Multiple sequence alignment - TraesCS2D01G229800

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 TraesCS2D01G229800 chr2D 100.000 4104 0 0 1 4104 199843442 199847545 0.000000e+00 7579.0
1 TraesCS2D01G229800 chr2D 100.000 1804 0 0 4343 6146 199847784 199849587 0.000000e+00 3332.0
2 TraesCS2D01G229800 chr2D 86.547 223 23 6 5930 6146 47507902 47508123 7.960000e-59 239.0
3 TraesCS2D01G229800 chr2D 87.368 190 18 3 612 801 128418443 128418626 4.830000e-51 213.0
4 TraesCS2D01G229800 chr2D 84.158 202 28 4 603 801 569088936 569089136 6.290000e-45 193.0
5 TraesCS2D01G229800 chr2B 97.381 2253 34 5 1858 4104 376116856 376119089 0.000000e+00 3810.0
6 TraesCS2D01G229800 chr2B 95.355 1830 37 16 4344 6146 376119350 376121158 0.000000e+00 2865.0
7 TraesCS2D01G229800 chr2B 97.569 905 7 3 971 1860 376115849 376116753 0.000000e+00 1535.0
8 TraesCS2D01G229800 chr2B 94.959 972 48 1 1 971 376109457 376110428 0.000000e+00 1522.0
9 TraesCS2D01G229800 chr2B 92.000 325 16 4 650 972 376115317 376115633 1.220000e-121 448.0
10 TraesCS2D01G229800 chr2A 96.593 2113 50 6 798 2895 220360487 220362592 0.000000e+00 3483.0
11 TraesCS2D01G229800 chr2A 95.022 1607 34 16 4343 5930 220363795 220365374 0.000000e+00 2483.0
12 TraesCS2D01G229800 chr2A 95.969 1042 24 8 3064 4104 220362724 220363748 0.000000e+00 1676.0
13 TraesCS2D01G229800 chr2A 91.810 525 41 2 1 524 220358268 220358791 0.000000e+00 730.0
14 TraesCS2D01G229800 chr2A 84.962 133 14 4 3805 3937 121180317 121180443 5.000000e-26 130.0
15 TraesCS2D01G229800 chr3D 82.637 455 69 8 7 453 82401064 82400612 1.610000e-105 394.0
16 TraesCS2D01G229800 chr3D 81.264 459 76 8 1 452 269602480 269602935 4.530000e-96 363.0
17 TraesCS2D01G229800 chr3D 85.714 217 22 5 5927 6138 355882698 355882910 2.880000e-53 220.0
18 TraesCS2D01G229800 chr7D 82.998 447 62 11 10 452 417090375 417090811 5.780000e-105 392.0
19 TraesCS2D01G229800 chr7D 82.174 460 61 16 1 452 477891374 477891820 5.820000e-100 375.0
20 TraesCS2D01G229800 chr7D 85.714 224 27 4 5927 6146 412230059 412230281 1.330000e-56 231.0
21 TraesCS2D01G229800 chr4A 82.658 444 65 11 11 445 74147315 74147755 3.480000e-102 383.0
22 TraesCS2D01G229800 chr4A 87.156 218 25 3 5930 6146 609125421 609125636 1.710000e-60 244.0
23 TraesCS2D01G229800 chr4A 87.940 199 15 6 605 801 595284670 595284479 6.200000e-55 226.0
24 TraesCS2D01G229800 chr4A 85.340 191 26 2 612 801 731081732 731081921 4.860000e-46 196.0
25 TraesCS2D01G229800 chr1B 81.659 458 77 7 7 460 181212297 181212751 2.090000e-99 374.0
26 TraesCS2D01G229800 chr1B 85.714 224 24 6 5928 6144 142529158 142529380 4.790000e-56 230.0
27 TraesCS2D01G229800 chr1B 83.962 212 31 3 3894 4104 268798919 268799128 3.760000e-47 200.0
28 TraesCS2D01G229800 chr6D 81.678 453 73 6 4 452 395709415 395709861 9.730000e-98 368.0
29 TraesCS2D01G229800 chr6D 84.615 234 28 7 5919 6146 427237591 427237822 6.200000e-55 226.0
30 TraesCS2D01G229800 chr1A 88.400 250 26 2 3856 4104 241316295 241316542 1.300000e-76 298.0
31 TraesCS2D01G229800 chr1A 97.561 41 1 0 3213 3253 241314068 241314108 3.070000e-08 71.3
32 TraesCS2D01G229800 chr1D 86.400 250 31 3 3856 4104 194135303 194135550 2.820000e-68 270.0
33 TraesCS2D01G229800 chr1D 84.314 204 24 7 605 801 291081342 291081544 6.290000e-45 193.0
34 TraesCS2D01G229800 chr1D 82.353 68 11 1 3131 3198 464019451 464019517 2.390000e-04 58.4
35 TraesCS2D01G229800 chr5D 88.636 220 23 2 5928 6146 432509419 432509637 3.650000e-67 267.0
36 TraesCS2D01G229800 chr5A 87.444 223 24 2 5928 6146 638912251 638912473 2.840000e-63 254.0
37 TraesCS2D01G229800 chrUn 83.133 249 36 5 2283 2530 314013323 314013566 8.020000e-54 222.0
38 TraesCS2D01G229800 chrUn 83.133 249 36 5 2283 2530 337230628 337230871 8.020000e-54 222.0
39 TraesCS2D01G229800 chrUn 94.286 35 2 0 1337 1371 343697334 343697300 3.000000e-03 54.7
40 TraesCS2D01G229800 chr4B 84.821 224 29 3 5927 6146 516865743 516865965 2.880000e-53 220.0
41 TraesCS2D01G229800 chr3A 82.800 250 36 5 2283 2530 361615105 361614861 3.730000e-52 217.0
42 TraesCS2D01G229800 chr3A 90.476 42 4 0 3291 3332 552801403 552801362 8.610000e-04 56.5
43 TraesCS2D01G229800 chr3B 81.600 250 39 5 2283 2530 740858069 740858313 3.760000e-47 200.0
44 TraesCS2D01G229800 chr3B 85.427 199 20 7 605 801 496693785 496693976 1.350000e-46 198.0
45 TraesCS2D01G229800 chr3B 83.333 114 13 2 3841 3948 54168560 54168447 3.920000e-17 100.0
46 TraesCS2D01G229800 chr6B 85.204 196 26 3 612 805 2456005 2455811 1.350000e-46 198.0
47 TraesCS2D01G229800 chr7B 76.440 191 33 7 3788 3975 32396161 32395980 6.560000e-15 93.5
48 TraesCS2D01G229800 chr7A 89.130 46 3 2 3896 3941 148804858 148804901 8.610000e-04 56.5


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 TraesCS2D01G229800 chr2D 199843442 199849587 6145 False 5455.5 7579 100.00000 1 6146 2 chr2D.!!$F4 6145
1 TraesCS2D01G229800 chr2B 376115317 376121158 5841 False 2164.5 3810 95.57625 650 6146 4 chr2B.!!$F2 5496
2 TraesCS2D01G229800 chr2B 376109457 376110428 971 False 1522.0 1522 94.95900 1 971 1 chr2B.!!$F1 970
3 TraesCS2D01G229800 chr2A 220358268 220365374 7106 False 2093.0 3483 94.84850 1 5930 4 chr2A.!!$F2 5929

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
79 80 2.213499 GTGTGTCTCTCTGGTGGTTTG 58.787 52.381 0.00 0.00 0.00 2.93 F
842 2267 2.875080 ACTTATTTTCGAGCGCACAC 57.125 45.000 11.47 0.00 0.00 3.82 F
1521 3178 1.002857 AGGAAGGTGATGGGGGAAAG 58.997 55.000 0.00 0.00 0.00 2.62 F
3117 4885 1.287815 CGTTGGCCACGTCAGACTA 59.712 57.895 3.88 0.00 44.49 2.59 F
3328 5096 0.250234 TCGTCCCATGCAAGGAAGAG 59.750 55.000 17.11 9.71 37.04 2.85 F
4050 5820 0.913924 GGGGGTTTTCGTATGAGGGA 59.086 55.000 0.00 0.00 0.00 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1521 3178 3.735240 TGCAATTGAGTTGACGAAAATGC 59.265 39.130 10.34 0.0 40.37 3.56 R
2689 4457 3.180891 AGGCTTCTACCAATTCGCTAC 57.819 47.619 0.00 0.0 0.00 3.58 R
3160 4928 0.984995 GAGTGGCTAGGGTTTGGTCT 59.015 55.000 0.00 0.0 0.00 3.85 R
4068 5838 0.250727 CGGTCACCCCTCAAATGTGT 60.251 55.000 0.00 0.0 0.00 3.72 R
4635 6427 2.496070 TGGAAGTTAGACCGGATCACTG 59.504 50.000 9.46 0.0 0.00 3.66 R
5940 7763 0.462047 ACGAAATGAGTCGCCCCATC 60.462 55.000 0.00 0.0 45.00 3.51 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
79 80 2.213499 GTGTGTCTCTCTGGTGGTTTG 58.787 52.381 0.00 0.00 0.00 2.93
288 289 8.062065 TCTTGTTTGGACTTTGTTTGATACTT 57.938 30.769 0.00 0.00 0.00 2.24
499 501 3.764434 GGGCGGATTGATAGTAGAGATCA 59.236 47.826 0.00 0.00 0.00 2.92
536 538 8.613482 GTCTAGGCCAGAATACTTAATTTGTTC 58.387 37.037 5.01 0.00 34.17 3.18
589 1555 6.983906 ATTTGTTCTTCCTTTTGTCCATCT 57.016 33.333 0.00 0.00 0.00 2.90
593 1559 6.542821 TGTTCTTCCTTTTGTCCATCTACAT 58.457 36.000 0.00 0.00 0.00 2.29
698 1669 5.415701 AGGTATCTACGGTGACTTCGTAAAA 59.584 40.000 0.00 0.00 41.62 1.52
734 1843 3.014623 TCGGCTCAGTCTTTCGAAGATA 58.985 45.455 0.00 0.00 40.18 1.98
742 1851 7.378461 GCTCAGTCTTTCGAAGATACTCATAAG 59.622 40.741 0.00 0.00 40.18 1.73
793 1902 3.181515 TGAACACTTGCGTTTGTACTGTG 60.182 43.478 0.00 0.00 0.00 3.66
842 2267 2.875080 ACTTATTTTCGAGCGCACAC 57.125 45.000 11.47 0.00 0.00 3.82
1403 3054 4.717313 GCCCGTGAAGGTGTCCCC 62.717 72.222 0.00 0.00 38.74 4.81
1404 3055 3.246112 CCCGTGAAGGTGTCCCCA 61.246 66.667 0.00 0.00 38.74 4.96
1521 3178 1.002857 AGGAAGGTGATGGGGGAAAG 58.997 55.000 0.00 0.00 0.00 2.62
1549 3206 4.064388 TCGTCAACTCAATTGCATCTCAA 58.936 39.130 0.00 0.00 38.29 3.02
2202 3970 6.524101 TGAAGCTTTTGTAAAGTTGTTCCT 57.476 33.333 0.00 0.00 0.00 3.36
2559 4327 9.947669 AGTGTATCTATACTTACGTCATTTCAC 57.052 33.333 0.00 0.00 34.41 3.18
2689 4457 9.269453 AGATGTCATCATGTTACAATAGTGATG 57.731 33.333 16.25 16.25 44.56 3.07
2715 4483 4.514401 CGAATTGGTAGAAGCCTTAGGTT 58.486 43.478 0.00 0.00 36.10 3.50
2895 4663 6.909550 AAAAGATATCGATAGCCAGAGTCT 57.090 37.500 16.71 6.83 0.00 3.24
2896 4664 5.895636 AAGATATCGATAGCCAGAGTCTG 57.104 43.478 16.71 13.56 0.00 3.51
2898 4666 6.056090 AGATATCGATAGCCAGAGTCTGTA 57.944 41.667 18.74 6.19 0.00 2.74
2899 4667 6.477253 AGATATCGATAGCCAGAGTCTGTAA 58.523 40.000 18.74 4.25 0.00 2.41
2900 4668 4.839668 ATCGATAGCCAGAGTCTGTAAC 57.160 45.455 18.74 8.02 0.00 2.50
2901 4669 3.617284 TCGATAGCCAGAGTCTGTAACA 58.383 45.455 18.74 1.78 0.00 2.41
2902 4670 4.207955 TCGATAGCCAGAGTCTGTAACAT 58.792 43.478 18.74 6.46 0.00 2.71
2905 4673 5.233050 CGATAGCCAGAGTCTGTAACATTTG 59.767 44.000 18.74 2.17 0.00 2.32
2906 4674 4.623932 AGCCAGAGTCTGTAACATTTGA 57.376 40.909 18.74 0.00 0.00 2.69
2907 4675 4.319177 AGCCAGAGTCTGTAACATTTGAC 58.681 43.478 18.74 0.00 0.00 3.18
3015 4783 2.730129 ATTGCCACCCAACTGGACCC 62.730 60.000 0.00 0.00 35.99 4.46
3028 4796 2.167729 GGACCCCTCAAAACCCCCT 61.168 63.158 0.00 0.00 0.00 4.79
3117 4885 1.287815 CGTTGGCCACGTCAGACTA 59.712 57.895 3.88 0.00 44.49 2.59
3328 5096 0.250234 TCGTCCCATGCAAGGAAGAG 59.750 55.000 17.11 9.71 37.04 2.85
3840 5609 3.982576 TCTTCGATCGCTACTTATGCA 57.017 42.857 11.09 0.00 0.00 3.96
4050 5820 0.913924 GGGGGTTTTCGTATGAGGGA 59.086 55.000 0.00 0.00 0.00 4.20
4408 6199 2.030371 TGGTGCAGCATTTCTGTTTCA 58.970 42.857 15.99 0.00 44.66 2.69
4637 6429 3.211803 CATGTGTGCATTCAGTTCCAG 57.788 47.619 0.00 0.00 31.99 3.86
4638 6430 2.346766 TGTGTGCATTCAGTTCCAGT 57.653 45.000 0.00 0.00 0.00 4.00
4639 6431 1.948834 TGTGTGCATTCAGTTCCAGTG 59.051 47.619 0.00 0.00 0.00 3.66
4640 6432 2.221169 GTGTGCATTCAGTTCCAGTGA 58.779 47.619 0.00 0.00 0.00 3.41
5196 7002 6.607198 TCACTCCTTTTTGTTTCTCATCCTTT 59.393 34.615 0.00 0.00 0.00 3.11
5400 7209 8.051901 TCATCGAGAGTCTGAAGTTATTGTTA 57.948 34.615 0.00 0.00 0.00 2.41
5643 7458 4.830046 AGTGCTCACTTTACTTCTCTCTCA 59.170 41.667 0.00 0.00 38.83 3.27
5869 7692 7.148474 GCCTTAAGATGTTTCTATTCGTTCACA 60.148 37.037 3.36 0.00 0.00 3.58
5940 7763 0.613777 AAGGGGTAAGAGCAACTCCG 59.386 55.000 0.00 0.00 42.76 4.63
5947 7775 2.514824 GAGCAACTCCGATGGGGC 60.515 66.667 0.00 0.00 34.94 5.80
5951 7779 2.683933 AACTCCGATGGGGCGACT 60.684 61.111 0.00 0.00 34.94 4.18
6001 7830 1.153329 TGCGGACACAAAAGTCGGT 60.153 52.632 0.00 0.00 39.97 4.69
6010 7839 1.522130 AAAAGTCGGTCCAACGCGT 60.522 52.632 5.58 5.58 0.00 6.01
6022 7851 3.771568 AACGCGTCGACCCAAACGA 62.772 57.895 14.44 0.00 41.29 3.85
6042 7871 3.944233 GCGCGTCCGTTTGGTGTT 61.944 61.111 8.43 0.00 36.67 3.32
6043 7872 2.247267 CGCGTCCGTTTGGTGTTC 59.753 61.111 0.00 0.00 36.30 3.18
6044 7873 2.247267 GCGTCCGTTTGGTGTTCG 59.753 61.111 0.00 0.00 36.30 3.95
6059 7888 4.028490 TCGCCTGCCGACCCATTT 62.028 61.111 0.00 0.00 41.89 2.32
6060 7889 3.061848 CGCCTGCCGACCCATTTT 61.062 61.111 0.00 0.00 40.02 1.82
6062 7891 3.051392 GCCTGCCGACCCATTTTCG 62.051 63.158 0.00 0.00 36.20 3.46
6077 7906 0.320050 TTTCGGCCCATTTTTGAGCC 59.680 50.000 0.00 0.00 42.18 4.70
6078 7907 0.829602 TTCGGCCCATTTTTGAGCCA 60.830 50.000 0.00 0.00 46.08 4.75
6126 7959 4.129737 GCGTGCGCCTACTCCTCA 62.130 66.667 4.18 0.00 34.56 3.86
6127 7960 2.808315 CGTGCGCCTACTCCTCAT 59.192 61.111 4.18 0.00 0.00 2.90
6133 7966 1.467678 CGCCTACTCCTCATCCCAGG 61.468 65.000 0.00 0.00 34.40 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 80 8.197439 CACTTCTGTAAATTTCCATAAATCCCC 58.803 37.037 0.00 0.00 34.12 4.81
250 251 8.463930 AGTCCAAACAAGATGAAGTTTTATGA 57.536 30.769 0.00 0.00 35.90 2.15
252 253 9.533253 CAAAGTCCAAACAAGATGAAGTTTTAT 57.467 29.630 0.00 0.00 35.90 1.40
499 501 1.077005 TGGCCTAGACAAAATGCCCTT 59.923 47.619 3.32 0.00 41.46 3.95
606 1572 9.332502 TCGAAAATCCTGAAATAAATCCGATAA 57.667 29.630 0.00 0.00 0.00 1.75
608 1574 7.518370 CGTCGAAAATCCTGAAATAAATCCGAT 60.518 37.037 0.00 0.00 0.00 4.18
612 1578 7.112148 GCATCGTCGAAAATCCTGAAATAAATC 59.888 37.037 0.00 0.00 0.00 2.17
623 1589 3.181511 TGAATGTGCATCGTCGAAAATCC 60.182 43.478 0.00 0.00 0.00 3.01
629 1600 1.349234 CACTGAATGTGCATCGTCGA 58.651 50.000 0.00 0.00 40.06 4.20
669 1640 1.260033 GTCACCGTAGATACCTCGTCG 59.740 57.143 0.00 0.00 0.00 5.12
678 1649 8.761575 TTAAATTTTACGAAGTCACCGTAGAT 57.238 30.769 0.00 0.00 43.93 1.98
679 1650 8.081633 TCTTAAATTTTACGAAGTCACCGTAGA 58.918 33.333 0.00 0.00 43.93 2.59
698 1669 6.763355 ACTGAGCCGACATATCATCTTAAAT 58.237 36.000 0.00 0.00 0.00 1.40
713 1822 1.244816 TCTTCGAAAGACTGAGCCGA 58.755 50.000 0.00 0.00 41.84 5.54
734 1843 8.766476 CATACATTCATCCCTATCCTTATGAGT 58.234 37.037 0.00 0.00 30.53 3.41
742 1851 2.939103 GCGCATACATTCATCCCTATCC 59.061 50.000 0.30 0.00 0.00 2.59
842 2267 0.246873 CGTCGTGATTCGTGCACATG 60.247 55.000 18.64 0.87 40.80 3.21
850 2275 0.022853 GTAAACCGCGTCGTGATTCG 59.977 55.000 7.51 0.00 41.41 3.34
1521 3178 3.735240 TGCAATTGAGTTGACGAAAATGC 59.265 39.130 10.34 0.00 40.37 3.56
1549 3206 7.609056 CAATCCAGGAAATGTGAAGAGAAAAT 58.391 34.615 0.00 0.00 0.00 1.82
2202 3970 3.315191 GGTGCACTCAAAGCTAGAACAAA 59.685 43.478 17.98 0.00 0.00 2.83
2689 4457 3.180891 AGGCTTCTACCAATTCGCTAC 57.819 47.619 0.00 0.00 0.00 3.58
2895 4663 7.686438 AGATTATGTGCAGTCAAATGTTACA 57.314 32.000 0.00 0.00 0.00 2.41
2896 4664 9.708222 CTTAGATTATGTGCAGTCAAATGTTAC 57.292 33.333 0.00 0.00 0.00 2.50
2898 4666 8.565896 TCTTAGATTATGTGCAGTCAAATGTT 57.434 30.769 0.00 0.00 0.00 2.71
2899 4667 7.201679 GCTCTTAGATTATGTGCAGTCAAATGT 60.202 37.037 0.00 0.00 0.00 2.71
2900 4668 7.130917 GCTCTTAGATTATGTGCAGTCAAATG 58.869 38.462 0.00 0.00 0.00 2.32
2901 4669 6.825213 TGCTCTTAGATTATGTGCAGTCAAAT 59.175 34.615 0.00 0.00 31.56 2.32
2902 4670 6.172630 TGCTCTTAGATTATGTGCAGTCAAA 58.827 36.000 0.00 0.00 31.56 2.69
2905 4673 6.222389 AGATGCTCTTAGATTATGTGCAGTC 58.778 40.000 0.00 0.00 36.33 3.51
2906 4674 6.172136 AGATGCTCTTAGATTATGTGCAGT 57.828 37.500 0.00 0.00 36.33 4.40
2907 4675 7.150640 TGTAGATGCTCTTAGATTATGTGCAG 58.849 38.462 0.00 0.00 36.33 4.41
3015 4783 1.476291 GGCGTATAGGGGGTTTTGAGG 60.476 57.143 0.00 0.00 0.00 3.86
3103 4871 2.184579 GGCTAGTCTGACGTGGCC 59.815 66.667 19.49 19.49 0.00 5.36
3117 4885 1.365105 TTGTGGGTTTAGGGTGGGCT 61.365 55.000 0.00 0.00 0.00 5.19
3160 4928 0.984995 GAGTGGCTAGGGTTTGGTCT 59.015 55.000 0.00 0.00 0.00 3.85
3224 4992 2.685017 ACTCAGATCCGCTGCCCA 60.685 61.111 0.00 0.00 44.52 5.36
3840 5609 2.034221 GCCCTTGCCCTCTTCGTT 59.966 61.111 0.00 0.00 0.00 3.85
4068 5838 0.250727 CGGTCACCCCTCAAATGTGT 60.251 55.000 0.00 0.00 0.00 3.72
4069 5839 0.960364 CCGGTCACCCCTCAAATGTG 60.960 60.000 0.00 0.00 0.00 3.21
4408 6199 9.875691 GCTAGGTTTGAGGATGATTTTATTTTT 57.124 29.630 0.00 0.00 0.00 1.94
4449 6241 9.691362 CTAAGCAACAATTTTCTTTAAGCCTTA 57.309 29.630 0.00 0.00 0.00 2.69
4633 6425 2.526888 AGTTAGACCGGATCACTGGA 57.473 50.000 9.46 0.00 44.87 3.86
4635 6427 2.496070 TGGAAGTTAGACCGGATCACTG 59.504 50.000 9.46 0.00 0.00 3.66
4636 6428 2.496470 GTGGAAGTTAGACCGGATCACT 59.504 50.000 9.46 0.85 0.00 3.41
4637 6429 2.496470 AGTGGAAGTTAGACCGGATCAC 59.504 50.000 9.46 0.00 0.00 3.06
4638 6430 2.496070 CAGTGGAAGTTAGACCGGATCA 59.504 50.000 9.46 0.00 0.00 2.92
4639 6431 2.496470 ACAGTGGAAGTTAGACCGGATC 59.504 50.000 9.46 1.42 0.00 3.36
4640 6432 2.496470 GACAGTGGAAGTTAGACCGGAT 59.504 50.000 9.46 0.00 0.00 4.18
4777 6577 7.844779 AGAATCCTAGATGGGAAACTAGTAACA 59.155 37.037 0.00 0.00 39.02 2.41
5124 6930 9.569122 ACCTTCTAAACTTTCTGCACTTTATTA 57.431 29.630 0.00 0.00 0.00 0.98
5125 6931 8.465273 ACCTTCTAAACTTTCTGCACTTTATT 57.535 30.769 0.00 0.00 0.00 1.40
5126 6932 8.352942 CAACCTTCTAAACTTTCTGCACTTTAT 58.647 33.333 0.00 0.00 0.00 1.40
5196 7002 3.641648 CAGCCGATCAGCAAAAAGAAAA 58.358 40.909 3.28 0.00 34.23 2.29
5643 7458 6.438763 CGAAAAGGAGCTCAATAAGTTTTGT 58.561 36.000 17.19 0.00 0.00 2.83
5766 7582 5.359194 AAGACCATACAGAAGTGGGTATG 57.641 43.478 0.00 0.00 44.01 2.39
5799 7615 5.296035 GGCAAACTTCTACATGTACATACCC 59.704 44.000 8.32 0.00 0.00 3.69
5940 7763 0.462047 ACGAAATGAGTCGCCCCATC 60.462 55.000 0.00 0.00 45.00 3.51
5947 7775 1.413767 CCAGCGGACGAAATGAGTCG 61.414 60.000 0.00 0.00 46.54 4.18
5951 7779 2.813474 CGCCAGCGGACGAAATGA 60.813 61.111 3.61 0.00 35.56 2.57
5978 7807 0.534203 ACTTTTGTGTCCGCACCGAT 60.534 50.000 0.00 0.00 44.65 4.18
5983 7812 1.153329 ACCGACTTTTGTGTCCGCA 60.153 52.632 0.00 0.00 33.70 5.69
6001 7830 3.442512 TTTGGGTCGACGCGTTGGA 62.443 57.895 25.66 17.35 0.00 3.53
6010 7839 3.031457 CGCGTTCGTTTGGGTCGA 61.031 61.111 0.00 0.00 35.50 4.20
6034 7863 3.283684 CGGCAGGCGAACACCAAA 61.284 61.111 11.78 0.00 0.00 3.28
6035 7864 4.243008 TCGGCAGGCGAACACCAA 62.243 61.111 18.10 0.00 0.00 3.67
6036 7865 4.980805 GTCGGCAGGCGAACACCA 62.981 66.667 22.24 0.00 0.00 4.17
6040 7869 4.778143 ATGGGTCGGCAGGCGAAC 62.778 66.667 25.69 25.69 0.00 3.95
6041 7870 3.561120 AAATGGGTCGGCAGGCGAA 62.561 57.895 22.24 6.13 0.00 4.70
6042 7871 3.561120 AAAATGGGTCGGCAGGCGA 62.561 57.895 16.33 16.33 0.00 5.54
6043 7872 3.051392 GAAAATGGGTCGGCAGGCG 62.051 63.158 10.80 10.80 0.00 5.52
6044 7873 2.885113 GAAAATGGGTCGGCAGGC 59.115 61.111 0.00 0.00 0.00 4.85
6056 7885 2.615240 GGCTCAAAAATGGGCCGAAAAT 60.615 45.455 3.61 0.00 35.08 1.82
6058 7887 0.320050 GGCTCAAAAATGGGCCGAAA 59.680 50.000 3.61 0.00 35.08 3.46
6059 7888 0.829602 TGGCTCAAAAATGGGCCGAA 60.830 50.000 14.54 0.00 46.72 4.30
6060 7889 1.228706 TGGCTCAAAAATGGGCCGA 60.229 52.632 14.54 0.00 46.72 5.54
6062 7891 1.197812 ATCTGGCTCAAAAATGGGCC 58.802 50.000 12.78 12.78 44.31 5.80
6064 7893 3.004862 GCAAATCTGGCTCAAAAATGGG 58.995 45.455 0.00 0.00 0.00 4.00
6112 7941 2.134287 GGGATGAGGAGTAGGCGCA 61.134 63.158 10.83 0.00 0.00 6.09


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

AutoCloner maintained by Alex Coulton.