Multiple sequence alignment - TraesCS3B01G240100

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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 TraesCS3B01G240100 chr3B 100.000 4713 0 0 1 4713 378723909 378719197 0.000000e+00 8704.0
1 TraesCS3B01G240100 chr3B 87.535 714 77 9 115 824 286887835 286887130 0.000000e+00 815.0
2 TraesCS3B01G240100 chr3B 90.306 588 44 10 1727 2306 662981051 662981633 0.000000e+00 758.0
3 TraesCS3B01G240100 chr3B 89.915 585 49 8 1727 2306 512421147 512421726 0.000000e+00 745.0
4 TraesCS3B01G240100 chr3B 89.594 567 50 7 1730 2292 512419412 512419973 0.000000e+00 712.0
5 TraesCS3B01G240100 chr3B 86.154 390 44 7 1334 1714 101254620 101254232 3.390000e-111 412.0
6 TraesCS3B01G240100 chr3B 85.233 386 50 6 1335 1714 393843325 393843709 1.590000e-104 390.0
7 TraesCS3B01G240100 chr3B 83.938 386 55 6 1335 1714 324237147 324236763 3.470000e-96 363.0
8 TraesCS3B01G240100 chr3B 90.500 200 17 2 4497 4695 346679538 346679736 3.620000e-66 263.0
9 TraesCS3B01G240100 chr3B 81.212 330 47 7 929 1243 665342545 665342216 7.830000e-63 252.0
10 TraesCS3B01G240100 chr3B 79.082 392 52 16 3993 4360 277659699 277660084 4.710000e-60 243.0
11 TraesCS3B01G240100 chr3B 90.351 114 10 1 2947 3060 378720895 378720783 1.060000e-31 148.0
12 TraesCS3B01G240100 chr3B 90.351 114 10 1 3015 3127 378720963 378720850 1.060000e-31 148.0
13 TraesCS3B01G240100 chr3B 79.915 234 17 14 3790 3996 277659296 277659526 1.370000e-30 145.0
14 TraesCS3B01G240100 chr3B 89.655 87 9 0 2308 2394 512420093 512420179 1.390000e-20 111.0
15 TraesCS3B01G240100 chr3B 94.737 38 2 0 1676 1713 674395242 674395205 5.090000e-05 60.2
16 TraesCS3B01G240100 chr7B 99.670 3638 11 1 1 3638 141075922 141072286 0.000000e+00 6650.0
17 TraesCS3B01G240100 chr7B 99.294 708 4 1 3790 4496 141072294 141071587 0.000000e+00 1279.0
18 TraesCS3B01G240100 chr7B 94.009 217 11 2 4496 4711 340281041 340280826 1.260000e-85 327.0
19 TraesCS3B01G240100 chr7B 98.693 153 2 0 3637 3789 712631891 712632043 6.010000e-69 272.0
20 TraesCS3B01G240100 chr7B 88.344 163 17 2 3637 3797 704279035 704278873 1.340000e-45 195.0
21 TraesCS3B01G240100 chr7B 90.351 114 10 1 2947 3060 141072908 141072796 1.060000e-31 148.0
22 TraesCS3B01G240100 chr7B 90.351 114 10 1 3015 3127 141072976 141072863 1.060000e-31 148.0
23 TraesCS3B01G240100 chr7B 91.892 74 5 1 4435 4508 178425985 178426057 8.340000e-18 102.0
24 TraesCS3B01G240100 chr7B 88.750 80 8 1 4417 4496 190262082 190262160 3.880000e-16 97.1
25 TraesCS3B01G240100 chr1A 88.119 808 78 9 115 919 176409926 176410718 0.000000e+00 944.0
26 TraesCS3B01G240100 chr1A 89.815 216 19 3 4497 4711 54601775 54601562 1.670000e-69 274.0
27 TraesCS3B01G240100 chr1A 89.447 199 18 3 4497 4695 537557232 537557037 1.010000e-61 248.0
28 TraesCS3B01G240100 chr1A 82.156 269 26 10 1062 1310 176410856 176411122 1.330000e-50 211.0
29 TraesCS3B01G240100 chr1A 85.714 91 11 2 4416 4505 254955330 254955241 1.400000e-15 95.3
30 TraesCS3B01G240100 chr1A 97.368 38 1 0 4037 4074 336001558 336001595 1.090000e-06 65.8
31 TraesCS3B01G240100 chr3A 87.995 808 79 7 115 919 296899701 296900493 0.000000e+00 939.0
32 TraesCS3B01G240100 chr3A 87.440 207 21 3 1322 1524 442906601 442906396 2.840000e-57 233.0
33 TraesCS3B01G240100 chr3A 81.618 272 30 8 1058 1310 296900627 296900897 1.720000e-49 207.0
34 TraesCS3B01G240100 chr6D 88.138 784 79 8 115 890 16117269 16118046 0.000000e+00 920.0
35 TraesCS3B01G240100 chr6D 90.485 515 44 4 3125 3638 16119766 16120276 0.000000e+00 675.0
36 TraesCS3B01G240100 chr6D 83.120 391 42 12 3993 4360 16120564 16120953 7.560000e-88 335.0
37 TraesCS3B01G240100 chr6D 98.693 153 2 0 3639 3791 284851863 284851711 6.010000e-69 272.0
38 TraesCS3B01G240100 chr6D 83.456 272 25 8 1058 1310 16118199 16118469 7.880000e-58 235.0
39 TraesCS3B01G240100 chr7A 87.284 810 83 10 115 919 629779580 629778786 0.000000e+00 907.0
40 TraesCS3B01G240100 chr7A 89.729 516 47 5 3125 3638 308455312 308455823 0.000000e+00 654.0
41 TraesCS3B01G240100 chr7A 84.709 412 43 9 921 1313 629778729 629778319 1.230000e-105 394.0
42 TraesCS3B01G240100 chr7A 98.013 151 3 0 3639 3789 519850906 519850756 3.620000e-66 263.0
43 TraesCS3B01G240100 chr7A 83.408 223 19 4 3790 3997 308455815 308456034 1.730000e-44 191.0
44 TraesCS3B01G240100 chr7A 86.466 133 13 3 4219 4351 221745010 221744883 1.770000e-29 141.0
45 TraesCS3B01G240100 chr7A 93.243 74 4 1 4435 4508 264176793 264176865 1.790000e-19 108.0
46 TraesCS3B01G240100 chr6B 85.679 810 95 13 115 919 328339459 328340252 0.000000e+00 833.0
47 TraesCS3B01G240100 chr6B 89.729 516 48 4 3125 3638 393761541 393762053 0.000000e+00 654.0
48 TraesCS3B01G240100 chr6B 89.729 516 46 6 3125 3638 207720675 207720165 0.000000e+00 652.0
49 TraesCS3B01G240100 chr6B 88.736 364 30 3 1328 1680 207721819 207721456 7.240000e-118 435.0
50 TraesCS3B01G240100 chr6B 82.182 275 29 8 1058 1313 207735339 207735066 7.940000e-53 219.0
51 TraesCS3B01G240100 chr6B 79.915 234 17 14 3791 3997 393762046 393762276 1.370000e-30 145.0
52 TraesCS3B01G240100 chr6B 91.011 89 7 1 3910 3997 207720030 207719942 8.280000e-23 119.0
53 TraesCS3B01G240100 chr4B 87.082 658 68 8 265 919 421859149 421858506 0.000000e+00 728.0
54 TraesCS3B01G240100 chr4B 80.919 283 26 10 1058 1313 421858372 421858091 1.030000e-46 198.0
55 TraesCS3B01G240100 chr4B 79.237 236 18 19 3790 3997 414452272 414452040 8.230000e-28 135.0
56 TraesCS3B01G240100 chr4B 86.420 81 10 1 4416 4496 248834600 248834679 2.340000e-13 87.9
57 TraesCS3B01G240100 chr5D 90.078 514 46 4 3127 3638 249151133 249150623 0.000000e+00 662.0
58 TraesCS3B01G240100 chr5D 81.108 397 48 14 3993 4366 249150230 249149838 4.610000e-75 292.0
59 TraesCS3B01G240100 chr5D 80.426 235 16 7 3790 3997 249150631 249150400 8.170000e-33 152.0
60 TraesCS3B01G240100 chr1B 89.709 515 48 4 3125 3638 117569949 117570459 0.000000e+00 652.0
61 TraesCS3B01G240100 chr1B 89.210 519 48 7 3125 3638 192689986 192689471 3.980000e-180 641.0
62 TraesCS3B01G240100 chr1B 88.378 370 31 6 1324 1681 117568784 117569153 7.240000e-118 435.0
63 TraesCS3B01G240100 chr1B 90.000 200 17 3 4497 4695 106011619 106011816 6.050000e-64 255.0
64 TraesCS3B01G240100 chr1B 79.124 388 44 18 3999 4360 192689087 192688711 2.840000e-57 233.0
65 TraesCS3B01G240100 chr1B 83.088 272 26 8 1058 1310 538916176 538916446 3.670000e-56 230.0
66 TraesCS3B01G240100 chr1B 80.882 272 32 8 1058 1310 117568380 117568650 3.720000e-46 196.0
67 TraesCS3B01G240100 chr1B 80.426 235 16 8 3790 3997 192689479 192689248 8.170000e-33 152.0
68 TraesCS3B01G240100 chr3D 89.535 516 49 4 3125 3638 256145202 256144690 0.000000e+00 649.0
69 TraesCS3B01G240100 chr3D 80.925 346 48 9 916 1243 503994951 503994606 1.680000e-64 257.0
70 TraesCS3B01G240100 chr3D 79.574 235 17 8 3790 3997 256144698 256144468 6.360000e-29 139.0
71 TraesCS3B01G240100 chr3D 100.000 39 0 0 1675 1713 503994076 503994038 6.540000e-09 73.1
72 TraesCS3B01G240100 chr3D 92.157 51 4 0 2504 2554 590285463 590285413 6.540000e-09 73.1
73 TraesCS3B01G240100 chrUn 88.441 372 39 3 520 890 286669929 286670297 3.350000e-121 446.0
74 TraesCS3B01G240100 chrUn 93.151 73 3 1 4435 4507 310759993 310760063 6.450000e-19 106.0
75 TraesCS3B01G240100 chr2B 83.938 386 55 6 1335 1714 357882134 357882518 3.470000e-96 363.0
76 TraesCS3B01G240100 chr2B 88.000 275 29 2 1322 1593 711218075 711217802 5.880000e-84 322.0
77 TraesCS3B01G240100 chr2B 98.693 153 2 0 3637 3789 400625576 400625424 6.010000e-69 272.0
78 TraesCS3B01G240100 chr2B 78.173 394 45 21 3993 4360 220362637 220363015 3.690000e-51 213.0
79 TraesCS3B01G240100 chr2B 88.742 151 17 0 3639 3789 685741127 685740977 8.050000e-43 185.0
80 TraesCS3B01G240100 chr2B 88.889 81 8 1 4416 4496 220194522 220194601 1.080000e-16 99.0
81 TraesCS3B01G240100 chr5B 84.011 369 53 5 1335 1697 208767713 208767345 2.700000e-92 350.0
82 TraesCS3B01G240100 chr5B 98.675 151 2 0 3639 3789 9618176 9618026 7.770000e-68 268.0
83 TraesCS3B01G240100 chr5B 86.585 82 10 1 4416 4497 294282495 294282575 6.500000e-14 89.8
84 TraesCS3B01G240100 chr5B 83.696 92 12 3 4416 4506 117963447 117963536 3.020000e-12 84.2
85 TraesCS3B01G240100 chr2D 82.921 404 46 11 1323 1714 117193747 117193355 4.520000e-90 342.0
86 TraesCS3B01G240100 chr2D 90.000 200 19 1 4497 4695 36324104 36324303 1.680000e-64 257.0
87 TraesCS3B01G240100 chr7D 92.558 215 13 3 4497 4711 397593279 397593490 5.930000e-79 305.0
88 TraesCS3B01G240100 chr7D 86.400 125 10 3 3790 3911 208817806 208817686 3.830000e-26 130.0
89 TraesCS3B01G240100 chr2A 90.278 216 18 3 4497 4711 152244439 152244652 3.590000e-71 279.0
90 TraesCS3B01G240100 chr2A 88.816 152 17 0 3638 3789 175462267 175462418 2.240000e-43 187.0
91 TraesCS3B01G240100 chr1D 89.862 217 18 3 4497 4711 48059623 48059837 4.650000e-70 276.0
92 TraesCS3B01G240100 chr4A 98.065 155 2 1 3639 3793 501966324 501966171 7.770000e-68 268.0
93 TraesCS3B01G240100 chr5A 85.849 106 11 4 4404 4508 465102325 465102223 4.990000e-20 110.0
94 TraesCS3B01G240100 chr4D 83.516 91 13 2 4418 4508 231933258 231933346 3.020000e-12 84.2


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 TraesCS3B01G240100 chr3B 378719197 378723909 4712 True 3000.000000 8704 93.567333 1 4713 3 chr3B.!!$R6 4712
1 TraesCS3B01G240100 chr3B 286887130 286887835 705 True 815.000000 815 87.535000 115 824 1 chr3B.!!$R2 709
2 TraesCS3B01G240100 chr3B 662981051 662981633 582 False 758.000000 758 90.306000 1727 2306 1 chr3B.!!$F3 579
3 TraesCS3B01G240100 chr3B 512419412 512421726 2314 False 522.666667 745 89.721333 1727 2394 3 chr3B.!!$F5 667
4 TraesCS3B01G240100 chr7B 141071587 141075922 4335 True 2056.250000 6650 94.916500 1 4496 4 chr7B.!!$R3 4495
5 TraesCS3B01G240100 chr1A 176409926 176411122 1196 False 577.500000 944 85.137500 115 1310 2 chr1A.!!$F2 1195
6 TraesCS3B01G240100 chr3A 296899701 296900897 1196 False 573.000000 939 84.806500 115 1310 2 chr3A.!!$F1 1195
7 TraesCS3B01G240100 chr6D 16117269 16120953 3684 False 541.250000 920 86.299750 115 4360 4 chr6D.!!$F1 4245
8 TraesCS3B01G240100 chr7A 629778319 629779580 1261 True 650.500000 907 85.996500 115 1313 2 chr7A.!!$R3 1198
9 TraesCS3B01G240100 chr7A 308455312 308456034 722 False 422.500000 654 86.568500 3125 3997 2 chr7A.!!$F2 872
10 TraesCS3B01G240100 chr6B 328339459 328340252 793 False 833.000000 833 85.679000 115 919 1 chr6B.!!$F1 804
11 TraesCS3B01G240100 chr6B 207719942 207721819 1877 True 402.000000 652 89.825333 1328 3997 3 chr6B.!!$R2 2669
12 TraesCS3B01G240100 chr6B 393761541 393762276 735 False 399.500000 654 84.822000 3125 3997 2 chr6B.!!$F2 872
13 TraesCS3B01G240100 chr4B 421858091 421859149 1058 True 463.000000 728 84.000500 265 1313 2 chr4B.!!$R2 1048
14 TraesCS3B01G240100 chr5D 249149838 249151133 1295 True 368.666667 662 83.870667 3127 4366 3 chr5D.!!$R1 1239
15 TraesCS3B01G240100 chr1B 117568380 117570459 2079 False 427.666667 652 86.323000 1058 3638 3 chr1B.!!$F3 2580
16 TraesCS3B01G240100 chr1B 192688711 192689986 1275 True 342.000000 641 82.920000 3125 4360 3 chr1B.!!$R1 1235
17 TraesCS3B01G240100 chr3D 256144468 256145202 734 True 394.000000 649 84.554500 3125 3997 2 chr3D.!!$R2 872

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
985 1054 0.673985 GGGCTTGTTGTGGAACTTCC 59.326 55.000 0.20 0.2 38.04 3.46 F
1454 1733 0.328258 GAGGGTAAGGAGGCTGCAAA 59.672 55.000 9.23 0.0 0.00 3.68 F
3639 5472 1.539388 TGGGCATGCACTTAGAAAACG 59.461 47.619 22.81 0.0 0.00 3.60 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3156 4983 6.014584 AGACATTGCCTCATATATACCAACGA 60.015 38.462 0.00 0.00 0.00 3.85 R
3660 5493 0.717784 CAGCTGTCGTGCATGTAGTG 59.282 55.000 5.25 4.17 34.99 2.74 R
4444 6518 0.746923 GACCCGGTAAACCCATGCTC 60.747 60.000 0.00 0.00 0.00 4.26 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
985 1054 0.673985 GGGCTTGTTGTGGAACTTCC 59.326 55.000 0.20 0.20 38.04 3.46
1454 1733 0.328258 GAGGGTAAGGAGGCTGCAAA 59.672 55.000 9.23 0.00 0.00 3.68
2333 4154 9.248291 GAAGATATGTCAAGTTCTCTGAATCTC 57.752 37.037 0.00 0.00 0.00 2.75
3638 5471 2.558359 AGTGGGCATGCACTTAGAAAAC 59.442 45.455 22.81 8.95 0.00 2.43
3639 5472 1.539388 TGGGCATGCACTTAGAAAACG 59.461 47.619 22.81 0.00 0.00 3.60
3640 5473 1.810151 GGGCATGCACTTAGAAAACGA 59.190 47.619 21.36 0.00 0.00 3.85
3641 5474 2.227865 GGGCATGCACTTAGAAAACGAA 59.772 45.455 21.36 0.00 0.00 3.85
3642 5475 3.305064 GGGCATGCACTTAGAAAACGAAA 60.305 43.478 21.36 0.00 0.00 3.46
3643 5476 3.668656 GGCATGCACTTAGAAAACGAAAC 59.331 43.478 21.36 0.00 0.00 2.78
3644 5477 4.537015 GCATGCACTTAGAAAACGAAACT 58.463 39.130 14.21 0.00 0.00 2.66
3645 5478 4.379793 GCATGCACTTAGAAAACGAAACTG 59.620 41.667 14.21 0.00 0.00 3.16
3646 5479 3.947626 TGCACTTAGAAAACGAAACTGC 58.052 40.909 0.00 0.00 0.00 4.40
3647 5480 3.625764 TGCACTTAGAAAACGAAACTGCT 59.374 39.130 0.00 0.00 0.00 4.24
3648 5481 4.812091 TGCACTTAGAAAACGAAACTGCTA 59.188 37.500 0.00 0.00 0.00 3.49
3649 5482 5.468746 TGCACTTAGAAAACGAAACTGCTAT 59.531 36.000 0.00 0.00 0.00 2.97
3650 5483 5.790495 GCACTTAGAAAACGAAACTGCTATG 59.210 40.000 0.00 0.00 0.00 2.23
3651 5484 5.790495 CACTTAGAAAACGAAACTGCTATGC 59.210 40.000 0.00 0.00 0.00 3.14
3652 5485 5.468746 ACTTAGAAAACGAAACTGCTATGCA 59.531 36.000 0.00 0.00 36.92 3.96
3678 5511 3.128259 CACTACATGCACGACAGCT 57.872 52.632 0.00 0.00 34.99 4.24
3679 5512 0.717784 CACTACATGCACGACAGCTG 59.282 55.000 13.48 13.48 34.99 4.24
3680 5513 1.016130 ACTACATGCACGACAGCTGC 61.016 55.000 15.27 5.81 34.99 5.25
3684 5517 4.583866 TGCACGACAGCTGCACGA 62.584 61.111 30.57 13.14 39.76 4.35
3685 5518 3.114616 GCACGACAGCTGCACGAT 61.115 61.111 30.57 17.14 34.56 3.73
3686 5519 2.774126 CACGACAGCTGCACGATG 59.226 61.111 30.57 22.23 34.52 3.84
3687 5520 2.023771 CACGACAGCTGCACGATGT 61.024 57.895 30.57 13.14 46.62 3.06
3690 5523 4.777384 ACAGCTGCACGATGTCAA 57.223 50.000 15.27 0.00 37.86 3.18
3691 5524 3.238232 ACAGCTGCACGATGTCAAT 57.762 47.368 15.27 0.00 37.86 2.57
3692 5525 1.081892 ACAGCTGCACGATGTCAATC 58.918 50.000 15.27 0.00 37.86 2.67
3693 5526 1.338484 ACAGCTGCACGATGTCAATCT 60.338 47.619 15.27 0.00 37.86 2.40
3694 5527 2.094026 ACAGCTGCACGATGTCAATCTA 60.094 45.455 15.27 0.00 37.86 1.98
3695 5528 2.538861 CAGCTGCACGATGTCAATCTAG 59.461 50.000 0.00 0.00 0.00 2.43
3696 5529 1.260033 GCTGCACGATGTCAATCTAGC 59.740 52.381 0.00 0.00 33.38 3.42
3697 5530 1.863454 CTGCACGATGTCAATCTAGCC 59.137 52.381 0.00 0.00 32.39 3.93
3698 5531 1.206849 TGCACGATGTCAATCTAGCCA 59.793 47.619 0.00 0.00 32.39 4.75
3699 5532 2.158914 TGCACGATGTCAATCTAGCCAT 60.159 45.455 0.00 0.00 32.39 4.40
3700 5533 2.478134 GCACGATGTCAATCTAGCCATC 59.522 50.000 0.00 0.00 0.00 3.51
3701 5534 3.801638 GCACGATGTCAATCTAGCCATCT 60.802 47.826 0.00 0.00 33.24 2.90
3702 5535 3.739810 CACGATGTCAATCTAGCCATCTG 59.260 47.826 0.00 0.00 33.24 2.90
3703 5536 3.386078 ACGATGTCAATCTAGCCATCTGT 59.614 43.478 0.00 0.00 33.24 3.41
3704 5537 4.141846 ACGATGTCAATCTAGCCATCTGTT 60.142 41.667 0.00 0.00 33.24 3.16
3705 5538 4.210746 CGATGTCAATCTAGCCATCTGTTG 59.789 45.833 0.00 0.00 33.24 3.33
3706 5539 3.273434 TGTCAATCTAGCCATCTGTTGC 58.727 45.455 0.00 0.00 0.00 4.17
3707 5540 3.273434 GTCAATCTAGCCATCTGTTGCA 58.727 45.455 0.00 0.00 0.00 4.08
3708 5541 3.064545 GTCAATCTAGCCATCTGTTGCAC 59.935 47.826 0.00 0.00 0.00 4.57
3709 5542 3.054875 TCAATCTAGCCATCTGTTGCACT 60.055 43.478 0.00 0.00 0.00 4.40
3710 5543 3.641434 ATCTAGCCATCTGTTGCACTT 57.359 42.857 0.00 0.00 0.00 3.16
3711 5544 4.760530 ATCTAGCCATCTGTTGCACTTA 57.239 40.909 0.00 0.00 0.00 2.24
3712 5545 4.128925 TCTAGCCATCTGTTGCACTTAG 57.871 45.455 0.00 0.00 0.00 2.18
3713 5546 3.769300 TCTAGCCATCTGTTGCACTTAGA 59.231 43.478 0.00 0.00 0.00 2.10
3714 5547 3.641434 AGCCATCTGTTGCACTTAGAT 57.359 42.857 0.00 0.00 0.00 1.98
3715 5548 4.760530 AGCCATCTGTTGCACTTAGATA 57.239 40.909 6.30 0.00 30.43 1.98
3716 5549 5.102953 AGCCATCTGTTGCACTTAGATAA 57.897 39.130 6.30 0.00 30.43 1.75
3717 5550 5.688807 AGCCATCTGTTGCACTTAGATAAT 58.311 37.500 6.30 0.00 30.43 1.28
3718 5551 6.830912 AGCCATCTGTTGCACTTAGATAATA 58.169 36.000 6.30 0.00 30.43 0.98
3719 5552 7.456725 AGCCATCTGTTGCACTTAGATAATAT 58.543 34.615 6.30 0.00 30.43 1.28
3720 5553 7.389884 AGCCATCTGTTGCACTTAGATAATATG 59.610 37.037 6.30 0.00 30.43 1.78
3721 5554 7.524912 CCATCTGTTGCACTTAGATAATATGC 58.475 38.462 6.30 0.00 36.81 3.14
3722 5555 7.173735 CCATCTGTTGCACTTAGATAATATGCA 59.826 37.037 6.30 0.00 44.19 3.96
3723 5556 7.482654 TCTGTTGCACTTAGATAATATGCAC 57.517 36.000 9.84 7.39 45.45 4.57
3724 5557 7.275183 TCTGTTGCACTTAGATAATATGCACT 58.725 34.615 9.84 0.00 45.45 4.40
3725 5558 7.225341 TCTGTTGCACTTAGATAATATGCACTG 59.775 37.037 9.84 9.45 45.45 3.66
3726 5559 7.047271 TGTTGCACTTAGATAATATGCACTGA 58.953 34.615 9.84 0.00 45.45 3.41
3727 5560 7.716560 TGTTGCACTTAGATAATATGCACTGAT 59.283 33.333 9.84 0.00 45.45 2.90
3728 5561 7.662604 TGCACTTAGATAATATGCACTGATG 57.337 36.000 0.00 0.00 41.18 3.07
3749 5582 1.325640 CACTGATGTGCTGTATCGTGC 59.674 52.381 0.00 0.00 37.38 5.34
3750 5583 1.066929 ACTGATGTGCTGTATCGTGCA 60.067 47.619 0.00 0.00 36.79 4.57
3757 5590 1.393196 TGCTGTATCGTGCACAAATCG 59.607 47.619 18.64 1.94 33.94 3.34
3758 5591 1.393539 GCTGTATCGTGCACAAATCGT 59.606 47.619 18.64 0.00 0.00 3.73
3759 5592 2.534939 GCTGTATCGTGCACAAATCGTC 60.535 50.000 18.64 5.17 0.00 4.20
3760 5593 2.923655 CTGTATCGTGCACAAATCGTCT 59.076 45.455 18.64 0.00 0.00 4.18
3761 5594 2.666022 TGTATCGTGCACAAATCGTCTG 59.334 45.455 18.64 0.00 0.00 3.51
3762 5595 0.443869 ATCGTGCACAAATCGTCTGC 59.556 50.000 18.64 0.00 0.00 4.26
3763 5596 0.599991 TCGTGCACAAATCGTCTGCT 60.600 50.000 18.64 0.00 0.00 4.24
3764 5597 1.067693 CGTGCACAAATCGTCTGCTA 58.932 50.000 18.64 0.00 0.00 3.49
3765 5598 1.660607 CGTGCACAAATCGTCTGCTAT 59.339 47.619 18.64 0.00 0.00 2.97
3766 5599 2.535534 CGTGCACAAATCGTCTGCTATG 60.536 50.000 18.64 0.00 0.00 2.23
3767 5600 1.398041 TGCACAAATCGTCTGCTATGC 59.602 47.619 0.00 0.00 0.00 3.14
3768 5601 1.593070 GCACAAATCGTCTGCTATGCG 60.593 52.381 0.00 0.00 0.00 4.73
3769 5602 1.660607 CACAAATCGTCTGCTATGCGT 59.339 47.619 0.00 0.00 0.00 5.24
3770 5603 1.927174 ACAAATCGTCTGCTATGCGTC 59.073 47.619 0.00 0.00 0.00 5.19
3771 5604 1.071894 CAAATCGTCTGCTATGCGTCG 60.072 52.381 0.00 0.00 0.00 5.12
3772 5605 0.100682 AATCGTCTGCTATGCGTCGT 59.899 50.000 0.00 0.00 0.00 4.34
3773 5606 0.592500 ATCGTCTGCTATGCGTCGTG 60.593 55.000 0.00 0.00 0.00 4.35
3774 5607 1.514228 CGTCTGCTATGCGTCGTGT 60.514 57.895 0.00 0.00 0.00 4.49
3775 5608 1.733416 CGTCTGCTATGCGTCGTGTG 61.733 60.000 0.00 0.00 0.00 3.82
3776 5609 1.805539 TCTGCTATGCGTCGTGTGC 60.806 57.895 0.00 0.00 0.00 4.57
3782 5615 2.048690 TGCGTCGTGTGCATAGCA 60.049 55.556 0.00 0.00 37.44 3.49
3783 5616 2.094066 TGCGTCGTGTGCATAGCAG 61.094 57.895 0.00 0.00 40.08 4.24
3784 5617 2.697425 CGTCGTGTGCATAGCAGC 59.303 61.111 0.00 0.00 40.08 5.25
3785 5618 1.807165 CGTCGTGTGCATAGCAGCT 60.807 57.895 0.00 0.00 40.08 4.24
3786 5619 1.746727 CGTCGTGTGCATAGCAGCTC 61.747 60.000 0.00 0.00 40.08 4.09
3787 5620 0.459237 GTCGTGTGCATAGCAGCTCT 60.459 55.000 0.00 0.00 40.08 4.09
3788 5621 0.179127 TCGTGTGCATAGCAGCTCTC 60.179 55.000 0.00 0.00 40.08 3.20
3789 5622 1.150567 CGTGTGCATAGCAGCTCTCC 61.151 60.000 0.00 0.00 40.08 3.71
3790 5623 0.177604 GTGTGCATAGCAGCTCTCCT 59.822 55.000 0.00 0.00 40.08 3.69
3791 5624 0.907486 TGTGCATAGCAGCTCTCCTT 59.093 50.000 0.00 0.00 40.08 3.36
3792 5625 2.110578 TGTGCATAGCAGCTCTCCTTA 58.889 47.619 0.00 0.00 40.08 2.69
3793 5626 2.102084 TGTGCATAGCAGCTCTCCTTAG 59.898 50.000 0.00 0.00 40.08 2.18
3794 5627 2.363680 GTGCATAGCAGCTCTCCTTAGA 59.636 50.000 0.00 0.00 40.08 2.10
3795 5628 3.033909 TGCATAGCAGCTCTCCTTAGAA 58.966 45.455 0.00 0.00 33.32 2.10
3796 5629 3.452264 TGCATAGCAGCTCTCCTTAGAAA 59.548 43.478 0.00 0.00 33.32 2.52
3797 5630 4.080919 TGCATAGCAGCTCTCCTTAGAAAA 60.081 41.667 0.00 0.00 33.32 2.29
3815 5648 9.872757 CTTAGAAAAATAGCTAGAGAGTACGAG 57.127 37.037 0.00 0.00 0.00 4.18
3816 5649 7.266922 AGAAAAATAGCTAGAGAGTACGAGG 57.733 40.000 0.00 0.00 0.00 4.63
3817 5650 7.055378 AGAAAAATAGCTAGAGAGTACGAGGA 58.945 38.462 0.00 0.00 0.00 3.71
4444 6518 4.828291 AATGCATTTTCTTTTCATCGCG 57.172 36.364 5.99 0.00 0.00 5.87
4452 6526 0.028505 CTTTTCATCGCGAGCATGGG 59.971 55.000 16.66 0.00 0.00 4.00
4496 6570 1.226030 GCGCAACGGGTCAACTAGTT 61.226 55.000 0.30 1.12 0.00 2.24
4497 6571 0.511221 CGCAACGGGTCAACTAGTTG 59.489 55.000 26.60 26.60 44.66 3.16
4498 6572 1.589803 GCAACGGGTCAACTAGTTGT 58.410 50.000 29.83 11.97 43.98 3.32
4499 6573 2.758009 GCAACGGGTCAACTAGTTGTA 58.242 47.619 29.83 16.86 43.98 2.41
4500 6574 3.332034 GCAACGGGTCAACTAGTTGTAT 58.668 45.455 29.83 12.89 43.98 2.29
4501 6575 4.497300 GCAACGGGTCAACTAGTTGTATA 58.503 43.478 29.83 12.66 43.98 1.47
4502 6576 5.114081 GCAACGGGTCAACTAGTTGTATAT 58.886 41.667 29.83 13.80 43.98 0.86
4503 6577 6.275335 GCAACGGGTCAACTAGTTGTATATA 58.725 40.000 29.83 11.97 43.98 0.86
4504 6578 6.757947 GCAACGGGTCAACTAGTTGTATATAA 59.242 38.462 29.83 11.29 43.98 0.98
4505 6579 7.278424 GCAACGGGTCAACTAGTTGTATATAAA 59.722 37.037 29.83 10.61 43.98 1.40
4506 6580 9.153721 CAACGGGTCAACTAGTTGTATATAAAA 57.846 33.333 29.83 9.92 41.16 1.52
4507 6581 9.723601 AACGGGTCAACTAGTTGTATATAAAAA 57.276 29.630 29.83 9.25 41.16 1.94
4508 6582 9.154847 ACGGGTCAACTAGTTGTATATAAAAAC 57.845 33.333 29.83 18.78 41.16 2.43
4509 6583 9.153721 CGGGTCAACTAGTTGTATATAAAAACA 57.846 33.333 29.83 8.09 41.16 2.83
4516 6590 9.211485 ACTAGTTGTATATAAAAACACTTGCGT 57.789 29.630 10.59 0.00 0.00 5.24
4520 6594 9.983431 GTTGTATATAAAAACACTTGCGTTTTC 57.017 29.630 2.56 0.00 45.85 2.29
4521 6595 9.731819 TTGTATATAAAAACACTTGCGTTTTCA 57.268 25.926 2.56 0.00 45.85 2.69
4522 6596 9.900710 TGTATATAAAAACACTTGCGTTTTCAT 57.099 25.926 2.56 0.00 45.85 2.57
4524 6598 8.810652 ATATAAAAACACTTGCGTTTTCATGT 57.189 26.923 2.56 0.00 45.85 3.21
4525 6599 5.854431 AAAAACACTTGCGTTTTCATGTT 57.146 30.435 2.56 0.00 45.85 2.71
4526 6600 6.952935 AAAAACACTTGCGTTTTCATGTTA 57.047 29.167 2.56 0.00 45.85 2.41
4527 6601 5.942325 AAACACTTGCGTTTTCATGTTAC 57.058 34.783 0.00 0.00 35.58 2.50
4528 6602 4.893424 ACACTTGCGTTTTCATGTTACT 57.107 36.364 0.00 0.00 0.00 2.24
4529 6603 5.994887 ACACTTGCGTTTTCATGTTACTA 57.005 34.783 0.00 0.00 0.00 1.82
4530 6604 5.985781 ACACTTGCGTTTTCATGTTACTAG 58.014 37.500 0.00 0.00 0.00 2.57
4531 6605 5.756347 ACACTTGCGTTTTCATGTTACTAGA 59.244 36.000 0.00 0.00 0.00 2.43
4532 6606 6.073765 ACACTTGCGTTTTCATGTTACTAGAG 60.074 38.462 0.00 0.00 0.00 2.43
4533 6607 6.145534 CACTTGCGTTTTCATGTTACTAGAGA 59.854 38.462 0.00 0.00 0.00 3.10
4534 6608 6.704493 ACTTGCGTTTTCATGTTACTAGAGAA 59.296 34.615 0.00 0.00 0.00 2.87
4535 6609 7.387948 ACTTGCGTTTTCATGTTACTAGAGAAT 59.612 33.333 0.00 0.00 0.00 2.40
4536 6610 8.766000 TTGCGTTTTCATGTTACTAGAGAATA 57.234 30.769 0.00 0.00 0.00 1.75
4537 6611 8.766000 TGCGTTTTCATGTTACTAGAGAATAA 57.234 30.769 0.00 0.00 0.00 1.40
4538 6612 9.210329 TGCGTTTTCATGTTACTAGAGAATAAA 57.790 29.630 0.00 0.00 0.00 1.40
4552 6626 9.847224 ACTAGAGAATAAAACCAAGAAGTTCAA 57.153 29.630 5.50 0.00 0.00 2.69
4555 6629 9.971922 AGAGAATAAAACCAAGAAGTTCAATTG 57.028 29.630 5.50 0.00 0.00 2.32
4556 6630 9.965824 GAGAATAAAACCAAGAAGTTCAATTGA 57.034 29.630 3.38 3.38 0.00 2.57
4569 6643 4.647424 TTCAATTGAACAAAAGCGGAGT 57.353 36.364 16.91 0.00 0.00 3.85
4570 6644 5.759506 TTCAATTGAACAAAAGCGGAGTA 57.240 34.783 16.91 0.00 0.00 2.59
4571 6645 5.356882 TCAATTGAACAAAAGCGGAGTAG 57.643 39.130 5.45 0.00 0.00 2.57
4572 6646 4.819630 TCAATTGAACAAAAGCGGAGTAGT 59.180 37.500 5.45 0.00 0.00 2.73
4573 6647 5.298276 TCAATTGAACAAAAGCGGAGTAGTT 59.702 36.000 5.45 0.00 0.00 2.24
4574 6648 5.767816 ATTGAACAAAAGCGGAGTAGTTT 57.232 34.783 0.00 0.00 0.00 2.66
4575 6649 4.545823 TGAACAAAAGCGGAGTAGTTTG 57.454 40.909 0.00 0.00 37.08 2.93
4576 6650 4.193090 TGAACAAAAGCGGAGTAGTTTGA 58.807 39.130 2.25 0.00 35.44 2.69
4577 6651 4.819630 TGAACAAAAGCGGAGTAGTTTGAT 59.180 37.500 2.25 0.00 35.44 2.57
4581 6655 7.448748 ACAAAAGCGGAGTAGTTTGATATTT 57.551 32.000 2.25 0.00 35.44 1.40
4587 6661 8.958119 AGCGGAGTAGTTTGATATTTATTTGA 57.042 30.769 0.00 0.00 0.00 2.69
4588 6662 9.391006 AGCGGAGTAGTTTGATATTTATTTGAA 57.609 29.630 0.00 0.00 0.00 2.69
4589 6663 9.997482 GCGGAGTAGTTTGATATTTATTTGAAA 57.003 29.630 0.00 0.00 0.00 2.69
4672 6746 9.331106 GAAGAAGTTCGATGTTTCTAAAAATCC 57.669 33.333 6.92 0.00 30.40 3.01
4673 6747 8.622948 AGAAGTTCGATGTTTCTAAAAATCCT 57.377 30.769 0.00 0.00 30.40 3.24
4674 6748 8.722394 AGAAGTTCGATGTTTCTAAAAATCCTC 58.278 33.333 0.00 0.00 30.40 3.71
4675 6749 7.379098 AGTTCGATGTTTCTAAAAATCCTCC 57.621 36.000 0.98 0.00 30.40 4.30
4676 6750 6.940298 AGTTCGATGTTTCTAAAAATCCTCCA 59.060 34.615 0.98 0.00 30.40 3.86
4677 6751 7.447238 AGTTCGATGTTTCTAAAAATCCTCCAA 59.553 33.333 0.98 0.00 30.40 3.53
4678 6752 7.938140 TCGATGTTTCTAAAAATCCTCCAAT 57.062 32.000 0.98 0.00 30.40 3.16
4679 6753 8.348285 TCGATGTTTCTAAAAATCCTCCAATT 57.652 30.769 0.98 0.00 30.40 2.32
4680 6754 8.802267 TCGATGTTTCTAAAAATCCTCCAATTT 58.198 29.630 0.98 0.00 30.40 1.82
4681 6755 9.423061 CGATGTTTCTAAAAATCCTCCAATTTT 57.577 29.630 0.98 0.00 39.83 1.82
4684 6758 9.541143 TGTTTCTAAAAATCCTCCAATTTTCAC 57.459 29.630 0.00 0.00 37.75 3.18
4685 6759 9.541143 GTTTCTAAAAATCCTCCAATTTTCACA 57.459 29.630 0.00 0.00 37.75 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
605 617 0.179037 ACTGCTCTGTTGCTCTGCAA 60.179 50.000 0.45 0.45 46.80 4.08
985 1054 1.043816 ATCATGTCCTACTGCCTCCG 58.956 55.000 0.00 0.00 0.00 4.63
3156 4983 6.014584 AGACATTGCCTCATATATACCAACGA 60.015 38.462 0.00 0.00 0.00 3.85
3660 5493 0.717784 CAGCTGTCGTGCATGTAGTG 59.282 55.000 5.25 4.17 34.99 2.74
3661 5494 1.016130 GCAGCTGTCGTGCATGTAGT 61.016 55.000 16.64 0.00 40.86 2.73
3662 5495 1.015607 TGCAGCTGTCGTGCATGTAG 61.016 55.000 16.64 7.15 45.96 2.74
3663 5496 1.005156 TGCAGCTGTCGTGCATGTA 60.005 52.632 16.64 0.00 45.96 2.29
3664 5497 2.281002 TGCAGCTGTCGTGCATGT 60.281 55.556 16.64 0.00 45.96 3.21
3668 5501 3.114616 ATCGTGCAGCTGTCGTGC 61.115 61.111 24.17 10.01 41.59 5.34
3669 5502 1.949015 GACATCGTGCAGCTGTCGTG 61.949 60.000 24.17 22.26 36.44 4.35
3670 5503 1.734477 GACATCGTGCAGCTGTCGT 60.734 57.895 24.17 14.00 36.44 4.34
3671 5504 1.284297 TTGACATCGTGCAGCTGTCG 61.284 55.000 16.64 19.39 46.01 4.35
3672 5505 1.061711 GATTGACATCGTGCAGCTGTC 59.938 52.381 16.64 13.62 44.02 3.51
3673 5506 1.081892 GATTGACATCGTGCAGCTGT 58.918 50.000 16.64 0.00 30.94 4.40
3674 5507 1.366679 AGATTGACATCGTGCAGCTG 58.633 50.000 10.11 10.11 34.17 4.24
3675 5508 2.819115 CTAGATTGACATCGTGCAGCT 58.181 47.619 0.00 0.00 34.17 4.24
3676 5509 1.260033 GCTAGATTGACATCGTGCAGC 59.740 52.381 0.00 0.00 34.61 5.25
3677 5510 1.863454 GGCTAGATTGACATCGTGCAG 59.137 52.381 0.00 0.00 35.52 4.41
3678 5511 1.206849 TGGCTAGATTGACATCGTGCA 59.793 47.619 0.00 0.00 35.52 4.57
3679 5512 1.939974 TGGCTAGATTGACATCGTGC 58.060 50.000 0.00 0.00 34.17 5.34
3684 5517 3.881688 GCAACAGATGGCTAGATTGACAT 59.118 43.478 0.00 0.00 38.59 3.06
3685 5518 3.273434 GCAACAGATGGCTAGATTGACA 58.727 45.455 0.00 0.00 0.00 3.58
3686 5519 3.064545 GTGCAACAGATGGCTAGATTGAC 59.935 47.826 0.00 0.00 36.32 3.18
3687 5520 3.054875 AGTGCAACAGATGGCTAGATTGA 60.055 43.478 0.00 0.00 41.43 2.57
3688 5521 3.276857 AGTGCAACAGATGGCTAGATTG 58.723 45.455 0.00 0.00 41.43 2.67
3689 5522 3.641434 AGTGCAACAGATGGCTAGATT 57.359 42.857 0.00 0.00 41.43 2.40
3690 5523 3.641434 AAGTGCAACAGATGGCTAGAT 57.359 42.857 0.00 0.00 41.43 1.98
3691 5524 3.769300 TCTAAGTGCAACAGATGGCTAGA 59.231 43.478 0.00 0.00 41.43 2.43
3692 5525 4.128925 TCTAAGTGCAACAGATGGCTAG 57.871 45.455 0.00 0.00 41.43 3.42
3693 5526 4.760530 ATCTAAGTGCAACAGATGGCTA 57.239 40.909 5.42 0.00 41.43 3.93
3694 5527 3.641434 ATCTAAGTGCAACAGATGGCT 57.359 42.857 5.42 0.00 41.43 4.75
3695 5528 7.524912 CATATTATCTAAGTGCAACAGATGGC 58.475 38.462 13.52 0.00 41.43 4.40
3696 5529 7.173735 TGCATATTATCTAAGTGCAACAGATGG 59.826 37.037 13.52 3.21 41.43 3.51
3697 5530 8.013947 GTGCATATTATCTAAGTGCAACAGATG 58.986 37.037 13.52 2.85 40.20 2.90
3698 5531 7.935755 AGTGCATATTATCTAAGTGCAACAGAT 59.064 33.333 11.85 9.98 40.20 2.90
3699 5532 7.225341 CAGTGCATATTATCTAAGTGCAACAGA 59.775 37.037 11.85 0.00 40.20 3.41
3700 5533 7.225341 TCAGTGCATATTATCTAAGTGCAACAG 59.775 37.037 11.85 7.36 40.20 3.16
3701 5534 7.047271 TCAGTGCATATTATCTAAGTGCAACA 58.953 34.615 11.85 1.42 40.20 3.33
3702 5535 7.482654 TCAGTGCATATTATCTAAGTGCAAC 57.517 36.000 11.85 8.31 40.20 4.17
3703 5536 8.091385 CATCAGTGCATATTATCTAAGTGCAA 57.909 34.615 11.85 2.08 40.20 4.08
3704 5537 7.662604 CATCAGTGCATATTATCTAAGTGCA 57.337 36.000 0.00 8.06 37.96 4.57
3730 5563 1.066929 TGCACGATACAGCACATCAGT 60.067 47.619 0.00 0.00 35.51 3.41
3731 5564 1.643880 TGCACGATACAGCACATCAG 58.356 50.000 0.00 0.00 35.51 2.90
3732 5565 3.830679 TGCACGATACAGCACATCA 57.169 47.368 0.00 0.00 35.51 3.07
3737 5570 1.393196 CGATTTGTGCACGATACAGCA 59.607 47.619 13.13 0.00 38.65 4.41
3738 5571 1.393539 ACGATTTGTGCACGATACAGC 59.606 47.619 13.13 0.00 0.00 4.40
3739 5572 2.923655 AGACGATTTGTGCACGATACAG 59.076 45.455 13.13 4.49 0.00 2.74
3740 5573 2.666022 CAGACGATTTGTGCACGATACA 59.334 45.455 13.13 0.00 0.00 2.29
3741 5574 2.534939 GCAGACGATTTGTGCACGATAC 60.535 50.000 13.13 6.65 37.16 2.24
3742 5575 1.658596 GCAGACGATTTGTGCACGATA 59.341 47.619 13.13 0.00 37.16 2.92
3743 5576 0.443869 GCAGACGATTTGTGCACGAT 59.556 50.000 13.13 8.85 37.16 3.73
3744 5577 0.599991 AGCAGACGATTTGTGCACGA 60.600 50.000 13.13 7.71 39.80 4.35
3745 5578 1.067693 TAGCAGACGATTTGTGCACG 58.932 50.000 13.13 1.70 39.80 5.34
3746 5579 2.789092 GCATAGCAGACGATTTGTGCAC 60.789 50.000 10.75 10.75 39.80 4.57
3747 5580 1.398041 GCATAGCAGACGATTTGTGCA 59.602 47.619 0.00 0.00 39.80 4.57
3748 5581 1.593070 CGCATAGCAGACGATTTGTGC 60.593 52.381 0.00 0.00 37.48 4.57
3749 5582 1.660607 ACGCATAGCAGACGATTTGTG 59.339 47.619 0.00 0.00 0.00 3.33
3750 5583 1.927174 GACGCATAGCAGACGATTTGT 59.073 47.619 0.00 0.00 0.00 2.83
3751 5584 1.071894 CGACGCATAGCAGACGATTTG 60.072 52.381 0.00 0.00 0.00 2.32
3752 5585 1.200483 CGACGCATAGCAGACGATTT 58.800 50.000 0.00 0.00 0.00 2.17
3753 5586 0.100682 ACGACGCATAGCAGACGATT 59.899 50.000 0.00 0.00 0.00 3.34
3754 5587 0.592500 CACGACGCATAGCAGACGAT 60.593 55.000 0.00 0.00 0.00 3.73
3755 5588 1.226295 CACGACGCATAGCAGACGA 60.226 57.895 0.00 0.00 0.00 4.20
3756 5589 1.514228 ACACGACGCATAGCAGACG 60.514 57.895 0.00 0.00 0.00 4.18
3757 5590 1.991430 CACACGACGCATAGCAGAC 59.009 57.895 0.00 0.00 0.00 3.51
3758 5591 1.805539 GCACACGACGCATAGCAGA 60.806 57.895 0.00 0.00 0.00 4.26
3759 5592 2.094066 TGCACACGACGCATAGCAG 61.094 57.895 0.00 0.00 33.55 4.24
3760 5593 2.048690 TGCACACGACGCATAGCA 60.049 55.556 0.00 0.00 33.55 3.49
3765 5598 2.048690 TGCTATGCACACGACGCA 60.049 55.556 0.00 0.00 44.94 5.24
3766 5599 2.697425 CTGCTATGCACACGACGC 59.303 61.111 0.00 0.00 33.79 5.19
3767 5600 1.746727 GAGCTGCTATGCACACGACG 61.747 60.000 0.15 0.00 33.79 5.12
3768 5601 0.459237 AGAGCTGCTATGCACACGAC 60.459 55.000 0.15 0.00 33.79 4.34
3769 5602 0.179127 GAGAGCTGCTATGCACACGA 60.179 55.000 0.00 0.00 33.79 4.35
3770 5603 1.150567 GGAGAGCTGCTATGCACACG 61.151 60.000 11.01 0.00 33.79 4.49
3771 5604 0.177604 AGGAGAGCTGCTATGCACAC 59.822 55.000 17.86 0.00 33.79 3.82
3772 5605 0.907486 AAGGAGAGCTGCTATGCACA 59.093 50.000 17.86 0.00 33.79 4.57
3773 5606 2.363680 TCTAAGGAGAGCTGCTATGCAC 59.636 50.000 17.86 0.00 33.79 4.57
3774 5607 2.670939 TCTAAGGAGAGCTGCTATGCA 58.329 47.619 17.86 0.00 36.92 3.96
3775 5608 3.742433 TTCTAAGGAGAGCTGCTATGC 57.258 47.619 7.77 7.77 31.77 3.14
3776 5609 7.095271 GCTATTTTTCTAAGGAGAGCTGCTATG 60.095 40.741 0.00 0.00 31.77 2.23
3777 5610 6.934083 GCTATTTTTCTAAGGAGAGCTGCTAT 59.066 38.462 0.15 0.00 31.77 2.97
3778 5611 6.098982 AGCTATTTTTCTAAGGAGAGCTGCTA 59.901 38.462 0.15 0.00 31.77 3.49
3779 5612 5.104569 AGCTATTTTTCTAAGGAGAGCTGCT 60.105 40.000 0.00 0.00 31.77 4.24
3780 5613 5.122519 AGCTATTTTTCTAAGGAGAGCTGC 58.877 41.667 0.00 0.00 31.77 5.25
3781 5614 7.721402 TCTAGCTATTTTTCTAAGGAGAGCTG 58.279 38.462 0.00 0.00 30.71 4.24
3782 5615 7.782644 TCTCTAGCTATTTTTCTAAGGAGAGCT 59.217 37.037 0.00 0.00 32.33 4.09
3783 5616 7.947282 TCTCTAGCTATTTTTCTAAGGAGAGC 58.053 38.462 0.00 0.00 31.77 4.09
3784 5617 9.131791 ACTCTCTAGCTATTTTTCTAAGGAGAG 57.868 37.037 19.70 19.70 44.67 3.20
3787 5620 8.838365 CGTACTCTCTAGCTATTTTTCTAAGGA 58.162 37.037 0.00 0.00 0.00 3.36
3788 5621 8.838365 TCGTACTCTCTAGCTATTTTTCTAAGG 58.162 37.037 0.00 0.00 0.00 2.69
3789 5622 9.872757 CTCGTACTCTCTAGCTATTTTTCTAAG 57.127 37.037 0.00 0.00 0.00 2.18
3790 5623 8.838365 CCTCGTACTCTCTAGCTATTTTTCTAA 58.162 37.037 0.00 0.00 0.00 2.10
3791 5624 8.209584 TCCTCGTACTCTCTAGCTATTTTTCTA 58.790 37.037 0.00 0.00 0.00 2.10
3792 5625 7.055378 TCCTCGTACTCTCTAGCTATTTTTCT 58.945 38.462 0.00 0.00 0.00 2.52
3793 5626 7.227116 TCTCCTCGTACTCTCTAGCTATTTTTC 59.773 40.741 0.00 0.00 0.00 2.29
3794 5627 7.055378 TCTCCTCGTACTCTCTAGCTATTTTT 58.945 38.462 0.00 0.00 0.00 1.94
3795 5628 6.593807 TCTCCTCGTACTCTCTAGCTATTTT 58.406 40.000 0.00 0.00 0.00 1.82
3796 5629 6.177310 TCTCCTCGTACTCTCTAGCTATTT 57.823 41.667 0.00 0.00 0.00 1.40
3797 5630 5.811796 TCTCCTCGTACTCTCTAGCTATT 57.188 43.478 0.00 0.00 0.00 1.73
3815 5648 9.454859 CCATTTATTTACTCCAGGAATATCTCC 57.545 37.037 0.00 0.00 45.81 3.71
3816 5649 8.951243 GCCATTTATTTACTCCAGGAATATCTC 58.049 37.037 0.00 0.00 0.00 2.75
3817 5650 8.673251 AGCCATTTATTTACTCCAGGAATATCT 58.327 33.333 0.00 0.00 0.00 1.98
4444 6518 0.746923 GACCCGGTAAACCCATGCTC 60.747 60.000 0.00 0.00 0.00 4.26
4452 6526 2.098831 GCGCAGAGACCCGGTAAAC 61.099 63.158 0.30 0.00 0.00 2.01
4511 6585 7.667043 ATTCTCTAGTAACATGAAAACGCAA 57.333 32.000 0.00 0.00 0.00 4.85
4512 6586 8.766000 TTATTCTCTAGTAACATGAAAACGCA 57.234 30.769 0.00 0.00 0.00 5.24
4526 6600 9.847224 TTGAACTTCTTGGTTTTATTCTCTAGT 57.153 29.630 0.00 0.00 0.00 2.57
4529 6603 9.971922 CAATTGAACTTCTTGGTTTTATTCTCT 57.028 29.630 0.00 0.00 0.00 3.10
4530 6604 9.965824 TCAATTGAACTTCTTGGTTTTATTCTC 57.034 29.630 5.45 0.00 0.00 2.87
4548 6622 4.647424 ACTCCGCTTTTGTTCAATTGAA 57.353 36.364 16.91 16.91 0.00 2.69
4549 6623 4.819630 ACTACTCCGCTTTTGTTCAATTGA 59.180 37.500 3.38 3.38 0.00 2.57
4550 6624 5.108385 ACTACTCCGCTTTTGTTCAATTG 57.892 39.130 0.00 0.00 0.00 2.32
4551 6625 5.767816 AACTACTCCGCTTTTGTTCAATT 57.232 34.783 0.00 0.00 0.00 2.32
4552 6626 5.298276 TCAAACTACTCCGCTTTTGTTCAAT 59.702 36.000 0.00 0.00 32.02 2.57
4553 6627 4.636648 TCAAACTACTCCGCTTTTGTTCAA 59.363 37.500 0.00 0.00 32.02 2.69
4554 6628 4.193090 TCAAACTACTCCGCTTTTGTTCA 58.807 39.130 0.00 0.00 32.02 3.18
4555 6629 4.806342 TCAAACTACTCCGCTTTTGTTC 57.194 40.909 0.00 0.00 32.02 3.18
4556 6630 7.448748 AATATCAAACTACTCCGCTTTTGTT 57.551 32.000 0.00 0.00 32.02 2.83
4557 6631 7.448748 AAATATCAAACTACTCCGCTTTTGT 57.551 32.000 0.00 0.00 32.02 2.83
4561 6635 9.391006 TCAAATAAATATCAAACTACTCCGCTT 57.609 29.630 0.00 0.00 0.00 4.68
4562 6636 8.958119 TCAAATAAATATCAAACTACTCCGCT 57.042 30.769 0.00 0.00 0.00 5.52
4563 6637 9.997482 TTTCAAATAAATATCAAACTACTCCGC 57.003 29.630 0.00 0.00 0.00 5.54
4646 6720 9.331106 GGATTTTTAGAAACATCGAACTTCTTC 57.669 33.333 10.99 4.40 31.91 2.87
4647 6721 9.067986 AGGATTTTTAGAAACATCGAACTTCTT 57.932 29.630 10.99 0.00 31.91 2.52
4648 6722 8.622948 AGGATTTTTAGAAACATCGAACTTCT 57.377 30.769 10.66 10.66 33.97 2.85
4649 6723 7.963465 GGAGGATTTTTAGAAACATCGAACTTC 59.037 37.037 0.00 0.00 0.00 3.01
4650 6724 7.447238 TGGAGGATTTTTAGAAACATCGAACTT 59.553 33.333 0.00 0.00 0.00 2.66
4651 6725 6.940298 TGGAGGATTTTTAGAAACATCGAACT 59.060 34.615 0.00 0.00 0.00 3.01
4652 6726 7.141100 TGGAGGATTTTTAGAAACATCGAAC 57.859 36.000 0.00 0.00 0.00 3.95
4653 6727 7.753309 TTGGAGGATTTTTAGAAACATCGAA 57.247 32.000 0.00 0.00 0.00 3.71
4654 6728 7.938140 ATTGGAGGATTTTTAGAAACATCGA 57.062 32.000 0.00 0.00 0.00 3.59
4655 6729 8.986477 AAATTGGAGGATTTTTAGAAACATCG 57.014 30.769 0.00 0.00 0.00 3.84
4658 6732 9.541143 GTGAAAATTGGAGGATTTTTAGAAACA 57.459 29.630 0.00 0.00 38.85 2.83
4659 6733 9.541143 TGTGAAAATTGGAGGATTTTTAGAAAC 57.459 29.630 0.00 0.00 38.85 2.78


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

AutoCloner maintained by Alex Coulton.