Multiple sequence alignment - TraesCS5B01G083900

Loading Multiple Alignment...

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 TraesCS5B01G083900 chr5B 100.000 2800 0 0 1 2800 105969083 105971882 0.000000e+00 5171.0
1 TraesCS5B01G083900 chr2A 98.269 2138 36 1 664 2800 593822832 593824969 0.000000e+00 3742.0
2 TraesCS5B01G083900 chr7D 96.038 1262 43 5 1540 2800 404747974 404749229 0.000000e+00 2047.0
3 TraesCS5B01G083900 chr7D 92.148 675 36 9 809 1474 404747291 404747957 0.000000e+00 937.0
4 TraesCS5B01G083900 chr7D 85.620 605 41 19 211 813 404746355 404746915 6.680000e-166 593.0
5 TraesCS5B01G083900 chr6D 94.322 1321 65 8 1483 2800 208038731 208037418 0.000000e+00 2015.0
6 TraesCS5B01G083900 chr6D 91.667 1320 102 6 1483 2800 97956252 97954939 0.000000e+00 1821.0
7 TraesCS5B01G083900 chr6D 91.988 674 36 9 809 1473 208039469 208038805 0.000000e+00 929.0
8 TraesCS5B01G083900 chr6D 88.183 677 45 21 141 813 208040491 208039846 0.000000e+00 774.0
9 TraesCS5B01G083900 chr6D 86.117 461 45 7 1020 1473 97956773 97956325 1.950000e-131 479.0
10 TraesCS5B01G083900 chr1B 93.717 1321 72 8 1483 2800 149216354 149215042 0.000000e+00 1969.0
11 TraesCS5B01G083900 chr1B 90.545 1322 116 7 1483 2800 595418762 595417446 0.000000e+00 1740.0
12 TraesCS5B01G083900 chr1B 84.473 541 60 12 948 1477 595419358 595418831 1.920000e-141 512.0
13 TraesCS5B01G083900 chr1B 89.855 207 9 5 1267 1473 149216622 149216428 3.580000e-64 255.0
14 TraesCS5B01G083900 chr1B 79.638 221 39 6 1947 2166 296532896 296533111 1.340000e-33 154.0
15 TraesCS5B01G083900 chr1B 82.524 103 10 4 359 454 595420038 595419937 1.790000e-12 84.2
16 TraesCS5B01G083900 chr2D 91.742 1320 104 4 1483 2800 254300514 254301830 0.000000e+00 1829.0
17 TraesCS5B01G083900 chr2D 85.944 498 51 10 983 1473 254299956 254300441 5.350000e-142 514.0
18 TraesCS5B01G083900 chr7A 88.166 338 38 1 2463 2800 265116336 265116671 4.340000e-108 401.0
19 TraesCS5B01G083900 chr3B 80.090 221 41 3 1947 2166 632532589 632532807 8.030000e-36 161.0


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 TraesCS5B01G083900 chr5B 105969083 105971882 2799 False 5171.000000 5171 100.000000 1 2800 1 chr5B.!!$F1 2799
1 TraesCS5B01G083900 chr2A 593822832 593824969 2137 False 3742.000000 3742 98.269000 664 2800 1 chr2A.!!$F1 2136
2 TraesCS5B01G083900 chr7D 404746355 404749229 2874 False 1192.333333 2047 91.268667 211 2800 3 chr7D.!!$F1 2589
3 TraesCS5B01G083900 chr6D 208037418 208040491 3073 True 1239.333333 2015 91.497667 141 2800 3 chr6D.!!$R2 2659
4 TraesCS5B01G083900 chr6D 97954939 97956773 1834 True 1150.000000 1821 88.892000 1020 2800 2 chr6D.!!$R1 1780
5 TraesCS5B01G083900 chr1B 149215042 149216622 1580 True 1112.000000 1969 91.786000 1267 2800 2 chr1B.!!$R1 1533
6 TraesCS5B01G083900 chr1B 595417446 595420038 2592 True 778.733333 1740 85.847333 359 2800 3 chr1B.!!$R2 2441
7 TraesCS5B01G083900 chr2D 254299956 254301830 1874 False 1171.500000 1829 88.843000 983 2800 2 chr2D.!!$F1 1817

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
509 541 0.251916 CTGTAATCACCCCGCCAGAA 59.748 55.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2181 2916 3.125829 CCATGACTGAGCAACATGTACAC 59.874 47.826 0.0 0.0 39.47 2.9 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
17 18 2.046892 GGCAGTGGCGTCATCACT 60.047 61.111 0.00 0.00 45.29 3.41
18 19 1.672356 GGCAGTGGCGTCATCACTT 60.672 57.895 0.00 0.00 42.87 3.16
19 20 1.237285 GGCAGTGGCGTCATCACTTT 61.237 55.000 0.00 0.00 42.87 2.66
20 21 1.438651 GCAGTGGCGTCATCACTTTA 58.561 50.000 0.00 0.00 42.87 1.85
21 22 1.394917 GCAGTGGCGTCATCACTTTAG 59.605 52.381 0.00 0.00 42.87 1.85
22 23 2.688507 CAGTGGCGTCATCACTTTAGT 58.311 47.619 0.00 0.00 42.87 2.24
23 24 2.668457 CAGTGGCGTCATCACTTTAGTC 59.332 50.000 0.00 0.00 42.87 2.59
24 25 2.000447 GTGGCGTCATCACTTTAGTCC 59.000 52.381 0.00 0.00 32.78 3.85
25 26 1.899814 TGGCGTCATCACTTTAGTCCT 59.100 47.619 0.00 0.00 0.00 3.85
26 27 3.093814 TGGCGTCATCACTTTAGTCCTA 58.906 45.455 0.00 0.00 0.00 2.94
27 28 3.512329 TGGCGTCATCACTTTAGTCCTAA 59.488 43.478 0.00 0.00 0.00 2.69
28 29 3.864003 GGCGTCATCACTTTAGTCCTAAC 59.136 47.826 0.00 0.00 0.00 2.34
29 30 3.546670 GCGTCATCACTTTAGTCCTAACG 59.453 47.826 0.00 0.00 0.00 3.18
30 31 4.103357 CGTCATCACTTTAGTCCTAACGG 58.897 47.826 0.00 0.00 0.00 4.44
31 32 4.142534 CGTCATCACTTTAGTCCTAACGGA 60.143 45.833 0.00 0.00 36.83 4.69
32 33 5.450137 CGTCATCACTTTAGTCCTAACGGAT 60.450 44.000 0.00 0.00 42.43 4.18
33 34 6.338937 GTCATCACTTTAGTCCTAACGGATT 58.661 40.000 0.00 0.00 42.43 3.01
34 35 6.817140 GTCATCACTTTAGTCCTAACGGATTT 59.183 38.462 0.00 0.00 42.43 2.17
35 36 6.816640 TCATCACTTTAGTCCTAACGGATTTG 59.183 38.462 0.00 0.00 42.43 2.32
36 37 5.484715 TCACTTTAGTCCTAACGGATTTGG 58.515 41.667 0.00 0.00 42.43 3.28
37 38 4.634443 CACTTTAGTCCTAACGGATTTGGG 59.366 45.833 0.00 0.00 42.43 4.12
38 39 3.918294 TTAGTCCTAACGGATTTGGGG 57.082 47.619 0.00 0.00 42.43 4.96
39 40 1.961133 AGTCCTAACGGATTTGGGGA 58.039 50.000 0.00 0.00 42.43 4.81
40 41 1.838077 AGTCCTAACGGATTTGGGGAG 59.162 52.381 0.00 0.00 42.43 4.30
41 42 0.544697 TCCTAACGGATTTGGGGAGC 59.455 55.000 0.00 0.00 36.47 4.70
42 43 0.465642 CCTAACGGATTTGGGGAGCC 60.466 60.000 0.00 0.00 32.01 4.70
43 44 0.546598 CTAACGGATTTGGGGAGCCT 59.453 55.000 0.00 0.00 0.00 4.58
44 45 0.544697 TAACGGATTTGGGGAGCCTC 59.455 55.000 0.00 0.00 0.00 4.70
45 46 2.203070 CGGATTTGGGGAGCCTCG 60.203 66.667 0.00 0.00 0.00 4.63
46 47 2.193248 GGATTTGGGGAGCCTCGG 59.807 66.667 0.00 0.00 0.00 4.63
47 48 2.193248 GATTTGGGGAGCCTCGGG 59.807 66.667 0.00 0.00 0.00 5.14
48 49 3.420482 ATTTGGGGAGCCTCGGGG 61.420 66.667 0.00 0.00 0.00 5.73
49 50 4.995058 TTTGGGGAGCCTCGGGGT 62.995 66.667 1.62 0.00 35.46 4.95
50 51 2.850851 ATTTGGGGAGCCTCGGGGTA 62.851 60.000 1.62 0.00 31.55 3.69
51 52 3.995809 TTGGGGAGCCTCGGGGTAG 62.996 68.421 1.62 0.00 31.55 3.18
52 53 4.153330 GGGGAGCCTCGGGGTAGA 62.153 72.222 1.62 0.00 31.55 2.59
53 54 2.201771 GGGAGCCTCGGGGTAGAT 59.798 66.667 1.62 0.00 31.55 1.98
54 55 2.210711 GGGAGCCTCGGGGTAGATG 61.211 68.421 1.62 0.00 31.55 2.90
55 56 2.737830 GAGCCTCGGGGTAGATGC 59.262 66.667 1.62 0.00 31.55 3.91
56 57 1.834822 GAGCCTCGGGGTAGATGCT 60.835 63.158 1.62 0.00 43.14 3.79
57 58 1.811645 GAGCCTCGGGGTAGATGCTC 61.812 65.000 1.62 0.00 46.11 4.26
58 59 1.834822 GCCTCGGGGTAGATGCTCT 60.835 63.158 1.62 0.00 34.45 4.09
59 60 1.403687 GCCTCGGGGTAGATGCTCTT 61.404 60.000 1.62 0.00 34.45 2.85
60 61 1.996798 CCTCGGGGTAGATGCTCTTA 58.003 55.000 0.00 0.00 0.00 2.10
61 62 2.530701 CCTCGGGGTAGATGCTCTTAT 58.469 52.381 0.00 0.00 0.00 1.73
62 63 3.698289 CCTCGGGGTAGATGCTCTTATA 58.302 50.000 0.00 0.00 0.00 0.98
63 64 3.697045 CCTCGGGGTAGATGCTCTTATAG 59.303 52.174 0.00 0.00 0.00 1.31
64 65 4.337145 CTCGGGGTAGATGCTCTTATAGT 58.663 47.826 0.00 0.00 0.00 2.12
65 66 5.498393 CTCGGGGTAGATGCTCTTATAGTA 58.502 45.833 0.00 0.00 0.00 1.82
66 67 6.075949 TCGGGGTAGATGCTCTTATAGTAT 57.924 41.667 0.00 0.00 32.53 2.12
67 68 6.491383 TCGGGGTAGATGCTCTTATAGTATT 58.509 40.000 0.00 0.00 29.59 1.89
68 69 7.636579 TCGGGGTAGATGCTCTTATAGTATTA 58.363 38.462 0.00 0.00 29.59 0.98
69 70 8.111545 TCGGGGTAGATGCTCTTATAGTATTAA 58.888 37.037 0.00 0.00 29.59 1.40
70 71 8.407064 CGGGGTAGATGCTCTTATAGTATTAAG 58.593 40.741 0.00 0.00 29.59 1.85
71 72 9.257428 GGGGTAGATGCTCTTATAGTATTAAGT 57.743 37.037 0.00 0.00 29.59 2.24
95 96 9.972106 AGTTACAGAGGTAGTAAAGTAGTATGT 57.028 33.333 0.00 0.00 33.64 2.29
97 98 9.745018 TTACAGAGGTAGTAAAGTAGTATGTGT 57.255 33.333 0.00 0.00 0.00 3.72
98 99 8.647256 ACAGAGGTAGTAAAGTAGTATGTGTT 57.353 34.615 0.00 0.00 0.00 3.32
99 100 9.745018 ACAGAGGTAGTAAAGTAGTATGTGTTA 57.255 33.333 0.00 0.00 0.00 2.41
197 198 4.273148 AGTGCAGGTCGAAACTATTTCT 57.727 40.909 0.00 0.00 37.52 2.52
198 199 5.401531 AGTGCAGGTCGAAACTATTTCTA 57.598 39.130 0.00 0.00 37.52 2.10
199 200 5.790593 AGTGCAGGTCGAAACTATTTCTAA 58.209 37.500 0.00 0.00 37.52 2.10
209 210 6.383147 TCGAAACTATTTCTAACTCCCTCCAT 59.617 38.462 0.25 0.00 37.52 3.41
215 216 7.834681 ACTATTTCTAACTCCCTCCATTTTTCC 59.165 37.037 0.00 0.00 0.00 3.13
230 231 5.186992 CCATTTTTCCTATTTCCCTCGGTTT 59.813 40.000 0.00 0.00 0.00 3.27
290 291 0.967380 CTGCCCAAAAATCCTCCGCT 60.967 55.000 0.00 0.00 0.00 5.52
321 338 4.940046 CCATCTATCTCAACAGCACAAGTT 59.060 41.667 0.00 0.00 0.00 2.66
340 357 3.318875 TGCTGAACACAAGTCGCG 58.681 55.556 0.00 0.00 0.00 5.87
341 358 2.243957 TGCTGAACACAAGTCGCGG 61.244 57.895 6.13 0.00 0.00 6.46
342 359 2.954753 GCTGAACACAAGTCGCGGG 61.955 63.158 6.13 0.00 0.00 6.13
343 360 1.594293 CTGAACACAAGTCGCGGGT 60.594 57.895 6.13 0.00 0.00 5.28
344 361 1.153329 TGAACACAAGTCGCGGGTT 60.153 52.632 6.13 1.48 0.00 4.11
455 479 3.300388 TCTCTTGCATTCGACCTCCTAT 58.700 45.455 0.00 0.00 0.00 2.57
459 483 2.115427 TGCATTCGACCTCCTATTGGA 58.885 47.619 0.00 0.00 40.69 3.53
461 485 2.158957 GCATTCGACCTCCTATTGGACA 60.159 50.000 0.00 0.00 37.46 4.02
465 489 3.643237 TCGACCTCCTATTGGACAGATT 58.357 45.455 0.00 0.00 37.46 2.40
498 530 2.125872 TTCGCGCGCCTGTAATCA 60.126 55.556 27.95 0.15 0.00 2.57
507 539 1.153168 CCTGTAATCACCCCGCCAG 60.153 63.158 0.00 0.00 0.00 4.85
509 541 0.251916 CTGTAATCACCCCGCCAGAA 59.748 55.000 0.00 0.00 0.00 3.02
521 553 2.342279 CCAGAACGCGGAAGGACA 59.658 61.111 12.47 0.00 0.00 4.02
522 554 2.027625 CCAGAACGCGGAAGGACAC 61.028 63.158 12.47 0.00 0.00 3.67
540 572 2.411701 CGCGTCCTCTATTCCGCA 59.588 61.111 0.00 0.00 46.02 5.69
636 708 1.002624 GTTGGGCTGGGTCATCGAA 60.003 57.895 0.00 0.00 0.00 3.71
875 1523 5.882000 ACATGACAATCTGCATTAGCTTGTA 59.118 36.000 0.00 0.00 43.66 2.41
1051 1702 6.260493 TGAATGCAATGATGAATACATGACGA 59.740 34.615 0.00 0.00 36.82 4.20
1225 1876 8.031864 ACCATTTGATACTCTGCTAGATATTCG 58.968 37.037 0.00 0.00 0.00 3.34
1627 2356 1.973281 CCAAGCGTGGCAGGACAAT 60.973 57.895 12.03 0.00 38.35 2.71
1782 2511 4.267349 TGTAGTTTGAGCTACAAGGACC 57.733 45.455 5.39 0.00 45.61 4.46
1797 2526 4.202430 ACAAGGACCGGAGAAAACTAACAT 60.202 41.667 9.46 0.00 0.00 2.71
1873 2604 6.872020 GCGCAAGTAAAGGTATATCTGGAATA 59.128 38.462 0.30 0.00 41.68 1.75
2112 2845 5.016173 CCAAAGGGTGTGATTAAGGATCAA 58.984 41.667 0.00 0.00 45.96 2.57
2181 2916 9.289303 GTACATATAAACTTGCCAGATTTGTTG 57.711 33.333 0.00 0.00 0.00 3.33
2393 3130 9.842775 CTATATGCATCTACATCCCATTTGTAT 57.157 33.333 0.19 0.00 0.00 2.29
2585 3322 4.804608 TGTTTACCACATTGTTCTCACG 57.195 40.909 0.00 0.00 0.00 4.35
2705 3442 3.382865 TGTTTTGAATGCAGTACTTGGCA 59.617 39.130 10.03 10.03 45.23 4.92
2728 3465 2.076863 GACAAGCCTGGACATGTACAC 58.923 52.381 6.68 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.237285 AAAGTGATGACGCCACTGCC 61.237 55.000 0.00 0.00 43.42 4.85
1 2 1.394917 CTAAAGTGATGACGCCACTGC 59.605 52.381 0.00 0.00 43.42 4.40
2 3 2.668457 GACTAAAGTGATGACGCCACTG 59.332 50.000 0.00 0.00 43.42 3.66
4 5 2.000447 GGACTAAAGTGATGACGCCAC 59.000 52.381 0.00 0.00 34.89 5.01
5 6 1.899814 AGGACTAAAGTGATGACGCCA 59.100 47.619 0.00 0.00 0.00 5.69
7 8 3.546670 CGTTAGGACTAAAGTGATGACGC 59.453 47.826 0.00 0.00 0.00 5.19
8 9 4.103357 CCGTTAGGACTAAAGTGATGACG 58.897 47.826 4.73 0.00 41.02 4.35
9 10 5.320549 TCCGTTAGGACTAAAGTGATGAC 57.679 43.478 4.73 0.00 42.75 3.06
23 24 0.465642 GGCTCCCCAAATCCGTTAGG 60.466 60.000 0.00 0.00 39.46 2.69
24 25 0.546598 AGGCTCCCCAAATCCGTTAG 59.453 55.000 0.00 0.00 0.00 2.34
25 26 0.544697 GAGGCTCCCCAAATCCGTTA 59.455 55.000 2.15 0.00 0.00 3.18
26 27 1.303282 GAGGCTCCCCAAATCCGTT 59.697 57.895 2.15 0.00 0.00 4.44
27 28 2.998949 GAGGCTCCCCAAATCCGT 59.001 61.111 2.15 0.00 0.00 4.69
28 29 2.203070 CGAGGCTCCCCAAATCCG 60.203 66.667 9.32 0.00 0.00 4.18
29 30 2.193248 CCGAGGCTCCCCAAATCC 59.807 66.667 9.32 0.00 0.00 3.01
30 31 2.193248 CCCGAGGCTCCCCAAATC 59.807 66.667 9.32 0.00 0.00 2.17
31 32 2.850851 TACCCCGAGGCTCCCCAAAT 62.851 60.000 9.32 0.00 36.11 2.32
32 33 3.566016 TACCCCGAGGCTCCCCAAA 62.566 63.158 9.32 0.00 36.11 3.28
33 34 3.995809 CTACCCCGAGGCTCCCCAA 62.996 68.421 9.32 0.00 36.11 4.12
34 35 4.475444 CTACCCCGAGGCTCCCCA 62.475 72.222 9.32 0.00 36.11 4.96
35 36 3.469978 ATCTACCCCGAGGCTCCCC 62.470 68.421 9.32 0.00 36.11 4.81
36 37 2.201771 ATCTACCCCGAGGCTCCC 59.798 66.667 9.32 0.00 36.11 4.30
37 38 2.873525 GCATCTACCCCGAGGCTCC 61.874 68.421 9.32 0.00 37.69 4.70
38 39 1.834822 AGCATCTACCCCGAGGCTC 60.835 63.158 3.87 3.87 46.89 4.70
39 40 2.283809 AGCATCTACCCCGAGGCT 59.716 61.111 0.00 0.00 45.18 4.58
40 41 2.737830 GAGCATCTACCCCGAGGC 59.262 66.667 0.00 0.00 40.73 4.70
69 70 9.972106 ACATACTACTTTACTACCTCTGTAACT 57.028 33.333 0.00 0.00 30.70 2.24
71 72 9.745018 ACACATACTACTTTACTACCTCTGTAA 57.255 33.333 0.00 0.00 0.00 2.41
72 73 9.745018 AACACATACTACTTTACTACCTCTGTA 57.255 33.333 0.00 0.00 0.00 2.74
73 74 8.647256 AACACATACTACTTTACTACCTCTGT 57.353 34.615 0.00 0.00 0.00 3.41
142 143 8.979574 CGTCTGACATTACTCTAAAACTCTTTT 58.020 33.333 8.73 0.00 36.67 2.27
143 144 8.358148 TCGTCTGACATTACTCTAAAACTCTTT 58.642 33.333 8.73 0.00 0.00 2.52
144 145 7.883217 TCGTCTGACATTACTCTAAAACTCTT 58.117 34.615 8.73 0.00 0.00 2.85
145 146 7.450124 TCGTCTGACATTACTCTAAAACTCT 57.550 36.000 8.73 0.00 0.00 3.24
152 153 6.208988 AGCATTTCGTCTGACATTACTCTA 57.791 37.500 8.73 0.00 0.00 2.43
188 189 9.244292 GAAAAATGGAGGGAGTTAGAAATAGTT 57.756 33.333 0.00 0.00 0.00 2.24
197 198 7.123383 GGAAATAGGAAAAATGGAGGGAGTTA 58.877 38.462 0.00 0.00 0.00 2.24
198 199 5.958380 GGAAATAGGAAAAATGGAGGGAGTT 59.042 40.000 0.00 0.00 0.00 3.01
199 200 5.519808 GGAAATAGGAAAAATGGAGGGAGT 58.480 41.667 0.00 0.00 0.00 3.85
209 210 5.637127 AGAAACCGAGGGAAATAGGAAAAA 58.363 37.500 0.00 0.00 0.00 1.94
215 216 3.200165 AGGGAAGAAACCGAGGGAAATAG 59.800 47.826 0.00 0.00 0.00 1.73
253 254 4.270008 GGCAGTTAGCTTAATTTGGAGGA 58.730 43.478 0.00 0.00 44.79 3.71
262 263 5.083821 AGGATTTTTGGGCAGTTAGCTTAA 58.916 37.500 0.00 0.00 44.79 1.85
290 291 3.207549 TGTTGAGATAGATGGGGAGAGGA 59.792 47.826 0.00 0.00 0.00 3.71
325 342 1.157870 AACCCGCGACTTGTGTTCAG 61.158 55.000 8.23 0.00 0.00 3.02
326 343 0.745128 AAACCCGCGACTTGTGTTCA 60.745 50.000 8.23 0.00 0.00 3.18
327 344 0.041576 GAAACCCGCGACTTGTGTTC 60.042 55.000 8.23 0.00 0.00 3.18
328 345 0.463116 AGAAACCCGCGACTTGTGTT 60.463 50.000 8.23 0.00 0.00 3.32
329 346 0.463116 AAGAAACCCGCGACTTGTGT 60.463 50.000 8.23 0.00 0.00 3.72
331 348 0.883370 GGAAGAAACCCGCGACTTGT 60.883 55.000 8.23 0.00 0.00 3.16
332 349 1.574702 GGGAAGAAACCCGCGACTTG 61.575 60.000 8.23 0.00 40.49 3.16
333 350 1.302271 GGGAAGAAACCCGCGACTT 60.302 57.895 8.23 4.91 40.49 3.01
334 351 2.346365 GGGAAGAAACCCGCGACT 59.654 61.111 8.23 0.00 40.49 4.18
341 358 1.145119 AGAGGTGTTGGGGAAGAAACC 59.855 52.381 0.00 0.00 0.00 3.27
342 359 2.230660 CAGAGGTGTTGGGGAAGAAAC 58.769 52.381 0.00 0.00 0.00 2.78
343 360 1.478654 GCAGAGGTGTTGGGGAAGAAA 60.479 52.381 0.00 0.00 0.00 2.52
344 361 0.110486 GCAGAGGTGTTGGGGAAGAA 59.890 55.000 0.00 0.00 0.00 2.52
479 511 2.433491 ATTACAGGCGCGCGAACA 60.433 55.556 37.18 10.67 0.00 3.18
488 520 2.516225 GGCGGGGTGATTACAGGC 60.516 66.667 0.00 0.00 0.00 4.85
507 539 3.110178 CGGTGTCCTTCCGCGTTC 61.110 66.667 4.92 0.00 41.48 3.95
519 551 1.814527 GGAATAGAGGACGCGGTGT 59.185 57.895 12.47 0.00 0.00 4.16
521 553 3.117372 CGGAATAGAGGACGCGGT 58.883 61.111 12.47 0.00 0.00 5.68
522 554 2.354773 GCGGAATAGAGGACGCGG 60.355 66.667 12.47 0.00 42.66 6.46
526 558 2.029470 CAGAGGATGCGGAATAGAGGAC 60.029 54.545 0.00 0.00 0.00 3.85
527 559 2.242926 CAGAGGATGCGGAATAGAGGA 58.757 52.381 0.00 0.00 0.00 3.71
528 560 1.967066 ACAGAGGATGCGGAATAGAGG 59.033 52.381 0.00 0.00 0.00 3.69
529 561 3.553922 GGAACAGAGGATGCGGAATAGAG 60.554 52.174 0.00 0.00 0.00 2.43
530 562 2.365617 GGAACAGAGGATGCGGAATAGA 59.634 50.000 0.00 0.00 0.00 1.98
531 563 2.760374 GGAACAGAGGATGCGGAATAG 58.240 52.381 0.00 0.00 0.00 1.73
532 564 1.068588 CGGAACAGAGGATGCGGAATA 59.931 52.381 0.00 0.00 0.00 1.75
533 565 0.179073 CGGAACAGAGGATGCGGAAT 60.179 55.000 0.00 0.00 0.00 3.01
534 566 1.218047 CGGAACAGAGGATGCGGAA 59.782 57.895 0.00 0.00 0.00 4.30
535 567 2.892640 CGGAACAGAGGATGCGGA 59.107 61.111 0.00 0.00 0.00 5.54
540 572 0.252742 AAGACCCCGGAACAGAGGAT 60.253 55.000 0.73 0.00 0.00 3.24
906 1554 6.661377 AGCATAGGTCTACATATACCACTGAG 59.339 42.308 0.00 0.00 38.30 3.35
980 1631 4.657504 TCATATCTGCTCCATGAGGAAACT 59.342 41.667 0.00 0.00 45.19 2.66
1051 1702 7.417116 GGCATTCTCATGTTCAATATGTTCCTT 60.417 37.037 0.00 0.00 32.28 3.36
1225 1876 8.437742 CAGTGCATTGTTGATTCTAATTTTTCC 58.562 33.333 0.13 0.00 0.00 3.13
1782 2511 5.955488 TCTCTCTCATGTTAGTTTTCTCCG 58.045 41.667 0.00 0.00 0.00 4.63
1820 2551 8.512138 AGTATATCCCTTTTGTTTCTTTGTTCG 58.488 33.333 0.00 0.00 0.00 3.95
1873 2604 9.559958 CGATGTTAGCAAAAGAGATTTAATGTT 57.440 29.630 0.00 0.00 0.00 2.71
2112 2845 7.815383 TCCAATTATTGACCAGAGTAATCCAT 58.185 34.615 6.50 0.00 0.00 3.41
2181 2916 3.125829 CCATGACTGAGCAACATGTACAC 59.874 47.826 0.00 0.00 39.47 2.90
2393 3130 8.113173 ACGGTTAATTTATTAAAGACCTGCAA 57.887 30.769 13.07 0.00 34.36 4.08
2495 3232 7.918033 TGTTCATTCATTTTCTTGTCGCTTTTA 59.082 29.630 0.00 0.00 0.00 1.52
2669 3406 6.572898 GCATTCAAAACATCTCCTTTCCATGA 60.573 38.462 0.00 0.00 0.00 3.07
2705 3442 0.767375 ACATGTCCAGGCTTGTCTGT 59.233 50.000 0.00 0.00 33.14 3.41
2728 3465 2.806237 GGAACTAGTCCGAGGCCG 59.194 66.667 0.00 0.00 36.40 6.13


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

AutoCloner maintained by Alex Coulton.