Multiple sequence alignment - TraesCS1B01G223000

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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 TraesCS1B01G223000 chr1B 100.000 8567 0 0 1 8567 400572585 400581151 0.000000e+00 15821.0
1 TraesCS1B01G223000 chr1B 100.000 764 0 0 6283 7046 400573630 400574393 0.000000e+00 1411.0
2 TraesCS1B01G223000 chr1B 100.000 239 0 0 1046 1284 217202674 217202436 7.890000e-120 442.0
3 TraesCS1B01G223000 chr1B 86.897 145 15 4 7838 7980 401442422 401442280 8.900000e-35 159.0
4 TraesCS1B01G223000 chr4B 98.894 5789 48 3 1277 7049 508555357 508549569 0.000000e+00 10322.0
5 TraesCS1B01G223000 chr4B 100.000 239 0 0 1046 1284 169590570 169590332 7.890000e-120 442.0
6 TraesCS1B01G223000 chr4B 100.000 239 0 0 1046 1284 508555790 508555552 7.890000e-120 442.0
7 TraesCS1B01G223000 chr2B 99.600 5245 21 0 1277 6521 80113419 80118663 0.000000e+00 9570.0
8 TraesCS1B01G223000 chr2B 99.581 5245 22 0 1277 6521 80105376 80110620 0.000000e+00 9564.0
9 TraesCS1B01G223000 chr2B 98.841 5261 45 3 1277 6521 699095987 699101247 0.000000e+00 9363.0
10 TraesCS1B01G223000 chr2B 98.745 5261 50 4 1277 6521 699088785 699094045 0.000000e+00 9335.0
11 TraesCS1B01G223000 chr2B 99.813 534 1 0 6514 7047 80118864 80119397 0.000000e+00 981.0
12 TraesCS1B01G223000 chr2B 99.625 533 2 0 6514 7046 80113419 80113951 0.000000e+00 974.0
13 TraesCS1B01G223000 chr5A 99.164 5261 28 1 1277 6521 1531362 1526102 0.000000e+00 9457.0
14 TraesCS1B01G223000 chr5A 99.164 5261 28 1 1277 6521 603437180 603442440 0.000000e+00 9457.0
15 TraesCS1B01G223000 chr5A 99.625 533 2 0 6514 7046 603437180 603437712 0.000000e+00 974.0
16 TraesCS1B01G223000 chr5A 99.625 533 2 0 6514 7046 603442641 603443173 0.000000e+00 974.0
17 TraesCS1B01G223000 chr5A 100.000 239 0 0 1046 1284 24784801 24784563 7.890000e-120 442.0
18 TraesCS1B01G223000 chr5A 100.000 239 0 0 1046 1284 24790112 24789874 7.890000e-120 442.0
19 TraesCS1B01G223000 chr5A 100.000 239 0 0 1046 1284 582870848 582871086 7.890000e-120 442.0
20 TraesCS1B01G223000 chr5A 100.000 239 0 0 1046 1284 603442202 603442440 7.890000e-120 442.0
21 TraesCS1B01G223000 chr3B 99.031 5261 34 2 1277 6521 821756638 821751379 0.000000e+00 9417.0
22 TraesCS1B01G223000 chr3B 99.012 5261 35 2 1277 6521 775569589 775574848 0.000000e+00 9411.0
23 TraesCS1B01G223000 chr3B 99.813 534 1 0 6514 7047 821748027 821747494 0.000000e+00 981.0
24 TraesCS1B01G223000 chr3B 99.258 539 3 1 6514 7052 775575049 775575586 0.000000e+00 972.0
25 TraesCS1B01G223000 chr1A 99.010 5255 35 2 1277 6515 242696287 242691034 0.000000e+00 9400.0
26 TraesCS1B01G223000 chr1A 95.866 1016 25 7 38 1045 371075681 371076687 0.000000e+00 1628.0
27 TraesCS1B01G223000 chr1A 95.688 858 33 2 7045 7898 371076681 371077538 0.000000e+00 1376.0
28 TraesCS1B01G223000 chr1A 91.930 632 27 13 7952 8567 371077627 371078250 0.000000e+00 863.0
29 TraesCS1B01G223000 chr1A 100.000 239 0 0 1046 1284 6933327 6933565 7.890000e-120 442.0
30 TraesCS1B01G223000 chr1A 99.582 239 1 0 1046 1284 242696726 242696488 3.670000e-118 436.0
31 TraesCS1B01G223000 chr1A 100.000 233 0 0 1046 1278 6924341 6924573 1.710000e-116 431.0
32 TraesCS1B01G223000 chr1A 99.163 239 2 0 1046 1284 368378029 368377791 1.710000e-116 431.0
33 TraesCS1B01G223000 chr5B 98.917 5262 40 2 1277 6521 466191158 466196419 0.000000e+00 9385.0
34 TraesCS1B01G223000 chr5B 97.244 254 5 2 1031 1284 466190706 466190957 6.140000e-116 429.0
35 TraesCS1B01G223000 chr4A 98.917 5262 40 2 1277 6521 7582632 7587893 0.000000e+00 9385.0
36 TraesCS1B01G223000 chr7A 98.860 5262 43 2 1277 6521 17277573 17272312 0.000000e+00 9369.0
37 TraesCS1B01G223000 chr7A 99.611 2574 10 0 3942 6515 521910508 521907935 0.000000e+00 4698.0
38 TraesCS1B01G223000 chr7A 99.812 533 1 0 6514 7046 519127413 519127945 0.000000e+00 979.0
39 TraesCS1B01G223000 chr6B 93.410 5508 313 26 1046 6515 9425296 9419801 0.000000e+00 8115.0
40 TraesCS1B01G223000 chr2D 92.788 2274 139 16 4243 6510 86534048 86531794 0.000000e+00 3267.0
41 TraesCS1B01G223000 chrUn 99.644 1406 5 0 4732 6137 403068960 403070365 0.000000e+00 2569.0
42 TraesCS1B01G223000 chrUn 100.000 239 0 0 1046 1284 437294654 437294892 7.890000e-120 442.0
43 TraesCS1B01G223000 chrUn 99.583 240 0 1 1046 1284 386963234 386962995 3.670000e-118 436.0
44 TraesCS1B01G223000 chrUn 99.163 239 2 0 1046 1284 438963792 438964030 1.710000e-116 431.0
45 TraesCS1B01G223000 chrUn 99.167 240 1 1 1046 1284 469524241 469524002 1.710000e-116 431.0
46 TraesCS1B01G223000 chrUn 99.163 239 1 1 1046 1284 381432511 381432748 6.140000e-116 429.0
47 TraesCS1B01G223000 chrUn 98.712 233 2 1 1046 1278 40598341 40598110 6.190000e-111 412.0
48 TraesCS1B01G223000 chrUn 98.283 233 3 1 1046 1278 399398378 399398147 2.880000e-109 407.0
49 TraesCS1B01G223000 chrUn 95.833 240 9 1 1046 1284 423304207 423303968 3.750000e-103 387.0
50 TraesCS1B01G223000 chrUn 95.417 240 10 1 1046 1284 64722171 64721932 1.750000e-101 381.0
51 TraesCS1B01G223000 chr1D 96.928 1009 21 5 38 1045 298000570 298001569 0.000000e+00 1683.0
52 TraesCS1B01G223000 chr1D 92.729 1114 56 12 7045 8147 298001563 298002662 0.000000e+00 1585.0
53 TraesCS1B01G223000 chr1D 89.644 309 26 2 8150 8456 298002764 298003068 1.040000e-103 388.0
54 TraesCS1B01G223000 chr1D 95.082 61 2 1 8508 8567 298003162 298003222 2.550000e-15 95.3


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 TraesCS1B01G223000 chr1B 400572585 400581151 8566 False 15821.000 15821 100.000000 1 8567 1 chr1B.!!$F1 8566
1 TraesCS1B01G223000 chr1B 400573630 400574393 763 False 1411.000 1411 100.000000 6283 7046 1 chr1B.!!$F2 763
2 TraesCS1B01G223000 chr4B 508549569 508555790 6221 True 5382.000 10322 99.447000 1046 7049 2 chr4B.!!$R2 6003
3 TraesCS1B01G223000 chr2B 80105376 80118663 13287 False 9567.000 9570 99.590500 1277 6521 2 chr2B.!!$F3 5244
4 TraesCS1B01G223000 chr2B 699088785 699101247 12462 False 9349.000 9363 98.793000 1277 6521 2 chr2B.!!$F4 5244
5 TraesCS1B01G223000 chr2B 80118864 80119397 533 False 981.000 981 99.813000 6514 7047 1 chr2B.!!$F2 533
6 TraesCS1B01G223000 chr2B 80113419 80113951 532 False 974.000 974 99.625000 6514 7046 1 chr2B.!!$F1 532
7 TraesCS1B01G223000 chr5A 1526102 1531362 5260 True 9457.000 9457 99.164000 1277 6521 1 chr5A.!!$R1 5244
8 TraesCS1B01G223000 chr5A 603437180 603442440 5260 False 9457.000 9457 99.164000 1277 6521 1 chr5A.!!$F2 5244
9 TraesCS1B01G223000 chr5A 603437180 603437712 532 False 974.000 974 99.625000 6514 7046 1 chr5A.!!$F3 532
10 TraesCS1B01G223000 chr5A 603442202 603443173 971 False 708.000 974 99.812500 1046 7046 2 chr5A.!!$F4 6000
11 TraesCS1B01G223000 chr3B 821747494 821756638 9144 True 5199.000 9417 99.422000 1277 7047 2 chr3B.!!$R1 5770
12 TraesCS1B01G223000 chr3B 775569589 775575586 5997 False 5191.500 9411 99.135000 1277 7052 2 chr3B.!!$F1 5775
13 TraesCS1B01G223000 chr1A 242691034 242696726 5692 True 4918.000 9400 99.296000 1046 6515 2 chr1A.!!$R2 5469
14 TraesCS1B01G223000 chr1A 371075681 371078250 2569 False 1289.000 1628 94.494667 38 8567 3 chr1A.!!$F3 8529
15 TraesCS1B01G223000 chr5B 466190706 466196419 5713 False 4907.000 9385 98.080500 1031 6521 2 chr5B.!!$F1 5490
16 TraesCS1B01G223000 chr4A 7582632 7587893 5261 False 9385.000 9385 98.917000 1277 6521 1 chr4A.!!$F1 5244
17 TraesCS1B01G223000 chr7A 17272312 17277573 5261 True 9369.000 9369 98.860000 1277 6521 1 chr7A.!!$R1 5244
18 TraesCS1B01G223000 chr7A 521907935 521910508 2573 True 4698.000 4698 99.611000 3942 6515 1 chr7A.!!$R2 2573
19 TraesCS1B01G223000 chr7A 519127413 519127945 532 False 979.000 979 99.812000 6514 7046 1 chr7A.!!$F1 532
20 TraesCS1B01G223000 chr6B 9419801 9425296 5495 True 8115.000 8115 93.410000 1046 6515 1 chr6B.!!$R1 5469
21 TraesCS1B01G223000 chr2D 86531794 86534048 2254 True 3267.000 3267 92.788000 4243 6510 1 chr2D.!!$R1 2267
22 TraesCS1B01G223000 chrUn 403068960 403070365 1405 False 2569.000 2569 99.644000 4732 6137 1 chrUn.!!$F2 1405
23 TraesCS1B01G223000 chr1D 298000570 298003222 2652 False 937.825 1683 93.595750 38 8567 4 chr1D.!!$F1 8529

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
25 26 0.104120 AACCAAAAACGCTCCTTGCC 59.896 50.000 0.0 0.0 38.78 4.52 F
41 42 0.250945 TGCCATAGCCCGTTCAAACA 60.251 50.000 0.0 0.0 38.69 2.83 F
42 43 0.451783 GCCATAGCCCGTTCAAACAG 59.548 55.000 0.0 0.0 0.00 3.16 F
7096 24025 3.322466 CGGAGCCCAAGGTGGAGT 61.322 66.667 0.0 0.0 40.96 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1824 10123 6.128526 CCAGAATTCGAAAAACTCCTACAGAC 60.129 42.308 0.00 0.0 0.0 3.51 R
4301 12600 1.337384 CGGTGATCTCCCATGTCCCA 61.337 60.000 8.22 0.0 0.0 4.37 R
7222 24151 2.711009 ACATCTTCTTGTCCCAGTCCAA 59.289 45.455 0.00 0.0 0.0 3.53 R
7980 25003 1.419762 TCCACTCCAAGCAAGCTACAA 59.580 47.619 0.00 0.0 0.0 2.41 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
20 21 3.643159 AATGAGAACCAAAAACGCTCC 57.357 42.857 0.00 0.00 0.00 4.70
21 22 2.341846 TGAGAACCAAAAACGCTCCT 57.658 45.000 0.00 0.00 0.00 3.69
22 23 2.650322 TGAGAACCAAAAACGCTCCTT 58.350 42.857 0.00 0.00 0.00 3.36
23 24 2.357637 TGAGAACCAAAAACGCTCCTTG 59.642 45.455 0.00 0.00 0.00 3.61
24 25 1.067060 AGAACCAAAAACGCTCCTTGC 59.933 47.619 0.00 0.00 38.57 4.01
25 26 0.104120 AACCAAAAACGCTCCTTGCC 59.896 50.000 0.00 0.00 38.78 4.52
26 27 1.040339 ACCAAAAACGCTCCTTGCCA 61.040 50.000 0.00 0.00 38.78 4.92
27 28 0.318120 CCAAAAACGCTCCTTGCCAT 59.682 50.000 0.00 0.00 38.78 4.40
28 29 1.543802 CCAAAAACGCTCCTTGCCATA 59.456 47.619 0.00 0.00 38.78 2.74
29 30 2.415893 CCAAAAACGCTCCTTGCCATAG 60.416 50.000 0.00 0.00 38.78 2.23
30 31 0.811281 AAAACGCTCCTTGCCATAGC 59.189 50.000 0.00 0.00 38.78 2.97
31 32 1.032114 AAACGCTCCTTGCCATAGCC 61.032 55.000 0.00 0.00 38.69 3.93
32 33 2.592861 CGCTCCTTGCCATAGCCC 60.593 66.667 0.00 0.00 38.69 5.19
33 34 2.592861 GCTCCTTGCCATAGCCCG 60.593 66.667 0.00 0.00 38.69 6.13
34 35 2.911143 CTCCTTGCCATAGCCCGT 59.089 61.111 0.00 0.00 38.69 5.28
35 36 1.224592 CTCCTTGCCATAGCCCGTT 59.775 57.895 0.00 0.00 38.69 4.44
36 37 0.815615 CTCCTTGCCATAGCCCGTTC 60.816 60.000 0.00 0.00 38.69 3.95
37 38 1.077787 CCTTGCCATAGCCCGTTCA 60.078 57.895 0.00 0.00 38.69 3.18
38 39 0.679640 CCTTGCCATAGCCCGTTCAA 60.680 55.000 0.00 0.00 38.69 2.69
39 40 1.173043 CTTGCCATAGCCCGTTCAAA 58.827 50.000 0.00 0.00 38.69 2.69
40 41 0.885196 TTGCCATAGCCCGTTCAAAC 59.115 50.000 0.00 0.00 38.69 2.93
41 42 0.250945 TGCCATAGCCCGTTCAAACA 60.251 50.000 0.00 0.00 38.69 2.83
42 43 0.451783 GCCATAGCCCGTTCAAACAG 59.548 55.000 0.00 0.00 0.00 3.16
43 44 0.451783 CCATAGCCCGTTCAAACAGC 59.548 55.000 0.00 0.00 0.00 4.40
74 75 5.190330 TGGTTTCCCCTTATGTTCTACTACC 59.810 44.000 0.00 0.00 0.00 3.18
87 88 5.109903 GTTCTACTACCACGAATTGCAGAT 58.890 41.667 0.00 0.00 0.00 2.90
88 89 5.339008 TCTACTACCACGAATTGCAGATT 57.661 39.130 0.00 0.00 0.00 2.40
91 92 5.705609 ACTACCACGAATTGCAGATTTTT 57.294 34.783 0.00 0.00 0.00 1.94
92 93 6.811253 ACTACCACGAATTGCAGATTTTTA 57.189 33.333 0.00 0.00 0.00 1.52
224 228 8.608185 TTCCTTTAAATAAGCCCAAATCTGAT 57.392 30.769 0.00 0.00 0.00 2.90
1824 10123 9.709495 TTTTCTCATCAATCCAAAAACCTAATG 57.291 29.630 0.00 0.00 0.00 1.90
3852 12151 4.090588 TCAACGTGCCGATCCCCC 62.091 66.667 0.00 0.00 0.00 5.40
5654 13970 4.175787 GACTATGTCCATACGGCTAAGG 57.824 50.000 0.00 0.00 0.00 2.69
7096 24025 3.322466 CGGAGCCCAAGGTGGAGT 61.322 66.667 0.00 0.00 40.96 3.85
7257 24186 1.524621 GATGTGGATGCAGGACCGG 60.525 63.158 0.00 0.00 0.00 5.28
7344 24273 4.862447 CCGCCTGGCATGCTGCTA 62.862 66.667 20.29 1.02 44.28 3.49
7587 24516 5.551760 AGCTAGTTGGAACATGAAATTCG 57.448 39.130 0.00 0.00 39.30 3.34
7631 24560 6.936279 TGAACCTCAATTACTGGACTAAGAG 58.064 40.000 0.00 0.00 0.00 2.85
7679 24611 6.307318 GTGAAAGCTGCATCTTATTTCTGTTG 59.693 38.462 2.71 0.00 32.42 3.33
7680 24612 5.972107 AAGCTGCATCTTATTTCTGTTGT 57.028 34.783 0.00 0.00 0.00 3.32
7696 24628 9.956720 ATTTCTGTTGTTTTTGTCTGAAGATAG 57.043 29.630 0.00 0.00 0.00 2.08
7699 24631 7.066887 TCTGTTGTTTTTGTCTGAAGATAGCAA 59.933 33.333 0.00 0.00 0.00 3.91
7716 24649 7.338710 AGATAGCAATAGTCCTAAAGTTGCAA 58.661 34.615 10.50 0.00 45.54 4.08
7729 24662 6.753744 CCTAAAGTTGCAAATATCTGAAAGCC 59.246 38.462 0.00 0.00 0.00 4.35
7770 24703 7.822334 TGTTCCTATATGATTCAAACGAGTTGT 59.178 33.333 0.00 0.00 38.47 3.32
7800 24733 3.623060 CCAGCAATACATGAACGTAAGCT 59.377 43.478 0.00 0.00 45.62 3.74
7813 24746 7.853377 TGAACGTAAGCTATCATTTATCGAG 57.147 36.000 0.00 0.00 45.62 4.04
7816 24749 8.508800 AACGTAAGCTATCATTTATCGAGAAG 57.491 34.615 0.00 0.00 45.62 2.85
7906 24842 8.543862 AATTCATTTTCAGCTTTTCAGAATCC 57.456 30.769 0.00 0.00 0.00 3.01
7907 24843 6.906157 TCATTTTCAGCTTTTCAGAATCCT 57.094 33.333 0.00 0.00 0.00 3.24
7908 24844 8.408043 TTCATTTTCAGCTTTTCAGAATCCTA 57.592 30.769 0.00 0.00 0.00 2.94
7909 24845 8.048534 TCATTTTCAGCTTTTCAGAATCCTAG 57.951 34.615 0.00 0.00 0.00 3.02
7910 24846 5.886960 TTTCAGCTTTTCAGAATCCTAGC 57.113 39.130 0.00 0.00 0.00 3.42
7911 24847 4.833478 TCAGCTTTTCAGAATCCTAGCT 57.167 40.909 0.00 0.00 39.38 3.32
7912 24848 5.939764 TCAGCTTTTCAGAATCCTAGCTA 57.060 39.130 0.00 0.00 36.88 3.32
7913 24849 6.299805 TCAGCTTTTCAGAATCCTAGCTAA 57.700 37.500 0.00 0.00 36.88 3.09
7914 24850 6.344500 TCAGCTTTTCAGAATCCTAGCTAAG 58.656 40.000 0.00 0.00 36.88 2.18
7916 24852 4.819088 GCTTTTCAGAATCCTAGCTAAGGG 59.181 45.833 0.00 0.00 46.55 3.95
7917 24853 5.396884 GCTTTTCAGAATCCTAGCTAAGGGA 60.397 44.000 4.31 4.31 46.55 4.20
7918 24854 5.615925 TTTCAGAATCCTAGCTAAGGGAC 57.384 43.478 3.93 0.00 46.55 4.46
7919 24855 3.577919 TCAGAATCCTAGCTAAGGGACC 58.422 50.000 3.93 0.70 46.55 4.46
7920 24856 2.635427 CAGAATCCTAGCTAAGGGACCC 59.365 54.545 0.59 0.59 46.55 4.46
7921 24857 2.524875 AGAATCCTAGCTAAGGGACCCT 59.475 50.000 7.44 7.44 46.55 4.34
7922 24858 3.050954 AGAATCCTAGCTAAGGGACCCTT 60.051 47.826 28.79 28.79 46.55 3.95
7923 24859 2.963654 TCCTAGCTAAGGGACCCTTT 57.036 50.000 30.80 15.75 41.69 3.11
8122 25152 7.686438 AAAAATTCCATTAAGCCCAAATCAC 57.314 32.000 0.00 0.00 0.00 3.06
8124 25154 3.358111 TCCATTAAGCCCAAATCACGA 57.642 42.857 0.00 0.00 0.00 4.35
8129 25159 5.120053 CCATTAAGCCCAAATCACGAAAAAC 59.880 40.000 0.00 0.00 0.00 2.43
8261 25392 4.275443 TGTTTTGATTGGAATTGGCTTTGC 59.725 37.500 0.00 0.00 0.00 3.68
8336 25467 6.272090 TGATAGGCCATATCCATTCACTGTTA 59.728 38.462 5.01 0.00 39.78 2.41
8395 25527 9.473007 TGATGGAATTTTAGAATCATTGGTACA 57.527 29.630 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.858646 GCAAGGAGCGTTTTTGGTTCTC 60.859 50.000 0.00 0.00 0.00 2.87
5 6 1.487482 GCAAGGAGCGTTTTTGGTTC 58.513 50.000 0.00 0.00 0.00 3.62
6 7 3.659850 GCAAGGAGCGTTTTTGGTT 57.340 47.368 0.00 0.00 0.00 3.67
16 17 2.592861 CGGGCTATGGCAAGGAGC 60.593 66.667 2.58 10.08 44.65 4.70
17 18 0.815615 GAACGGGCTATGGCAAGGAG 60.816 60.000 2.58 0.00 40.87 3.69
18 19 1.223487 GAACGGGCTATGGCAAGGA 59.777 57.895 2.58 0.00 40.87 3.36
19 20 0.679640 TTGAACGGGCTATGGCAAGG 60.680 55.000 2.58 0.00 40.87 3.61
20 21 1.135402 GTTTGAACGGGCTATGGCAAG 60.135 52.381 2.58 0.00 40.87 4.01
21 22 0.885196 GTTTGAACGGGCTATGGCAA 59.115 50.000 2.58 0.00 40.87 4.52
22 23 0.250945 TGTTTGAACGGGCTATGGCA 60.251 50.000 2.58 0.00 40.87 4.92
23 24 0.451783 CTGTTTGAACGGGCTATGGC 59.548 55.000 0.00 0.00 37.82 4.40
24 25 0.451783 GCTGTTTGAACGGGCTATGG 59.548 55.000 4.97 0.00 35.81 2.74
25 26 3.996825 GCTGTTTGAACGGGCTATG 57.003 52.632 4.97 0.00 35.81 2.23
30 31 3.510719 CAATTATGGCTGTTTGAACGGG 58.489 45.455 4.97 0.00 35.81 5.28
31 32 3.510719 CCAATTATGGCTGTTTGAACGG 58.489 45.455 0.00 0.00 40.58 4.44
107 108 1.628340 TCGGTTCCCAGTGATTGATGT 59.372 47.619 0.00 0.00 0.00 3.06
209 213 8.641541 GGATTTATTTCATCAGATTTGGGCTTA 58.358 33.333 0.00 0.00 0.00 3.09
224 228 7.377398 CCCATAAATGCATCGGATTTATTTCA 58.623 34.615 0.00 2.71 34.96 2.69
1824 10123 6.128526 CCAGAATTCGAAAAACTCCTACAGAC 60.129 42.308 0.00 0.00 0.00 3.51
4301 12600 1.337384 CGGTGATCTCCCATGTCCCA 61.337 60.000 8.22 0.00 0.00 4.37
7222 24151 2.711009 ACATCTTCTTGTCCCAGTCCAA 59.289 45.455 0.00 0.00 0.00 3.53
7342 24271 3.630148 CGGCTGGTGCGCGAATAG 61.630 66.667 12.10 3.13 40.82 1.73
7587 24516 0.036875 AACCAGCCTACCAGAAGCAC 59.963 55.000 0.00 0.00 0.00 4.40
7679 24611 8.178313 GGACTATTGCTATCTTCAGACAAAAAC 58.822 37.037 0.00 0.00 0.00 2.43
7680 24612 8.103305 AGGACTATTGCTATCTTCAGACAAAAA 58.897 33.333 0.00 0.00 0.00 1.94
7694 24626 7.938140 ATTTGCAACTTTAGGACTATTGCTA 57.062 32.000 0.00 6.85 44.69 3.49
7696 24628 8.624776 AGATATTTGCAACTTTAGGACTATTGC 58.375 33.333 0.00 8.48 44.66 3.56
7699 24631 9.905713 TTCAGATATTTGCAACTTTAGGACTAT 57.094 29.630 0.00 0.00 0.00 2.12
7716 24649 4.530875 CAGAACCAGGGCTTTCAGATATT 58.469 43.478 0.00 0.00 0.00 1.28
7729 24662 1.457346 GAACAGGATGCAGAACCAGG 58.543 55.000 9.45 0.00 42.53 4.45
7787 24720 8.227731 TCGATAAATGATAGCTTACGTTCATG 57.772 34.615 0.00 0.00 0.00 3.07
7790 24723 8.503486 TTCTCGATAAATGATAGCTTACGTTC 57.497 34.615 0.00 0.00 0.00 3.95
7800 24733 8.551205 GCAATCAACACTTCTCGATAAATGATA 58.449 33.333 0.00 0.00 0.00 2.15
7813 24746 2.477863 GGTATGGCGCAATCAACACTTC 60.478 50.000 10.83 0.00 0.00 3.01
7816 24749 0.248054 CGGTATGGCGCAATCAACAC 60.248 55.000 10.83 0.00 0.00 3.32
7905 24841 2.478292 TCAAAGGGTCCCTTAGCTAGG 58.522 52.381 24.08 9.33 43.92 3.02
7906 24842 4.164221 TGAATCAAAGGGTCCCTTAGCTAG 59.836 45.833 24.08 11.31 43.92 3.42
7907 24843 4.108570 TGAATCAAAGGGTCCCTTAGCTA 58.891 43.478 24.08 9.78 43.92 3.32
7908 24844 2.919602 TGAATCAAAGGGTCCCTTAGCT 59.080 45.455 24.08 5.48 43.92 3.32
7909 24845 3.366052 TGAATCAAAGGGTCCCTTAGC 57.634 47.619 24.08 11.49 43.92 3.09
7913 24849 9.127560 TGATATATTATGAATCAAAGGGTCCCT 57.872 33.333 3.85 3.85 33.87 4.20
7914 24850 9.927081 ATGATATATTATGAATCAAAGGGTCCC 57.073 33.333 0.00 0.00 33.60 4.46
7960 24922 9.181805 GCTACAAATGAAAACTTCCTAAGAAAC 57.818 33.333 0.00 0.00 0.00 2.78
7980 25003 1.419762 TCCACTCCAAGCAAGCTACAA 59.580 47.619 0.00 0.00 0.00 2.41
8110 25139 4.142049 TGAAGTTTTTCGTGATTTGGGCTT 60.142 37.500 0.00 0.00 36.04 4.35
8226 25355 4.021981 CCAATCAAAACAGGAAAGACTCCC 60.022 45.833 0.00 0.00 46.81 4.30
8261 25392 6.183360 GGATTTAGGTGTTTCGGAAATGAGAG 60.183 42.308 6.43 0.00 0.00 3.20
8301 25432 3.870538 ATGGCCTATCATTCTTCTGCA 57.129 42.857 3.32 0.00 0.00 4.41
8474 25660 3.327757 ACTCTACTTCAAACATCCCAGCA 59.672 43.478 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.