Multiple sequence alignment - TraesCS3D01G324500

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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 TraesCS3D01G324500 chr3D 100.000 2596 0 0 1 2596 437496031 437493436 0.000000e+00 4795.0
1 TraesCS3D01G324500 chr3D 79.545 484 85 9 1 478 191567865 191568340 1.490000e-87 333.0
2 TraesCS3D01G324500 chr3B 95.028 1086 38 8 684 1764 572751304 572750230 0.000000e+00 1692.0
3 TraesCS3D01G324500 chr3B 92.760 663 41 5 1831 2490 572750089 572749431 0.000000e+00 952.0
4 TraesCS3D01G324500 chr3B 90.476 693 45 5 1 692 572753425 572752753 0.000000e+00 894.0
5 TraesCS3D01G324500 chr3A 92.468 1009 43 14 778 1764 575500560 575499563 0.000000e+00 1411.0
6 TraesCS3D01G324500 chr3A 94.648 710 34 3 1794 2499 575499445 575498736 0.000000e+00 1098.0
7 TraesCS3D01G324500 chr3A 90.805 348 29 3 167 514 575543067 575542723 1.820000e-126 462.0
8 TraesCS3D01G324500 chr3A 85.479 365 53 0 1 365 639421378 639421014 5.240000e-102 381.0
9 TraesCS3D01G324500 chr3A 91.525 177 14 1 526 701 575501131 575500955 2.580000e-60 243.0
10 TraesCS3D01G324500 chr3A 96.386 83 2 1 2514 2596 575498526 575498445 4.510000e-28 135.0
11 TraesCS3D01G324500 chr3A 97.183 71 0 2 721 791 575500851 575500783 4.540000e-23 119.0
12 TraesCS3D01G324500 chr6A 88.518 479 53 2 1 478 228532588 228532111 1.730000e-161 579.0
13 TraesCS3D01G324500 chr6B 87.891 479 56 2 1 478 394654406 394654883 1.740000e-156 562.0
14 TraesCS3D01G324500 chr6D 87.708 480 56 3 1 478 174389832 174390310 8.120000e-155 556.0
15 TraesCS3D01G324500 chr6D 86.207 145 12 3 1653 1792 454001051 454000910 1.610000e-32 150.0
16 TraesCS3D01G324500 chr5A 81.277 470 82 5 1 467 341879575 341880041 2.440000e-100 375.0
17 TraesCS3D01G324500 chr1B 79.583 480 94 4 1 478 499484383 499483906 8.900000e-90 340.0
18 TraesCS3D01G324500 chr1B 100.000 28 0 0 1809 1836 510917948 510917921 5.000000e-03 52.8
19 TraesCS3D01G324500 chr7A 100.000 30 0 0 1807 1836 501077716 501077687 3.610000e-04 56.5
20 TraesCS3D01G324500 chr7A 100.000 28 0 0 1809 1836 300320836 300320863 5.000000e-03 52.8
21 TraesCS3D01G324500 chr7B 100.000 29 0 0 1808 1836 254488484 254488512 1.000000e-03 54.7
22 TraesCS3D01G324500 chr5B 100.000 28 0 0 1809 1836 693086937 693086910 5.000000e-03 52.8
23 TraesCS3D01G324500 chr4A 100.000 28 0 0 1809 1836 731341879 731341906 5.000000e-03 52.8


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 TraesCS3D01G324500 chr3D 437493436 437496031 2595 True 4795.000000 4795 100.000000 1 2596 1 chr3D.!!$R1 2595
1 TraesCS3D01G324500 chr3B 572749431 572753425 3994 True 1179.333333 1692 92.754667 1 2490 3 chr3B.!!$R1 2489
2 TraesCS3D01G324500 chr3A 575498445 575501131 2686 True 601.200000 1411 94.442000 526 2596 5 chr3A.!!$R3 2070

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
315 316 0.040157 GAACTGCTCAATGCGCACAA 60.04 50.0 14.9 0.0 46.63 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1765 3566 0.872388 CGCCAGGTTTGGTTCTACAC 59.128 55.0 0.0 0.0 46.8 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
44 45 1.224592 CCCCTTCATGCGTAAGGCT 59.775 57.895 6.21 0.00 41.91 4.58
87 88 4.097437 TGACCTTATCGTACGCTTTCTCAT 59.903 41.667 11.24 0.00 0.00 2.90
89 90 5.759963 ACCTTATCGTACGCTTTCTCATAG 58.240 41.667 11.24 0.00 0.00 2.23
109 110 8.331931 TCATAGTCCACTTTGAATATAACCCT 57.668 34.615 0.00 0.00 32.39 4.34
124 125 3.553828 AACCCTGTCAAGTTTCTTCGA 57.446 42.857 0.00 0.00 0.00 3.71
157 158 5.553952 CGTGAAGAGTTTCGTGTAAGACAAC 60.554 44.000 0.00 0.00 36.04 3.32
172 173 2.638363 AGACAACAACCCCTTCTAGGAC 59.362 50.000 0.00 0.00 37.67 3.85
175 176 2.564062 CAACAACCCCTTCTAGGACGTA 59.436 50.000 0.00 0.00 37.67 3.57
181 182 2.516906 CCCTTCTAGGACGTATCTCCC 58.483 57.143 0.00 0.00 37.67 4.30
193 194 2.223971 CGTATCTCCCCAGCATAAACGT 60.224 50.000 0.00 0.00 0.00 3.99
200 201 2.093658 CCCCAGCATAAACGTAGACTGT 60.094 50.000 0.00 0.00 0.00 3.55
211 212 2.895404 ACGTAGACTGTGTTGGGTGTAT 59.105 45.455 0.00 0.00 0.00 2.29
225 226 1.476833 GGTGTATCACCGAATGGGCAT 60.477 52.381 3.12 0.00 44.95 4.40
227 228 2.687935 GTGTATCACCGAATGGGCATTT 59.312 45.455 0.00 0.00 40.62 2.32
233 234 1.272212 ACCGAATGGGCATTTTGTGTC 59.728 47.619 0.00 0.00 40.62 3.67
242 243 4.346418 TGGGCATTTTGTGTCAACCTATTT 59.654 37.500 0.00 0.00 32.76 1.40
301 302 1.115467 AGGTAGATCGGCCTGAACTG 58.885 55.000 14.50 0.00 33.13 3.16
315 316 0.040157 GAACTGCTCAATGCGCACAA 60.040 50.000 14.90 0.00 46.63 3.33
316 317 0.385029 AACTGCTCAATGCGCACAAA 59.615 45.000 14.90 0.00 46.63 2.83
367 368 5.258051 TGTTCCACAGTTTAGGTGAAAAGT 58.742 37.500 0.00 0.00 38.54 2.66
368 369 5.355910 TGTTCCACAGTTTAGGTGAAAAGTC 59.644 40.000 0.00 0.00 38.54 3.01
373 374 6.202954 CCACAGTTTAGGTGAAAAGTCTGTAG 59.797 42.308 0.00 0.00 38.54 2.74
378 379 8.148999 AGTTTAGGTGAAAAGTCTGTAGGTTAG 58.851 37.037 0.00 0.00 0.00 2.34
379 380 7.844493 TTAGGTGAAAAGTCTGTAGGTTAGA 57.156 36.000 0.00 0.00 0.00 2.10
393 394 8.372459 TCTGTAGGTTAGAGCTAAACAAATCAA 58.628 33.333 12.18 0.00 35.28 2.57
395 396 7.606456 TGTAGGTTAGAGCTAAACAAATCAAGG 59.394 37.037 12.18 0.00 35.28 3.61
397 398 7.406104 AGGTTAGAGCTAAACAAATCAAGGAT 58.594 34.615 12.18 0.00 35.28 3.24
410 411 6.718454 ACAAATCAAGGATCATAGGCATTAGG 59.282 38.462 0.00 0.00 0.00 2.69
450 451 5.705441 TGCCAACACCTCTTATAAAACTCTG 59.295 40.000 0.00 0.00 0.00 3.35
456 457 4.224370 ACCTCTTATAAAACTCTGCCGGAA 59.776 41.667 5.05 0.00 0.00 4.30
457 458 5.183228 CCTCTTATAAAACTCTGCCGGAAA 58.817 41.667 5.05 0.00 0.00 3.13
480 481 3.322466 CCGGACCAGGAGCCTGTT 61.322 66.667 14.97 0.48 42.15 3.16
481 482 2.046892 CGGACCAGGAGCCTGTTG 60.047 66.667 14.97 3.80 42.15 3.33
482 483 2.583441 CGGACCAGGAGCCTGTTGA 61.583 63.158 14.97 0.00 42.15 3.18
483 484 1.761174 GGACCAGGAGCCTGTTGAA 59.239 57.895 14.97 0.00 42.15 2.69
484 485 0.110486 GGACCAGGAGCCTGTTGAAA 59.890 55.000 14.97 0.00 42.15 2.69
485 486 1.478654 GGACCAGGAGCCTGTTGAAAA 60.479 52.381 14.97 0.00 42.15 2.29
529 530 8.307483 CAGATCTTACTAACAAGGAGAAGTCAA 58.693 37.037 0.00 0.00 0.00 3.18
550 552 2.236395 AGGTCGATCATTTCGGACCTTT 59.764 45.455 10.84 0.00 46.72 3.11
603 605 8.417273 TCATAGGACCTTGATATTTCATACGA 57.583 34.615 0.00 0.00 0.00 3.43
632 635 1.686052 AGAGATGCTCTTAAGAGGCGG 59.314 52.381 29.22 9.51 37.60 6.13
762 2305 6.558009 GCAATTGAGCTGTGAAATCAATAGA 58.442 36.000 10.34 0.00 41.56 1.98
808 2588 3.907260 TAGAGACGGTCGTGGCGGT 62.907 63.158 0.00 0.00 0.00 5.68
948 2728 0.672401 CATGTTACCCTCACGCCGTT 60.672 55.000 0.00 0.00 0.00 4.44
973 2760 2.223688 CGTCATCAACTGGCCACAAAAA 60.224 45.455 0.00 0.00 0.00 1.94
976 2763 2.151502 TCAACTGGCCACAAAAAGGA 57.848 45.000 0.00 0.00 0.00 3.36
980 2767 1.043022 CTGGCCACAAAAAGGAAGCT 58.957 50.000 0.00 0.00 0.00 3.74
1359 3147 0.980423 GTCCTTCTCCTTCCAGCACT 59.020 55.000 0.00 0.00 0.00 4.40
1477 3265 1.296715 CGGTTGTGAAGGAGGAGGG 59.703 63.158 0.00 0.00 0.00 4.30
1507 3301 3.637273 GGCCACCGGAGTTGAGGT 61.637 66.667 9.46 0.00 42.34 3.85
1508 3302 2.430367 GCCACCGGAGTTGAGGTT 59.570 61.111 9.46 0.00 39.00 3.50
1520 3314 0.181587 TTGAGGTTGGCAAAGACGGA 59.818 50.000 0.00 0.00 0.00 4.69
1612 3406 6.471233 ACGATGACTCTCTGGATTTGATTA 57.529 37.500 0.00 0.00 0.00 1.75
1626 3421 5.354234 GGATTTGATTAGTTTCTTCTCCGCA 59.646 40.000 0.00 0.00 0.00 5.69
1627 3422 5.862924 TTTGATTAGTTTCTTCTCCGCAG 57.137 39.130 0.00 0.00 0.00 5.18
1631 3426 2.047274 TTTCTTCTCCGCAGCCCG 60.047 61.111 0.00 0.00 0.00 6.13
1740 3535 6.928520 AGCTTTGTTTTCTTATGGAATGGAG 58.071 36.000 0.00 0.00 33.53 3.86
1764 3565 3.485463 TGGAAGTCAACGTTGATTCCT 57.515 42.857 37.69 28.62 40.94 3.36
1765 3566 3.138304 TGGAAGTCAACGTTGATTCCTG 58.862 45.455 37.69 18.73 40.94 3.86
1824 3713 1.368203 TGAAATACTCCCTCCCTCCCA 59.632 52.381 0.00 0.00 0.00 4.37
1825 3714 2.021042 TGAAATACTCCCTCCCTCCCAT 60.021 50.000 0.00 0.00 0.00 4.00
1826 3715 3.211232 TGAAATACTCCCTCCCTCCCATA 59.789 47.826 0.00 0.00 0.00 2.74
1827 3716 4.240323 GAAATACTCCCTCCCTCCCATAA 58.760 47.826 0.00 0.00 0.00 1.90
1829 3718 2.124560 ACTCCCTCCCTCCCATAATG 57.875 55.000 0.00 0.00 0.00 1.90
1907 3799 4.492791 ACCGTTTCCCTTTACAAAATCG 57.507 40.909 0.00 0.00 0.00 3.34
1909 3801 4.214758 ACCGTTTCCCTTTACAAAATCGAG 59.785 41.667 0.00 0.00 0.00 4.04
2190 4084 2.128771 AGCGCAATACAGGTTCCAAT 57.871 45.000 11.47 0.00 0.00 3.16
2278 4173 0.034337 TCGGCTAAGCGTTTTGACCT 59.966 50.000 0.00 0.00 0.00 3.85
2280 4175 2.070783 CGGCTAAGCGTTTTGACCTTA 58.929 47.619 0.00 0.00 0.00 2.69
2352 4247 5.883115 TGACACAAAAACATCCTTGTAGTCA 59.117 36.000 12.16 12.16 39.04 3.41
2455 4350 4.457603 TGTTGTCCCGATCAAATAGTTTGG 59.542 41.667 2.92 0.00 40.98 3.28
2478 4373 7.393216 TGGCTACTAAATGCATTTCCAAATTT 58.607 30.769 27.28 5.42 0.00 1.82
2499 4394 4.926860 TCAAATGCAGATACGAGTGTTG 57.073 40.909 0.00 0.00 0.00 3.33
2500 4395 4.565022 TCAAATGCAGATACGAGTGTTGA 58.435 39.130 0.00 0.00 0.00 3.18
2501 4396 4.994217 TCAAATGCAGATACGAGTGTTGAA 59.006 37.500 0.00 0.00 0.00 2.69
2502 4397 5.643348 TCAAATGCAGATACGAGTGTTGAAT 59.357 36.000 0.00 0.00 0.00 2.57
2503 4398 6.816140 TCAAATGCAGATACGAGTGTTGAATA 59.184 34.615 0.00 0.00 0.00 1.75
2504 4399 6.834959 AATGCAGATACGAGTGTTGAATAG 57.165 37.500 0.00 0.00 0.00 1.73
2505 4400 5.324784 TGCAGATACGAGTGTTGAATAGT 57.675 39.130 0.00 0.00 0.00 2.12
2506 4401 5.340803 TGCAGATACGAGTGTTGAATAGTC 58.659 41.667 0.00 0.00 0.00 2.59
2507 4402 5.105917 TGCAGATACGAGTGTTGAATAGTCA 60.106 40.000 0.00 0.00 0.00 3.41
2508 4403 5.805486 GCAGATACGAGTGTTGAATAGTCAA 59.195 40.000 0.56 0.56 41.57 3.18
2570 4659 4.780554 TGTACCATGGAATCTCACACCTTA 59.219 41.667 21.47 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.425143 TGATGATGCCTGGAGGAAAC 57.575 50.000 0.00 0.00 37.39 2.78
44 45 0.486879 AATGGCCCTTCCTCCAACAA 59.513 50.000 0.00 0.00 35.75 2.83
87 88 7.181305 TGACAGGGTTATATTCAAAGTGGACTA 59.819 37.037 0.00 0.00 0.00 2.59
89 90 6.177610 TGACAGGGTTATATTCAAAGTGGAC 58.822 40.000 0.00 0.00 0.00 4.02
109 110 6.633500 AAATCCATTCGAAGAAACTTGACA 57.367 33.333 3.35 0.00 45.90 3.58
124 125 4.755123 ACGAAACTCTTCACGAAATCCATT 59.245 37.500 0.00 0.00 0.00 3.16
134 135 5.290158 TGTTGTCTTACACGAAACTCTTCAC 59.710 40.000 0.00 0.00 0.00 3.18
157 158 3.297736 AGATACGTCCTAGAAGGGGTTG 58.702 50.000 0.00 0.00 35.59 3.77
172 173 2.223971 ACGTTTATGCTGGGGAGATACG 60.224 50.000 0.00 0.00 0.00 3.06
175 176 3.069729 GTCTACGTTTATGCTGGGGAGAT 59.930 47.826 0.00 0.00 0.00 2.75
181 182 3.585862 ACACAGTCTACGTTTATGCTGG 58.414 45.455 0.00 0.00 0.00 4.85
193 194 4.530710 GTGATACACCCAACACAGTCTA 57.469 45.455 0.00 0.00 34.05 2.59
211 212 1.271934 CACAAAATGCCCATTCGGTGA 59.728 47.619 14.65 0.00 37.13 4.02
225 226 4.160439 TGCCACAAATAGGTTGACACAAAA 59.840 37.500 0.00 0.00 39.87 2.44
227 228 3.291584 TGCCACAAATAGGTTGACACAA 58.708 40.909 0.00 0.00 39.87 3.33
233 234 4.522789 ACTAAGGTTGCCACAAATAGGTTG 59.477 41.667 0.00 0.00 43.43 3.77
242 243 5.606348 AAATTTTCACTAAGGTTGCCACA 57.394 34.783 0.00 0.00 0.00 4.17
301 302 0.730494 GGAGTTTGTGCGCATTGAGC 60.730 55.000 15.91 5.34 40.87 4.26
315 316 2.091885 TGTTGCCAAAGAAGGAGGAGTT 60.092 45.455 0.00 0.00 0.00 3.01
316 317 1.494721 TGTTGCCAAAGAAGGAGGAGT 59.505 47.619 0.00 0.00 0.00 3.85
349 350 6.202954 CCTACAGACTTTTCACCTAAACTGTG 59.797 42.308 0.00 0.00 37.78 3.66
351 352 6.289064 ACCTACAGACTTTTCACCTAAACTG 58.711 40.000 0.00 0.00 0.00 3.16
367 368 7.903145 TGATTTGTTTAGCTCTAACCTACAGA 58.097 34.615 8.64 0.00 0.00 3.41
368 369 8.547967 TTGATTTGTTTAGCTCTAACCTACAG 57.452 34.615 8.64 0.00 0.00 2.74
373 374 7.336931 TGATCCTTGATTTGTTTAGCTCTAACC 59.663 37.037 8.64 0.00 0.00 2.85
378 379 7.521261 GCCTATGATCCTTGATTTGTTTAGCTC 60.521 40.741 0.00 0.00 0.00 4.09
379 380 6.264067 GCCTATGATCCTTGATTTGTTTAGCT 59.736 38.462 0.00 0.00 0.00 3.32
393 394 5.789575 AGAATGACCTAATGCCTATGATCCT 59.210 40.000 0.00 0.00 0.00 3.24
395 396 9.678260 ATTAAGAATGACCTAATGCCTATGATC 57.322 33.333 0.00 0.00 0.00 2.92
397 398 8.659527 TCATTAAGAATGACCTAATGCCTATGA 58.340 33.333 0.00 0.00 42.69 2.15
456 457 1.991230 CTCCTGGTCCGGATGGTTT 59.009 57.895 7.81 0.00 36.30 3.27
457 458 2.670148 GCTCCTGGTCCGGATGGTT 61.670 63.158 7.81 0.00 36.30 3.67
480 481 5.163468 TGTTTCCTGCAGCTATTTGTTTTCA 60.163 36.000 8.66 0.00 0.00 2.69
481 482 5.288804 TGTTTCCTGCAGCTATTTGTTTTC 58.711 37.500 8.66 0.00 0.00 2.29
482 483 5.068987 TCTGTTTCCTGCAGCTATTTGTTTT 59.931 36.000 8.66 0.00 34.21 2.43
483 484 4.584325 TCTGTTTCCTGCAGCTATTTGTTT 59.416 37.500 8.66 0.00 34.21 2.83
484 485 4.144297 TCTGTTTCCTGCAGCTATTTGTT 58.856 39.130 8.66 0.00 34.21 2.83
485 486 3.754965 TCTGTTTCCTGCAGCTATTTGT 58.245 40.909 8.66 0.00 34.21 2.83
486 487 4.639310 AGATCTGTTTCCTGCAGCTATTTG 59.361 41.667 8.66 0.00 34.21 2.32
487 488 4.853007 AGATCTGTTTCCTGCAGCTATTT 58.147 39.130 8.66 0.00 34.21 1.40
488 489 4.500499 AGATCTGTTTCCTGCAGCTATT 57.500 40.909 8.66 0.00 34.21 1.73
489 490 4.500499 AAGATCTGTTTCCTGCAGCTAT 57.500 40.909 8.66 0.00 34.21 2.97
490 491 3.988976 AAGATCTGTTTCCTGCAGCTA 57.011 42.857 8.66 0.00 34.21 3.32
491 492 2.875094 AAGATCTGTTTCCTGCAGCT 57.125 45.000 8.66 0.00 34.21 4.24
492 493 3.604582 AGTAAGATCTGTTTCCTGCAGC 58.395 45.455 8.66 0.00 34.21 5.25
493 494 6.166279 TGTTAGTAAGATCTGTTTCCTGCAG 58.834 40.000 6.78 6.78 35.43 4.41
494 495 6.109156 TGTTAGTAAGATCTGTTTCCTGCA 57.891 37.500 0.00 0.00 0.00 4.41
495 496 6.092807 CCTTGTTAGTAAGATCTGTTTCCTGC 59.907 42.308 0.00 0.00 0.00 4.85
496 497 7.386851 TCCTTGTTAGTAAGATCTGTTTCCTG 58.613 38.462 0.00 0.00 0.00 3.86
543 545 7.231467 ACATGGTATGTGGAATATAAAGGTCC 58.769 38.462 0.00 0.00 43.01 4.46
550 552 8.815565 ACAAACAACATGGTATGTGGAATATA 57.184 30.769 3.46 0.00 44.07 0.86
632 635 1.425694 GATACTCCTCTTCCCACCCC 58.574 60.000 0.00 0.00 0.00 4.95
762 2305 4.774660 TGTTAGGATCTACTCGTCCTCT 57.225 45.455 0.00 0.00 43.63 3.69
808 2588 2.181777 CGCCTCTCTGCTGCGTTA 59.818 61.111 0.00 0.00 43.12 3.18
916 2696 2.874648 TAACATGCGAGCCCTGCTGG 62.875 60.000 1.89 1.89 39.88 4.85
948 2728 2.027653 TGTGGCCAGTTGATGACGATTA 60.028 45.455 5.11 0.00 0.00 1.75
1094 2882 1.377725 AGACAGCGGAATTGGGCAG 60.378 57.895 0.00 0.00 0.00 4.85
1507 3301 0.941542 CGAACTTCCGTCTTTGCCAA 59.058 50.000 0.00 0.00 0.00 4.52
1508 3302 1.503818 GCGAACTTCCGTCTTTGCCA 61.504 55.000 0.00 0.00 0.00 4.92
1520 3314 4.049393 GCCACTGACTGCGAACTT 57.951 55.556 0.00 0.00 0.00 2.66
1599 3393 6.818644 CGGAGAAGAAACTAATCAAATCCAGA 59.181 38.462 0.00 0.00 0.00 3.86
1612 3406 1.003233 GGGCTGCGGAGAAGAAACT 60.003 57.895 8.65 0.00 0.00 2.66
1626 3421 2.620627 CCCTTGAAATCTAAACCGGGCT 60.621 50.000 6.32 0.00 0.00 5.19
1627 3422 1.749063 CCCTTGAAATCTAAACCGGGC 59.251 52.381 6.32 0.00 0.00 6.13
1631 3426 3.078837 TGACGCCCTTGAAATCTAAACC 58.921 45.455 0.00 0.00 0.00 3.27
1740 3535 4.379499 GGAATCAACGTTGACTTCCAATCC 60.379 45.833 36.15 27.67 40.54 3.01
1764 3565 1.812324 CGCCAGGTTTGGTTCTACACA 60.812 52.381 0.00 0.00 46.80 3.72
1765 3566 0.872388 CGCCAGGTTTGGTTCTACAC 59.128 55.000 0.00 0.00 46.80 2.90
1792 3603 7.612633 GGAGGGAGTATTTCAGTAGGTATCTAG 59.387 44.444 0.00 0.00 0.00 2.43
1825 3714 5.603395 TCCGTCCCATAATGGTCTTACATTA 59.397 40.000 0.00 0.00 44.67 1.90
1826 3715 4.410883 TCCGTCCCATAATGGTCTTACATT 59.589 41.667 0.00 0.00 43.13 2.71
1827 3716 3.971305 TCCGTCCCATAATGGTCTTACAT 59.029 43.478 0.00 0.00 35.17 2.29
1829 3718 3.244112 CCTCCGTCCCATAATGGTCTTAC 60.244 52.174 0.00 0.00 35.17 2.34
1907 3799 9.185192 CCATCAAGTTTGTTGATAAGAAAACTC 57.815 33.333 0.06 0.00 40.91 3.01
1909 3801 8.755018 CACCATCAAGTTTGTTGATAAGAAAAC 58.245 33.333 0.06 0.00 37.06 2.43
2130 4024 2.817396 GGTGCAGAGGCTCGCTTC 60.817 66.667 24.21 18.34 41.91 3.86
2352 4247 3.258228 TGCGTTTGTGTATGACGATGAT 58.742 40.909 0.00 0.00 38.99 2.45
2441 4336 8.405531 TGCATTTAGTAGCCAAACTATTTGATC 58.594 33.333 2.86 0.00 43.26 2.92
2455 4350 8.477984 TGAAATTTGGAAATGCATTTAGTAGC 57.522 30.769 24.15 11.46 0.00 3.58
2478 4373 4.565022 TCAACACTCGTATCTGCATTTGA 58.435 39.130 0.00 0.00 0.00 2.69
2499 4394 7.255486 GCAAATATAACCCCCTGTTGACTATTC 60.255 40.741 0.00 0.00 37.83 1.75
2500 4395 6.549736 GCAAATATAACCCCCTGTTGACTATT 59.450 38.462 0.00 0.00 37.83 1.73
2501 4396 6.068670 GCAAATATAACCCCCTGTTGACTAT 58.931 40.000 0.00 0.00 37.83 2.12
2502 4397 5.442391 GCAAATATAACCCCCTGTTGACTA 58.558 41.667 0.00 0.00 37.83 2.59
2503 4398 4.278310 GCAAATATAACCCCCTGTTGACT 58.722 43.478 0.00 0.00 37.83 3.41
2504 4399 3.383505 GGCAAATATAACCCCCTGTTGAC 59.616 47.826 0.00 0.00 37.83 3.18
2505 4400 3.628769 GGGCAAATATAACCCCCTGTTGA 60.629 47.826 0.00 0.00 37.83 3.18
2506 4401 2.698274 GGGCAAATATAACCCCCTGTTG 59.302 50.000 0.00 0.00 37.83 3.33
2507 4402 2.590137 AGGGCAAATATAACCCCCTGTT 59.410 45.455 0.00 0.00 44.23 3.16
2508 4403 2.223174 AGGGCAAATATAACCCCCTGT 58.777 47.619 0.00 0.00 44.23 4.00
2510 4405 2.509243 TCAGGGCAAATATAACCCCCT 58.491 47.619 4.40 0.00 46.81 4.79
2511 4406 3.542969 ATCAGGGCAAATATAACCCCC 57.457 47.619 4.40 0.00 45.48 5.40
2512 4407 4.223144 ACAATCAGGGCAAATATAACCCC 58.777 43.478 4.40 1.11 45.48 4.95
2513 4408 5.869649 AACAATCAGGGCAAATATAACCC 57.130 39.130 0.00 0.00 44.62 4.11
2551 4640 6.017934 CGTATTTAAGGTGTGAGATTCCATGG 60.018 42.308 4.97 4.97 0.00 3.66


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

AutoCloner maintained by Alex Coulton.