Multiple sequence alignment - TraesCS5D01G261200

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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 TraesCS5D01G261200 chr5D 100.000 4758 0 0 1 4758 367591307 367586550 0.000000e+00 8787.0
1 TraesCS5D01G261200 chr5D 97.545 448 10 1 820 1267 367441771 367441325 0.000000e+00 765.0
2 TraesCS5D01G261200 chr5D 89.391 575 29 10 273 824 423848548 423847983 0.000000e+00 695.0
3 TraesCS5D01G261200 chr5D 87.336 608 63 6 2536 3137 367437231 367436632 0.000000e+00 684.0
4 TraesCS5D01G261200 chr5D 81.296 679 74 24 3308 3942 367436543 367435874 7.110000e-138 501.0
5 TraesCS5D01G261200 chr5D 85.385 260 29 7 2274 2530 367441134 367440881 1.310000e-65 261.0
6 TraesCS5D01G261200 chr5D 94.340 159 9 0 98 256 423848900 423848742 1.320000e-60 244.0
7 TraesCS5D01G261200 chr5D 92.661 109 6 2 3173 3279 399614621 399614513 6.380000e-34 156.0
8 TraesCS5D01G261200 chr5D 90.385 104 9 1 3173 3275 123085705 123085808 8.310000e-28 135.0
9 TraesCS5D01G261200 chr5B 92.080 2866 132 50 1948 4757 434921205 434918379 0.000000e+00 3947.0
10 TraesCS5D01G261200 chr5B 97.437 1951 38 6 1 1950 434923398 434921459 0.000000e+00 3315.0
11 TraesCS5D01G261200 chr5B 88.449 606 60 7 2536 3137 434827314 434826715 0.000000e+00 723.0
12 TraesCS5D01G261200 chr5B 94.889 450 19 2 818 1267 434830653 434830208 0.000000e+00 701.0
13 TraesCS5D01G261200 chr5B 80.149 670 68 30 3314 3942 434826618 434825973 1.570000e-119 440.0
14 TraesCS5D01G261200 chr5B 84.689 418 54 9 4338 4748 550218425 550218839 4.430000e-110 409.0
15 TraesCS5D01G261200 chr5B 82.424 330 37 18 2205 2530 434830044 434829732 7.850000e-68 268.0
16 TraesCS5D01G261200 chr5B 89.326 178 18 1 4164 4341 51647267 51647091 6.200000e-54 222.0
17 TraesCS5D01G261200 chr5B 92.661 109 6 2 3173 3279 479726934 479726826 6.380000e-34 156.0
18 TraesCS5D01G261200 chr5A 95.732 1570 50 9 1919 3474 469422562 469420996 0.000000e+00 2512.0
19 TraesCS5D01G261200 chr5A 95.833 1080 35 5 827 1904 469423616 469422545 0.000000e+00 1736.0
20 TraesCS5D01G261200 chr5A 94.073 658 32 4 3493 4150 469420941 469420291 0.000000e+00 992.0
21 TraesCS5D01G261200 chr5A 88.430 605 65 4 2536 3137 469111579 469110977 0.000000e+00 725.0
22 TraesCS5D01G261200 chr5A 95.089 448 17 3 820 1267 469113707 469113265 0.000000e+00 701.0
23 TraesCS5D01G261200 chr5A 92.961 483 28 3 1351 1829 456293853 456293373 0.000000e+00 699.0
24 TraesCS5D01G261200 chr5A 89.327 431 24 5 820 1245 469491848 469491435 5.460000e-144 521.0
25 TraesCS5D01G261200 chr5A 94.833 329 17 0 490 818 470350004 470350332 9.130000e-142 514.0
26 TraesCS5D01G261200 chr5A 93.846 325 17 3 1948 2271 456286309 456285987 1.990000e-133 486.0
27 TraesCS5D01G261200 chr5A 94.265 279 16 0 827 1105 456294132 456293854 1.220000e-115 427.0
28 TraesCS5D01G261200 chr5A 86.494 385 37 7 3492 3865 469110655 469110275 4.430000e-110 409.0
29 TraesCS5D01G261200 chr5A 89.888 178 17 1 4164 4341 138250004 138250180 1.330000e-55 228.0
30 TraesCS5D01G261200 chr5A 95.238 126 6 0 1825 1950 456286714 456286589 2.900000e-47 200.0
31 TraesCS5D01G261200 chr3D 98.674 377 4 1 445 820 464059871 464059495 0.000000e+00 667.0
32 TraesCS5D01G261200 chr3D 97.656 256 6 0 1 256 464060680 464060425 1.570000e-119 440.0
33 TraesCS5D01G261200 chr3D 93.989 183 6 2 272 454 464060110 464059933 6.070000e-69 272.0
34 TraesCS5D01G261200 chr3D 86.000 100 7 3 1580 1673 424019880 424019978 3.030000e-17 100.0
35 TraesCS5D01G261200 chr2D 98.158 380 6 1 445 824 538392360 538392738 0.000000e+00 662.0
36 TraesCS5D01G261200 chr2D 98.047 256 5 0 1 256 538391545 538391800 3.380000e-121 446.0
37 TraesCS5D01G261200 chr2D 92.857 210 13 2 47 256 548897578 548897785 2.150000e-78 303.0
38 TraesCS5D01G261200 chr2D 95.604 182 5 1 273 454 538392120 538392298 6.020000e-74 289.0
39 TraesCS5D01G261200 chr2D 92.896 183 7 3 272 454 110055380 110055204 1.310000e-65 261.0
40 TraesCS5D01G261200 chr2D 94.969 159 8 0 98 256 110055732 110055574 2.840000e-62 250.0
41 TraesCS5D01G261200 chr7D 94.328 335 19 0 490 824 272824707 272824373 9.130000e-142 514.0
42 TraesCS5D01G261200 chr7D 93.433 335 18 2 490 824 521644753 521645083 1.190000e-135 494.0
43 TraesCS5D01G261200 chr7D 85.577 416 55 5 4344 4757 357904148 357904560 9.460000e-117 431.0
44 TraesCS5D01G261200 chr7D 95.473 243 11 0 14 256 580058221 580057979 5.770000e-104 388.0
45 TraesCS5D01G261200 chr7D 93.416 243 15 1 14 256 407792232 407791991 4.530000e-95 359.0
46 TraesCS5D01G261200 chr7D 92.308 182 8 2 273 454 521644500 521644675 2.200000e-63 254.0
47 TraesCS5D01G261200 chr7D 93.711 159 10 0 98 256 272825314 272825156 6.150000e-59 239.0
48 TraesCS5D01G261200 chr6D 94.260 331 19 0 490 820 445174727 445174397 1.530000e-139 507.0
49 TraesCS5D01G261200 chr3A 93.433 335 18 2 490 824 726000466 726000136 1.190000e-135 494.0
50 TraesCS5D01G261200 chr3A 91.444 187 10 2 273 459 726000719 726000539 7.900000e-63 252.0
51 TraesCS5D01G261200 chr3B 85.919 419 51 4 4344 4757 369370334 369370749 1.570000e-119 440.0
52 TraesCS5D01G261200 chr3B 88.889 180 19 1 4165 4344 757350958 757350780 2.230000e-53 220.0
53 TraesCS5D01G261200 chr3B 91.139 158 12 1 4158 4315 493483173 493483328 3.730000e-51 213.0
54 TraesCS5D01G261200 chr3B 88.268 179 20 1 4163 4341 557935960 557936137 3.730000e-51 213.0
55 TraesCS5D01G261200 chr3B 88.202 178 18 3 4164 4341 697088960 697088786 4.820000e-50 209.0
56 TraesCS5D01G261200 chr1B 85.176 425 57 5 4338 4757 623575948 623576371 9.460000e-117 431.0
57 TraesCS5D01G261200 chr1B 85.714 91 13 0 1861 1951 236956461 236956371 3.920000e-16 97.1
58 TraesCS5D01G261200 chr2B 85.158 411 54 6 4344 4748 129905895 129905486 9.530000e-112 414.0
59 TraesCS5D01G261200 chr2B 84.634 410 56 5 4344 4748 155079785 155080192 7.420000e-108 401.0
60 TraesCS5D01G261200 chr2B 87.978 183 17 5 4162 4341 471116807 471116627 1.340000e-50 211.0
61 TraesCS5D01G261200 chr2B 88.333 180 16 5 4164 4341 788154492 788154316 1.340000e-50 211.0
62 TraesCS5D01G261200 chr2B 91.429 105 9 0 3172 3276 91040307 91040411 1.380000e-30 145.0
63 TraesCS5D01G261200 chr1D 87.173 382 20 10 273 631 110580510 110580135 1.590000e-109 407.0
64 TraesCS5D01G261200 chr1D 100.000 29 0 0 1867 1895 240591978 240591950 2.000000e-03 54.7
65 TraesCS5D01G261200 chr7A 84.597 409 58 4 4344 4748 601905632 601905225 7.420000e-108 401.0
66 TraesCS5D01G261200 chr7A 88.268 179 18 3 4164 4341 568776072 568775896 1.340000e-50 211.0
67 TraesCS5D01G261200 chr6B 84.634 410 56 5 4344 4748 156803393 156802986 7.420000e-108 401.0
68 TraesCS5D01G261200 chr6B 84.466 412 56 7 4344 4748 6825549 6825139 2.670000e-107 399.0
69 TraesCS5D01G261200 chr7B 92.350 183 8 3 272 454 332401269 332401445 6.110000e-64 255.0
70 TraesCS5D01G261200 chrUn 89.831 177 17 1 4165 4341 312417612 312417787 4.790000e-55 226.0
71 TraesCS5D01G261200 chrUn 89.831 177 17 1 4165 4341 312421443 312421618 4.790000e-55 226.0
72 TraesCS5D01G261200 chrUn 89.831 177 17 1 4165 4341 477159432 477159257 4.790000e-55 226.0
73 TraesCS5D01G261200 chr1A 89.831 177 17 1 4165 4341 65335897 65335722 4.790000e-55 226.0
74 TraesCS5D01G261200 chr1A 89.831 177 17 1 4165 4341 103444791 103444966 4.790000e-55 226.0
75 TraesCS5D01G261200 chr1A 94.565 92 5 0 3177 3268 520812257 520812348 4.960000e-30 143.0
76 TraesCS5D01G261200 chr4D 92.308 104 7 1 3173 3275 32019551 32019448 3.840000e-31 147.0
77 TraesCS5D01G261200 chr4D 92.308 104 7 1 3173 3275 32019733 32019630 3.840000e-31 147.0
78 TraesCS5D01G261200 chr4A 81.609 87 12 1 1865 1951 581490693 581490611 8.540000e-08 69.4


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 TraesCS5D01G261200 chr5D 367586550 367591307 4757 True 8787.000000 8787 100.000000 1 4758 1 chr5D.!!$R1 4757
1 TraesCS5D01G261200 chr5D 367435874 367441771 5897 True 552.750000 765 87.890500 820 3942 4 chr5D.!!$R3 3122
2 TraesCS5D01G261200 chr5D 423847983 423848900 917 True 469.500000 695 91.865500 98 824 2 chr5D.!!$R4 726
3 TraesCS5D01G261200 chr5B 434918379 434923398 5019 True 3631.000000 3947 94.758500 1 4757 2 chr5B.!!$R4 4756
4 TraesCS5D01G261200 chr5B 434825973 434830653 4680 True 533.000000 723 86.477750 818 3942 4 chr5B.!!$R3 3124
5 TraesCS5D01G261200 chr5A 469420291 469423616 3325 True 1746.666667 2512 95.212667 827 4150 3 chr5A.!!$R5 3323
6 TraesCS5D01G261200 chr5A 469110275 469113707 3432 True 611.666667 725 90.004333 820 3865 3 chr5A.!!$R4 3045
7 TraesCS5D01G261200 chr5A 456293373 456294132 759 True 563.000000 699 93.613000 827 1829 2 chr5A.!!$R3 1002
8 TraesCS5D01G261200 chr5A 456285987 456286714 727 True 343.000000 486 94.542000 1825 2271 2 chr5A.!!$R2 446
9 TraesCS5D01G261200 chr3D 464059495 464060680 1185 True 459.666667 667 96.773000 1 820 3 chr3D.!!$R1 819
10 TraesCS5D01G261200 chr2D 538391545 538392738 1193 False 465.666667 662 97.269667 1 824 3 chr2D.!!$F2 823
11 TraesCS5D01G261200 chr2D 110055204 110055732 528 True 255.500000 261 93.932500 98 454 2 chr2D.!!$R1 356
12 TraesCS5D01G261200 chr7D 272824373 272825314 941 True 376.500000 514 94.019500 98 824 2 chr7D.!!$R3 726
13 TraesCS5D01G261200 chr7D 521644500 521645083 583 False 374.000000 494 92.870500 273 824 2 chr7D.!!$F2 551
14 TraesCS5D01G261200 chr3A 726000136 726000719 583 True 373.000000 494 92.438500 273 824 2 chr3A.!!$R1 551
15 TraesCS5D01G261200 chrUn 312417612 312421618 4006 False 226.000000 226 89.831000 4165 4341 2 chrUn.!!$F1 176

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
100 101 5.220970 CCCAGTGAATGTTCAACGTTACTTT 60.221 40.0 0.00 0.99 39.21 2.66 F
1852 2280 1.682740 CCCTGTCATGCATGCACATA 58.317 50.0 25.37 10.12 0.00 2.29 F
2738 7440 2.300437 AGACCAAGAAAGGAGAGAACGG 59.700 50.0 0.00 0.00 0.00 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2048 3015 0.107263 TTCCAGTGACAAGTGCTGCA 60.107 50.0 0.0 0.0 0.00 4.41 R
3506 8300 2.097110 ACCCTACCAACACTGAGACA 57.903 50.0 0.0 0.0 0.00 3.41 R
4229 9037 0.977395 CTTCCAGACGGGTCTCCTTT 59.023 55.0 0.0 0.0 37.98 3.11 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
100 101 5.220970 CCCAGTGAATGTTCAACGTTACTTT 60.221 40.000 0.00 0.99 39.21 2.66
1303 1727 4.168871 CCCTTCAATCCCTCCCTTAATTCT 59.831 45.833 0.00 0.00 0.00 2.40
1781 2208 8.856103 AGTTCTAAGTTATAGCTTCTCCATCTC 58.144 37.037 4.97 0.00 0.00 2.75
1846 2274 1.977056 ATACAGCCCTGTCATGCATG 58.023 50.000 21.07 21.07 43.74 4.06
1852 2280 1.682740 CCCTGTCATGCATGCACATA 58.317 50.000 25.37 10.12 0.00 2.29
1971 2938 6.840780 AATTGTATGCTAAGGTTCAAGCTT 57.159 33.333 7.11 7.11 39.53 3.74
1974 2941 5.560724 TGTATGCTAAGGTTCAAGCTTTCT 58.439 37.500 7.25 0.00 39.53 2.52
1980 2947 5.470437 GCTAAGGTTCAAGCTTTCTTACACT 59.530 40.000 7.25 0.00 37.16 3.55
1981 2948 6.649557 GCTAAGGTTCAAGCTTTCTTACACTA 59.350 38.462 7.25 0.00 37.16 2.74
2016 2983 7.439157 TGAGCGCATTCATAGCTAATAATTT 57.561 32.000 11.47 0.00 41.84 1.82
2059 3026 5.520376 AAAGTTTCTAATGCAGCACTTGT 57.480 34.783 0.00 0.00 31.39 3.16
2591 7286 5.679127 GCCAGATTATCTACCTACCGCATAC 60.679 48.000 0.00 0.00 0.00 2.39
2593 7288 6.827251 CCAGATTATCTACCTACCGCATACTA 59.173 42.308 0.00 0.00 0.00 1.82
2594 7289 7.201714 CCAGATTATCTACCTACCGCATACTAC 60.202 44.444 0.00 0.00 0.00 2.73
2606 7301 4.332543 ACCGCATACTACACATGTCAATTG 59.667 41.667 0.00 0.00 0.00 2.32
2738 7440 2.300437 AGACCAAGAAAGGAGAGAACGG 59.700 50.000 0.00 0.00 0.00 4.44
3070 7773 9.067986 TCATAGTAGATACTACTGTTCCATGTG 57.932 37.037 18.03 3.32 41.18 3.21
3133 7836 5.163530 TGTGCATTTATGGTGCTAGATTTGG 60.164 40.000 0.00 0.00 42.92 3.28
3137 7863 7.287466 TGCATTTATGGTGCTAGATTTGGTTAT 59.713 33.333 0.00 0.00 42.92 1.89
3283 8009 7.120726 GCACTTGGTACACCTTTTATATTCTGT 59.879 37.037 0.00 0.00 39.29 3.41
3284 8010 9.661563 CACTTGGTACACCTTTTATATTCTGTA 57.338 33.333 0.00 0.00 39.29 2.74
3312 8047 6.427853 TGATTTGAGTCATTGTGGTAACTCTG 59.572 38.462 0.00 0.00 39.09 3.35
3329 8064 9.804977 GGTAACTCTGGAGTATAATAGAACCTA 57.195 37.037 3.54 0.00 41.58 3.08
3375 8110 4.370917 ACAAGCTTGCAGTTTTTGGTATG 58.629 39.130 26.27 0.00 0.00 2.39
3487 8271 3.057596 TGCTTGTCGGATCAATTTTGTCC 60.058 43.478 0.00 0.00 0.00 4.02
3506 8300 2.237143 TCCTGTCCGCATCTCTTTTCAT 59.763 45.455 0.00 0.00 0.00 2.57
3575 8375 3.187842 GTGTTGATTTTACCCACGTCCTC 59.812 47.826 0.00 0.00 0.00 3.71
3991 8799 4.645535 GGTTCCTTGCTATGCTCATATCA 58.354 43.478 0.00 0.00 0.00 2.15
4047 8855 0.103876 AAGTGAAGGGAAGGAGGGGT 60.104 55.000 0.00 0.00 0.00 4.95
4066 8874 5.249852 AGGGGTTGTATACTTTCAGCAGTTA 59.750 40.000 4.17 0.00 0.00 2.24
4159 8967 1.194772 GCTTGCGTACTTTGAGTGGAC 59.805 52.381 0.00 0.00 0.00 4.02
4229 9037 0.179059 ATGCACCACAACTCACGTCA 60.179 50.000 0.00 0.00 0.00 4.35
4243 9051 0.826672 ACGTCAAAGGAGACCCGTCT 60.827 55.000 0.00 0.00 43.78 4.18
4334 9164 1.940883 ATTGTAAGGGAGCGCGACGA 61.941 55.000 12.10 0.00 0.00 4.20
4342 9739 1.645455 GAGCGCGACGACTATGGTA 59.355 57.895 12.10 0.00 0.00 3.25
4394 9791 5.810587 AGACGAAGACAATGCGTGTATAAAT 59.189 36.000 0.00 0.00 41.96 1.40
4508 9905 2.146342 GATGAAATCGGATGGCGATGT 58.854 47.619 0.00 0.00 31.13 3.06
4531 9928 5.922544 GTCCCAAACTTCAAAGATGTTCATG 59.077 40.000 0.00 0.00 30.49 3.07
4538 9935 5.702670 ACTTCAAAGATGTTCATGTCGACAT 59.297 36.000 25.18 25.18 39.09 3.06
4573 9973 5.560722 TGTAGGTCACTTCTCCATTTGAA 57.439 39.130 0.00 0.00 0.00 2.69
4597 9997 8.827177 AAGACATGTTAATTAAGTTCTCGACA 57.173 30.769 0.00 0.00 0.00 4.35
4598 9998 8.467402 AGACATGTTAATTAAGTTCTCGACAG 57.533 34.615 0.00 0.00 0.00 3.51
4670 10703 5.107182 TGTGTGCCGAAAAATAATTTGCATG 60.107 36.000 0.00 0.00 30.62 4.06
4671 10704 5.119898 GTGTGCCGAAAAATAATTTGCATGA 59.880 36.000 0.00 0.00 30.62 3.07
4690 10723 5.801947 GCATGAATTTTGTTCTAAGCACGAT 59.198 36.000 0.00 0.00 0.00 3.73
4691 10724 6.237384 GCATGAATTTTGTTCTAAGCACGATG 60.237 38.462 0.00 0.00 0.00 3.84
4692 10725 6.312399 TGAATTTTGTTCTAAGCACGATGT 57.688 33.333 0.00 0.00 0.00 3.06
4693 10726 6.370593 TGAATTTTGTTCTAAGCACGATGTC 58.629 36.000 0.00 0.00 0.00 3.06
4694 10727 5.940192 ATTTTGTTCTAAGCACGATGTCA 57.060 34.783 0.00 0.00 0.00 3.58
4704 12162 1.806542 GCACGATGTCAACACTCCATT 59.193 47.619 0.00 0.00 0.00 3.16
4724 12182 6.649973 TCCATTGGTCATTTGCATGTTTTTAG 59.350 34.615 1.86 0.00 0.00 1.85
4757 12215 8.001881 AGTATATATCGGCCATCTTTACTCTG 57.998 38.462 2.24 0.00 0.00 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 101 4.790765 AGAAGAATCTGATGTGACACGA 57.209 40.909 0.22 0.00 33.59 4.35
461 858 4.042187 AGAAAAGTCCTAGGCAAGACATGT 59.958 41.667 2.96 0.00 35.38 3.21
1303 1727 3.618997 GCTGGGAGAGGATAAACGAACAA 60.619 47.826 0.00 0.00 0.00 2.83
1781 2208 1.545651 GGGACAGTGGAAGGAACAAGG 60.546 57.143 0.00 0.00 0.00 3.61
1814 2242 2.864343 GGGCTGTATTACGCAGTTGTAG 59.136 50.000 11.03 0.00 37.78 2.74
1921 2349 5.578336 CGATCAATGTACTGAACTGACATGT 59.422 40.000 0.00 0.00 34.10 3.21
1971 2938 8.443160 CGCTCATTCAGAATTTTAGTGTAAGAA 58.557 33.333 0.00 0.00 0.00 2.52
1974 2941 6.148645 TGCGCTCATTCAGAATTTTAGTGTAA 59.851 34.615 9.73 0.00 0.00 2.41
2016 2983 7.040478 AACTTTAGTTGAATGCATAAGACTGCA 60.040 33.333 15.21 0.73 45.34 4.41
2048 3015 0.107263 TTCCAGTGACAAGTGCTGCA 60.107 50.000 0.00 0.00 0.00 4.41
2299 3266 7.684937 AAGAAATCTTGGAATGTCTCTTCTG 57.315 36.000 0.00 0.00 34.38 3.02
2499 3470 8.908786 TTATCATGAAAATCTGGGTGACTATC 57.091 34.615 0.00 0.00 0.00 2.08
2667 7362 6.306987 ACATGGAAAAGGTTCAGAACATACT 58.693 36.000 15.36 0.32 35.25 2.12
2738 7440 6.704050 GCTCAGGGTGACTATTCTTTATCTTC 59.296 42.308 0.00 0.00 0.00 2.87
3070 7773 9.046296 AGTTATATATAGCAGCAAGTTGTTGAC 57.954 33.333 22.26 13.39 35.46 3.18
3133 7836 9.668497 AAATAACTAAAGAGGACACAGGATAAC 57.332 33.333 0.00 0.00 0.00 1.89
3137 7863 6.043938 ACCAAATAACTAAAGAGGACACAGGA 59.956 38.462 0.00 0.00 0.00 3.86
3284 8010 9.113838 GAGTTACCACAATGACTCAAATCATAT 57.886 33.333 0.00 0.00 38.40 1.78
3297 8023 9.698309 CTATTATACTCCAGAGTTACCACAATG 57.302 37.037 5.49 0.00 42.54 2.82
3329 8064 7.615365 TGTTTCCTCAAGATGTATTTTGGCTAT 59.385 33.333 0.00 0.00 0.00 2.97
3407 8154 4.437930 GCATGTTTGAGTGACTAATGCCTC 60.438 45.833 0.00 0.00 0.00 4.70
3448 8199 8.832521 CCGACAAGCAATACAATATAAACCTTA 58.167 33.333 0.00 0.00 0.00 2.69
3460 8211 5.895636 AAATTGATCCGACAAGCAATACA 57.104 34.783 0.00 0.00 33.22 2.29
3461 8212 6.092748 ACAAAATTGATCCGACAAGCAATAC 58.907 36.000 0.00 0.00 33.22 1.89
3462 8213 6.266168 ACAAAATTGATCCGACAAGCAATA 57.734 33.333 0.00 0.00 33.22 1.90
3463 8214 5.138125 ACAAAATTGATCCGACAAGCAAT 57.862 34.783 0.00 0.00 33.22 3.56
3466 8217 3.191371 AGGACAAAATTGATCCGACAAGC 59.809 43.478 0.00 0.00 35.17 4.01
3467 8218 4.216257 ACAGGACAAAATTGATCCGACAAG 59.784 41.667 0.00 0.00 35.17 3.16
3487 8271 3.005554 ACATGAAAAGAGATGCGGACAG 58.994 45.455 0.00 0.00 0.00 3.51
3506 8300 2.097110 ACCCTACCAACACTGAGACA 57.903 50.000 0.00 0.00 0.00 3.41
3595 8395 5.806654 ACCTTCAAAATGTATGCAGGTTT 57.193 34.783 0.00 0.00 40.82 3.27
3954 8762 5.242393 GCAAGGAACCGTATGTAGGAGTATA 59.758 44.000 0.00 0.00 0.00 1.47
4010 8818 5.601662 TCACTTATAATCCACTACTGCTGC 58.398 41.667 0.00 0.00 0.00 5.25
4047 8855 7.718272 AACGTTAACTGCTGAAAGTATACAA 57.282 32.000 0.00 0.00 35.30 2.41
4066 8874 3.056749 AGAACGCCTGAGATCTAAACGTT 60.057 43.478 16.67 16.67 44.03 3.99
4229 9037 0.977395 CTTCCAGACGGGTCTCCTTT 59.023 55.000 0.00 0.00 37.98 3.11
4315 9145 1.518572 CGTCGCGCTCCCTTACAAT 60.519 57.895 5.56 0.00 0.00 2.71
4316 9146 2.126228 CGTCGCGCTCCCTTACAA 60.126 61.111 5.56 0.00 0.00 2.41
4317 9147 3.057548 TCGTCGCGCTCCCTTACA 61.058 61.111 5.56 0.00 0.00 2.41
4394 9791 5.649395 CCAAGACAGCCTCATATGAGAAAAA 59.351 40.000 30.40 0.00 44.74 1.94
4508 9905 5.598005 ACATGAACATCTTTGAAGTTTGGGA 59.402 36.000 0.00 0.00 0.00 4.37
4531 9928 5.108385 ACATGAAAAAGTTCCATGTCGAC 57.892 39.130 9.11 9.11 33.76 4.20
4538 9935 5.690865 AGTGACCTACATGAAAAAGTTCCA 58.309 37.500 0.00 0.00 32.28 3.53
4539 9936 6.486993 AGAAGTGACCTACATGAAAAAGTTCC 59.513 38.462 0.00 0.00 32.28 3.62
4573 9973 8.088981 ACTGTCGAGAACTTAATTAACATGTCT 58.911 33.333 0.00 0.00 0.00 3.41
4589 9989 2.807967 CAGATTTTGGCACTGTCGAGAA 59.192 45.455 0.00 0.00 0.00 2.87
4670 10703 6.370593 TGACATCGTGCTTAGAACAAAATTC 58.629 36.000 0.00 0.00 0.00 2.17
4671 10704 6.312399 TGACATCGTGCTTAGAACAAAATT 57.688 33.333 0.00 0.00 0.00 1.82
4690 10723 3.507162 ATGACCAATGGAGTGTTGACA 57.493 42.857 6.16 0.00 0.00 3.58
4691 10724 4.549458 CAAATGACCAATGGAGTGTTGAC 58.451 43.478 6.16 0.00 0.00 3.18
4692 10725 3.005684 GCAAATGACCAATGGAGTGTTGA 59.994 43.478 6.16 0.00 0.00 3.18
4693 10726 3.243805 TGCAAATGACCAATGGAGTGTTG 60.244 43.478 6.16 6.24 0.00 3.33
4694 10727 2.964464 TGCAAATGACCAATGGAGTGTT 59.036 40.909 6.16 0.00 0.00 3.32
4704 12162 5.537188 GTCCTAAAAACATGCAAATGACCA 58.463 37.500 0.00 0.00 0.00 4.02
4724 12182 5.762825 TGGCCGATATATACTTATCGTCC 57.237 43.478 12.47 10.44 45.62 4.79


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

AutoCloner maintained by Alex Coulton.