Multiple sequence alignment - TraesCS1B01G260200

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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 TraesCS1B01G260200 chr1B 100.000 2785 0 0 1 2785 457534859 457537643 0.000000e+00 5144.0
1 TraesCS1B01G260200 chr3B 98.751 2482 30 1 1 2482 53954094 53956574 0.000000e+00 4410.0
2 TraesCS1B01G260200 chr3B 100.000 48 0 0 2738 2785 53956571 53956618 3.820000e-14 89.8
3 TraesCS1B01G260200 chr6A 98.075 2493 34 3 1 2482 559265278 559267767 0.000000e+00 4325.0
4 TraesCS1B01G260200 chr6A 100.000 48 0 0 2738 2785 559267764 559267811 3.820000e-14 89.8
5 TraesCS1B01G260200 chr2D 86.494 1503 152 38 716 2198 128387352 128388823 0.000000e+00 1604.0
6 TraesCS1B01G260200 chr2D 83.603 866 100 32 647 1496 128374192 128375031 0.000000e+00 774.0
7 TraesCS1B01G260200 chr2D 95.055 182 9 0 1 182 128373962 128374143 1.260000e-73 287.0
8 TraesCS1B01G260200 chr2D 94.737 57 3 0 1 57 492523414 492523358 3.820000e-14 89.8
9 TraesCS1B01G260200 chr5A 88.384 1343 110 28 994 2321 633026623 633025312 0.000000e+00 1574.0
10 TraesCS1B01G260200 chr5A 90.024 822 67 9 170 977 633027849 633027029 0.000000e+00 1050.0
11 TraesCS1B01G260200 chr5B 88.409 1182 90 29 994 2144 635609024 635607859 0.000000e+00 1380.0
12 TraesCS1B01G260200 chr5B 89.964 827 63 9 170 977 635610237 635609412 0.000000e+00 1050.0
13 TraesCS1B01G260200 chr5B 94.186 172 7 1 2187 2355 635607856 635607685 2.750000e-65 259.0
14 TraesCS1B01G260200 chr5B 82.072 251 22 14 2238 2482 635607757 635607524 2.830000e-45 193.0
15 TraesCS1B01G260200 chr3D 88.448 1160 102 22 1055 2198 411871447 411872590 0.000000e+00 1371.0
16 TraesCS1B01G260200 chr3D 89.300 972 75 19 1244 2198 352943150 352944109 0.000000e+00 1192.0
17 TraesCS1B01G260200 chr3D 89.106 817 74 9 170 977 208632701 208631891 0.000000e+00 1002.0
18 TraesCS1B01G260200 chr3D 82.651 611 73 25 647 1248 352930749 352931335 6.880000e-141 510.0
19 TraesCS1B01G260200 chr3D 95.055 182 9 0 1 182 352930519 352930700 1.260000e-73 287.0
20 TraesCS1B01G260200 chr3D 95.055 182 9 0 1 182 411870819 411871000 1.260000e-73 287.0
21 TraesCS1B01G260200 chr5D 89.447 995 84 14 1 977 505545394 505544403 0.000000e+00 1236.0
22 TraesCS1B01G260200 chr5D 91.045 804 57 5 1346 2149 505543702 505542914 0.000000e+00 1072.0
23 TraesCS1B01G260200 chr5D 93.827 324 16 2 980 1299 505544021 505543698 4.170000e-133 484.0
24 TraesCS1B01G260200 chr5D 88.288 111 11 2 2212 2321 505542879 505542770 6.260000e-27 132.0
25 TraesCS1B01G260200 chr2A 93.109 624 40 2 1575 2198 610064804 610064184 0.000000e+00 911.0
26 TraesCS1B01G260200 chr2A 94.410 161 8 1 23 182 610065355 610065195 2.140000e-61 246.0
27 TraesCS1B01G260200 chr7A 82.503 943 113 42 647 1570 606180585 606181494 0.000000e+00 780.0
28 TraesCS1B01G260200 chr7A 96.552 261 9 0 2479 2739 506291323 506291583 1.530000e-117 433.0
29 TraesCS1B01G260200 chr7A 96.183 262 10 0 2478 2739 101271800 101272061 1.980000e-116 429.0
30 TraesCS1B01G260200 chr7A 96.183 262 10 0 2479 2740 443763911 443763650 1.980000e-116 429.0
31 TraesCS1B01G260200 chr7A 93.989 183 10 1 1 182 606180354 606180536 2.730000e-70 276.0
32 TraesCS1B01G260200 chrUn 97.596 416 9 1 55 470 477304833 477304419 0.000000e+00 712.0
33 TraesCS1B01G260200 chrUn 81.897 116 18 1 170 282 41895987 41896102 8.210000e-16 95.3
34 TraesCS1B01G260200 chr6B 92.722 371 22 3 228 594 707241615 707241246 5.280000e-147 531.0
35 TraesCS1B01G260200 chr3A 96.212 264 8 2 2479 2742 517388336 517388075 5.510000e-117 431.0
36 TraesCS1B01G260200 chr3A 95.238 273 12 1 2468 2740 522717627 522717898 5.510000e-117 431.0
37 TraesCS1B01G260200 chr3A 96.183 262 10 0 2479 2740 706429157 706428896 1.980000e-116 429.0
38 TraesCS1B01G260200 chr3A 95.865 266 9 2 2479 2743 741483457 741483193 1.980000e-116 429.0
39 TraesCS1B01G260200 chr3A 95.865 266 9 2 2479 2743 741557377 741557113 1.980000e-116 429.0
40 TraesCS1B01G260200 chr1A 95.539 269 12 0 2475 2743 447114616 447114348 5.510000e-117 431.0
41 TraesCS1B01G260200 chr4A 81.897 116 18 1 170 282 16147123 16147238 8.210000e-16 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 TraesCS1B01G260200 chr1B 457534859 457537643 2784 False 5144.0 5144 100.00000 1 2785 1 chr1B.!!$F1 2784
1 TraesCS1B01G260200 chr3B 53954094 53956618 2524 False 2249.9 4410 99.37550 1 2785 2 chr3B.!!$F1 2784
2 TraesCS1B01G260200 chr6A 559265278 559267811 2533 False 2207.4 4325 99.03750 1 2785 2 chr6A.!!$F1 2784
3 TraesCS1B01G260200 chr2D 128387352 128388823 1471 False 1604.0 1604 86.49400 716 2198 1 chr2D.!!$F1 1482
4 TraesCS1B01G260200 chr2D 128373962 128375031 1069 False 530.5 774 89.32900 1 1496 2 chr2D.!!$F2 1495
5 TraesCS1B01G260200 chr5A 633025312 633027849 2537 True 1312.0 1574 89.20400 170 2321 2 chr5A.!!$R1 2151
6 TraesCS1B01G260200 chr5B 635607524 635610237 2713 True 720.5 1380 88.65775 170 2482 4 chr5B.!!$R1 2312
7 TraesCS1B01G260200 chr3D 352943150 352944109 959 False 1192.0 1192 89.30000 1244 2198 1 chr3D.!!$F1 954
8 TraesCS1B01G260200 chr3D 208631891 208632701 810 True 1002.0 1002 89.10600 170 977 1 chr3D.!!$R1 807
9 TraesCS1B01G260200 chr3D 411870819 411872590 1771 False 829.0 1371 91.75150 1 2198 2 chr3D.!!$F3 2197
10 TraesCS1B01G260200 chr3D 352930519 352931335 816 False 398.5 510 88.85300 1 1248 2 chr3D.!!$F2 1247
11 TraesCS1B01G260200 chr5D 505542770 505545394 2624 True 731.0 1236 90.65175 1 2321 4 chr5D.!!$R1 2320
12 TraesCS1B01G260200 chr2A 610064184 610065355 1171 True 578.5 911 93.75950 23 2198 2 chr2A.!!$R1 2175
13 TraesCS1B01G260200 chr7A 606180354 606181494 1140 False 528.0 780 88.24600 1 1570 2 chr7A.!!$F3 1569

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
416 446 1.922447 TGCATCCTTCCCTTACCACAT 59.078 47.619 0.0 0.0 0.0 3.21 F
1403 1881 1.529226 CACCTTATGCAAACGGACCA 58.471 50.000 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1658 2154 0.250295 CGGCCTGGAAGAACTTGACA 60.250 55.000 0.0 0.0 34.07 3.58 R
2732 3277 1.137282 GCTGCCAGTCTTAGTACTCCC 59.863 57.143 0.0 0.0 0.00 4.30 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
126 130 8.912787 TTTGAAGCTATTTGTTCGTTAAAACA 57.087 26.923 0.00 0.00 37.37 2.83
320 350 3.008049 GTCGATCAGGCATACCCCTTTAT 59.992 47.826 0.00 0.00 36.11 1.40
413 443 4.167892 ACATATTGCATCCTTCCCTTACCA 59.832 41.667 0.00 0.00 0.00 3.25
416 446 1.922447 TGCATCCTTCCCTTACCACAT 59.078 47.619 0.00 0.00 0.00 3.21
559 605 4.980805 GACGCAACGGGCCTGTCA 62.981 66.667 20.00 0.00 40.31 3.58
789 835 5.543714 TGCTACAAGGAAATCGTCTAACAA 58.456 37.500 0.00 0.00 0.00 2.83
941 996 2.483491 GCTGAAGAAGGAAGCAGAGTTG 59.517 50.000 0.00 0.00 36.91 3.16
987 1424 4.581309 TTCATGGAAGCAGAGAATCCTT 57.419 40.909 0.00 0.00 33.66 3.36
988 1425 3.882444 TCATGGAAGCAGAGAATCCTTG 58.118 45.455 0.00 0.00 38.86 3.61
1403 1881 1.529226 CACCTTATGCAAACGGACCA 58.471 50.000 0.00 0.00 0.00 4.02
1580 2076 2.102925 CCCCTGATTGTTGCAGTTGTTT 59.897 45.455 0.00 0.00 0.00 2.83
1658 2154 2.287668 GCTAGTGGAGTATTCGCACGAT 60.288 50.000 0.00 0.00 32.86 3.73
1881 2378 7.180663 AGTTTGATCTTGATTTGGAGGATCTT 58.819 34.615 0.00 0.00 35.30 2.40
2366 2910 1.721487 CAAAGGTCCGCATAAGCCG 59.279 57.895 0.00 0.00 37.52 5.52
2482 3027 4.565564 ACGAAGTTCCATACGCAAATACTC 59.434 41.667 0.00 0.00 37.78 2.59
2483 3028 4.025979 CGAAGTTCCATACGCAAATACTCC 60.026 45.833 0.00 0.00 0.00 3.85
2484 3029 3.805207 AGTTCCATACGCAAATACTCCC 58.195 45.455 0.00 0.00 0.00 4.30
2485 3030 3.454812 AGTTCCATACGCAAATACTCCCT 59.545 43.478 0.00 0.00 0.00 4.20
2486 3031 3.746045 TCCATACGCAAATACTCCCTC 57.254 47.619 0.00 0.00 0.00 4.30
2487 3032 2.367567 TCCATACGCAAATACTCCCTCC 59.632 50.000 0.00 0.00 0.00 4.30
2488 3033 2.404215 CATACGCAAATACTCCCTCCG 58.596 52.381 0.00 0.00 0.00 4.63
2489 3034 1.477553 TACGCAAATACTCCCTCCGT 58.522 50.000 0.00 0.00 0.00 4.69
2490 3035 0.611714 ACGCAAATACTCCCTCCGTT 59.388 50.000 0.00 0.00 0.00 4.44
2491 3036 1.002773 ACGCAAATACTCCCTCCGTTT 59.997 47.619 0.00 0.00 0.00 3.60
2492 3037 2.081462 CGCAAATACTCCCTCCGTTTT 58.919 47.619 0.00 0.00 0.00 2.43
2493 3038 2.486592 CGCAAATACTCCCTCCGTTTTT 59.513 45.455 0.00 0.00 0.00 1.94
2494 3039 3.685756 CGCAAATACTCCCTCCGTTTTTA 59.314 43.478 0.00 0.00 0.00 1.52
2495 3040 4.334481 CGCAAATACTCCCTCCGTTTTTAT 59.666 41.667 0.00 0.00 0.00 1.40
2496 3041 5.163693 CGCAAATACTCCCTCCGTTTTTATT 60.164 40.000 0.00 0.00 0.00 1.40
2497 3042 6.624204 CGCAAATACTCCCTCCGTTTTTATTT 60.624 38.462 0.00 0.00 0.00 1.40
2498 3043 7.414319 CGCAAATACTCCCTCCGTTTTTATTTA 60.414 37.037 0.00 0.00 0.00 1.40
2499 3044 7.699391 GCAAATACTCCCTCCGTTTTTATTTAC 59.301 37.037 0.00 0.00 0.00 2.01
2500 3045 8.953313 CAAATACTCCCTCCGTTTTTATTTACT 58.047 33.333 0.00 0.00 0.00 2.24
2501 3046 8.728337 AATACTCCCTCCGTTTTTATTTACTC 57.272 34.615 0.00 0.00 0.00 2.59
2502 3047 6.370186 ACTCCCTCCGTTTTTATTTACTCT 57.630 37.500 0.00 0.00 0.00 3.24
2503 3048 6.171213 ACTCCCTCCGTTTTTATTTACTCTG 58.829 40.000 0.00 0.00 0.00 3.35
2504 3049 4.939439 TCCCTCCGTTTTTATTTACTCTGC 59.061 41.667 0.00 0.00 0.00 4.26
2505 3050 4.698304 CCCTCCGTTTTTATTTACTCTGCA 59.302 41.667 0.00 0.00 0.00 4.41
2506 3051 5.357032 CCCTCCGTTTTTATTTACTCTGCAT 59.643 40.000 0.00 0.00 0.00 3.96
2507 3052 6.540914 CCCTCCGTTTTTATTTACTCTGCATA 59.459 38.462 0.00 0.00 0.00 3.14
2508 3053 7.228706 CCCTCCGTTTTTATTTACTCTGCATAT 59.771 37.037 0.00 0.00 0.00 1.78
2509 3054 8.621286 CCTCCGTTTTTATTTACTCTGCATATT 58.379 33.333 0.00 0.00 0.00 1.28
2523 3068 7.697352 CTCTGCATATTAGAGTTGACTGAAG 57.303 40.000 5.84 0.00 37.48 3.02
2524 3069 7.175347 TCTGCATATTAGAGTTGACTGAAGT 57.825 36.000 0.00 0.00 0.00 3.01
2525 3070 7.261325 TCTGCATATTAGAGTTGACTGAAGTC 58.739 38.462 3.41 3.41 44.97 3.01
2558 3103 9.616156 TGTAAAGTTTGACCAAGTTTATAGACA 57.384 29.630 0.00 0.00 40.73 3.41
2561 3106 8.514330 AAGTTTGACCAAGTTTATAGACAACA 57.486 30.769 0.00 0.00 0.00 3.33
2562 3107 8.514330 AGTTTGACCAAGTTTATAGACAACAA 57.486 30.769 0.00 0.00 0.00 2.83
2563 3108 9.131791 AGTTTGACCAAGTTTATAGACAACAAT 57.868 29.630 0.00 0.00 0.00 2.71
2679 3224 9.665719 ATTTTTGTTCATAAACTTGGTCAAACT 57.334 25.926 0.00 0.00 36.30 2.66
2680 3225 9.495572 TTTTTGTTCATAAACTTGGTCAAACTT 57.504 25.926 0.00 0.00 36.30 2.66
2681 3226 9.495572 TTTTGTTCATAAACTTGGTCAAACTTT 57.504 25.926 0.00 0.00 36.30 2.66
2682 3227 8.472683 TTGTTCATAAACTTGGTCAAACTTTG 57.527 30.769 0.00 0.00 36.30 2.77
2683 3228 7.607250 TGTTCATAAACTTGGTCAAACTTTGT 58.393 30.769 1.44 0.00 36.30 2.83
2684 3229 8.740906 TGTTCATAAACTTGGTCAAACTTTGTA 58.259 29.630 1.44 0.00 36.30 2.41
2685 3230 9.575783 GTTCATAAACTTGGTCAAACTTTGTAA 57.424 29.630 1.44 0.00 32.36 2.41
2687 3232 9.796120 TCATAAACTTGGTCAAACTTTGTAAAG 57.204 29.630 2.94 2.94 41.73 1.85
2688 3233 6.961359 AAACTTGGTCAAACTTTGTAAAGC 57.039 33.333 4.35 0.00 39.63 3.51
2689 3234 5.914898 ACTTGGTCAAACTTTGTAAAGCT 57.085 34.783 4.35 0.00 39.63 3.74
2690 3235 6.280855 ACTTGGTCAAACTTTGTAAAGCTT 57.719 33.333 0.00 0.00 39.63 3.74
2691 3236 6.099341 ACTTGGTCAAACTTTGTAAAGCTTG 58.901 36.000 0.00 12.11 41.23 4.01
2692 3237 5.906113 TGGTCAAACTTTGTAAAGCTTGA 57.094 34.783 15.43 15.43 44.35 3.02
2715 3260 5.484173 CTTTGACCAAAGCTAATATGCGA 57.516 39.130 9.25 0.00 40.94 5.10
2716 3261 5.879237 CTTTGACCAAAGCTAATATGCGAA 58.121 37.500 9.25 0.00 40.94 4.70
2717 3262 4.875544 TGACCAAAGCTAATATGCGAAC 57.124 40.909 0.00 0.00 38.13 3.95
2718 3263 4.513442 TGACCAAAGCTAATATGCGAACT 58.487 39.130 0.00 0.00 38.13 3.01
2719 3264 5.666462 TGACCAAAGCTAATATGCGAACTA 58.334 37.500 0.00 0.00 38.13 2.24
2720 3265 6.110033 TGACCAAAGCTAATATGCGAACTAA 58.890 36.000 0.00 0.00 38.13 2.24
2721 3266 6.596106 TGACCAAAGCTAATATGCGAACTAAA 59.404 34.615 0.00 0.00 38.13 1.85
2722 3267 7.282224 TGACCAAAGCTAATATGCGAACTAAAT 59.718 33.333 0.00 0.00 38.13 1.40
2723 3268 8.671384 ACCAAAGCTAATATGCGAACTAAATA 57.329 30.769 0.00 0.00 38.13 1.40
2724 3269 9.116067 ACCAAAGCTAATATGCGAACTAAATAA 57.884 29.630 0.00 0.00 38.13 1.40
2725 3270 9.944663 CCAAAGCTAATATGCGAACTAAATAAA 57.055 29.630 0.00 0.00 38.13 1.40
2729 3274 9.646336 AGCTAATATGCGAACTAAATAAAAACG 57.354 29.630 0.00 0.00 38.13 3.60
2730 3275 8.889000 GCTAATATGCGAACTAAATAAAAACGG 58.111 33.333 0.00 0.00 0.00 4.44
2733 3278 5.285798 TGCGAACTAAATAAAAACGGAGG 57.714 39.130 0.00 0.00 0.00 4.30
2734 3279 4.154556 TGCGAACTAAATAAAAACGGAGGG 59.845 41.667 0.00 0.00 0.00 4.30
2735 3280 4.392754 GCGAACTAAATAAAAACGGAGGGA 59.607 41.667 0.00 0.00 0.00 4.20
2736 3281 5.446875 GCGAACTAAATAAAAACGGAGGGAG 60.447 44.000 0.00 0.00 0.00 4.30
2737 3282 5.640783 CGAACTAAATAAAAACGGAGGGAGT 59.359 40.000 0.00 0.00 0.00 3.85
2738 3283 6.813152 CGAACTAAATAAAAACGGAGGGAGTA 59.187 38.462 0.00 0.00 0.00 2.59
2739 3284 7.201470 CGAACTAAATAAAAACGGAGGGAGTAC 60.201 40.741 0.00 0.00 0.00 2.73
2740 3285 7.250032 ACTAAATAAAAACGGAGGGAGTACT 57.750 36.000 0.00 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
126 130 8.124199 GCAAATTCAGTGATGAAATTTGTGTTT 58.876 29.630 20.95 0.58 33.75 2.83
338 368 1.153168 CCGGCTGTGATGGTTAGGG 60.153 63.158 0.00 0.00 0.00 3.53
413 443 4.937015 GGCATGGCAAAAATCTTACAATGT 59.063 37.500 15.47 0.00 0.00 2.71
416 446 4.527816 AGAGGCATGGCAAAAATCTTACAA 59.472 37.500 22.64 0.00 0.00 2.41
559 605 5.233083 TGATGTCAAGGTCTCTGTTCAAT 57.767 39.130 0.00 0.00 0.00 2.57
789 835 0.958822 GACAAAGAACCGGGCAACAT 59.041 50.000 6.32 0.00 39.74 2.71
857 908 9.170584 GTTTTCTATTAGAGTTTGCAAAGTCAC 57.829 33.333 36.30 23.34 40.10 3.67
941 996 4.537015 GCACTAGAACAATGTCACCAAAC 58.463 43.478 0.00 0.00 0.00 2.93
987 1424 1.332889 TTTGCATGGCCCAACACACA 61.333 50.000 0.00 0.00 0.00 3.72
988 1425 0.035176 ATTTGCATGGCCCAACACAC 59.965 50.000 0.00 0.00 0.00 3.82
1580 2076 3.430790 CCATGCTCACGTCTTCCATCTTA 60.431 47.826 0.00 0.00 0.00 2.10
1658 2154 0.250295 CGGCCTGGAAGAACTTGACA 60.250 55.000 0.00 0.00 34.07 3.58
1881 2378 5.220586 CGAATTACGCAAGCTAATTCTCCAA 60.221 40.000 21.03 0.00 42.05 3.53
2366 2910 3.634910 TGAACTAACCTCCTGTTTTTGCC 59.365 43.478 0.00 0.00 38.42 4.52
2473 3018 5.830000 ATAAAAACGGAGGGAGTATTTGC 57.170 39.130 0.00 0.00 0.00 3.68
2482 3027 4.698304 TGCAGAGTAAATAAAAACGGAGGG 59.302 41.667 0.00 0.00 0.00 4.30
2483 3028 5.873179 TGCAGAGTAAATAAAAACGGAGG 57.127 39.130 0.00 0.00 0.00 4.30
2499 3044 7.264221 ACTTCAGTCAACTCTAATATGCAGAG 58.736 38.462 11.37 11.37 44.28 3.35
2500 3045 7.175347 ACTTCAGTCAACTCTAATATGCAGA 57.825 36.000 0.00 0.00 0.00 4.26
2501 3046 7.462109 GACTTCAGTCAACTCTAATATGCAG 57.538 40.000 1.86 0.00 44.18 4.41
2532 3077 9.616156 TGTCTATAAACTTGGTCAAACTTTACA 57.384 29.630 0.00 0.00 0.00 2.41
2535 3080 8.962679 TGTTGTCTATAAACTTGGTCAAACTTT 58.037 29.630 0.00 0.00 0.00 2.66
2536 3081 8.514330 TGTTGTCTATAAACTTGGTCAAACTT 57.486 30.769 0.00 0.00 0.00 2.66
2537 3082 8.514330 TTGTTGTCTATAAACTTGGTCAAACT 57.486 30.769 0.00 0.00 0.00 2.66
2653 3198 9.665719 AGTTTGACCAAGTTTATGAACAAAAAT 57.334 25.926 2.93 0.00 38.26 1.82
2654 3199 9.495572 AAGTTTGACCAAGTTTATGAACAAAAA 57.504 25.926 2.93 0.00 38.26 1.94
2655 3200 9.495572 AAAGTTTGACCAAGTTTATGAACAAAA 57.504 25.926 2.93 0.00 36.42 2.44
2656 3201 8.930760 CAAAGTTTGACCAAGTTTATGAACAAA 58.069 29.630 10.19 0.00 36.07 2.83
2657 3202 8.091449 ACAAAGTTTGACCAAGTTTATGAACAA 58.909 29.630 22.23 0.00 36.07 2.83
2658 3203 7.607250 ACAAAGTTTGACCAAGTTTATGAACA 58.393 30.769 22.23 0.00 36.07 3.18
2659 3204 9.575783 TTACAAAGTTTGACCAAGTTTATGAAC 57.424 29.630 22.23 0.00 36.07 3.18
2661 3206 9.796120 CTTTACAAAGTTTGACCAAGTTTATGA 57.204 29.630 22.23 0.00 36.07 2.15
2662 3207 8.539674 GCTTTACAAAGTTTGACCAAGTTTATG 58.460 33.333 22.23 0.00 36.07 1.90
2663 3208 8.474831 AGCTTTACAAAGTTTGACCAAGTTTAT 58.525 29.630 22.23 0.00 36.07 1.40
2664 3209 7.832769 AGCTTTACAAAGTTTGACCAAGTTTA 58.167 30.769 22.23 0.00 36.07 2.01
2665 3210 6.697395 AGCTTTACAAAGTTTGACCAAGTTT 58.303 32.000 22.23 9.76 38.38 2.66
2666 3211 6.280855 AGCTTTACAAAGTTTGACCAAGTT 57.719 33.333 22.23 13.91 38.28 2.66
2667 3212 5.914898 AGCTTTACAAAGTTTGACCAAGT 57.085 34.783 22.23 1.06 38.28 3.16
2675 3220 6.811665 GGTCAAAGTCAAGCTTTACAAAGTTT 59.188 34.615 13.07 2.34 44.95 2.66
2676 3221 6.071616 TGGTCAAAGTCAAGCTTTACAAAGTT 60.072 34.615 13.07 0.00 44.95 2.66
2677 3222 5.417580 TGGTCAAAGTCAAGCTTTACAAAGT 59.582 36.000 13.07 0.00 44.95 2.66
2678 3223 5.890334 TGGTCAAAGTCAAGCTTTACAAAG 58.110 37.500 13.07 2.46 44.95 2.77
2679 3224 5.906113 TGGTCAAAGTCAAGCTTTACAAA 57.094 34.783 13.07 0.00 44.95 2.83
2680 3225 5.906113 TTGGTCAAAGTCAAGCTTTACAA 57.094 34.783 13.07 0.00 44.95 2.41
2681 3226 5.890334 CTTTGGTCAAAGTCAAGCTTTACA 58.110 37.500 13.07 0.00 44.95 2.41
2694 3239 5.414454 AGTTCGCATATTAGCTTTGGTCAAA 59.586 36.000 0.00 0.00 0.00 2.69
2695 3240 4.941263 AGTTCGCATATTAGCTTTGGTCAA 59.059 37.500 0.00 0.00 0.00 3.18
2696 3241 4.513442 AGTTCGCATATTAGCTTTGGTCA 58.487 39.130 0.00 0.00 0.00 4.02
2697 3242 6.598753 TTAGTTCGCATATTAGCTTTGGTC 57.401 37.500 0.00 0.00 0.00 4.02
2698 3243 6.995511 TTTAGTTCGCATATTAGCTTTGGT 57.004 33.333 0.00 0.00 0.00 3.67
2699 3244 9.944663 TTTATTTAGTTCGCATATTAGCTTTGG 57.055 29.630 0.00 0.00 0.00 3.28
2703 3248 9.646336 CGTTTTTATTTAGTTCGCATATTAGCT 57.354 29.630 0.00 0.00 0.00 3.32
2704 3249 8.889000 CCGTTTTTATTTAGTTCGCATATTAGC 58.111 33.333 0.00 0.00 0.00 3.09
2707 3252 8.126700 CCTCCGTTTTTATTTAGTTCGCATATT 58.873 33.333 0.00 0.00 0.00 1.28
2708 3253 7.255001 CCCTCCGTTTTTATTTAGTTCGCATAT 60.255 37.037 0.00 0.00 0.00 1.78
2709 3254 6.037391 CCCTCCGTTTTTATTTAGTTCGCATA 59.963 38.462 0.00 0.00 0.00 3.14
2710 3255 5.163693 CCCTCCGTTTTTATTTAGTTCGCAT 60.164 40.000 0.00 0.00 0.00 4.73
2711 3256 4.154556 CCCTCCGTTTTTATTTAGTTCGCA 59.845 41.667 0.00 0.00 0.00 5.10
2712 3257 4.392754 TCCCTCCGTTTTTATTTAGTTCGC 59.607 41.667 0.00 0.00 0.00 4.70
2713 3258 5.640783 ACTCCCTCCGTTTTTATTTAGTTCG 59.359 40.000 0.00 0.00 0.00 3.95
2714 3259 7.821359 AGTACTCCCTCCGTTTTTATTTAGTTC 59.179 37.037 0.00 0.00 0.00 3.01
2715 3260 7.683578 AGTACTCCCTCCGTTTTTATTTAGTT 58.316 34.615 0.00 0.00 0.00 2.24
2716 3261 7.250032 AGTACTCCCTCCGTTTTTATTTAGT 57.750 36.000 0.00 0.00 0.00 2.24
2717 3262 9.310716 CTTAGTACTCCCTCCGTTTTTATTTAG 57.689 37.037 0.00 0.00 0.00 1.85
2718 3263 9.034800 TCTTAGTACTCCCTCCGTTTTTATTTA 57.965 33.333 0.00 0.00 0.00 1.40
2719 3264 7.821359 GTCTTAGTACTCCCTCCGTTTTTATTT 59.179 37.037 0.00 0.00 0.00 1.40
2720 3265 7.179872 AGTCTTAGTACTCCCTCCGTTTTTATT 59.820 37.037 0.00 0.00 0.00 1.40
2721 3266 6.666980 AGTCTTAGTACTCCCTCCGTTTTTAT 59.333 38.462 0.00 0.00 0.00 1.40
2722 3267 6.012745 AGTCTTAGTACTCCCTCCGTTTTTA 58.987 40.000 0.00 0.00 0.00 1.52
2723 3268 4.837298 AGTCTTAGTACTCCCTCCGTTTTT 59.163 41.667 0.00 0.00 0.00 1.94
2724 3269 4.220163 CAGTCTTAGTACTCCCTCCGTTTT 59.780 45.833 0.00 0.00 0.00 2.43
2725 3270 3.762823 CAGTCTTAGTACTCCCTCCGTTT 59.237 47.826 0.00 0.00 0.00 3.60
2726 3271 3.354467 CAGTCTTAGTACTCCCTCCGTT 58.646 50.000 0.00 0.00 0.00 4.44
2727 3272 2.356947 CCAGTCTTAGTACTCCCTCCGT 60.357 54.545 0.00 0.00 0.00 4.69
2728 3273 2.299521 CCAGTCTTAGTACTCCCTCCG 58.700 57.143 0.00 0.00 0.00 4.63
2729 3274 2.033372 GCCAGTCTTAGTACTCCCTCC 58.967 57.143 0.00 0.00 0.00 4.30
2730 3275 2.691011 CTGCCAGTCTTAGTACTCCCTC 59.309 54.545 0.00 0.00 0.00 4.30
2731 3276 2.741145 CTGCCAGTCTTAGTACTCCCT 58.259 52.381 0.00 0.00 0.00 4.20
2732 3277 1.137282 GCTGCCAGTCTTAGTACTCCC 59.863 57.143 0.00 0.00 0.00 4.30
2733 3278 1.825474 TGCTGCCAGTCTTAGTACTCC 59.175 52.381 0.00 0.00 0.00 3.85
2734 3279 3.810310 ATGCTGCCAGTCTTAGTACTC 57.190 47.619 0.00 0.00 0.00 2.59
2735 3280 3.369892 CCAATGCTGCCAGTCTTAGTACT 60.370 47.826 0.00 0.00 0.00 2.73
2736 3281 2.939103 CCAATGCTGCCAGTCTTAGTAC 59.061 50.000 0.00 0.00 0.00 2.73
2737 3282 2.571653 ACCAATGCTGCCAGTCTTAGTA 59.428 45.455 0.00 0.00 0.00 1.82
2738 3283 1.352352 ACCAATGCTGCCAGTCTTAGT 59.648 47.619 0.00 0.00 0.00 2.24
2739 3284 2.012673 GACCAATGCTGCCAGTCTTAG 58.987 52.381 0.00 0.00 0.00 2.18
2740 3285 1.340017 GGACCAATGCTGCCAGTCTTA 60.340 52.381 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.