.30 1.46 0.00 3.97
261 262 4.910585 CTCCCCGGCGAATTCCCG 62.911 72.222 21.58 21.58 45.17 5.14
263 264 3.852307 CCCCGGCGAATTCCCGTA 61.852 66.667 24.50 0.00 44.13 4.02
264 265 2.187424 CCCGGCGAATTCCCGTAA 59.813 61.111 24.50 0.00 44.13 3.18
265 266 2.175621 CCCGGCGAATTCCCGTAAC 61.176 63.158 24.50 2.73 44.13 2.50
266 267 1.153509 CCGGCGAATTCCCGTAACT 60.154 57.895 24.50 0.00 44.13 2.24
267 268 0.741927 CCGGCGAATTCCCGTAACTT 60.742 55.000 24.50 0.00 44.13 2.66
268 269 1.081094 CGGCGAATTCCCGTAACTTT 58.919 50.000 20.72 0.00 40.84 2.66
269 270 1.061566 CGGCGAATTCCCGTAACTTTC 59.938 52.381 20.72 0.00 40.84 2.62
270 271 2.353323 GGCGAATTCCCGTAACTTTCT 58.647 47.619 0.00 0.00 0.00 2.52
271 272 2.095372 GGCGAATTCCCGTAACTTTCTG 59.905 50.000 0.00 0.00 0.00 3.02
272 273 2.095372 GCGAATTCCCGTAACTTTCTGG 59.905 50.000 0.00 0.00 0.00 3.86
273 274 3.332034 CGAATTCCCGTAACTTTCTGGT 58.668 45.455 0.00 0.00 0.00 4.00
274 275 4.497300 CGAATTCCCGTAACTTTCTGGTA 58.503 43.478 0.00 0.00 0.00 3.25
275 276 4.328169 CGAATTCCCGTAACTTTCTGGTAC 59.672 45.833 0.00 0.00 35.57 3.34
276 277 5.485620 GAATTCCCGTAACTTTCTGGTACT 58.514 41.667 0.00 0.00 36.72 2.73
277 278 4.525912 TTCCCGTAACTTTCTGGTACTC 57.474 45.455 0.00 0.00 36.72 2.59
278 279 2.827921 TCCCGTAACTTTCTGGTACTCC 59.172 50.000 0.00 0.00 36.72 3.85
279 280 2.564062 CCCGTAACTTTCTGGTACTCCA 59.436 50.000 0.00 0.00 42.05 3.86
280 281 3.007182 CCCGTAACTTTCTGGTACTCCAA 59.993 47.826 0.00 0.00 43.81 3.53
281 282 4.323257 CCCGTAACTTTCTGGTACTCCAAT 60.323 45.833 0.00 0.00 43.81 3.16
282 283 5.105228 CCCGTAACTTTCTGGTACTCCAATA 60.105 44.000 0.00 0.00 43.81 1.90
283 284 6.400568 CCGTAACTTTCTGGTACTCCAATAA 58.599 40.000 0.00 0.00 43.81 1.40
284 285 6.875195 CCGTAACTTTCTGGTACTCCAATAAA 59.125 38.462 0.00 0.00 43.81 1.40
285 286 7.551617 CCGTAACTTTCTGGTACTCCAATAAAT 59.448 37.037 0.00 0.00 43.81 1.40
286 287 9.590451 CGTAACTTTCTGGTACTCCAATAAATA 57.410 33.333 0.00 0.00 43.81 1.40
288 289 8.803397 AACTTTCTGGTACTCCAATAAATACC 57.197 34.615 0.00 0.00 43.81 2.73
289 290 7.344134 ACTTTCTGGTACTCCAATAAATACCC 58.656 38.462 0.00 0.00 43.81 3.69
290 291 5.540400 TCTGGTACTCCAATAAATACCCG 57.460 43.478 0.00 0.00 43.81 5.28
291 292 5.210430 TCTGGTACTCCAATAAATACCCGA 58.790 41.667 0.00 0.00 43.81 5.14
292 293 5.662208 TCTGGTACTCCAATAAATACCCGAA 59.338 40.000 0.00 0.00 43.81 4.30
293 294 5.673514 TGGTACTCCAATAAATACCCGAAC 58.326 41.667 0.00 0.00 41.25 3.95
294 295 5.059161 GGTACTCCAATAAATACCCGAACC 58.941 45.833 0.00 0.00 32.44 3.62
295 296 4.847990 ACTCCAATAAATACCCGAACCA 57.152 40.909 0.00 0.00 0.00 3.67
296 297 4.520179 ACTCCAATAAATACCCGAACCAC 58.480 43.478 0.00 0.00 0.00 4.16
297 298 4.226620 ACTCCAATAAATACCCGAACCACT 59.773 41.667 0.00 0.00 0.00 4.00
298 299 4.773013 TCCAATAAATACCCGAACCACTC 58.227 43.478 0.00 0.00 0.00 3.51
299 300 4.225492 TCCAATAAATACCCGAACCACTCA 59.775 41.667 0.00 0.00 0.00 3.41
300 301 4.574828 CCAATAAATACCCGAACCACTCAG 59.425 45.833 0.00 0.00 0.00 3.35
301 302 5.424757 CAATAAATACCCGAACCACTCAGA 58.575 41.667 0.00 0.00 0.00 3.27
302 303 5.687166 ATAAATACCCGAACCACTCAGAA 57.313 39.130 0.00 0.00 0.00 3.02
303 304 3.329929 AATACCCGAACCACTCAGAAC 57.670 47.619 0.00 0.00 0.00 3.01
304 305 0.971386 TACCCGAACCACTCAGAACC 59.029 55.000 0.00 0.00 0.00 3.62
305 306 0.763223 ACCCGAACCACTCAGAACCT 60.763 55.000 0.00 0.00 0.00 3.50
306 307 0.396811 CCCGAACCACTCAGAACCTT 59.603 55.000 0.00 0.00 0.00 3.50
307 308 1.202770 CCCGAACCACTCAGAACCTTT 60.203 52.381 0.00 0.00 0.00 3.11
308 309 2.143925 CCGAACCACTCAGAACCTTTC 58.856 52.381 0.00 0.00 0.00 2.62
309 310 2.143925 CGAACCACTCAGAACCTTTCC 58.856 52.381 0.00 0.00 0.00 3.13
310 311 2.143925 GAACCACTCAGAACCTTTCCG 58.856 52.381 0.00 0.00 0.00 4.30
311 312 1.420430 ACCACTCAGAACCTTTCCGA 58.580 50.000 0.00 0.00 0.00 4.55
312 313 1.978580 ACCACTCAGAACCTTTCCGAT 59.021 47.619 0.00 0.00 0.00 4.18
313 314 2.289694 ACCACTCAGAACCTTTCCGATG 60.290 50.000 0.00 0.00 0.00 3.84
314 315 2.289694 CCACTCAGAACCTTTCCGATGT 60.290 50.000 0.00 0.00 0.00 3.06
315 316 2.996621 CACTCAGAACCTTTCCGATGTC 59.003 50.000 0.00 0.00 0.00 3.06
316 317 2.028020 ACTCAGAACCTTTCCGATGTCC 60.028 50.000 0.00 0.00 0.00 4.02
317 318 1.067142 TCAGAACCTTTCCGATGTCCG 60.067 52.381 0.00 0.00 38.18 4.79
318 319 1.067142 CAGAACCTTTCCGATGTCCGA 60.067 52.381 0.00 0.00 41.76 4.55
319 320 1.621814 AGAACCTTTCCGATGTCCGAA 59.378 47.619 0.00 0.00 41.76 4.30
320 321 2.236395 AGAACCTTTCCGATGTCCGAAT 59.764 45.455 0.00 0.00 41.76 3.34
321 322 3.449737 AGAACCTTTCCGATGTCCGAATA 59.550 43.478 0.00 0.00 41.76 1.75
322 323 4.101119 AGAACCTTTCCGATGTCCGAATAT 59.899 41.667 0.00 0.00 41.76 1.28
323 324 5.303589 AGAACCTTTCCGATGTCCGAATATA 59.696 40.000 0.00 0.00 41.76 0.86
324 325 5.135508 ACCTTTCCGATGTCCGAATATAG 57.864 43.478 0.00 0.00 41.76 1.31
325 326 3.927142 CCTTTCCGATGTCCGAATATAGC 59.073 47.826 0.00 0.00 41.76 2.97
326 327 3.587797 TTCCGATGTCCGAATATAGCC 57.412 47.619 0.00 0.00 41.76 3.93
327 328 2.803956 TCCGATGTCCGAATATAGCCT 58.196 47.619 0.00 0.00 41.76 4.58
328 329 3.162666 TCCGATGTCCGAATATAGCCTT 58.837 45.455 0.00 0.00 41.76 4.35
329 330 3.192844 TCCGATGTCCGAATATAGCCTTC 59.807 47.826 0.00 0.00 41.76 3.46
330 331 3.512680 CGATGTCCGAATATAGCCTTCC 58.487 50.000 0.00 0.00 41.76 3.46
331 332 3.056821 CGATGTCCGAATATAGCCTTCCA 60.057 47.826 0.00 0.00 41.76 3.53
332 333 4.560716 CGATGTCCGAATATAGCCTTCCAA 60.561 45.833 0.00 0.00 41.76 3.53
333 334 4.974645 TGTCCGAATATAGCCTTCCAAT 57.025 40.909 0.00 0.00 0.00 3.16
334 335 6.620877 ATGTCCGAATATAGCCTTCCAATA 57.379 37.500 0.00 0.00 0.00 1.90
335 336 6.620877 TGTCCGAATATAGCCTTCCAATAT 57.379 37.500 0.00 0.00 0.00 1.28
336 337 7.727578 TGTCCGAATATAGCCTTCCAATATA 57.272 36.000 0.00 0.00 0.00 0.86
337 338 8.319057 TGTCCGAATATAGCCTTCCAATATAT 57.681 34.615 0.00 0.00 0.00 0.86
338 339 8.421784 TGTCCGAATATAGCCTTCCAATATATC 58.578 37.037 0.00 0.00 0.00 1.63
339 340 7.595502 GTCCGAATATAGCCTTCCAATATATCG 59.404 40.741 0.00 0.00 0.00 2.92
340 341 7.504574 TCCGAATATAGCCTTCCAATATATCGA 59.495 37.037 0.00 0.00 0.00 3.59
341 342 8.307483 CCGAATATAGCCTTCCAATATATCGAT 58.693 37.037 2.16 2.16 0.00 3.59
342 343 9.347934 CGAATATAGCCTTCCAATATATCGATC 57.652 37.037 0.00 0.00 0.00 3.69
348 349 8.954950 AGCCTTCCAATATATCGATCTTTATG 57.045 34.615 0.00 0.00 0.00 1.90
349 350 8.543774 AGCCTTCCAATATATCGATCTTTATGT 58.456 33.333 0.00 0.00 0.00 2.29
350 351 8.821894 GCCTTCCAATATATCGATCTTTATGTC 58.178 37.037 0.00 0.00 0.00 3.06
362 363 9.778993 ATCGATCTTTATGTCTCAAACATTTTG 57.221 29.630 0.00 0.00 46.73 2.44
363 364 8.998377 TCGATCTTTATGTCTCAAACATTTTGA 58.002 29.630 1.60 1.60 46.73 2.69
364 365 9.270576 CGATCTTTATGTCTCAAACATTTTGAG 57.729 33.333 18.60 18.60 46.73 3.02
372 373 6.624352 TCTCAAACATTTTGAGACTCCTTG 57.376 37.500 21.87 1.86 46.95 3.61
373 374 6.122277 TCTCAAACATTTTGAGACTCCTTGT 58.878 36.000 21.87 0.00 46.95 3.16
374 375 6.260936 TCTCAAACATTTTGAGACTCCTTGTC 59.739 38.462 21.87 0.00 46.95 3.18
375 376 6.038603 CTCAAACATTTTGAGACTCCTTGTCA 59.961 38.462 19.57 0.00 46.57 3.58
376 377 7.255381 CTCAAACATTTTGAGACTCCTTGTCAT 60.255 37.037 19.57 0.00 46.57 3.06
382 383 3.863407 GACTCCTTGTCATGTCCCC 57.137 57.895 0.00 0.00 44.73 4.81
383 384 0.108138 GACTCCTTGTCATGTCCCCG 60.108 60.000 0.00 0.00 44.73 5.73
384 385 0.544357 ACTCCTTGTCATGTCCCCGA 60.544 55.000 0.00 0.00 0.00 5.14
385 386 0.833287 CTCCTTGTCATGTCCCCGAT 59.167 55.000 0.00 0.00 0.00 4.18
386 387 0.830648 TCCTTGTCATGTCCCCGATC 59.169 55.000 0.00 0.00 0.00 3.69
387 388 0.833287 CCTTGTCATGTCCCCGATCT 59.167 55.000 0.00 0.00 0.00 2.75
388 389 1.202580 CCTTGTCATGTCCCCGATCTC 60.203 57.143 0.00 0.00 0.00 2.75
389 390 1.482182 CTTGTCATGTCCCCGATCTCA 59.518 52.381 0.00 0.00 0.00 3.27
390 391 1.793414 TGTCATGTCCCCGATCTCAT 58.207 50.000 0.00 0.00 0.00 2.90
391 392 2.118679 TGTCATGTCCCCGATCTCATT 58.881 47.619 0.00 0.00 0.00 2.57
392 393 2.103094 TGTCATGTCCCCGATCTCATTC 59.897 50.000 0.00 0.00 0.00 2.67
393 394 1.341209 TCATGTCCCCGATCTCATTCG 59.659 52.381 0.00 0.00 38.83 3.34
400 401 3.875838 CGATCTCATTCGGGACTCC 57.124 57.895 0.00 0.00 35.50 3.85
417 418 4.496670 CGAACTACCTTCGCAGGG 57.503 61.111 5.96 0.00 45.11 4.45
418 419 1.810030 CGAACTACCTTCGCAGGGC 60.810 63.158 5.96 0.00 45.11 5.19
419 420 1.449778 GAACTACCTTCGCAGGGCC 60.450 63.158 5.96 0.00 46.01 5.80
493 497 2.359994 CCCACCCAGGTATGTACTAGGT 60.360 54.545 0.00 0.00 34.66 3.08
664 764 1.272769 CTTTCCTTCGTCCTCCTTCGT 59.727 52.381 0.00 0.00 0.00 3.85
726 857 1.226859 CATCGCCGACACACCGTAT 60.227 57.895 0.00 0.00 0.00 3.06
755 886 1.626356 GCCCACTACCATCTGGCTCA 61.626 60.000 0.00 0.00 39.05 4.26
797 928 7.831955 TCTTCTCCTAATCTCCTTCCTAATCT 58.168 38.462 0.00 0.00 0.00 2.40
807 938 6.732487 TCTCCTTCCTAATCTAGTTCACAGA 58.268 40.000 0.00 0.00 0.00 3.41
952 1115 4.440940 CCTTGATGCGTATGTGGTACTGTA 60.441 45.833 0.00 0.00 0.00 2.74
954 1117 3.697542 TGATGCGTATGTGGTACTGTACT 59.302 43.478 16.79 0.73 0.00 2.73
956 1119 4.621068 TGCGTATGTGGTACTGTACTAC 57.379 45.455 22.80 22.80 40.17 2.73
957 1120 4.264253 TGCGTATGTGGTACTGTACTACT 58.736 43.478 27.34 18.11 40.38 2.57
959 1122 5.525012 TGCGTATGTGGTACTGTACTACTAG 59.475 44.000 27.34 18.59 40.38 2.57
960 1123 5.755375 GCGTATGTGGTACTGTACTACTAGA 59.245 44.000 27.34 13.54 40.38 2.43
961 1124 6.292596 GCGTATGTGGTACTGTACTACTAGAC 60.293 46.154 27.34 21.22 40.38 2.59
962 1125 6.983307 CGTATGTGGTACTGTACTACTAGACT 59.017 42.308 27.34 13.83 40.38 3.24
965 1128 6.772605 TGTGGTACTGTACTACTAGACTTGA 58.227 40.000 27.34 8.76 40.38 3.02
967 1130 7.389884 TGTGGTACTGTACTACTAGACTTGAAG 59.610 40.741 27.34 0.00 40.38 3.02
969 1132 8.327271 TGGTACTGTACTACTAGACTTGAAGAT 58.673 37.037 16.79 0.00 0.00 2.40
970 1133 8.829612 GGTACTGTACTACTAGACTTGAAGATC 58.170 40.741 16.79 0.00 0.00 2.75
975 1138 9.955102 TGTACTACTAGACTTGAAGATCTTACA 57.045 33.333 8.25 5.77 0.00 2.41
978 1141 9.298250 ACTACTAGACTTGAAGATCTTACAACA 57.702 33.333 8.25 0.00 0.00 3.33
981 1144 9.832445 ACTAGACTTGAAGATCTTACAACAAAA 57.168 29.630 8.25 0.00 0.00 2.44
985 1148 7.945134 ACTTGAAGATCTTACAACAAAAGCAT 58.055 30.769 8.25 0.00 0.00 3.79
1003 1166 3.760151 AGCATGATTGTGTGTTAGCATGT 59.240 39.130 0.00 0.00 36.43 3.21
1008 1171 3.483808 TTGTGTGTTAGCATGTCTCCA 57.516 42.857 0.00 0.00 0.00 3.86
1049 1213 7.066525 TGCATCGGGTAGTAATAAAAGGAAAAG 59.933 37.037 0.00 0.00 0.00 2.27
1089 1253 0.808125 TGGTACAATCATTGCGTGGC 59.192 50.000 0.00 0.00 31.92 5.01
1135 1300 7.392673 AGAGTACTTCCACTACTTCGATAAACA 59.607 37.037 0.00 0.00 0.00 2.83
1174 1339 4.520874 CGATAGTTGCCATAGAGGAAGAGA 59.479 45.833 0.00 0.00 41.22 3.10
1193 1358 9.750125 GGAAGAGAAACAAACTAATGTGAATTT 57.250 29.630 0.00 0.00 32.81 1.82
1234 1399 5.766150 AGAAAATGTCGAAACCAACATCA 57.234 34.783 0.00 0.00 35.10 3.07
1274 1439 4.058817 GGCTCCGAGAATGTAGGTAATTG 58.941 47.826 0.00 0.00 0.00 2.32
1392 1557 7.375106 AGCAAGAGATGTATTTGTTGAGAAG 57.625 36.000 0.00 0.00 0.00 2.85
1393 1558 6.026513 GCAAGAGATGTATTTGTTGAGAAGC 58.973 40.000 0.00 0.00 0.00 3.86
1395 1560 5.724328 AGAGATGTATTTGTTGAGAAGCGA 58.276 37.500 0.00 0.00 0.00 4.93
1466 1631 5.162000 GGAAGACATTTTTCCTATGCTCG 57.838 43.478 0.00 0.00 40.75 5.03
1597 1762 1.478916 GTAGCAGGAGTCAGAGTTCCC 59.521 57.143 0.00 0.00 33.83 3.97
1607 1772 1.833630 TCAGAGTTCCCTAGCACATGG 59.166 52.381 0.00 0.00 0.00 3.66
1625 1790 5.829391 CACATGGTGGATTAGATCATTGGAA 59.171 40.000 0.00 0.00 0.00 3.53
1714 1879 9.398921 AGTGGGATGAATTAAGGATTAGACTAT 57.601 33.333 0.00 0.00 0.00 2.12
1746 1911 6.267471 AGGAAATTATTGACAAGGACTTGCAA 59.733 34.615 17.57 17.57 44.03 4.08
1904 2069 6.545504 TTTCTTAGCTTGTGTTGAGATGAC 57.454 37.500 0.00 0.00 0.00 3.06
2041 2206 6.927381 TGCTGACATCACATGTTCTATCATAG 59.073 38.462 0.00 0.00 45.03 2.23
2090 2255 6.923670 TCTCTGTTATCCTAGATTGTACCCT 58.076 40.000 0.00 0.00 0.00 4.34
2148 2313 6.031471 AGTTTGTTGTGTTAATTTGTCGGAC 58.969 36.000 0.00 0.00 0.00 4.79
2175 2340 9.856488 GGGAAAATAAAAATTGAGGAGTACTTC 57.144 33.333 0.00 0.00 0.00 3.01
2206 2387 7.315890 GTTCTTGAAGGTGGATGGATTTTTAG 58.684 38.462 0.00 0.00 0.00 1.85
2294 2475 1.269174 TGCTGCGGTACTTGTTACGTA 59.731 47.619 0.00 0.00 0.00 3.57
2298 2479 4.143052 GCTGCGGTACTTGTTACGTATTTT 60.143 41.667 0.00 0.00 0.00 1.82
2442 2629 8.677148 TGGTTGAGAAGATAAATGGTTATAGC 57.323 34.615 0.00 0.00 29.69 2.97
2448 2635 8.207350 AGAAGATAAATGGTTATAGCTAGCCA 57.793 34.615 12.13 14.33 41.78 4.75
2449 2636 8.660435 AGAAGATAAATGGTTATAGCTAGCCAA 58.340 33.333 12.13 0.00 41.03 4.52
2450 2637 8.622948 AAGATAAATGGTTATAGCTAGCCAAC 57.377 34.615 12.13 12.93 41.03 3.77
2451 2638 7.978925 AGATAAATGGTTATAGCTAGCCAACT 58.021 34.615 12.13 9.80 41.03 3.16
2452 2639 8.440771 AGATAAATGGTTATAGCTAGCCAACTT 58.559 33.333 12.13 13.85 41.03 2.66
2453 2640 8.996651 ATAAATGGTTATAGCTAGCCAACTTT 57.003 30.769 12.13 12.27 41.03 2.66
2454 2641 6.699575 AATGGTTATAGCTAGCCAACTTTG 57.300 37.500 12.13 0.00 41.03 2.77
2455 2642 5.174037 TGGTTATAGCTAGCCAACTTTGT 57.826 39.130 12.13 0.00 35.51 2.83
2456 2643 6.302535 TGGTTATAGCTAGCCAACTTTGTA 57.697 37.500 12.13 0.00 35.51 2.41
2457 2644 6.895782 TGGTTATAGCTAGCCAACTTTGTAT 58.104 36.000 12.13 2.62 35.51 2.29
2458 2645 6.990349 TGGTTATAGCTAGCCAACTTTGTATC 59.010 38.462 12.13 0.37 35.51 2.24
2459 2646 6.990349 GGTTATAGCTAGCCAACTTTGTATCA 59.010 38.462 12.13 0.00 0.00 2.15
2460 2647 7.171678 GGTTATAGCTAGCCAACTTTGTATCAG 59.828 40.741 12.13 0.00 0.00 2.90
2461 2648 4.826274 AGCTAGCCAACTTTGTATCAGA 57.174 40.909 12.13 0.00 0.00 3.27
2462 2649 5.165961 AGCTAGCCAACTTTGTATCAGAA 57.834 39.130 12.13 0.00 0.00 3.02
2463 2650 5.560724 AGCTAGCCAACTTTGTATCAGAAA 58.439 37.500 12.13 0.00 0.00 2.52
2464 2651 6.003950 AGCTAGCCAACTTTGTATCAGAAAA 58.996 36.000 12.13 0.00 0.00 2.29
2465 2652 6.490040 AGCTAGCCAACTTTGTATCAGAAAAA 59.510 34.615 12.13 0.00 0.00 1.94
2519 2709 8.057623 AGATGGATAATTTGTTGAGATGACCTT 58.942 33.333 0.00 0.00 0.00 3.50
2520 2710 7.395190 TGGATAATTTGTTGAGATGACCTTG 57.605 36.000 0.00 0.00 0.00 3.61
2525 2715 0.716108 GTTGAGATGACCTTGTCGCG 59.284 55.000 0.00 0.00 34.95 5.87
2631 2832 6.114187 TGGTTCATAACACTCACTTGAGAT 57.886 37.500 13.27 1.93 44.74 2.75
2679 2884 4.649674 AGATTGGACGAAGCTGTAGGATAA 59.350 41.667 0.00 0.00 0.00 1.75
2744 2976 8.057623 AGTCTGGGATTCACAATCTATTGATTT 58.942 33.333 9.60 0.00 40.61 2.17
2812 3058 3.784701 TTTATGTGGAGAGAGAGACGC 57.215 47.619 0.00 0.00 0.00 5.19
2823 3071 5.472137 GGAGAGAGAGACGCTATTAACAGAT 59.528 44.000 0.00 0.00 0.00 2.90
2852 3101 4.753662 AGTCCACCGCCGCCTAGA 62.754 66.667 0.00 0.00 0.00 2.43
2857 3106 2.444140 ACCGCCGCCTAGATCCTT 60.444 61.111 0.00 0.00 0.00 3.36
2861 3125 1.069935 GCCGCCTAGATCCTTGTCC 59.930 63.158 0.00 0.00 0.00 4.02
2873 3144 0.984230 CCTTGTCCTGGCCTCACTTA 59.016 55.000 3.32 0.00 0.00 2.24
2928 3200 0.671472 GTGCCCTGCAATCAAAAGGC 60.671 55.000 0.00 0.00 41.47 4.35
3013 3301 0.893727 GGAAATGGAAGCCGGTGTGT 60.894 55.000 1.90 0.00 0.00 3.72
3058 3374 3.458163 GGGATCCCGTCAGCGTCA 61.458 66.667 17.02 0.00 36.15 4.35
3096 3425 2.446848 CCATCTCATCCACCGCCCT 61.447 63.158 0.00 0.00 0.00 5.19
3098 3427 3.112205 ATCTCATCCACCGCCCTGC 62.112 63.158 0.00 0.00 0.00 4.85
3167 3511 2.665000 CCAGCCACGACATGTCCT 59.335 61.111 20.03 8.32 0.00 3.85
3211 3604 3.376078 CCACCAGCACCACCATGC 61.376 66.667 0.00 0.00 46.50 4.06
3364 3809 8.814235 TCTTCGAGAAAAATAATATGAACCGAC 58.186 33.333 0.00 0.00 0.00 4.79
3481 4280 2.176247 ACCATCAGGATAGGGAACGT 57.824 50.000 0.00 0.00 38.69 3.99
3487 4286 2.232941 TCAGGATAGGGAACGTCACAAC 59.767 50.000 0.00 0.00 0.00 3.32
3504 4303 7.605259 CGTCACAACGTTTGTTTCAATAAAAT 58.395 30.769 0.00 0.00 43.23 1.82
3531 4361 3.442977 AGATGAAGTGGCTTTTGATCTGC 59.557 43.478 0.00 0.00 0.00 4.26
3570 4403 4.283467 TGGAGGAGACGAAGAGAATTGAAA 59.717 41.667 0.00 0.00 0.00 2.69
3572 4405 5.877564 GGAGGAGACGAAGAGAATTGAAAAT 59.122 40.000 0.00 0.00 0.00 1.82
3574 4407 7.549488 GGAGGAGACGAAGAGAATTGAAAATAA 59.451 37.037 0.00 0.00 0.00 1.40
3589 4422 4.020928 TGAAAATAAGACGTACAGCCCAGA 60.021 41.667 0.00 0.00 0.00 3.86
3625 4490 1.648467 CGGGGCAGTAGAGCAAAAGC 61.648 60.000 0.00 0.00 35.83 3.51
3664 4544 7.708752 GGCACGAATAAAATTATTTGGGATCAA 59.291 33.333 16.23 0.00 39.33 2.57
3693 4573 2.028112 GTGGCTGTATGAGAGTGGTTGA 60.028 50.000 0.00 0.00 0.00 3.18
3757 4637 9.668497 GTGGGGATGAACTATTTAGGTATTATC 57.332 37.037 0.00 0.00 0.00 1.75
3808 4688 7.726291 TGGTTCTAACATGAAAGGAAAATACCA 59.274 33.333 0.00 0.00 0.00 3.25
3877 4757 1.672881 GCCATGTGCTTGTCATAGTCC 59.327 52.381 0.00 0.00 36.87 3.85
4029 4969 9.738832 GTTTTGCTTAAACATGTTCCTAGTTTA 57.261 29.630 12.39 0.00 44.49 2.01
4300 5240 4.690748 CGTCAACCATGTGTATTGACTCTT 59.309 41.667 19.00 0.00 46.52 2.85
4439 5379 4.678509 TTCCAATGAAACATCGTGCTAC 57.321 40.909 0.00 0.00 0.00 3.58
4501 5441 4.670896 ATTCTAGAAGCTGAGAAGGCTC 57.329 45.455 11.53 0.00 39.30 4.70
4504 5444 4.093011 TCTAGAAGCTGAGAAGGCTCTTT 58.907 43.478 0.00 0.00 41.84 2.52
4514 5454 6.317789 TGAGAAGGCTCTTTGTGTTAAATG 57.682 37.500 0.00 0.00 41.84 2.32
4804 5756 5.392380 GGGCATGTTAGAGAAGTTGATTGTG 60.392 44.000 0.00 0.00 0.00 3.33
4863 5815 2.261361 CCTGTGACGGTCGCATCA 59.739 61.111 23.17 9.30 36.18 3.07
5005 5958 5.051409 TGACATTGATCCCATCATAAGCA 57.949 39.130 0.00 0.00 39.39 3.91
5189 6209 1.150560 TGGGTCGTATATTAGGGGCCT 59.849 52.381 0.84 0.00 0.00 5.19
5230 6250 1.627297 GCCCCCGAAATCTCAGGACT 61.627 60.000 0.00 0.00 0.00 3.85
5241 6261 2.990479 CAGGACTGGCCCTGTACC 59.010 66.667 0.00 3.57 46.62 3.34
5242 6262 1.613630 CAGGACTGGCCCTGTACCT 60.614 63.158 0.00 5.81 46.62 3.08
5243 6263 1.161113 AGGACTGGCCCTGTACCTT 59.839 57.895 0.00 0.00 37.37 3.50
5244 6264 0.910088 AGGACTGGCCCTGTACCTTC 60.910 60.000 0.00 0.00 37.37 3.46
5245 6265 1.218316 GACTGGCCCTGTACCTTCG 59.782 63.158 0.00 0.00 0.00 3.79
5246 6266 2.240162 GACTGGCCCTGTACCTTCGG 62.240 65.000 0.00 0.00 0.00 4.30
5247 6267 2.203877 TGGCCCTGTACCTTCGGT 60.204 61.111 0.00 0.00 40.16 4.69
5248 6268 0.974010 CTGGCCCTGTACCTTCGGTA 60.974 60.000 0.00 0.00 37.09 4.02
5323 6343 3.636231 CGTGGCTCAAGTGGGGGA 61.636 66.667 0.00 0.00 0.00 4.81
5365 6385 0.322975 GCTCAAGCTCAAGACCCTCA 59.677 55.000 0.00 0.00 38.21 3.86
5698 6719 0.886490 CGTCAGAACCTTTGGCAGCT 60.886 55.000 0.00 0.00 0.00 4.24
5852 6884 4.335735 AGAGGGATCTAGATCATCTGGG 57.664 50.000 29.33 0.00 39.54 4.45
5922 6956 1.761449 TTGCACCAGCTCAAGAACAA 58.239 45.000 0.00 0.00 42.74 2.83
5970 7005 5.402630 TGTACTATTCATCATCAGCCCCTA 58.597 41.667 0.00 0.00 0.00 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.463186 CCTCCTCCACTCCTTTATATACGG 59.537 50.000 0.00 0.00 0.00 4.02
2 3 4.463186 CCCTCCTCCACTCCTTTATATACG 59.537 50.000 0.00 0.00 0.00 3.06
4 5 4.202901 CCCCCTCCTCCACTCCTTTATATA 60.203 50.000 0.00 0.00 0.00 0.86
6 7 2.090153 CCCCCTCCTCCACTCCTTTATA 60.090 54.545 0.00 0.00 0.00 0.98
7 8 1.345526 CCCCCTCCTCCACTCCTTTAT 60.346 57.143 0.00 0.00 0.00 1.40
8 9 0.044244 CCCCCTCCTCCACTCCTTTA 59.956 60.000 0.00 0.00 0.00 1.85
9 10 1.229984 CCCCCTCCTCCACTCCTTT 60.230 63.158 0.00 0.00 0.00 3.11
10 11 2.184631 TCCCCCTCCTCCACTCCTT 61.185 63.158 0.00 0.00 0.00 3.36
11 12 2.540910 TCCCCCTCCTCCACTCCT 60.541 66.667 0.00 0.00 0.00 3.69
12 13 2.041405 CTCCCCCTCCTCCACTCC 60.041 72.222 0.00 0.00 0.00 3.85
13 14 2.041405 CCTCCCCCTCCTCCACTC 60.041 72.222 0.00 0.00 0.00 3.51
14 15 3.700350 CCCTCCCCCTCCTCCACT 61.700 72.222 0.00 0.00 0.00 4.00
30 31 1.817911 GCCATAGTAGAGGGACGGCC 61.818 65.000 0.00 0.00 31.76 6.13
31 32 1.666580 GCCATAGTAGAGGGACGGC 59.333 63.158 0.00 0.00 0.00 5.68
32 33 1.957562 CGCCATAGTAGAGGGACGG 59.042 63.158 0.00 0.00 0.00 4.79
33 34 1.286260 GCGCCATAGTAGAGGGACG 59.714 63.158 0.00 0.00 33.51 4.79
34 35 0.969894 ATGCGCCATAGTAGAGGGAC 59.030 55.000 4.18 0.00 0.00 4.46
35 36 1.257743 GATGCGCCATAGTAGAGGGA 58.742 55.000 4.18 0.00 0.00 4.20
36 37 0.969149 TGATGCGCCATAGTAGAGGG 59.031 55.000 4.18 0.00 0.00 4.30
37 38 2.614779 CATGATGCGCCATAGTAGAGG 58.385 52.381 4.18 0.00 0.00 3.69
38 39 2.614779 CCATGATGCGCCATAGTAGAG 58.385 52.381 4.18 0.00 0.00 2.43
39 40 1.276138 CCCATGATGCGCCATAGTAGA 59.724 52.381 4.18 0.00 0.00 2.59
40 41 1.676916 CCCCATGATGCGCCATAGTAG 60.677 57.143 4.18 0.00 0.00 2.57
41 42 0.324614 CCCCATGATGCGCCATAGTA 59.675 55.000 4.18 0.00 0.00 1.82
42 43 1.073722 CCCCATGATGCGCCATAGT 59.926 57.895 4.18 0.00 0.00 2.12
43 44 0.675837 CTCCCCATGATGCGCCATAG 60.676 60.000 4.18 0.00 0.00 2.23
44 45 1.376086 CTCCCCATGATGCGCCATA 59.624 57.895 4.18 0.00 0.00 2.74
45 46 2.114625 CTCCCCATGATGCGCCAT 59.885 61.111 4.18 0.00 0.00 4.40
46 47 3.405093 GACTCCCCATGATGCGCCA 62.405 63.158 4.18 0.00 0.00 5.69
47 48 2.592861 GACTCCCCATGATGCGCC 60.593 66.667 4.18 0.00 0.00 6.53
48 49 1.758440 TAGGACTCCCCATGATGCGC 61.758 60.000 0.00 0.00 37.41 6.09
49 50 0.034059 GTAGGACTCCCCATGATGCG 59.966 60.000 0.00 0.00 37.41 4.73
50 51 1.346068 GAGTAGGACTCCCCATGATGC 59.654 57.143 0.00 0.00 39.28 3.91
60 61 3.936535 CCGGTGGGAGTAGGACTC 58.063 66.667 0.00 0.00 44.32 3.36
70 71 1.408453 GGAATCCTACTCCCGGTGGG 61.408 65.000 0.00 0.00 46.39 4.61
71 72 1.408453 GGGAATCCTACTCCCGGTGG 61.408 65.000 0.00 0.00 43.27 4.61
72 73 2.134092 GGGAATCCTACTCCCGGTG 58.866 63.158 0.00 0.00 43.27 4.94
73 74 4.722389 GGGAATCCTACTCCCGGT 57.278 61.111 0.00 0.00 43.27 5.28
90 91 2.292984 ACTCCTAGTACTTGGAAGGGGG 60.293 54.545 23.60 15.25 33.59 5.40
91 92 3.117552 ACTCCTAGTACTTGGAAGGGG 57.882 52.381 23.60 16.01 34.27 4.79
92 93 4.079327 TCCTACTCCTAGTACTTGGAAGGG 60.079 50.000 28.98 25.13 34.97 3.95
93 94 5.104024 TCTCCTACTCCTAGTACTTGGAAGG 60.104 48.000 26.23 26.23 35.31 3.46
94 95 6.003859 TCTCCTACTCCTAGTACTTGGAAG 57.996 45.833 23.60 18.79 34.27 3.46
95 96 6.398655 TTCTCCTACTCCTAGTACTTGGAA 57.601 41.667 23.60 11.51 34.27 3.53
96 97 5.104024 CCTTCTCCTACTCCTAGTACTTGGA 60.104 48.000 22.39 22.39 33.61 3.53
97 98 5.104024 TCCTTCTCCTACTCCTAGTACTTGG 60.104 48.000 16.36 16.36 0.00 3.61
98 99 6.003859 TCCTTCTCCTACTCCTAGTACTTG 57.996 45.833 0.00 0.00 0.00 3.16
99 100 6.354126 CCTTCCTTCTCCTACTCCTAGTACTT 60.354 46.154 0.00 0.00 0.00 2.24
100 101 5.133153 CCTTCCTTCTCCTACTCCTAGTACT 59.867 48.000 0.00 0.00 0.00 2.73
101 102 5.379187 CCTTCCTTCTCCTACTCCTAGTAC 58.621 50.000 0.00 0.00 0.00 2.73
102 103 4.416179 CCCTTCCTTCTCCTACTCCTAGTA 59.584 50.000 0.00 0.00 0.00 1.82
103 104 3.205733 CCCTTCCTTCTCCTACTCCTAGT 59.794 52.174 0.00 0.00 0.00 2.57
104 105 3.437344 CCCCTTCCTTCTCCTACTCCTAG 60.437 56.522 0.00 0.00 0.00 3.02
105 106 2.518834 CCCCTTCCTTCTCCTACTCCTA 59.481 54.545 0.00 0.00 0.00 2.94
106 107 1.292546 CCCCTTCCTTCTCCTACTCCT 59.707 57.143 0.00 0.00 0.00 3.69
107 108 1.291335 TCCCCTTCCTTCTCCTACTCC 59.709 57.143 0.00 0.00 0.00 3.85
108 109 2.767394 GTTCCCCTTCCTTCTCCTACTC 59.233 54.545 0.00 0.00 0.00 2.59
109 110 2.113777 TGTTCCCCTTCCTTCTCCTACT 59.886 50.000 0.00 0.00 0.00 2.57
110 111 2.502130 CTGTTCCCCTTCCTTCTCCTAC 59.498 54.545 0.00 0.00 0.00 3.18
111 112 2.385765 TCTGTTCCCCTTCCTTCTCCTA 59.614 50.000 0.00 0.00 0.00 2.94
112 113 1.152271 TCTGTTCCCCTTCCTTCTCCT 59.848 52.381 0.00 0.00 0.00 3.69
113 114 1.557371 CTCTGTTCCCCTTCCTTCTCC 59.443 57.143 0.00 0.00 0.00 3.71
114 115 2.541466 TCTCTGTTCCCCTTCCTTCTC 58.459 52.381 0.00 0.00 0.00 2.87
115 116 2.723530 TCTCTGTTCCCCTTCCTTCT 57.276 50.000 0.00 0.00 0.00 2.85
116 117 2.907042 TCTTCTCTGTTCCCCTTCCTTC 59.093 50.000 0.00 0.00 0.00 3.46
117 118 2.909662 CTCTTCTCTGTTCCCCTTCCTT 59.090 50.000 0.00 0.00 0.00 3.36
118 119 2.112691 TCTCTTCTCTGTTCCCCTTCCT 59.887 50.000 0.00 0.00 0.00 3.36
119 120 2.541466 TCTCTTCTCTGTTCCCCTTCC 58.459 52.381 0.00 0.00 0.00 3.46
120 121 3.055458 CCTTCTCTTCTCTGTTCCCCTTC 60.055 52.174 0.00 0.00 0.00 3.46
121 122 2.909662 CCTTCTCTTCTCTGTTCCCCTT 59.090 50.000 0.00 0.00 0.00 3.95
122 123 2.112691 TCCTTCTCTTCTCTGTTCCCCT 59.887 50.000 0.00 0.00 0.00 4.79
123 124 2.541466 TCCTTCTCTTCTCTGTTCCCC 58.459 52.381 0.00 0.00 0.00 4.81
124 125 3.055458 CCTTCCTTCTCTTCTCTGTTCCC 60.055 52.174 0.00 0.00 0.00 3.97
125 126 3.835395 TCCTTCCTTCTCTTCTCTGTTCC 59.165 47.826 0.00 0.00 0.00 3.62
126 127 4.081697 CCTCCTTCCTTCTCTTCTCTGTTC 60.082 50.000 0.00 0.00 0.00 3.18
127 128 3.837731 CCTCCTTCCTTCTCTTCTCTGTT 59.162 47.826 0.00 0.00 0.00 3.16
128 129 3.440127 CCTCCTTCCTTCTCTTCTCTGT 58.560 50.000 0.00 0.00 0.00 3.41
129 130 2.765699 CCCTCCTTCCTTCTCTTCTCTG 59.234 54.545 0.00 0.00 0.00 3.35
130 131 2.292851 CCCCTCCTTCCTTCTCTTCTCT 60.293 54.545 0.00 0.00 0.00 3.10
131 132 2.115427 CCCCTCCTTCCTTCTCTTCTC 58.885 57.143 0.00 0.00 0.00 2.87
132 133 1.274126 CCCCCTCCTTCCTTCTCTTCT 60.274 57.143 0.00 0.00 0.00 2.85
133 134 1.208706 CCCCCTCCTTCCTTCTCTTC 58.791 60.000 0.00 0.00 0.00 2.87
134 135 0.916845 GCCCCCTCCTTCCTTCTCTT 60.917 60.000 0.00 0.00 0.00 2.85
135 136 1.307430 GCCCCCTCCTTCCTTCTCT 60.307 63.158 0.00 0.00 0.00 3.10
136 137 2.736826 CGCCCCCTCCTTCCTTCTC 61.737 68.421 0.00 0.00 0.00 2.87
137 138 2.689034 CGCCCCCTCCTTCCTTCT 60.689 66.667 0.00 0.00 0.00 2.85
138 139 4.491409 GCGCCCCCTCCTTCCTTC 62.491 72.222 0.00 0.00 0.00 3.46
153 154 3.480133 CTAGGGGAAGGGGTGGCG 61.480 72.222 0.00 0.00 0.00 5.69
154 155 2.286197 ACTAGGGGAAGGGGTGGC 60.286 66.667 0.00 0.00 0.00 5.01
155 156 1.693103 GGACTAGGGGAAGGGGTGG 60.693 68.421 0.00 0.00 0.00 4.61
156 157 0.549169 TTGGACTAGGGGAAGGGGTG 60.549 60.000 0.00 0.00 0.00 4.61
157 158 0.426022 ATTGGACTAGGGGAAGGGGT 59.574 55.000 0.00 0.00 0.00 4.95
158 159 1.495148 GAATTGGACTAGGGGAAGGGG 59.505 57.143 0.00 0.00 0.00 4.79
159 160 1.141053 CGAATTGGACTAGGGGAAGGG 59.859 57.143 0.00 0.00 0.00 3.95
160 161 1.141053 CCGAATTGGACTAGGGGAAGG 59.859 57.143 0.00 0.00 42.00 3.46
161 162 2.116238 TCCGAATTGGACTAGGGGAAG 58.884 52.381 0.00 0.00 43.74 3.46
162 163 2.257391 TCCGAATTGGACTAGGGGAA 57.743 50.000 0.00 0.00 43.74 3.97
172 173 1.668419 CAAGGCCTAGTCCGAATTGG 58.332 55.000 5.16 0.00 40.09 3.16
173 174 1.668419 CCAAGGCCTAGTCCGAATTG 58.332 55.000 5.16 0.00 0.00 2.32
174 175 0.546598 CCCAAGGCCTAGTCCGAATT 59.453 55.000 5.16 0.00 0.00 2.17
175 176 1.345715 CCCCAAGGCCTAGTCCGAAT 61.346 60.000 5.16 0.00 0.00 3.34
176 177 1.993391 CCCCAAGGCCTAGTCCGAA 60.993 63.158 5.16 0.00 0.00 4.30
177 178 2.365105 CCCCAAGGCCTAGTCCGA 60.365 66.667 5.16 0.00 0.00 4.55
178 179 3.480133 CCCCCAAGGCCTAGTCCG 61.480 72.222 5.16 0.00 0.00 4.79
197 198 1.049855 AGAGAGAGAGGCAGGCCATG 61.050 60.000 13.63 0.97 38.92 3.66
198 199 0.760189 GAGAGAGAGAGGCAGGCCAT 60.760 60.000 13.63 0.00 38.92 4.40
199 200 1.381056 GAGAGAGAGAGGCAGGCCA 60.381 63.158 13.63 0.00 38.92 5.36
200 201 2.133641 GGAGAGAGAGAGGCAGGCC 61.134 68.421 0.97 0.97 0.00 5.19
201 202 2.133641 GGGAGAGAGAGAGGCAGGC 61.134 68.421 0.00 0.00 0.00 4.85
202 203 1.457455 GGGGAGAGAGAGAGGCAGG 60.457 68.421 0.00 0.00 0.00 4.85
203 204 0.850100 TAGGGGAGAGAGAGAGGCAG 59.150 60.000 0.00 0.00 0.00 4.85
204 205 1.309876 TTAGGGGAGAGAGAGAGGCA 58.690 55.000 0.00 0.00 0.00 4.75
205 206 2.316108 CTTTAGGGGAGAGAGAGAGGC 58.684 57.143 0.00 0.00 0.00 4.70
206 207 2.316108 GCTTTAGGGGAGAGAGAGAGG 58.684 57.143 0.00 0.00 0.00 3.69
207 208 2.316108 GGCTTTAGGGGAGAGAGAGAG 58.684 57.143 0.00 0.00 0.00 3.20
208 209 1.062810 GGGCTTTAGGGGAGAGAGAGA 60.063 57.143 0.00 0.00 0.00 3.10
209 210 1.343478 TGGGCTTTAGGGGAGAGAGAG 60.343 57.143 0.00 0.00 0.00 3.20
210 211 0.716591 TGGGCTTTAGGGGAGAGAGA 59.283 55.000 0.00 0.00 0.00 3.10
211 212 1.584724 TTGGGCTTTAGGGGAGAGAG 58.415 55.000 0.00 0.00 0.00 3.20
212 213 2.286935 ATTGGGCTTTAGGGGAGAGA 57.713 50.000 0.00 0.00 0.00 3.10
213 214 3.181439 CCTTATTGGGCTTTAGGGGAGAG 60.181 52.174 0.00 0.00 0.00 3.20
214 215 2.783510 CCTTATTGGGCTTTAGGGGAGA 59.216 50.000 0.00 0.00 0.00 3.71
215 216 3.229697 CCTTATTGGGCTTTAGGGGAG 57.770 52.381 0.00 0.00 0.00 4.30
226 227 3.053619 GGGAGTATATGGGCCTTATTGGG 60.054 52.174 16.22 0.00 36.00 4.12
227 228 3.053619 GGGGAGTATATGGGCCTTATTGG 60.054 52.174 16.22 0.00 39.35 3.16
228 229 3.370527 CGGGGAGTATATGGGCCTTATTG 60.371 52.174 16.22 0.00 0.00 1.90
229 230 2.844348 CGGGGAGTATATGGGCCTTATT 59.156 50.000 16.22 0.63 0.00 1.40
230 231 2.478292 CGGGGAGTATATGGGCCTTAT 58.522 52.381 15.45 15.45 0.00 1.73
231 232 1.553884 CCGGGGAGTATATGGGCCTTA 60.554 57.143 4.53 2.64 0.00 2.69
232 233 0.840722 CCGGGGAGTATATGGGCCTT 60.841 60.000 4.53 0.00 0.00 4.35
233 234 1.229529 CCGGGGAGTATATGGGCCT 60.230 63.158 4.53 0.00 0.00 5.19
234 235 2.967946 GCCGGGGAGTATATGGGCC 61.968 68.421 2.18 0.00 34.54 5.80
235 236 2.669240 GCCGGGGAGTATATGGGC 59.331 66.667 2.18 0.00 0.00 5.36
236 237 1.189524 TTCGCCGGGGAGTATATGGG 61.190 60.000 21.47 0.00 0.00 4.00
237 238 0.902531 ATTCGCCGGGGAGTATATGG 59.097 55.000 21.47 0.00 0.00 2.74
238 239 2.618053 GAATTCGCCGGGGAGTATATG 58.382 52.381 21.47 0.00 0.00 1.78
239 240 1.553704 GGAATTCGCCGGGGAGTATAT 59.446 52.381 21.47 9.43 0.00 0.86
240 241 0.971386 GGAATTCGCCGGGGAGTATA 59.029 55.000 21.47 7.23 0.00 1.47
241 242 1.752833 GGAATTCGCCGGGGAGTAT 59.247 57.895 21.47 10.57 0.00 2.12
242 243 2.437396 GGGAATTCGCCGGGGAGTA 61.437 63.158 21.47 8.43 0.00 2.59
243 244 3.793888 GGGAATTCGCCGGGGAGT 61.794 66.667 21.47 16.34 0.00 3.85
244 245 4.910585 CGGGAATTCGCCGGGGAG 62.911 72.222 21.47 5.03 0.00 4.30
246 247 3.388703 TTACGGGAATTCGCCGGGG 62.389 63.158 27.84 13.31 35.14 5.73
247 248 2.175621 GTTACGGGAATTCGCCGGG 61.176 63.158 27.84 14.42 35.14 5.73
248 249 0.741927 AAGTTACGGGAATTCGCCGG 60.742 55.000 27.84 14.99 35.14 6.13
249 250 1.061566 GAAAGTTACGGGAATTCGCCG 59.938 52.381 24.84 24.84 36.31 6.46
250 251 2.095372 CAGAAAGTTACGGGAATTCGCC 59.905 50.000 16.10 9.48 0.00 5.54
251 252 2.095372 CCAGAAAGTTACGGGAATTCGC 59.905 50.000 12.30 12.30 0.00 4.70
252 253 3.332034 ACCAGAAAGTTACGGGAATTCG 58.668 45.455 0.00 0.00 0.00 3.34
253 254 5.485620 AGTACCAGAAAGTTACGGGAATTC 58.514 41.667 0.00 0.00 0.00 2.17
254 255 5.485620 GAGTACCAGAAAGTTACGGGAATT 58.514 41.667 0.00 0.00 0.00 2.17
255 256 4.081254 GGAGTACCAGAAAGTTACGGGAAT 60.081 45.833 0.00 0.00 35.97 3.01
256 257 3.259123 GGAGTACCAGAAAGTTACGGGAA 59.741 47.826 0.00 0.00 35.97 3.97
257 258 2.827921 GGAGTACCAGAAAGTTACGGGA 59.172 50.000 0.00 0.00 35.97 5.14
258 259 2.564062 TGGAGTACCAGAAAGTTACGGG 59.436 50.000 0.00 0.00 41.77 5.28
259 260 3.947910 TGGAGTACCAGAAAGTTACGG 57.052 47.619 0.00 0.00 41.77 4.02
270 271 5.396660 GGTTCGGGTATTTATTGGAGTACCA 60.397 44.000 0.00 0.00 45.34 3.25
271 272 5.059161 GGTTCGGGTATTTATTGGAGTACC 58.941 45.833 0.00 0.00 36.66 3.34
272 273 5.525012 GTGGTTCGGGTATTTATTGGAGTAC 59.475 44.000 0.00 0.00 0.00 2.73
273 274 5.426185 AGTGGTTCGGGTATTTATTGGAGTA 59.574 40.000 0.00 0.00 0.00 2.59
274 275 4.226620 AGTGGTTCGGGTATTTATTGGAGT 59.773 41.667 0.00 0.00 0.00 3.85
275 276 4.777463 AGTGGTTCGGGTATTTATTGGAG 58.223 43.478 0.00 0.00 0.00 3.86
276 277 4.225492 TGAGTGGTTCGGGTATTTATTGGA 59.775 41.667 0.00 0.00 0.00 3.53
277 278 4.519213 TGAGTGGTTCGGGTATTTATTGG 58.481 43.478 0.00 0.00 0.00 3.16
278 279 5.424757 TCTGAGTGGTTCGGGTATTTATTG 58.575 41.667 0.00 0.00 32.69 1.90
279 280 5.687166 TCTGAGTGGTTCGGGTATTTATT 57.313 39.130 0.00 0.00 32.69 1.40
280 281 5.425630 GTTCTGAGTGGTTCGGGTATTTAT 58.574 41.667 0.00 0.00 32.69 1.40
281 282 4.322953 GGTTCTGAGTGGTTCGGGTATTTA 60.323 45.833 0.00 0.00 32.69 1.40
282 283 3.558533 GGTTCTGAGTGGTTCGGGTATTT 60.559 47.826 0.00 0.00 32.69 1.40
283 284 2.027469 GGTTCTGAGTGGTTCGGGTATT 60.027 50.000 0.00 0.00 32.69 1.89
284 285 1.553704 GGTTCTGAGTGGTTCGGGTAT 59.446 52.381 0.00 0.00 32.69 2.73
285 286 0.971386 GGTTCTGAGTGGTTCGGGTA 59.029 55.000 0.00 0.00 32.69 3.69
286 287 0.763223 AGGTTCTGAGTGGTTCGGGT 60.763 55.000 0.00 0.00 32.69 5.28
287 288 0.396811 AAGGTTCTGAGTGGTTCGGG 59.603 55.000 0.00 0.00 32.69 5.14
288 289 2.143925 GAAAGGTTCTGAGTGGTTCGG 58.856 52.381 0.00 0.00 0.00 4.30
289 290 2.143925 GGAAAGGTTCTGAGTGGTTCG 58.856 52.381 0.00 0.00 0.00 3.95
290 291 2.143925 CGGAAAGGTTCTGAGTGGTTC 58.856 52.381 0.00 0.00 38.34 3.62
291 292 1.766496 TCGGAAAGGTTCTGAGTGGTT 59.234 47.619 0.00 0.00 40.04 3.67
292 293 1.420430 TCGGAAAGGTTCTGAGTGGT 58.580 50.000 0.00 0.00 40.04 4.16
298 299 1.067142 TCGGACATCGGAAAGGTTCTG 60.067 52.381 0.00 0.00 39.77 3.02
299 300 1.263356 TCGGACATCGGAAAGGTTCT 58.737 50.000 0.00 0.00 39.77 3.01
300 301 2.088950 TTCGGACATCGGAAAGGTTC 57.911 50.000 0.00 0.00 39.77 3.62
301 302 2.781681 ATTCGGACATCGGAAAGGTT 57.218 45.000 6.04 0.00 38.41 3.50
302 303 4.560919 GCTATATTCGGACATCGGAAAGGT 60.561 45.833 6.04 0.00 38.41 3.50
303 304 3.927142 GCTATATTCGGACATCGGAAAGG 59.073 47.826 6.04 0.14 38.41 3.11
304 305 3.927142 GGCTATATTCGGACATCGGAAAG 59.073 47.826 6.04 1.72 38.41 2.62
305 306 3.576982 AGGCTATATTCGGACATCGGAAA 59.423 43.478 6.04 0.00 38.41 3.13
306 307 3.162666 AGGCTATATTCGGACATCGGAA 58.837 45.455 4.57 4.57 39.08 4.30
307 308 2.803956 AGGCTATATTCGGACATCGGA 58.196 47.619 0.00 0.00 39.77 4.55
308 309 3.512680 GAAGGCTATATTCGGACATCGG 58.487 50.000 0.00 0.00 39.77 4.18
309 310 3.056821 TGGAAGGCTATATTCGGACATCG 60.057 47.826 0.00 0.00 40.90 3.84
310 311 4.537135 TGGAAGGCTATATTCGGACATC 57.463 45.455 0.00 0.00 0.00 3.06
311 312 4.974645 TTGGAAGGCTATATTCGGACAT 57.025 40.909 0.00 0.00 0.00 3.06
312 313 4.974645 ATTGGAAGGCTATATTCGGACA 57.025 40.909 0.00 0.00 0.00 4.02
313 314 7.595502 CGATATATTGGAAGGCTATATTCGGAC 59.404 40.741 0.00 0.00 0.00 4.79
314 315 7.504574 TCGATATATTGGAAGGCTATATTCGGA 59.495 37.037 0.00 0.00 0.00 4.55
315 316 7.658261 TCGATATATTGGAAGGCTATATTCGG 58.342 38.462 0.00 0.48 0.00 4.30
316 317 9.347934 GATCGATATATTGGAAGGCTATATTCG 57.652 37.037 0.00 1.24 0.00 3.34
323 324 8.543774 ACATAAAGATCGATATATTGGAAGGCT 58.456 33.333 0.00 0.00 0.00 4.58
324 325 8.723942 ACATAAAGATCGATATATTGGAAGGC 57.276 34.615 0.00 0.00 0.00 4.35
350 351 6.382869 ACAAGGAGTCTCAAAATGTTTGAG 57.617 37.500 19.95 19.95 45.38 3.02
351 352 6.377327 GACAAGGAGTCTCAAAATGTTTGA 57.623 37.500 1.47 3.57 44.09 2.69
365 366 0.544357 TCGGGGACATGACAAGGAGT 60.544 55.000 0.00 0.00 0.00 3.85
366 367 0.833287 ATCGGGGACATGACAAGGAG 59.167 55.000 0.00 0.00 0.00 3.69
367 368 0.830648 GATCGGGGACATGACAAGGA 59.169 55.000 0.00 0.00 0.00 3.36
368 369 0.833287 AGATCGGGGACATGACAAGG 59.167 55.000 0.00 0.00 0.00 3.61
369 370 1.482182 TGAGATCGGGGACATGACAAG 59.518 52.381 0.00 0.00 0.00 3.16
370 371 1.567357 TGAGATCGGGGACATGACAA 58.433 50.000 0.00 0.00 0.00 3.18
371 372 1.793414 ATGAGATCGGGGACATGACA 58.207 50.000 0.00 0.00 0.00 3.58
372 373 2.760374 GAATGAGATCGGGGACATGAC 58.240 52.381 0.00 0.00 0.00 3.06
373 374 1.341209 CGAATGAGATCGGGGACATGA 59.659 52.381 0.00 0.00 39.12 3.07
374 375 1.788258 CGAATGAGATCGGGGACATG 58.212 55.000 0.00 0.00 39.12 3.21
382 383 3.875838 GGAGTCCCGAATGAGATCG 57.124 57.895 0.00 0.00 42.37 3.69
401 402 1.449778 GGCCCTGCGAAGGTAGTTC 60.450 63.158 9.15 0.00 0.00 3.01
402 403 2.669240 GGCCCTGCGAAGGTAGTT 59.331 61.111 9.15 0.00 0.00 2.24
403 404 3.771160 CGGCCCTGCGAAGGTAGT 61.771 66.667 9.15 0.00 0.00 2.73
493 497 6.541278 CCTACAGCCTGCTATACGTATATACA 59.459 42.308 15.42 14.79 0.00 2.29
608 620 1.269569 CCGTGCATGTCGCTAATCCTA 60.270 52.381 4.96 0.00 43.06 2.94
639 651 2.040412 AGGAGGACGAAGGAAAGCAATT 59.960 45.455 0.00 0.00 0.00 2.32
664 764 0.109913 GCCTGCATGATGAGATGGGA 59.890 55.000 0.00 0.00 0.00 4.37
709 816 0.804544 CAATACGGTGTGTCGGCGAT 60.805 55.000 14.79 0.00 0.00 4.58
743 874 3.589951 AATTAGCATGAGCCAGATGGT 57.410 42.857 0.00 0.00 43.56 3.55
797 928 7.775093 CCCTAAATTGGAATCATCTGTGAACTA 59.225 37.037 0.00 0.00 38.01 2.24
807 938 2.427741 GGGCCCCCTAAATTGGAATCAT 60.428 50.000 12.23 0.00 0.00 2.45
890 1033 8.443160 CAAATATAATATACCTGGTTCTGCGTG 58.557 37.037 3.84 0.00 0.00 5.34
952 1115 9.298250 TGTTGTAAGATCTTCAAGTCTAGTAGT 57.702 33.333 12.24 0.00 0.00 2.73
957 1120 8.774586 GCTTTTGTTGTAAGATCTTCAAGTCTA 58.225 33.333 12.24 1.08 0.00 2.59
959 1122 7.417612 TGCTTTTGTTGTAAGATCTTCAAGTC 58.582 34.615 12.24 6.34 0.00 3.01
960 1123 7.333528 TGCTTTTGTTGTAAGATCTTCAAGT 57.666 32.000 12.24 0.00 0.00 3.16
961 1124 8.077991 TCATGCTTTTGTTGTAAGATCTTCAAG 58.922 33.333 12.24 5.46 0.00 3.02
962 1125 7.939782 TCATGCTTTTGTTGTAAGATCTTCAA 58.060 30.769 12.24 12.82 0.00 2.69
965 1128 8.362639 ACAATCATGCTTTTGTTGTAAGATCTT 58.637 29.630 13.56 13.56 32.28 2.40
967 1130 7.596248 ACACAATCATGCTTTTGTTGTAAGATC 59.404 33.333 0.00 0.00 33.93 2.75
969 1132 6.696583 CACACAATCATGCTTTTGTTGTAAGA 59.303 34.615 0.00 0.00 33.93 2.10
970 1133 6.476380 ACACACAATCATGCTTTTGTTGTAAG 59.524 34.615 0.00 0.00 33.93 2.34
975 1138 5.463061 GCTAACACACAATCATGCTTTTGTT 59.537 36.000 0.00 3.07 33.93 2.83
976 1139 4.984161 GCTAACACACAATCATGCTTTTGT 59.016 37.500 0.00 0.00 36.53 2.83
977 1140 4.983538 TGCTAACACACAATCATGCTTTTG 59.016 37.500 0.00 0.00 0.00 2.44
978 1141 5.199024 TGCTAACACACAATCATGCTTTT 57.801 34.783 0.00 0.00 0.00 2.27
979 1142 4.852134 TGCTAACACACAATCATGCTTT 57.148 36.364 0.00 0.00 0.00 3.51
980 1143 4.219070 ACATGCTAACACACAATCATGCTT 59.781 37.500 0.00 0.00 35.89 3.91
981 1144 3.760151 ACATGCTAACACACAATCATGCT 59.240 39.130 0.00 0.00 35.89 3.79
982 1145 4.100529 GACATGCTAACACACAATCATGC 58.899 43.478 0.00 0.00 35.89 4.06
985 1148 4.002982 GGAGACATGCTAACACACAATCA 58.997 43.478 0.00 0.00 0.00 2.57
1003 1166 5.499313 TGCATATGTCATGTTTCTTGGAGA 58.501 37.500 4.29 0.00 0.00 3.71
1008 1171 4.276678 CCCGATGCATATGTCATGTTTCTT 59.723 41.667 14.69 0.00 0.00 2.52
1049 1213 4.515567 CCAATTTATCTACGGCCTTCTTCC 59.484 45.833 0.00 0.00 0.00 3.46
1081 1245 3.364441 GTGCAGATGGCCACGCAA 61.364 61.111 23.67 9.08 43.89 4.85
1082 1246 2.533974 TATGTGCAGATGGCCACGCA 62.534 55.000 19.51 19.51 43.89 5.24
1089 1253 9.144747 GTACTCTTGTAATATATGTGCAGATGG 57.855 37.037 6.60 0.00 0.00 3.51
1135 1300 0.615331 ATCGCCAACTCATCACCTGT 59.385 50.000 0.00 0.00 0.00 4.00
1193 1358 5.598416 TTCTTCTTGCTGATCGGATTCTA 57.402 39.130 5.48 0.00 0.00 2.10
1234 1399 3.211045 AGCCACTTACATTGTTGTCGTT 58.789 40.909 0.00 0.00 37.28 3.85
1274 1439 2.349886 GACTGTTCTTGTGCATCCGATC 59.650 50.000 0.00 0.00 0.00 3.69
1383 1548 2.037121 TCTCATTGGTCGCTTCTCAACA 59.963 45.455 0.00 0.00 0.00 3.33
1392 1557 1.478510 TCTTCCTCTCTCATTGGTCGC 59.521 52.381 0.00 0.00 0.00 5.19
1393 1558 2.100584 CCTCTTCCTCTCTCATTGGTCG 59.899 54.545 0.00 0.00 0.00 4.79
1395 1560 3.481559 TCCTCTTCCTCTCTCATTGGT 57.518 47.619 0.00 0.00 0.00 3.67
1597 1762 5.219343 TGATCTAATCCACCATGTGCTAG 57.781 43.478 0.00 0.00 31.34 3.42
1607 1772 4.883585 TGTGCTTCCAATGATCTAATCCAC 59.116 41.667 0.00 0.00 0.00 4.02
1625 1790 6.467677 TCTTTAAGCTTCTCACTAATGTGCT 58.532 36.000 0.00 0.00 43.49 4.40
1686 1851 8.214364 AGTCTAATCCTTAATTCATCCCACTTC 58.786 37.037 0.00 0.00 0.00 3.01
1714 1879 7.176690 GTCCTTGTCAATAATTTCCTCTTTCCA 59.823 37.037 0.00 0.00 0.00 3.53
1746 1911 8.076178 CGTTCTTTCTCCTTTGTTATTTGATGT 58.924 33.333 0.00 0.00 0.00 3.06
1820 1985 3.305110 CGAAAAGCCAAGTTGCGTTTAT 58.695 40.909 0.00 0.00 41.81 1.40
1904 2069 5.870433 TGCATTACCAAATCAAATTCTGCAG 59.130 36.000 7.63 7.63 32.64 4.41
1996 2161 5.125097 CAGCAGCCAAAAGAGATATCAACTT 59.875 40.000 5.32 7.35 0.00 2.66
2041 2206 3.487372 ACTTGGCCTCTTTAACAACCTC 58.513 45.455 3.32 0.00 0.00 3.85
2128 2293 3.002451 CCGTCCGACAAATTAACACAACA 59.998 43.478 0.00 0.00 0.00 3.33
2148 2313 8.051901 AGTACTCCTCAATTTTTATTTTCCCG 57.948 34.615 0.00 0.00 0.00 5.14
2175 2340 0.251341 CCACCTTCAAGAACCCCAGG 60.251 60.000 0.00 0.00 0.00 4.45
2206 2387 6.040391 AGTCTCCATAGATTCAAGCAGTACTC 59.960 42.308 0.00 0.00 33.30 2.59
2336 2518 2.430610 GGCAAACCAAGTGCACCCA 61.431 57.895 14.63 0.00 44.07 4.51
2432 2616 5.755849 ACAAAGTTGGCTAGCTATAACCAT 58.244 37.500 15.72 7.25 27.30 3.55
2463 2650 9.679661 ATCCTTTCAACCAAATACAAAGTTTTT 57.320 25.926 0.00 0.00 0.00 1.94
2491 2680 9.342308 GGTCATCTCAACAAATTATCCATCTTA 57.658 33.333 0.00 0.00 0.00 2.10
2519 2709 1.141665 CCACCATCTCATCGCGACA 59.858 57.895 12.93 0.00 0.00 4.35
2520 2710 0.872021 GACCACCATCTCATCGCGAC 60.872 60.000 12.93 0.00 0.00 5.19
2585 2784 7.833682 ACCAATCACATAATAACAATCTGTGGA 59.166 33.333 0.00 0.00 38.16 4.02
2605 2804 6.650807 TCTCAAGTGAGTGTTATGAACCAATC 59.349 38.462 8.14 0.00 42.60 2.67
2607 2806 5.924356 TCTCAAGTGAGTGTTATGAACCAA 58.076 37.500 8.14 0.00 42.60 3.67
2655 2856 2.427453 TCCTACAGCTTCGTCCAATCTC 59.573 50.000 0.00 0.00 0.00 2.75
2679 2884 1.968017 CAGTGGGCATGTGCGACTT 60.968 57.895 5.77 0.00 43.26 3.01
2744 2976 6.918067 TCTCTCTGTTAGTTCTCCATGAAA 57.082 37.500 0.00 0.00 36.30 2.69
2750 2982 8.142551 TGTTAACTTTCTCTCTGTTAGTTCTCC 58.857 37.037 7.22 0.00 31.94 3.71
2756 2988 8.026607 CCTCTCTGTTAACTTTCTCTCTGTTAG 58.973 40.741 7.22 0.00 0.00 2.34
2823 3071 3.181458 GGCGGTGGACTGGATATTTTCTA 60.181 47.826 0.00 0.00 0.00 2.10
2852 3101 0.548682 AGTGAGGCCAGGACAAGGAT 60.549 55.000 5.01 0.00 0.00 3.24
2857 3106 1.656587 ACATAAGTGAGGCCAGGACA 58.343 50.000 5.01 0.00 0.00 4.02
2873 3144 4.012374 CTCCTTTGATTACAGGTGCACAT 58.988 43.478 20.43 9.24 0.00 3.21
2928 3200 1.694150 TCCTCGAGCCATTAATCCCTG 59.306 52.381 6.99 0.00 0.00 4.45
2943 3216 2.082231 GCATGATCCATCCATTCCTCG 58.918 52.381 0.00 0.00 0.00 4.63
3068 3384 0.250081 GATGAGATGGGGTTCCTCGC 60.250 60.000 0.00 0.00 0.00 5.03
3096 3425 1.666011 GTGTCGGAGAAGACCTGCA 59.334 57.895 0.00 0.00 39.69 4.41
3098 3427 1.444553 GCGTGTCGGAGAAGACCTG 60.445 63.158 0.00 0.00 39.69 4.00
3192 3536 1.676635 CATGGTGGTGCTGGTGGAG 60.677 63.158 0.00 0.00 0.00 3.86
3193 3537 2.435663 CATGGTGGTGCTGGTGGA 59.564 61.111 0.00 0.00 0.00 4.02
3296 3741 2.504175 GGCCATTAGTCCCAGTAAGACA 59.496 50.000 0.00 0.00 36.68 3.41
3301 3746 1.052124 CCGGGCCATTAGTCCCAGTA 61.052 60.000 4.39 0.00 42.75 2.74
3364 3809 1.661821 GTCGATTGATCCGCCGGAG 60.662 63.158 13.12 0.00 34.05 4.63
3504 4303 8.896744 CAGATCAAAAGCCACTTCATCTTATTA 58.103 33.333 0.00 0.00 0.00 0.98
3512 4312 2.816087 GAGCAGATCAAAAGCCACTTCA 59.184 45.455 0.00 0.00 0.00 3.02
3531 4361 0.036164 TCCAATTCCACCCACACGAG 59.964 55.000 0.00 0.00 0.00 4.18
3570 4403 2.829720 TGTCTGGGCTGTACGTCTTATT 59.170 45.455 0.00 0.00 0.00 1.40
3572 4405 1.913778 TGTCTGGGCTGTACGTCTTA 58.086 50.000 0.00 0.00 0.00 2.10
3574 4407 2.139323 TATGTCTGGGCTGTACGTCT 57.861 50.000 0.00 0.00 0.00 4.18
3589 4422 3.119280 GCCCCGTGCTTTTGTTATTATGT 60.119 43.478 0.00 0.00 36.87 2.29
3625 4490 1.884464 CGTGCCTCCATGTCATCCG 60.884 63.158 0.00 0.00 0.00 4.18
3664 4544 4.408270 ACTCTCATACAGCCACATCATCTT 59.592 41.667 0.00 0.00 0.00 2.40
3693 4573 3.819337 GACATGCAAGCTATCCACATCAT 59.181 43.478 0.00 0.00 0.00 2.45
3757 4637 2.823747 TCATATCCTTGACCCCGTATCG 59.176 50.000 0.00 0.00 0.00 2.92
3762 4642 3.141398 CATTGTCATATCCTTGACCCCG 58.859 50.000 2.43 0.00 44.37 5.73
3808 4688 6.027482 TCAAGTAACCTAGATTGTACCCCTT 58.973 40.000 0.00 0.00 0.00 3.95
3877 4757 4.063689 GCCATATCACAGAGTGAGATTGG 58.936 47.826 15.66 15.66 46.04 3.16
4029 4969 6.866480 AGTGTTTGACAATGATTTCACAGTT 58.134 32.000 0.00 0.00 0.00 3.16
4179 5119 3.696051 AGCGACCAAGTGCATCAAATAAT 59.304 39.130 0.00 0.00 0.00 1.28
4300 5240 9.733556 TGTTATACCTCTTATTTGCTTCAAAGA 57.266 29.630 0.00 0.00 36.76 2.52
4439 5379 2.035961 TCACCAAACTGTCTCTTCCTCG 59.964 50.000 0.00 0.00 0.00 4.63
4501 5441 9.670719 AACCAAAACAAAACATTTAACACAAAG 57.329 25.926 0.00 0.00 0.00 2.77
4504 5444 8.378172 TCAACCAAAACAAAACATTTAACACA 57.622 26.923 0.00 0.00 0.00 3.72
4514 5454 4.151512 CCGCCATATCAACCAAAACAAAAC 59.848 41.667 0.00 0.00 0.00 2.43
4804 5756 6.199908 CGATAAGCAATGGAGATATTCGGATC 59.800 42.308 0.00 0.00 0.00 3.36
4863 5815 2.550830 TTGAAAAGCTTCTCTCGGCT 57.449 45.000 0.00 0.00 40.85 5.52
4916 5868 7.918076 ACCATTTAACCTCTCTTGAGTCATTA 58.082 34.615 0.00 0.00 38.61 1.90
4989 5942 5.840243 CAAAGTTGCTTATGATGGGATCA 57.160 39.130 0.00 0.00 44.55 2.92
5005 5958 5.245531 TCTAACATTCCTCGATGCAAAGTT 58.754 37.500 0.00 0.00 0.00 2.66
5189 6209 1.813786 CGGGGCGAACTAAAAATTGGA 59.186 47.619 0.00 0.00 0.00 3.53
5241 6261 0.866061 CGCCGACAGATGTACCGAAG 60.866 60.000 0.00 0.00 0.00 3.79
5242 6262 1.138036 CGCCGACAGATGTACCGAA 59.862 57.895 0.00 0.00 0.00 4.30
5243 6263 1.588824 AACGCCGACAGATGTACCGA 61.589 55.000 0.00 0.00 0.00 4.69
5244 6264 1.138047 GAACGCCGACAGATGTACCG 61.138 60.000 0.00 0.00 0.00 4.02
5245 6265 0.172803 AGAACGCCGACAGATGTACC 59.827 55.000 0.00 0.00 0.00 3.34
5246 6266 1.269166 CAGAACGCCGACAGATGTAC 58.731 55.000 0.00 0.00 0.00 2.90
5247 6267 0.172578 CCAGAACGCCGACAGATGTA 59.827 55.000 0.00 0.00 0.00 2.29
5248 6268 1.079819 CCAGAACGCCGACAGATGT 60.080 57.895 0.00 0.00 0.00 3.06
5249 6269 1.811266 CCCAGAACGCCGACAGATG 60.811 63.158 0.00 0.00 0.00 2.90
5250 6270 1.541310 TTCCCAGAACGCCGACAGAT 61.541 55.000 0.00 0.00 0.00 2.90
5251 6271 2.204461 TTCCCAGAACGCCGACAGA 61.204 57.895 0.00 0.00 0.00 3.41
5323 6343 1.980772 GAAGCTGGGCTGCATTGGT 60.981 57.895 0.50 0.00 39.62 3.67
5605 6626 0.736053 GGTCTTGTTGCACCGAAACA 59.264 50.000 0.00 0.00 35.78 2.83
5698 6719 5.825593 ATCCTGACTAAAGTTGGTCTTCA 57.174 39.130 8.72 0.00 39.17 3.02
5852 6884 3.885297 CTCTCTCTCTCTCTGGTTGATCC 59.115 52.174 0.00 0.00 0.00 3.36
5904 6938 1.024271 GTTGTTCTTGAGCTGGTGCA 58.976 50.000 0.00 0.00 42.74 4.57
5935 6969 7.861629 TGATGAATAGTACAAAGGGAGAACAT 58.138 34.615 0.00 0.00 0.00 2.71
5970 7005 0.827507 GTGGTGTGGTGGATTGCCTT 60.828 55.000 0.00 0.00 34.31 4.35


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

AutoCloner maintained by Alex Coulton.