Multiple sequence alignment - TraesCS3B01G607800

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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 TraesCS3B01G607800 chr3B 100.000 2343 0 0 1 2343 826262565 826260223 0.000000e+00 4327.0
1 TraesCS3B01G607800 chr3B 99.739 765 2 0 1579 2343 826244880 826244116 0.000000e+00 1402.0
2 TraesCS3B01G607800 chr3B 79.039 1145 179 34 1085 2199 764685608 764686721 0.000000e+00 728.0
3 TraesCS3B01G607800 chr3B 80.151 796 123 22 813 1584 764053290 764052506 1.570000e-156 562.0
4 TraesCS3B01G607800 chr3B 81.399 586 94 12 890 1465 764049551 764048971 4.560000e-127 464.0
5 TraesCS3B01G607800 chr3B 75.707 601 106 25 881 1467 813373481 813372907 4.960000e-67 265.0
6 TraesCS3B01G607800 chr3D 93.837 860 51 2 734 1591 612763197 612764056 0.000000e+00 1293.0
7 TraesCS3B01G607800 chr3D 76.167 600 98 26 881 1465 615098074 615097505 8.250000e-70 274.0
8 TraesCS3B01G607800 chr3D 91.304 184 10 2 478 655 612763054 612763237 1.800000e-61 246.0
9 TraesCS3B01G607800 chr1B 89.277 429 34 4 24 440 530439466 530439894 5.730000e-146 527.0
10 TraesCS3B01G607800 chr1B 87.500 216 21 5 229 440 3274698 3274485 6.470000e-61 244.0
11 TraesCS3B01G607800 chr1B 87.500 216 21 5 229 440 3288046 3287833 6.470000e-61 244.0
12 TraesCS3B01G607800 chr1B 80.612 98 17 2 1001 1097 13087080 13087176 8.980000e-10 75.0
13 TraesCS3B01G607800 chr1B 78.641 103 22 0 982 1084 13081469 13081571 4.180000e-08 69.4
14 TraesCS3B01G607800 chr5D 82.646 461 50 17 2 440 469276933 469276481 4.720000e-102 381.0
15 TraesCS3B01G607800 chr5D 84.765 361 37 8 38 383 469280778 469280421 1.720000e-91 346.0
16 TraesCS3B01G607800 chr7B 88.809 277 19 3 22 286 748030546 748030822 1.740000e-86 329.0
17 TraesCS3B01G607800 chr1D 84.266 286 23 4 22 286 486250482 486250766 2.310000e-65 259.0
18 TraesCS3B01G607800 chr1D 82.857 105 15 3 995 1097 9384139 9384036 8.920000e-15 91.6
19 TraesCS3B01G607800 chr4B 96.667 150 5 0 291 440 232210220 232210071 1.390000e-62 250.0
20 TraesCS3B01G607800 chr7D 94.410 161 7 2 282 440 631280784 631280944 1.800000e-61 246.0
21 TraesCS3B01G607800 chr3A 86.486 222 24 5 223 440 405792412 405792631 3.010000e-59 239.0
22 TraesCS3B01G607800 chr3A 91.489 94 6 1 349 440 405796592 405796685 6.800000e-26 128.0
23 TraesCS3B01G607800 chr1A 95.652 115 5 0 291 405 512446545 512446659 3.980000e-43 185.0
24 TraesCS3B01G607800 chr5B 96.364 110 4 0 177 286 685551411 685551302 5.140000e-42 182.0


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 TraesCS3B01G607800 chr3B 826260223 826262565 2342 True 4327.0 4327 100.0000 1 2343 1 chr3B.!!$R3 2342
1 TraesCS3B01G607800 chr3B 826244116 826244880 764 True 1402.0 1402 99.7390 1579 2343 1 chr3B.!!$R2 764
2 TraesCS3B01G607800 chr3B 764685608 764686721 1113 False 728.0 728 79.0390 1085 2199 1 chr3B.!!$F1 1114
3 TraesCS3B01G607800 chr3B 764048971 764053290 4319 True 513.0 562 80.7750 813 1584 2 chr3B.!!$R4 771
4 TraesCS3B01G607800 chr3B 813372907 813373481 574 True 265.0 265 75.7070 881 1467 1 chr3B.!!$R1 586
5 TraesCS3B01G607800 chr3D 612763054 612764056 1002 False 769.5 1293 92.5705 478 1591 2 chr3D.!!$F1 1113
6 TraesCS3B01G607800 chr3D 615097505 615098074 569 True 274.0 274 76.1670 881 1465 1 chr3D.!!$R1 584
7 TraesCS3B01G607800 chr5D 469276481 469280778 4297 True 363.5 381 83.7055 2 440 2 chr5D.!!$R1 438

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
45 3890 0.671163 GCACCGACCCATACGTCAAA 60.671 55.0 0.0 0.0 32.74 2.69 F
364 4221 0.900421 ACCTAGCCGGTTACCAAGTC 59.100 55.0 1.9 0.0 46.37 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1029 4897 0.101399 CTAGCAGGACTAGCACCGTG 59.899 60.0 0.0 0.0 41.99 4.94 R
1475 5363 0.659427 ATGAAACTCCATGCGATGCG 59.341 50.0 0.0 0.0 0.00 4.73 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
33 3878 4.963815 CCAATTGTTGGCACCGAC 57.036 55.556 4.43 0.00 45.17 4.79
36 3881 1.152652 AATTGTTGGCACCGACCCA 60.153 52.632 4.58 0.00 0.00 4.51
43 3888 2.574929 GCACCGACCCATACGTCA 59.425 61.111 0.00 0.00 32.74 4.35
45 3890 0.671163 GCACCGACCCATACGTCAAA 60.671 55.000 0.00 0.00 32.74 2.69
56 3901 5.054477 CCCATACGTCAAATACTTTCCGAT 58.946 41.667 0.00 0.00 0.00 4.18
60 3905 7.306399 CCATACGTCAAATACTTTCCGATGTAC 60.306 40.741 0.00 0.00 32.52 2.90
78 3923 3.961860 TGTACTTTATACGACGCGATTCG 59.038 43.478 15.93 16.22 44.87 3.34
87 3932 1.683790 GACGCGATTCGGACAACCTG 61.684 60.000 15.93 0.00 43.86 4.00
110 3955 3.104766 TCGGCCGTCGAGATACAC 58.895 61.111 27.15 0.00 43.74 2.90
112 3957 2.654404 GGCCGTCGAGATACACGC 60.654 66.667 0.00 0.00 34.58 5.34
113 3958 2.654404 GCCGTCGAGATACACGCC 60.654 66.667 0.00 0.00 34.58 5.68
182 4027 1.735198 CGGACCACAACGCACGTAT 60.735 57.895 0.00 0.00 0.00 3.06
234 4091 1.022451 ACACGTGAACACAAGGCGTT 61.022 50.000 25.01 0.00 33.28 4.84
271 4128 3.425578 CGTGTCGCTCCTGAGATTT 57.574 52.632 0.00 0.00 0.00 2.17
272 4129 0.994995 CGTGTCGCTCCTGAGATTTG 59.005 55.000 0.00 0.00 0.00 2.32
274 4131 2.417719 GTGTCGCTCCTGAGATTTGTT 58.582 47.619 0.00 0.00 0.00 2.83
275 4132 3.585862 GTGTCGCTCCTGAGATTTGTTA 58.414 45.455 0.00 0.00 0.00 2.41
277 4134 4.631813 GTGTCGCTCCTGAGATTTGTTATT 59.368 41.667 0.00 0.00 0.00 1.40
278 4135 4.631377 TGTCGCTCCTGAGATTTGTTATTG 59.369 41.667 0.00 0.00 0.00 1.90
279 4136 3.623060 TCGCTCCTGAGATTTGTTATTGC 59.377 43.478 0.00 0.00 0.00 3.56
281 4138 4.095483 CGCTCCTGAGATTTGTTATTGCTT 59.905 41.667 0.00 0.00 0.00 3.91
282 4139 5.392380 CGCTCCTGAGATTTGTTATTGCTTT 60.392 40.000 0.00 0.00 0.00 3.51
283 4140 5.803967 GCTCCTGAGATTTGTTATTGCTTTG 59.196 40.000 0.00 0.00 0.00 2.77
284 4141 6.349611 GCTCCTGAGATTTGTTATTGCTTTGA 60.350 38.462 0.00 0.00 0.00 2.69
286 4143 8.125978 TCCTGAGATTTGTTATTGCTTTGATT 57.874 30.769 0.00 0.00 0.00 2.57
287 4144 8.587608 TCCTGAGATTTGTTATTGCTTTGATTT 58.412 29.630 0.00 0.00 0.00 2.17
288 4145 9.859427 CCTGAGATTTGTTATTGCTTTGATTTA 57.141 29.630 0.00 0.00 0.00 1.40
336 4193 9.696572 TCCATATATGTAGTATCTAGGACCAAC 57.303 37.037 11.73 0.00 0.00 3.77
337 4194 9.702253 CCATATATGTAGTATCTAGGACCAACT 57.298 37.037 11.73 0.00 0.00 3.16
341 4198 9.830186 ATATGTAGTATCTAGGACCAACTCAAT 57.170 33.333 0.00 0.00 0.00 2.57
342 4199 7.584122 TGTAGTATCTAGGACCAACTCAATC 57.416 40.000 0.00 0.00 0.00 2.67
343 4200 7.355101 TGTAGTATCTAGGACCAACTCAATCT 58.645 38.462 0.00 0.00 0.00 2.40
346 4203 8.240267 AGTATCTAGGACCAACTCAATCTAAC 57.760 38.462 0.00 0.00 0.00 2.34
348 4205 5.590818 TCTAGGACCAACTCAATCTAACCT 58.409 41.667 0.00 0.00 0.00 3.50
349 4206 6.738635 TCTAGGACCAACTCAATCTAACCTA 58.261 40.000 0.00 0.00 0.00 3.08
350 4207 5.941555 AGGACCAACTCAATCTAACCTAG 57.058 43.478 0.00 0.00 0.00 3.02
352 4209 4.443621 GACCAACTCAATCTAACCTAGCC 58.556 47.826 0.00 0.00 0.00 3.93
353 4210 3.118738 ACCAACTCAATCTAACCTAGCCG 60.119 47.826 0.00 0.00 0.00 5.52
364 4221 0.900421 ACCTAGCCGGTTACCAAGTC 59.100 55.000 1.90 0.00 46.37 3.01
377 4234 6.016443 CGGTTACCAAGTCCTAATCCTAGTAG 60.016 46.154 1.13 0.00 0.00 2.57
383 4240 8.957926 ACCAAGTCCTAATCCTAGTAGTACTAT 58.042 37.037 10.46 0.00 29.08 2.12
404 4261 2.691409 AGGTGATTGTACCATGTCCG 57.309 50.000 0.00 0.00 43.37 4.79
406 4263 2.168521 AGGTGATTGTACCATGTCCGAG 59.831 50.000 0.00 0.00 43.37 4.63
427 4287 1.003839 GGACAAGGCCACATCGTGA 60.004 57.895 5.01 0.00 35.23 4.35
430 4290 1.812571 GACAAGGCCACATCGTGATTT 59.187 47.619 5.01 0.00 35.23 2.17
440 4300 5.450412 GCCACATCGTGATTTATTCCAACAT 60.450 40.000 0.00 0.00 35.23 2.71
441 4301 6.238621 GCCACATCGTGATTTATTCCAACATA 60.239 38.462 0.00 0.00 35.23 2.29
442 4302 7.355017 CCACATCGTGATTTATTCCAACATAG 58.645 38.462 0.00 0.00 35.23 2.23
443 4303 7.355017 CACATCGTGATTTATTCCAACATAGG 58.645 38.462 0.00 0.00 35.23 2.57
444 4304 6.486657 ACATCGTGATTTATTCCAACATAGGG 59.513 38.462 0.00 0.00 0.00 3.53
445 4305 5.996644 TCGTGATTTATTCCAACATAGGGT 58.003 37.500 0.00 0.00 0.00 4.34
446 4306 7.127012 TCGTGATTTATTCCAACATAGGGTA 57.873 36.000 0.00 0.00 0.00 3.69
447 4307 7.741785 TCGTGATTTATTCCAACATAGGGTAT 58.258 34.615 0.00 0.00 0.00 2.73
448 4308 7.659799 TCGTGATTTATTCCAACATAGGGTATG 59.340 37.037 0.00 0.00 41.88 2.39
449 4309 7.094805 CGTGATTTATTCCAACATAGGGTATGG 60.095 40.741 0.00 0.00 40.47 2.74
450 4310 7.724061 GTGATTTATTCCAACATAGGGTATGGT 59.276 37.037 0.00 0.00 40.47 3.55
451 4311 8.285891 TGATTTATTCCAACATAGGGTATGGTT 58.714 33.333 0.00 0.00 40.47 3.67
452 4312 9.802039 GATTTATTCCAACATAGGGTATGGTTA 57.198 33.333 0.00 0.00 40.47 2.85
494 4354 9.220906 GGGTATGGGTATGAGATTATTATACCA 57.779 37.037 12.64 0.00 45.17 3.25
583 4443 9.995957 CATCCTGAATGTAGATAGACGTAATAG 57.004 37.037 0.00 0.00 0.00 1.73
693 4558 8.421249 AGAAAATAAGGACAATGATTTGGTCA 57.579 30.769 0.00 0.00 42.06 4.02
694 4559 8.526147 AGAAAATAAGGACAATGATTTGGTCAG 58.474 33.333 0.00 0.00 40.92 3.51
695 4560 8.421249 AAAATAAGGACAATGATTTGGTCAGA 57.579 30.769 0.00 0.00 40.92 3.27
696 4561 8.599624 AAATAAGGACAATGATTTGGTCAGAT 57.400 30.769 0.00 0.00 40.92 2.90
697 4562 7.814264 ATAAGGACAATGATTTGGTCAGATC 57.186 36.000 0.00 0.00 40.92 2.75
698 4563 5.447778 AGGACAATGATTTGGTCAGATCT 57.552 39.130 0.00 0.00 40.92 2.75
699 4564 5.824421 AGGACAATGATTTGGTCAGATCTT 58.176 37.500 0.00 0.00 40.92 2.40
700 4565 6.251471 AGGACAATGATTTGGTCAGATCTTT 58.749 36.000 0.00 1.39 40.92 2.52
701 4566 6.723052 AGGACAATGATTTGGTCAGATCTTTT 59.277 34.615 0.00 0.00 40.92 2.27
702 4567 7.234166 AGGACAATGATTTGGTCAGATCTTTTT 59.766 33.333 0.00 0.00 40.92 1.94
703 4568 8.522830 GGACAATGATTTGGTCAGATCTTTTTA 58.477 33.333 0.00 0.00 40.92 1.52
704 4569 9.912634 GACAATGATTTGGTCAGATCTTTTTAA 57.087 29.630 0.00 0.00 40.92 1.52
907 4774 6.978343 TTTATATTTGAGTGAACCAGGACG 57.022 37.500 0.00 0.00 0.00 4.79
923 4790 3.862267 CAGGACGAAATGTTCTCTAGCTG 59.138 47.826 0.00 0.00 32.46 4.24
985 4852 5.182001 CCCAAACAGAAACGAGAATCAGAAT 59.818 40.000 0.00 0.00 33.17 2.40
993 4860 6.429385 AGAAACGAGAATCAGAATTTTGAGCT 59.571 34.615 4.85 4.63 33.17 4.09
1029 4897 5.242069 GGAAAGCTATTCTTCTTTGCCTC 57.758 43.478 0.00 0.00 35.48 4.70
1038 4906 0.394938 TTCTTTGCCTCACGGTGCTA 59.605 50.000 2.51 0.00 0.00 3.49
1058 4926 4.283212 GCTAGTCCTGCTAGGAGATTCAAT 59.717 45.833 13.63 0.00 46.90 2.57
1099 4967 7.129457 TCAATCTCCATGTCCCTATATATGC 57.871 40.000 0.00 0.00 0.00 3.14
1109 4979 7.956328 TGTCCCTATATATGCGTCTCTTATT 57.044 36.000 0.00 0.00 0.00 1.40
1118 4990 2.832129 TGCGTCTCTTATTCCTCCAAGT 59.168 45.455 0.00 0.00 0.00 3.16
1197 5073 1.474077 CACAGGGTGCTATGAAAAGCC 59.526 52.381 0.00 0.00 42.05 4.35
1331 5207 5.828747 TCATAGTCTCCTGTTTATGTACGC 58.171 41.667 0.00 0.00 0.00 4.42
1336 5212 2.860735 CTCCTGTTTATGTACGCTCTGC 59.139 50.000 0.00 0.00 0.00 4.26
1353 5229 5.944013 GCTCTGCGATTAGTGACTATATCA 58.056 41.667 0.00 0.00 33.79 2.15
1400 5276 9.090692 CCAAATAATGAAAAATGATGTCCAGTC 57.909 33.333 0.00 0.00 0.00 3.51
1475 5363 6.145696 GCCGTTCATAATCTTATGGAGTGTAC 59.854 42.308 9.45 0.00 40.64 2.90
1529 5419 3.246699 CACGAACGAACCAAGTGTATTGT 59.753 43.478 0.14 0.00 0.00 2.71
1532 5422 4.682860 CGAACGAACCAAGTGTATTGTACT 59.317 41.667 0.00 0.00 0.00 2.73
1553 5443 0.601558 GTAGTCCTTGTCGTGGAGCA 59.398 55.000 0.00 0.00 33.78 4.26
1577 5467 3.426568 GCAGAGGCAAGGACGCAC 61.427 66.667 0.00 0.00 40.72 5.34
1692 5587 1.860078 GCACTGACACTACGCAACC 59.140 57.895 0.00 0.00 0.00 3.77
2127 7309 5.069781 GTGAGAGCAGGAATATAGTCCACTT 59.930 44.000 20.72 5.63 40.48 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.378181 CAACAATTGGTATTAAGAGCTTGGTT 58.622 34.615 10.83 0.00 0.00 3.67
29 3874 3.447918 AGTATTTGACGTATGGGTCGG 57.552 47.619 0.00 0.00 39.83 4.79
30 3875 4.269363 GGAAAGTATTTGACGTATGGGTCG 59.731 45.833 0.00 0.00 39.27 4.79
33 3878 4.435425 TCGGAAAGTATTTGACGTATGGG 58.565 43.478 0.00 0.00 39.27 4.00
36 3881 7.486647 AGTACATCGGAAAGTATTTGACGTAT 58.513 34.615 0.00 0.00 39.27 3.06
45 3890 7.800380 CGTCGTATAAAGTACATCGGAAAGTAT 59.200 37.037 0.00 0.00 0.00 2.12
56 3901 3.961860 CGAATCGCGTCGTATAAAGTACA 59.038 43.478 5.77 0.00 36.26 2.90
60 3905 2.399754 GTCCGAATCGCGTCGTATAAAG 59.600 50.000 16.47 2.22 39.43 1.85
78 3923 1.154197 GCCGAAAGTACAGGTTGTCC 58.846 55.000 0.00 0.00 0.00 4.02
122 3967 2.684843 CCTGCCAGCTTGCTCGTTC 61.685 63.158 11.53 0.00 0.00 3.95
125 3970 3.670637 TAGCCTGCCAGCTTGCTCG 62.671 63.158 11.53 2.03 41.41 5.03
234 4091 1.743431 CGCTCCTGTTGCCATACATCA 60.743 52.381 0.00 0.00 0.00 3.07
260 4117 7.149569 TCAAAGCAATAACAAATCTCAGGAG 57.850 36.000 0.00 0.00 0.00 3.69
287 4144 9.901651 TGGAGGTATACCCTTGTAAGATTATTA 57.098 33.333 18.65 0.00 46.51 0.98
288 4145 8.808240 TGGAGGTATACCCTTGTAAGATTATT 57.192 34.615 18.65 0.00 46.51 1.40
289 4146 8.990693 ATGGAGGTATACCCTTGTAAGATTAT 57.009 34.615 18.65 0.00 46.51 1.28
293 4150 9.488762 CATATATGGAGGTATACCCTTGTAAGA 57.511 37.037 18.65 0.00 46.51 2.10
294 4151 9.268282 ACATATATGGAGGTATACCCTTGTAAG 57.732 37.037 18.65 4.32 46.51 2.34
296 4153 9.931698 CTACATATATGGAGGTATACCCTTGTA 57.068 37.037 18.65 12.41 46.51 2.41
311 4168 9.702253 AGTTGGTCCTAGATACTACATATATGG 57.298 37.037 16.96 2.79 0.00 2.74
319 4176 7.826918 AGATTGAGTTGGTCCTAGATACTAC 57.173 40.000 0.00 0.00 0.00 2.73
323 4180 7.363031 AGGTTAGATTGAGTTGGTCCTAGATA 58.637 38.462 0.00 0.00 0.00 1.98
325 4182 5.590818 AGGTTAGATTGAGTTGGTCCTAGA 58.409 41.667 0.00 0.00 0.00 2.43
332 4189 3.458189 CGGCTAGGTTAGATTGAGTTGG 58.542 50.000 0.00 0.00 0.00 3.77
348 4205 2.530460 TAGGACTTGGTAACCGGCTA 57.470 50.000 0.00 0.00 0.00 3.93
349 4206 1.648116 TTAGGACTTGGTAACCGGCT 58.352 50.000 0.00 0.00 0.00 5.52
350 4207 2.558378 GATTAGGACTTGGTAACCGGC 58.442 52.381 0.00 0.00 0.00 6.13
352 4209 4.648307 ACTAGGATTAGGACTTGGTAACCG 59.352 45.833 0.00 0.00 0.00 4.44
353 4210 6.838090 ACTACTAGGATTAGGACTTGGTAACC 59.162 42.308 0.00 0.00 0.00 2.85
355 4212 8.785859 AGTACTACTAGGATTAGGACTTGGTAA 58.214 37.037 0.00 0.00 37.44 2.85
356 4213 8.342327 AGTACTACTAGGATTAGGACTTGGTA 57.658 38.462 0.00 0.00 37.44 3.25
357 4214 7.223472 AGTACTACTAGGATTAGGACTTGGT 57.777 40.000 0.00 0.00 37.44 3.67
413 4270 3.632145 GGAATAAATCACGATGTGGCCTT 59.368 43.478 3.32 0.00 33.87 4.35
417 4274 5.559427 TGTTGGAATAAATCACGATGTGG 57.441 39.130 0.00 0.00 33.87 4.17
419 4276 6.486657 CCCTATGTTGGAATAAATCACGATGT 59.513 38.462 0.00 0.00 0.00 3.06
467 4327 9.220906 GGTATAATAATCTCATACCCATACCCA 57.779 37.037 0.00 0.00 38.74 4.51
468 4328 9.220906 TGGTATAATAATCTCATACCCATACCC 57.779 37.037 7.37 0.00 42.33 3.69
489 4349 8.267894 GCAACAGATAGGGTATGATATTGGTAT 58.732 37.037 0.00 0.00 0.00 2.73
494 4354 6.702449 TGGCAACAGATAGGGTATGATATT 57.298 37.500 0.00 0.00 46.17 1.28
511 4371 5.138125 TCAAAAGAATCAAGGATGGCAAC 57.862 39.130 0.00 0.00 0.00 4.17
583 4443 4.819630 TGGACGATGGTATCCTTTTAATGC 59.180 41.667 0.00 0.00 35.86 3.56
667 4532 9.527157 TGACCAAATCATTGTCCTTATTTTCTA 57.473 29.630 0.00 0.00 34.60 2.10
668 4533 8.421249 TGACCAAATCATTGTCCTTATTTTCT 57.579 30.769 0.00 0.00 34.60 2.52
669 4534 8.522830 TCTGACCAAATCATTGTCCTTATTTTC 58.477 33.333 0.00 0.00 36.48 2.29
670 4535 8.421249 TCTGACCAAATCATTGTCCTTATTTT 57.579 30.769 0.00 0.00 36.48 1.82
671 4536 8.599624 ATCTGACCAAATCATTGTCCTTATTT 57.400 30.769 0.00 0.00 36.48 1.40
672 4537 8.057623 AGATCTGACCAAATCATTGTCCTTATT 58.942 33.333 0.00 0.00 36.48 1.40
673 4538 7.580910 AGATCTGACCAAATCATTGTCCTTAT 58.419 34.615 0.00 0.00 36.48 1.73
674 4539 6.962182 AGATCTGACCAAATCATTGTCCTTA 58.038 36.000 0.00 0.00 36.48 2.69
675 4540 5.824421 AGATCTGACCAAATCATTGTCCTT 58.176 37.500 0.00 0.00 36.48 3.36
676 4541 5.447778 AGATCTGACCAAATCATTGTCCT 57.552 39.130 0.00 0.00 36.48 3.85
677 4542 6.521151 AAAGATCTGACCAAATCATTGTCC 57.479 37.500 0.00 0.00 36.48 4.02
678 4543 9.912634 TTAAAAAGATCTGACCAAATCATTGTC 57.087 29.630 0.00 0.00 36.48 3.18
785 4650 8.168626 CGACGATGGTATCCATTTAATGTTATG 58.831 37.037 4.15 0.00 45.26 1.90
798 4663 6.492007 TCTAAATCTACGACGATGGTATCC 57.508 41.667 0.00 0.00 0.00 2.59
907 4774 6.434018 AGATTTGCAGCTAGAGAACATTTC 57.566 37.500 0.00 0.00 0.00 2.17
956 4823 0.871722 TCGTTTCTGTTTGGGCATCG 59.128 50.000 0.00 0.00 0.00 3.84
985 4852 3.091545 CCTCCATAAGGCAAGCTCAAAA 58.908 45.455 0.00 0.00 38.67 2.44
993 4860 1.341976 GCTTTCCCCTCCATAAGGCAA 60.342 52.381 0.00 0.00 44.71 4.52
1029 4897 0.101399 CTAGCAGGACTAGCACCGTG 59.899 60.000 0.00 0.00 41.99 4.94
1038 4906 4.718774 TGAATTGAATCTCCTAGCAGGACT 59.281 41.667 1.25 0.00 40.06 3.85
1058 4926 6.258727 GGAGATTGATTTCTTACGAGCATGAA 59.741 38.462 0.00 0.00 0.00 2.57
1099 4967 3.447586 TCCACTTGGAGGAATAAGAGACG 59.552 47.826 0.00 0.00 39.78 4.18
1118 4990 2.418368 AACTTGTGCAGTTGTCTCCA 57.582 45.000 0.00 0.00 44.70 3.86
1143 5016 5.407407 ACGTCAGTAAGAGAAATCCACAT 57.593 39.130 0.00 0.00 0.00 3.21
1197 5073 6.238484 GCAATACAAAGGTATCCAGTAAGCAG 60.238 42.308 0.00 0.00 39.28 4.24
1331 5207 7.589395 ACTTGATATAGTCACTAATCGCAGAG 58.411 38.462 0.00 0.00 36.71 3.35
1336 5212 8.353684 AGTCCAACTTGATATAGTCACTAATCG 58.646 37.037 0.00 0.00 36.32 3.34
1400 5276 7.707464 ACATGCATGTCACCATAATGTTTTATG 59.293 33.333 26.61 0.00 39.58 1.90
1475 5363 0.659427 ATGAAACTCCATGCGATGCG 59.341 50.000 0.00 0.00 0.00 4.73
1529 5419 2.165167 CCACGACAAGGACTACCAGTA 58.835 52.381 0.00 0.00 38.94 2.74
1532 5422 1.254026 CTCCACGACAAGGACTACCA 58.746 55.000 0.00 0.00 38.94 3.25
1577 5467 1.156736 CACTAAGACGGTTGCCAAGG 58.843 55.000 0.00 0.00 0.00 3.61
1692 5587 3.747099 AAAGATTCACTTCATTCGGCG 57.253 42.857 0.00 0.00 37.93 6.46
2127 7309 9.530633 GTAATTACATTTTGTACACCCAAACAA 57.469 29.630 10.81 0.00 34.23 2.83


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

AutoCloner maintained by Alex Coulton.