Multiple sequence alignment - TraesCS7B01G255600

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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 TraesCS7B01G255600 chr7B 100.000 2414 0 0 1 2414 474276083 474273670 0.000000e+00 4458.0
1 TraesCS7B01G255600 chr7B 99.427 1047 5 1 1369 2414 473524109 473523063 0.000000e+00 1899.0
2 TraesCS7B01G255600 chr7B 99.518 1038 5 0 1377 2414 473535235 473534198 0.000000e+00 1890.0
3 TraesCS7B01G255600 chrUn 99.331 1047 6 1 1369 2414 278660554 278661600 0.000000e+00 1893.0
4 TraesCS7B01G255600 chr7D 93.591 905 30 13 500 1381 451883775 451882876 0.000000e+00 1325.0
5 TraesCS7B01G255600 chr7D 100.000 32 0 0 66 97 623796947 623796978 2.590000e-05 60.2
6 TraesCS7B01G255600 chr7A 84.136 1349 105 43 110 1381 545607541 545608857 0.000000e+00 1205.0
7 TraesCS7B01G255600 chr7A 90.476 777 53 18 1380 2149 223866422 223865660 0.000000e+00 1005.0
8 TraesCS7B01G255600 chr4A 90.360 778 56 16 1378 2149 363561896 363561132 0.000000e+00 1003.0
9 TraesCS7B01G255600 chr4A 89.975 788 59 17 1369 2149 306957239 306956465 0.000000e+00 1000.0
10 TraesCS7B01G255600 chr4A 89.848 788 60 17 1369 2149 363553741 363552967 0.000000e+00 994.0
11 TraesCS7B01G255600 chr4A 90.658 760 52 16 1378 2131 295644168 295644914 0.000000e+00 992.0
12 TraesCS7B01G255600 chr4A 90.103 778 58 16 1378 2149 306965398 306964634 0.000000e+00 992.0
13 TraesCS7B01G255600 chr2B 99.318 440 3 0 1975 2414 79061706 79062145 0.000000e+00 797.0
14 TraesCS7B01G255600 chr2B 98.252 286 4 1 2129 2414 556796336 556796052 1.290000e-137 499.0
15 TraesCS7B01G255600 chr2B 98.252 286 4 1 2129 2414 556804465 556804181 1.290000e-137 499.0
16 TraesCS7B01G255600 chr3A 88.719 523 30 19 1906 2414 489379517 489379010 1.590000e-171 612.0
17 TraesCS7B01G255600 chr3A 100.000 32 0 0 67 98 564658663 564658694 2.590000e-05 60.2
18 TraesCS7B01G255600 chr3B 92.612 379 15 9 2037 2414 711852156 711851790 1.270000e-147 532.0
19 TraesCS7B01G255600 chr3B 92.348 379 16 9 2037 2414 711843294 711842928 5.910000e-146 527.0
20 TraesCS7B01G255600 chr5B 100.000 32 0 0 66 97 660202634 660202665 2.590000e-05 60.2


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 TraesCS7B01G255600 chr7B 474273670 474276083 2413 True 4458 4458 100.000 1 2414 1 chr7B.!!$R3 2413
1 TraesCS7B01G255600 chr7B 473523063 473524109 1046 True 1899 1899 99.427 1369 2414 1 chr7B.!!$R1 1045
2 TraesCS7B01G255600 chr7B 473534198 473535235 1037 True 1890 1890 99.518 1377 2414 1 chr7B.!!$R2 1037
3 TraesCS7B01G255600 chrUn 278660554 278661600 1046 False 1893 1893 99.331 1369 2414 1 chrUn.!!$F1 1045
4 TraesCS7B01G255600 chr7D 451882876 451883775 899 True 1325 1325 93.591 500 1381 1 chr7D.!!$R1 881
5 TraesCS7B01G255600 chr7A 545607541 545608857 1316 False 1205 1205 84.136 110 1381 1 chr7A.!!$F1 1271
6 TraesCS7B01G255600 chr7A 223865660 223866422 762 True 1005 1005 90.476 1380 2149 1 chr7A.!!$R1 769
7 TraesCS7B01G255600 chr4A 363561132 363561896 764 True 1003 1003 90.360 1378 2149 1 chr4A.!!$R4 771
8 TraesCS7B01G255600 chr4A 306956465 306957239 774 True 1000 1000 89.975 1369 2149 1 chr4A.!!$R1 780
9 TraesCS7B01G255600 chr4A 363552967 363553741 774 True 994 994 89.848 1369 2149 1 chr4A.!!$R3 780
10 TraesCS7B01G255600 chr4A 295644168 295644914 746 False 992 992 90.658 1378 2131 1 chr4A.!!$F1 753
11 TraesCS7B01G255600 chr4A 306964634 306965398 764 True 992 992 90.103 1378 2149 1 chr4A.!!$R2 771
12 TraesCS7B01G255600 chr3A 489379010 489379517 507 True 612 612 88.719 1906 2414 1 chr3A.!!$R1 508

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
28 29 0.034616 AGAGCTCCTTGTGTGCTGTC 59.965 55.0 10.93 0.0 43.56 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1822 1911 8.261522 GGGCTTCTCTCTCTCTTTTTATTTCTA 58.738 37.037 0.0 0.0 0.0 2.1 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
18 19 4.093291 CTGCCGCCAGAGCTCCTT 62.093 66.667 10.93 0.00 41.77 3.36
19 20 4.399395 TGCCGCCAGAGCTCCTTG 62.399 66.667 10.93 2.65 36.60 3.61
20 21 4.400961 GCCGCCAGAGCTCCTTGT 62.401 66.667 10.93 0.00 36.60 3.16
21 22 2.435586 CCGCCAGAGCTCCTTGTG 60.436 66.667 10.93 5.72 36.60 3.33
22 23 2.345244 CGCCAGAGCTCCTTGTGT 59.655 61.111 10.93 0.00 36.60 3.72
23 24 2.031516 CGCCAGAGCTCCTTGTGTG 61.032 63.158 10.93 0.17 36.60 3.82
24 25 2.331132 GCCAGAGCTCCTTGTGTGC 61.331 63.158 10.93 4.46 35.50 4.57
25 26 1.374190 CCAGAGCTCCTTGTGTGCT 59.626 57.895 10.93 0.00 46.06 4.40
26 27 0.954449 CCAGAGCTCCTTGTGTGCTG 60.954 60.000 10.93 0.00 43.56 4.41
27 28 0.250209 CAGAGCTCCTTGTGTGCTGT 60.250 55.000 10.93 0.00 43.56 4.40
28 29 0.034616 AGAGCTCCTTGTGTGCTGTC 59.965 55.000 10.93 0.00 43.56 3.51
29 30 1.287730 GAGCTCCTTGTGTGCTGTCG 61.288 60.000 0.87 0.00 43.56 4.35
30 31 2.320587 GCTCCTTGTGTGCTGTCGG 61.321 63.158 0.00 0.00 0.00 4.79
31 32 2.280797 TCCTTGTGTGCTGTCGGC 60.281 61.111 0.00 0.00 42.22 5.54
61 62 3.315949 GGCCCTCCACACCGTGTA 61.316 66.667 3.25 0.00 0.00 2.90
62 63 2.264794 GCCCTCCACACCGTGTAG 59.735 66.667 3.25 0.00 0.00 2.74
63 64 2.580601 GCCCTCCACACCGTGTAGT 61.581 63.158 3.25 0.00 0.00 2.73
64 65 2.055299 CCCTCCACACCGTGTAGTT 58.945 57.895 3.25 0.00 0.00 2.24
65 66 0.320421 CCCTCCACACCGTGTAGTTG 60.320 60.000 3.25 0.00 0.00 3.16
66 67 0.320421 CCTCCACACCGTGTAGTTGG 60.320 60.000 3.25 1.59 0.00 3.77
67 68 0.677288 CTCCACACCGTGTAGTTGGA 59.323 55.000 3.25 6.16 0.00 3.53
68 69 1.069513 CTCCACACCGTGTAGTTGGAA 59.930 52.381 3.25 0.00 0.00 3.53
69 70 1.069513 TCCACACCGTGTAGTTGGAAG 59.930 52.381 3.25 0.00 0.00 3.46
70 71 0.865769 CACACCGTGTAGTTGGAAGC 59.134 55.000 3.25 0.00 0.00 3.86
71 72 0.599204 ACACCGTGTAGTTGGAAGCG 60.599 55.000 1.18 0.00 0.00 4.68
72 73 1.005394 ACCGTGTAGTTGGAAGCGG 60.005 57.895 0.00 0.00 44.10 5.52
73 74 1.290955 CCGTGTAGTTGGAAGCGGA 59.709 57.895 0.00 0.00 41.45 5.54
74 75 0.736325 CCGTGTAGTTGGAAGCGGAG 60.736 60.000 0.00 0.00 41.45 4.63
107 108 3.049674 CGCCAGGCAACACGACAT 61.050 61.111 13.30 0.00 41.41 3.06
108 109 2.616330 CGCCAGGCAACACGACATT 61.616 57.895 13.30 0.00 41.41 2.71
119 120 1.080093 ACGACATTGACGGCGACAT 60.080 52.632 16.62 0.00 34.93 3.06
121 122 1.075979 CGACATTGACGGCGACATCA 61.076 55.000 16.62 3.73 0.00 3.07
147 155 4.338710 GGGTAAGGTGGCCACGCA 62.339 66.667 29.08 13.91 0.00 5.24
154 162 1.146041 GGTGGCCACGCATATGAGA 59.854 57.895 29.08 0.00 0.00 3.27
158 166 0.250467 GGCCACGCATATGAGATGGT 60.250 55.000 13.81 0.00 32.71 3.55
164 172 3.058224 CACGCATATGAGATGGTCGTCTA 60.058 47.826 13.81 0.00 0.00 2.59
168 176 5.632959 GCATATGAGATGGTCGTCTAGTAC 58.367 45.833 6.97 0.00 0.00 2.73
233 242 7.633361 ATCGTCGTGTATGTAAATTATGTCC 57.367 36.000 0.00 0.00 0.00 4.02
234 243 6.562518 TCGTCGTGTATGTAAATTATGTCCA 58.437 36.000 0.00 0.00 0.00 4.02
235 244 6.473131 TCGTCGTGTATGTAAATTATGTCCAC 59.527 38.462 0.00 0.00 0.00 4.02
236 245 6.253942 CGTCGTGTATGTAAATTATGTCCACA 59.746 38.462 0.00 0.00 0.00 4.17
237 246 7.396419 GTCGTGTATGTAAATTATGTCCACAC 58.604 38.462 0.00 0.00 0.00 3.82
238 247 7.277098 GTCGTGTATGTAAATTATGTCCACACT 59.723 37.037 0.00 0.00 33.37 3.55
239 248 7.820386 TCGTGTATGTAAATTATGTCCACACTT 59.180 33.333 0.00 0.00 33.37 3.16
240 249 7.902917 CGTGTATGTAAATTATGTCCACACTTG 59.097 37.037 0.00 0.00 33.37 3.16
246 255 9.295825 TGTAAATTATGTCCACACTTGAAATCT 57.704 29.630 0.00 0.00 0.00 2.40
250 259 4.149511 TGTCCACACTTGAAATCTGACA 57.850 40.909 0.00 0.00 0.00 3.58
251 260 4.717877 TGTCCACACTTGAAATCTGACAT 58.282 39.130 0.00 0.00 0.00 3.06
254 263 4.756642 TCCACACTTGAAATCTGACATGTC 59.243 41.667 19.27 19.27 0.00 3.06
256 265 5.334646 CCACACTTGAAATCTGACATGTCTG 60.335 44.000 25.55 24.12 0.00 3.51
261 270 6.712095 ACTTGAAATCTGACATGTCTGCTTAA 59.288 34.615 25.55 13.62 0.00 1.85
263 272 7.692460 TGAAATCTGACATGTCTGCTTAAAT 57.308 32.000 25.55 11.74 0.00 1.40
271 280 6.486320 TGACATGTCTGCTTAAATTTGTCTGA 59.514 34.615 25.55 0.00 34.72 3.27
313 332 0.178975 TGGTTTTGGATGACCGGCTT 60.179 50.000 0.00 0.00 38.81 4.35
317 336 2.119484 TTTGGATGACCGGCTTCCGT 62.119 55.000 18.96 3.13 46.80 4.69
326 345 0.527817 CCGGCTTCCGTATCAGTGTC 60.528 60.000 4.47 0.00 46.80 3.67
330 349 0.172578 CTTCCGTATCAGTGTCCGCA 59.827 55.000 0.00 0.00 0.00 5.69
335 354 1.795525 CGTATCAGTGTCCGCAGACTG 60.796 57.143 0.00 0.00 43.91 3.51
338 357 1.373497 CAGTGTCCGCAGACTGGTC 60.373 63.158 4.26 0.00 43.91 4.02
341 360 1.837051 TGTCCGCAGACTGGTCCTT 60.837 57.895 4.26 0.00 43.91 3.36
342 361 1.079750 GTCCGCAGACTGGTCCTTC 60.080 63.158 4.26 0.00 40.10 3.46
345 364 1.079543 CGCAGACTGGTCCTTCCTG 60.080 63.158 4.26 0.00 40.38 3.86
350 369 2.453242 ACTGGTCCTTCCTGTCCAC 58.547 57.895 0.00 0.00 43.36 4.02
354 373 0.613777 GGTCCTTCCTGTCCACGAAT 59.386 55.000 0.00 0.00 0.00 3.34
355 374 1.676014 GGTCCTTCCTGTCCACGAATG 60.676 57.143 0.00 0.00 0.00 2.67
379 404 2.095718 GGTGTCCGATTTGAAACTCAGC 60.096 50.000 0.00 0.00 0.00 4.26
438 471 2.418628 CGACTGAAACCTGTTTGTGTGT 59.581 45.455 0.00 0.00 32.11 3.72
457 490 3.810941 GTGTGTCGACTGACCCAAAAATA 59.189 43.478 17.92 0.00 44.86 1.40
461 494 6.039941 TGTGTCGACTGACCCAAAAATAAAAT 59.960 34.615 17.92 0.00 44.86 1.82
462 495 6.921307 GTGTCGACTGACCCAAAAATAAAATT 59.079 34.615 17.92 0.00 44.86 1.82
480 513 4.732285 AATTCAGTCAACTTGCACGTAG 57.268 40.909 0.00 0.00 0.00 3.51
498 543 6.666417 CACGTAGTTGATCCCATACTAGTAC 58.334 44.000 4.31 0.00 41.61 2.73
567 614 6.423042 CCGAGAAGAAGAAGAAACTTTCAAC 58.577 40.000 4.34 0.00 0.00 3.18
568 615 6.423042 CGAGAAGAAGAAGAAACTTTCAACC 58.577 40.000 4.34 0.00 0.00 3.77
578 625 2.282180 TTTCAACCGCAGCCCTCC 60.282 61.111 0.00 0.00 0.00 4.30
579 626 4.697756 TTCAACCGCAGCCCTCCG 62.698 66.667 0.00 0.00 0.00 4.63
727 804 2.480416 CCAGCACCTCATACTCTTCGTC 60.480 54.545 0.00 0.00 0.00 4.20
730 807 0.739561 ACCTCATACTCTTCGTCGCC 59.260 55.000 0.00 0.00 0.00 5.54
736 813 0.167470 TACTCTTCGTCGCCTTCGTG 59.833 55.000 0.00 0.00 36.96 4.35
826 907 1.597027 CGCCCGTCCACAAAGAAGT 60.597 57.895 0.00 0.00 0.00 3.01
972 1058 1.516386 CGATCCAGTCCCGTTGTCG 60.516 63.158 0.00 0.00 0.00 4.35
1257 1343 3.802852 AAACCACCCCCTGTTCCGC 62.803 63.158 0.00 0.00 0.00 5.54
1713 1800 8.477256 CCCCTGAAATATTTTATGAGCTTTTGA 58.523 33.333 1.43 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.093291 AAGGAGCTCTGGCGGCAG 62.093 66.667 31.58 31.58 44.37 4.85
2 3 4.399395 CAAGGAGCTCTGGCGGCA 62.399 66.667 14.64 12.58 44.37 5.69
4 5 2.435586 CACAAGGAGCTCTGGCGG 60.436 66.667 14.64 1.96 44.37 6.13
5 6 2.031516 CACACAAGGAGCTCTGGCG 61.032 63.158 14.64 3.63 44.37 5.69
7 8 0.954449 CAGCACACAAGGAGCTCTGG 60.954 60.000 14.64 5.99 36.26 3.86
8 9 0.250209 ACAGCACACAAGGAGCTCTG 60.250 55.000 14.64 7.59 36.26 3.35
9 10 0.034616 GACAGCACACAAGGAGCTCT 59.965 55.000 14.64 0.00 36.26 4.09
10 11 1.287730 CGACAGCACACAAGGAGCTC 61.288 60.000 4.71 4.71 36.26 4.09
11 12 1.301244 CGACAGCACACAAGGAGCT 60.301 57.895 0.00 0.00 39.63 4.09
12 13 2.320587 CCGACAGCACACAAGGAGC 61.321 63.158 0.00 0.00 0.00 4.70
13 14 2.320587 GCCGACAGCACACAAGGAG 61.321 63.158 0.00 0.00 42.97 3.69
14 15 2.280797 GCCGACAGCACACAAGGA 60.281 61.111 0.00 0.00 42.97 3.36
44 45 3.310860 CTACACGGTGTGGAGGGCC 62.311 68.421 23.36 0.00 40.56 5.80
45 46 2.264794 CTACACGGTGTGGAGGGC 59.735 66.667 23.36 0.00 40.56 5.19
49 50 1.069513 CTTCCAACTACACGGTGTGGA 59.930 52.381 28.10 20.10 37.94 4.02
50 51 1.508632 CTTCCAACTACACGGTGTGG 58.491 55.000 23.36 22.22 37.94 4.17
51 52 0.865769 GCTTCCAACTACACGGTGTG 59.134 55.000 23.36 14.97 39.75 3.82
52 53 0.599204 CGCTTCCAACTACACGGTGT 60.599 55.000 18.89 18.89 0.00 4.16
53 54 1.289109 CCGCTTCCAACTACACGGTG 61.289 60.000 6.58 6.58 35.99 4.94
54 55 1.005394 CCGCTTCCAACTACACGGT 60.005 57.895 0.00 0.00 35.99 4.83
55 56 0.736325 CTCCGCTTCCAACTACACGG 60.736 60.000 0.00 0.00 41.92 4.94
56 57 1.352156 GCTCCGCTTCCAACTACACG 61.352 60.000 0.00 0.00 0.00 4.49
57 58 1.352156 CGCTCCGCTTCCAACTACAC 61.352 60.000 0.00 0.00 0.00 2.90
58 59 1.080093 CGCTCCGCTTCCAACTACA 60.080 57.895 0.00 0.00 0.00 2.74
59 60 1.810030 CCGCTCCGCTTCCAACTAC 60.810 63.158 0.00 0.00 0.00 2.73
60 61 2.577059 CCGCTCCGCTTCCAACTA 59.423 61.111 0.00 0.00 0.00 2.24
63 64 4.760047 GAGCCGCTCCGCTTCCAA 62.760 66.667 9.42 0.00 39.87 3.53
86 87 4.688419 CGTGTTGCCTGGCGCTTG 62.688 66.667 14.98 0.00 38.78 4.01
87 88 4.927782 TCGTGTTGCCTGGCGCTT 62.928 61.111 14.98 0.00 38.78 4.68
90 91 2.616330 AATGTCGTGTTGCCTGGCG 61.616 57.895 14.98 0.00 0.00 5.69
91 92 1.081242 CAATGTCGTGTTGCCTGGC 60.081 57.895 12.87 12.87 0.00 4.85
92 93 0.238289 GTCAATGTCGTGTTGCCTGG 59.762 55.000 0.00 0.00 0.00 4.45
93 94 0.110688 CGTCAATGTCGTGTTGCCTG 60.111 55.000 0.00 0.00 0.00 4.85
94 95 1.227999 CCGTCAATGTCGTGTTGCCT 61.228 55.000 0.00 0.00 0.00 4.75
95 96 1.206578 CCGTCAATGTCGTGTTGCC 59.793 57.895 0.00 0.00 0.00 4.52
96 97 1.440353 GCCGTCAATGTCGTGTTGC 60.440 57.895 0.00 0.00 0.00 4.17
97 98 1.154672 CGCCGTCAATGTCGTGTTG 60.155 57.895 0.00 0.00 0.00 3.33
98 99 1.300311 TCGCCGTCAATGTCGTGTT 60.300 52.632 0.00 0.00 0.00 3.32
99 100 2.019951 GTCGCCGTCAATGTCGTGT 61.020 57.895 0.00 0.00 0.00 4.49
100 101 1.351430 ATGTCGCCGTCAATGTCGTG 61.351 55.000 0.00 0.00 0.00 4.35
101 102 1.076533 GATGTCGCCGTCAATGTCGT 61.077 55.000 0.00 0.00 0.00 4.34
102 103 1.075979 TGATGTCGCCGTCAATGTCG 61.076 55.000 0.00 0.00 33.67 4.35
103 104 0.647410 CTGATGTCGCCGTCAATGTC 59.353 55.000 0.00 0.00 36.20 3.06
104 105 0.037326 ACTGATGTCGCCGTCAATGT 60.037 50.000 0.00 0.00 36.20 2.71
105 106 0.371301 CACTGATGTCGCCGTCAATG 59.629 55.000 0.00 0.00 36.20 2.82
106 107 1.361668 GCACTGATGTCGCCGTCAAT 61.362 55.000 0.00 0.00 36.20 2.57
107 108 2.027073 GCACTGATGTCGCCGTCAA 61.027 57.895 0.00 0.00 36.20 3.18
108 109 2.432456 GCACTGATGTCGCCGTCA 60.432 61.111 0.00 0.00 35.35 4.35
119 120 4.077184 CTTACCCGGCCGCACTGA 62.077 66.667 22.85 2.70 0.00 3.41
133 134 0.833949 TCATATGCGTGGCCACCTTA 59.166 50.000 29.95 21.97 0.00 2.69
147 155 7.502895 AGTTTGTACTAGACGACCATCTCATAT 59.497 37.037 0.00 0.00 31.21 1.78
154 162 6.771749 AGCTATAGTTTGTACTAGACGACCAT 59.228 38.462 0.00 0.00 40.09 3.55
213 222 7.324935 AGTGTGGACATAATTTACATACACGA 58.675 34.615 0.00 0.00 40.39 4.35
214 223 7.534085 AGTGTGGACATAATTTACATACACG 57.466 36.000 0.00 0.00 40.39 4.49
215 224 8.941977 TCAAGTGTGGACATAATTTACATACAC 58.058 33.333 0.00 0.00 36.93 2.90
216 225 9.508642 TTCAAGTGTGGACATAATTTACATACA 57.491 29.630 0.00 0.00 0.00 2.29
220 229 9.295825 AGATTTCAAGTGTGGACATAATTTACA 57.704 29.630 0.00 0.00 0.00 2.41
221 230 9.559958 CAGATTTCAAGTGTGGACATAATTTAC 57.440 33.333 0.00 0.00 0.00 2.01
222 231 9.513906 TCAGATTTCAAGTGTGGACATAATTTA 57.486 29.630 0.00 0.00 0.00 1.40
223 232 8.299570 GTCAGATTTCAAGTGTGGACATAATTT 58.700 33.333 0.00 0.00 0.00 1.82
224 233 7.448161 TGTCAGATTTCAAGTGTGGACATAATT 59.552 33.333 0.00 0.00 0.00 1.40
225 234 6.942005 TGTCAGATTTCAAGTGTGGACATAAT 59.058 34.615 0.00 0.00 0.00 1.28
226 235 6.295249 TGTCAGATTTCAAGTGTGGACATAA 58.705 36.000 0.00 0.00 0.00 1.90
227 236 5.863965 TGTCAGATTTCAAGTGTGGACATA 58.136 37.500 0.00 0.00 0.00 2.29
228 237 4.717877 TGTCAGATTTCAAGTGTGGACAT 58.282 39.130 0.00 0.00 0.00 3.06
229 238 4.149511 TGTCAGATTTCAAGTGTGGACA 57.850 40.909 0.00 0.00 0.00 4.02
230 239 4.516698 ACATGTCAGATTTCAAGTGTGGAC 59.483 41.667 0.00 0.00 0.00 4.02
231 240 4.717877 ACATGTCAGATTTCAAGTGTGGA 58.282 39.130 0.00 0.00 0.00 4.02
232 241 4.758674 AGACATGTCAGATTTCAAGTGTGG 59.241 41.667 27.02 0.00 0.00 4.17
233 242 5.686834 CAGACATGTCAGATTTCAAGTGTG 58.313 41.667 27.02 8.38 0.00 3.82
234 243 4.214971 GCAGACATGTCAGATTTCAAGTGT 59.785 41.667 27.02 0.00 0.00 3.55
235 244 4.454847 AGCAGACATGTCAGATTTCAAGTG 59.545 41.667 27.02 13.28 0.00 3.16
236 245 4.649692 AGCAGACATGTCAGATTTCAAGT 58.350 39.130 27.02 0.00 0.00 3.16
237 246 5.624344 AAGCAGACATGTCAGATTTCAAG 57.376 39.130 27.02 6.74 0.00 3.02
238 247 7.509141 TTTAAGCAGACATGTCAGATTTCAA 57.491 32.000 23.93 15.36 0.00 2.69
239 248 7.692460 ATTTAAGCAGACATGTCAGATTTCA 57.308 32.000 23.93 13.06 0.00 2.69
240 249 8.857216 CAAATTTAAGCAGACATGTCAGATTTC 58.143 33.333 23.93 6.31 0.00 2.17
246 255 6.486320 TCAGACAAATTTAAGCAGACATGTCA 59.514 34.615 27.02 5.42 38.64 3.58
250 259 9.199982 CAAAATCAGACAAATTTAAGCAGACAT 57.800 29.630 0.00 0.00 0.00 3.06
251 260 8.196771 ACAAAATCAGACAAATTTAAGCAGACA 58.803 29.630 0.00 0.00 0.00 3.41
280 299 8.926374 TCATCCAAAACCATCTGCATATATTTT 58.074 29.630 0.00 0.00 0.00 1.82
289 308 1.133025 CGGTCATCCAAAACCATCTGC 59.867 52.381 0.00 0.00 35.13 4.26
290 309 1.745087 CCGGTCATCCAAAACCATCTG 59.255 52.381 0.00 0.00 35.13 2.90
291 310 1.955208 GCCGGTCATCCAAAACCATCT 60.955 52.381 1.90 0.00 35.13 2.90
295 314 0.526211 GAAGCCGGTCATCCAAAACC 59.474 55.000 1.90 0.00 0.00 3.27
297 316 0.958382 CGGAAGCCGGTCATCCAAAA 60.958 55.000 18.37 0.00 44.15 2.44
313 332 0.678684 TCTGCGGACACTGATACGGA 60.679 55.000 0.00 0.00 0.00 4.69
316 335 1.469940 CCAGTCTGCGGACACTGATAC 60.470 57.143 27.02 0.00 42.37 2.24
317 336 0.817654 CCAGTCTGCGGACACTGATA 59.182 55.000 27.02 0.00 42.37 2.15
326 345 2.266055 GGAAGGACCAGTCTGCGG 59.734 66.667 0.00 0.00 38.79 5.69
335 354 0.613777 ATTCGTGGACAGGAAGGACC 59.386 55.000 12.22 0.00 38.40 4.46
338 357 0.613260 TCCATTCGTGGACAGGAAGG 59.387 55.000 12.22 11.68 38.40 3.46
341 360 0.544357 ACCTCCATTCGTGGACAGGA 60.544 55.000 9.08 0.00 33.77 3.86
342 361 0.391661 CACCTCCATTCGTGGACAGG 60.392 60.000 0.00 0.00 33.77 4.00
345 364 0.391263 GGACACCTCCATTCGTGGAC 60.391 60.000 0.00 0.00 36.42 4.02
349 368 0.902531 AATCGGACACCTCCATTCGT 59.097 50.000 0.00 0.00 36.12 3.85
350 369 1.665679 CAAATCGGACACCTCCATTCG 59.334 52.381 0.00 0.00 36.12 3.34
354 373 2.105821 AGTTTCAAATCGGACACCTCCA 59.894 45.455 0.00 0.00 36.12 3.86
355 374 2.742589 GAGTTTCAAATCGGACACCTCC 59.257 50.000 0.00 0.00 0.00 4.30
356 375 3.399330 TGAGTTTCAAATCGGACACCTC 58.601 45.455 0.00 0.00 0.00 3.85
357 376 3.403038 CTGAGTTTCAAATCGGACACCT 58.597 45.455 0.00 0.00 31.34 4.00
366 391 3.126001 TCTCCACGCTGAGTTTCAAAT 57.874 42.857 2.16 0.00 33.93 2.32
370 395 0.723981 GCATCTCCACGCTGAGTTTC 59.276 55.000 2.16 0.00 33.93 2.78
371 396 0.674895 GGCATCTCCACGCTGAGTTT 60.675 55.000 2.16 0.00 33.93 2.66
373 398 2.581354 GGCATCTCCACGCTGAGT 59.419 61.111 2.16 0.00 33.93 3.41
374 399 2.202987 GGGCATCTCCACGCTGAG 60.203 66.667 0.00 0.00 36.21 3.35
400 425 3.064207 AGTCGATTTGTTCTTTGCGCTA 58.936 40.909 9.73 0.00 0.00 4.26
403 428 3.519908 TCAGTCGATTTGTTCTTTGCG 57.480 42.857 0.00 0.00 0.00 4.85
438 471 6.642707 ATTTTATTTTTGGGTCAGTCGACA 57.357 33.333 19.50 0.00 44.54 4.35
457 490 4.370364 ACGTGCAAGTTGACTGAATTTT 57.630 36.364 7.16 0.00 0.00 1.82
461 494 3.173668 ACTACGTGCAAGTTGACTGAA 57.826 42.857 19.39 0.00 0.00 3.02
462 495 2.882927 ACTACGTGCAAGTTGACTGA 57.117 45.000 19.39 0.00 0.00 3.41
480 513 8.975439 CGTAAAATGTACTAGTATGGGATCAAC 58.025 37.037 5.75 0.00 0.00 3.18
498 543 1.329599 GTTAGGGCGAGCCGTAAAATG 59.670 52.381 24.94 0.00 44.65 2.32
505 550 0.248949 GAAGTAGTTAGGGCGAGCCG 60.249 60.000 8.14 0.00 36.85 5.52
545 592 6.423042 CGGTTGAAAGTTTCTTCTTCTTCTC 58.577 40.000 16.33 0.00 0.00 2.87
578 625 0.449345 CACATATGCATGCGTACGCG 60.449 55.000 32.65 21.51 45.51 6.01
579 626 3.349972 CACATATGCATGCGTACGC 57.650 52.632 32.49 32.49 42.35 4.42
727 804 0.234884 GAACCAAAGTCACGAAGGCG 59.765 55.000 0.00 0.00 44.79 5.52
730 807 3.458189 AGAGTGAACCAAAGTCACGAAG 58.542 45.455 0.00 0.00 39.18 3.79
736 813 1.343465 TCCCGAGAGTGAACCAAAGTC 59.657 52.381 0.00 0.00 0.00 3.01
826 907 0.742505 CGCTCCCGGTGTAGTTCATA 59.257 55.000 0.00 0.00 0.00 2.15
972 1058 4.460948 TCGATGTGGAAAACTACCTACC 57.539 45.455 0.00 0.00 0.00 3.18
975 1061 4.759782 CTGATCGATGTGGAAAACTACCT 58.240 43.478 0.54 0.00 0.00 3.08
977 1063 3.309954 GGCTGATCGATGTGGAAAACTAC 59.690 47.826 0.54 0.00 0.00 2.73
1822 1911 8.261522 GGGCTTCTCTCTCTCTTTTTATTTCTA 58.738 37.037 0.00 0.00 0.00 2.10


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

AutoCloner maintained by Alex Coulton.