Multiple sequence alignment - TraesCS3B01G296500

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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 TraesCS3B01G296500 chr3B 100.000 2326 0 0 770 3095 475385801 475383476 0.000000e+00 4296.0
1 TraesCS3B01G296500 chr3B 100.000 374 0 0 1 374 475386570 475386197 0.000000e+00 691.0
2 TraesCS3B01G296500 chr3B 94.262 122 7 0 2710 2831 56067385 56067264 1.470000e-43 187.0
3 TraesCS3B01G296500 chr3D 96.353 1316 32 6 811 2111 365054812 365053498 0.000000e+00 2150.0
4 TraesCS3B01G296500 chr3D 90.516 717 20 17 2033 2716 365053405 365052704 0.000000e+00 904.0
5 TraesCS3B01G296500 chr3D 91.124 338 30 0 4 341 365055425 365055088 2.810000e-125 459.0
6 TraesCS3B01G296500 chr3D 95.539 269 4 1 2827 3095 365052708 365052448 1.030000e-114 424.0
7 TraesCS3B01G296500 chr3D 92.742 124 9 0 2712 2835 13983908 13983785 2.450000e-41 180.0
8 TraesCS3B01G296500 chr3A 94.170 1338 61 9 789 2111 486930110 486928775 0.000000e+00 2023.0
9 TraesCS3B01G296500 chr3A 88.552 725 35 20 2033 2716 486928682 486927965 0.000000e+00 835.0
10 TraesCS3B01G296500 chr3A 89.941 338 34 0 4 341 486931181 486930844 1.320000e-118 436.0
11 TraesCS3B01G296500 chr3A 94.737 266 5 1 2830 3095 486927966 486927710 3.720000e-109 405.0
12 TraesCS3B01G296500 chr3A 100.000 30 0 0 345 374 486930809 486930780 4.310000e-04 56.5
13 TraesCS3B01G296500 chr1A 80.208 864 144 22 1187 2032 550593553 550592699 9.420000e-175 623.0
14 TraesCS3B01G296500 chr1B 79.929 847 150 19 1191 2026 628499511 628498674 3.410000e-169 604.0
15 TraesCS3B01G296500 chr1B 93.220 118 8 0 2712 2829 448532835 448532952 1.140000e-39 174.0
16 TraesCS3B01G296500 chr1B 92.562 121 9 0 2711 2831 564897240 564897360 1.140000e-39 174.0
17 TraesCS3B01G296500 chr4A 97.458 118 3 0 2712 2829 7163994 7163877 5.230000e-48 202.0
18 TraesCS3B01G296500 chr4A 94.068 118 7 0 2713 2830 714067117 714067234 2.450000e-41 180.0
19 TraesCS3B01G296500 chr7B 97.436 117 3 0 2713 2829 702460544 702460660 1.880000e-47 200.0
20 TraesCS3B01G296500 chr7B 93.277 119 8 0 2713 2831 672158523 672158405 3.170000e-40 176.0
21 TraesCS3B01G296500 chr5B 93.162 117 8 0 2713 2829 451432871 451432987 4.100000e-39 172.0


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 TraesCS3B01G296500 chr3B 475383476 475386570 3094 True 2493.50 4296 100.000 1 3095 2 chr3B.!!$R2 3094
1 TraesCS3B01G296500 chr3D 365052448 365055425 2977 True 984.25 2150 93.383 4 3095 4 chr3D.!!$R2 3091
2 TraesCS3B01G296500 chr3A 486927710 486931181 3471 True 751.10 2023 93.480 4 3095 5 chr3A.!!$R1 3091
3 TraesCS3B01G296500 chr1A 550592699 550593553 854 True 623.00 623 80.208 1187 2032 1 chr1A.!!$R1 845
4 TraesCS3B01G296500 chr1B 628498674 628499511 837 True 604.00 604 79.929 1191 2026 1 chr1B.!!$R1 835

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
248 249 0.246635 AGCACTACTTCCGCGACAAT 59.753 50.0 8.23 0.0 0.0 2.71 F
795 1187 0.465460 GGCAGCCAACGATTATCCCA 60.465 55.0 6.55 0.0 0.0 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1692 2093 0.308684 ACGTTGTCGCGAAGTACTGA 59.691 50.0 12.06 0.0 41.18 3.41 R
2245 2854 0.675633 CCCCCTGCAAAACTTGACTG 59.324 55.0 0.00 0.0 0.00 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
34 35 2.175078 GAGTGCTCGTACACGCGA 59.825 61.111 15.93 0.00 45.45 5.87
42 43 2.505337 GTACACGCGATGCCACGA 60.505 61.111 15.93 0.00 35.09 4.35
72 73 2.554893 GTTGTAGCCGGATCTAGGAGAG 59.445 54.545 5.05 0.00 0.00 3.20
75 76 1.531840 GCCGGATCTAGGAGAGGCA 60.532 63.158 5.05 0.00 43.65 4.75
129 130 1.075482 ATGGTTGGGCTGTCAGTGG 59.925 57.895 0.93 0.00 0.00 4.00
164 165 2.496070 CCACAAAGGAGGACATCTACGA 59.504 50.000 0.00 0.00 41.22 3.43
232 233 4.100498 TGATCTGTATTGCATCTCTCAGCA 59.900 41.667 0.00 0.00 39.32 4.41
248 249 0.246635 AGCACTACTTCCGCGACAAT 59.753 50.000 8.23 0.00 0.00 2.71
278 279 3.327404 GGGAAGGACAAGGGCGGA 61.327 66.667 0.00 0.00 0.00 5.54
303 304 6.868864 ACGTGGATGAATTTCCTCTATAATCG 59.131 38.462 0.00 0.00 36.68 3.34
306 307 9.141400 GTGGATGAATTTCCTCTATAATCGTAC 57.859 37.037 2.36 0.00 36.68 3.67
795 1187 0.465460 GGCAGCCAACGATTATCCCA 60.465 55.000 6.55 0.00 0.00 4.37
1510 1902 1.617018 CCTCATCCACGCCTTCCTCA 61.617 60.000 0.00 0.00 0.00 3.86
1526 1927 2.086869 CCTCACCAAGCGATTTGATGT 58.913 47.619 0.00 0.00 39.21 3.06
1692 2093 2.043852 ATGGTCGAGGAGCTCCGT 60.044 61.111 26.95 15.37 42.08 4.69
1693 2094 2.122167 ATGGTCGAGGAGCTCCGTC 61.122 63.158 26.95 21.44 42.08 4.79
2022 2426 3.869272 GCGATGCGGCAGTTCCTG 61.869 66.667 9.25 0.00 34.12 3.86
2146 2744 8.810652 TTTTCGGGTTCAAAATTTTCTGATAG 57.189 30.769 0.00 0.00 0.00 2.08
2149 2747 5.105756 CGGGTTCAAAATTTTCTGATAGGCT 60.106 40.000 0.00 0.00 0.00 4.58
2245 2854 3.053455 CACGGAGACAAGACAAGAGAAC 58.947 50.000 0.00 0.00 0.00 3.01
2246 2855 2.693591 ACGGAGACAAGACAAGAGAACA 59.306 45.455 0.00 0.00 0.00 3.18
2260 2869 4.889832 AGAGAACAGTCAAGTTTTGCAG 57.110 40.909 0.00 0.00 0.00 4.41
2289 2898 3.370104 TGTGAATTCTCTCTCTCCCTCC 58.630 50.000 7.05 0.00 0.00 4.30
2302 2917 2.449322 CCTCCCCCTCCCTGGATG 60.449 72.222 0.00 0.00 38.35 3.51
2324 2945 3.769300 GGAGAGGCTCTTCTTCTTCTTCT 59.231 47.826 19.80 0.00 0.00 2.85
2362 2984 0.036388 GCTAGCTAGCCACACCACAA 60.036 55.000 31.67 0.00 43.39 3.33
2366 2988 0.535102 GCTAGCCACACCACAACACT 60.535 55.000 2.29 0.00 0.00 3.55
2367 2989 1.229428 CTAGCCACACCACAACACTG 58.771 55.000 0.00 0.00 0.00 3.66
2368 2990 0.544223 TAGCCACACCACAACACTGT 59.456 50.000 0.00 0.00 35.63 3.55
2371 2993 2.014574 GCCACACCACAACACTGTACA 61.015 52.381 0.00 0.00 33.22 2.90
2600 3227 4.646572 TGCATGTTATATGCCGGTTGATA 58.353 39.130 11.24 0.00 43.94 2.15
2604 3231 7.391833 TGCATGTTATATGCCGGTTGATAATTA 59.608 33.333 11.24 0.00 43.94 1.40
2639 3267 6.630203 TTACTTCACCCTACCATGTTATGT 57.370 37.500 0.00 0.00 0.00 2.29
2718 3348 1.278238 CGTGGATCGCTTGTACTTCC 58.722 55.000 0.00 0.00 0.00 3.46
2719 3349 1.135083 CGTGGATCGCTTGTACTTCCT 60.135 52.381 0.00 0.00 0.00 3.36
2720 3350 2.541556 GTGGATCGCTTGTACTTCCTC 58.458 52.381 0.00 0.00 0.00 3.71
2721 3351 1.480954 TGGATCGCTTGTACTTCCTCC 59.519 52.381 0.00 0.00 0.00 4.30
2722 3352 1.536284 GGATCGCTTGTACTTCCTCCG 60.536 57.143 0.00 0.00 0.00 4.63
2723 3353 1.134560 GATCGCTTGTACTTCCTCCGT 59.865 52.381 0.00 0.00 0.00 4.69
2724 3354 0.524862 TCGCTTGTACTTCCTCCGTC 59.475 55.000 0.00 0.00 0.00 4.79
2725 3355 0.458025 CGCTTGTACTTCCTCCGTCC 60.458 60.000 0.00 0.00 0.00 4.79
2726 3356 0.458025 GCTTGTACTTCCTCCGTCCG 60.458 60.000 0.00 0.00 0.00 4.79
2727 3357 1.171308 CTTGTACTTCCTCCGTCCGA 58.829 55.000 0.00 0.00 0.00 4.55
2728 3358 1.542915 CTTGTACTTCCTCCGTCCGAA 59.457 52.381 0.00 0.00 0.00 4.30
2729 3359 1.619654 TGTACTTCCTCCGTCCGAAA 58.380 50.000 0.00 0.00 0.00 3.46
2730 3360 1.962807 TGTACTTCCTCCGTCCGAAAA 59.037 47.619 0.00 0.00 0.00 2.29
2731 3361 2.564062 TGTACTTCCTCCGTCCGAAAAT 59.436 45.455 0.00 0.00 0.00 1.82
2732 3362 3.763360 TGTACTTCCTCCGTCCGAAAATA 59.237 43.478 0.00 0.00 0.00 1.40
2733 3363 3.242549 ACTTCCTCCGTCCGAAAATAC 57.757 47.619 0.00 0.00 0.00 1.89
2734 3364 2.830321 ACTTCCTCCGTCCGAAAATACT 59.170 45.455 0.00 0.00 0.00 2.12
2735 3365 3.260128 ACTTCCTCCGTCCGAAAATACTT 59.740 43.478 0.00 0.00 0.00 2.24
2736 3366 3.241067 TCCTCCGTCCGAAAATACTTG 57.759 47.619 0.00 0.00 0.00 3.16
2737 3367 2.564062 TCCTCCGTCCGAAAATACTTGT 59.436 45.455 0.00 0.00 0.00 3.16
2738 3368 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
2739 3369 2.597305 CTCCGTCCGAAAATACTTGTCG 59.403 50.000 0.00 0.00 34.58 4.35
2748 3378 5.022021 CGAAAATACTTGTCGGAGAATTGC 58.978 41.667 0.00 0.00 39.69 3.56
2749 3379 5.390461 CGAAAATACTTGTCGGAGAATTGCA 60.390 40.000 0.00 0.00 39.69 4.08
2750 3380 6.515272 AAAATACTTGTCGGAGAATTGCAT 57.485 33.333 0.00 0.00 39.69 3.96
2751 3381 7.465379 CGAAAATACTTGTCGGAGAATTGCATA 60.465 37.037 0.00 0.00 39.69 3.14
2752 3382 7.624360 AAATACTTGTCGGAGAATTGCATAA 57.376 32.000 0.00 0.00 39.69 1.90
2753 3383 7.624360 AATACTTGTCGGAGAATTGCATAAA 57.376 32.000 0.00 0.00 39.69 1.40
2754 3384 5.957842 ACTTGTCGGAGAATTGCATAAAA 57.042 34.783 0.00 0.00 39.69 1.52
2755 3385 6.325919 ACTTGTCGGAGAATTGCATAAAAA 57.674 33.333 0.00 0.00 39.69 1.94
2756 3386 6.924111 ACTTGTCGGAGAATTGCATAAAAAT 58.076 32.000 0.00 0.00 39.69 1.82
2757 3387 6.808212 ACTTGTCGGAGAATTGCATAAAAATG 59.192 34.615 0.00 0.00 39.69 2.32
2758 3388 5.649557 TGTCGGAGAATTGCATAAAAATGG 58.350 37.500 0.00 0.00 39.69 3.16
2759 3389 5.417266 TGTCGGAGAATTGCATAAAAATGGA 59.583 36.000 0.00 0.00 39.69 3.41
2760 3390 6.096705 TGTCGGAGAATTGCATAAAAATGGAT 59.903 34.615 0.00 0.00 39.69 3.41
2761 3391 6.418819 GTCGGAGAATTGCATAAAAATGGATG 59.581 38.462 0.00 0.00 39.69 3.51
2762 3392 6.096705 TCGGAGAATTGCATAAAAATGGATGT 59.903 34.615 0.00 0.00 0.00 3.06
2763 3393 7.284261 TCGGAGAATTGCATAAAAATGGATGTA 59.716 33.333 0.00 0.00 0.00 2.29
2764 3394 8.084073 CGGAGAATTGCATAAAAATGGATGTAT 58.916 33.333 0.00 0.00 0.00 2.29
2765 3395 9.415544 GGAGAATTGCATAAAAATGGATGTATC 57.584 33.333 0.00 0.00 0.00 2.24
2772 3402 9.407380 TGCATAAAAATGGATGTATCTACAACT 57.593 29.630 0.00 0.00 39.99 3.16
2805 3435 9.421399 TGTCTAGATACATTTATTCCTCTGACA 57.579 33.333 0.00 0.00 0.00 3.58
2815 3445 9.708222 CATTTATTCCTCTGACAAGTATTTTCG 57.292 33.333 0.00 0.00 0.00 3.46
2816 3446 7.843490 TTATTCCTCTGACAAGTATTTTCGG 57.157 36.000 0.00 0.00 0.00 4.30
2817 3447 5.477607 TTCCTCTGACAAGTATTTTCGGA 57.522 39.130 0.00 0.00 0.00 4.55
2818 3448 4.817517 TCCTCTGACAAGTATTTTCGGAC 58.182 43.478 0.00 0.00 0.00 4.79
2819 3449 3.612860 CCTCTGACAAGTATTTTCGGACG 59.387 47.826 0.00 0.00 0.00 4.79
2820 3450 3.581755 TCTGACAAGTATTTTCGGACGG 58.418 45.455 0.00 0.00 0.00 4.79
2821 3451 3.256383 TCTGACAAGTATTTTCGGACGGA 59.744 43.478 0.00 0.00 0.00 4.69
2822 3452 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
2823 3453 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2824 3454 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
2825 3455 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
3078 3708 1.996292 CGATCCACTATACCGGCATG 58.004 55.000 0.00 0.00 0.00 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.504384 CTCTCACAACAAGCACGTCG 59.496 55.000 0.00 0.00 0.00 5.12
1 2 1.258982 CACTCTCACAACAAGCACGTC 59.741 52.381 0.00 0.00 0.00 4.34
2 3 1.290203 CACTCTCACAACAAGCACGT 58.710 50.000 0.00 0.00 0.00 4.49
9 10 1.679153 TGTACGAGCACTCTCACAACA 59.321 47.619 0.00 0.00 39.30 3.33
34 35 3.214328 ACAACTTCTTTCTTCGTGGCAT 58.786 40.909 0.00 0.00 0.00 4.40
42 43 3.764237 TCCGGCTACAACTTCTTTCTT 57.236 42.857 0.00 0.00 0.00 2.52
129 130 2.991540 GTGGAAGGCTTGTGGGGC 60.992 66.667 3.46 0.00 0.00 5.80
164 165 2.874861 GCTTGATGGATCGGAGCATCAT 60.875 50.000 11.61 0.00 35.23 2.45
200 201 8.405418 AGATGCAATACAGATCAATGCTAATT 57.595 30.769 0.00 0.00 37.86 1.40
232 233 1.731424 CGTCATTGTCGCGGAAGTAGT 60.731 52.381 6.13 0.00 0.00 2.73
248 249 0.685097 CCTTCCCTCCTTTGTCGTCA 59.315 55.000 0.00 0.00 0.00 4.35
278 279 6.868864 CGATTATAGAGGAAATTCATCCACGT 59.131 38.462 3.86 0.00 42.27 4.49
303 304 5.808540 TGGCATGTGTTCTACTAATTCGTAC 59.191 40.000 0.00 0.00 0.00 3.67
306 307 5.794687 TTGGCATGTGTTCTACTAATTCG 57.205 39.130 0.00 0.00 0.00 3.34
341 342 7.661968 TGTGAGCAAGGATATAGTTCATAGAC 58.338 38.462 0.00 0.00 0.00 2.59
342 343 7.839680 TGTGAGCAAGGATATAGTTCATAGA 57.160 36.000 0.00 0.00 0.00 1.98
343 344 8.147058 AGTTGTGAGCAAGGATATAGTTCATAG 58.853 37.037 0.00 0.00 34.94 2.23
795 1187 2.485426 CGAGTGTCATTGCCAGTTCATT 59.515 45.455 0.00 0.00 0.00 2.57
1099 1491 0.524862 CTTTCCATGCTCACACTGGC 59.475 55.000 0.00 0.00 0.00 4.85
1510 1902 1.812571 GTGGACATCAAATCGCTTGGT 59.187 47.619 0.00 0.00 35.56 3.67
1692 2093 0.308684 ACGTTGTCGCGAAGTACTGA 59.691 50.000 12.06 0.00 41.18 3.41
1693 2094 0.701303 GACGTTGTCGCGAAGTACTG 59.299 55.000 12.06 8.31 41.18 2.74
1803 2207 0.748367 TGATCTCGTCTACTGCGGCT 60.748 55.000 0.00 0.00 0.00 5.52
1848 2252 4.087892 ATCTTGCCGACCTGCGCT 62.088 61.111 9.73 0.00 39.11 5.92
2022 2426 1.008538 CTTGTGTCCTTGGTTGCGC 60.009 57.895 0.00 0.00 0.00 6.09
2064 2653 1.503542 GCCACGGCATTGTCTCAAG 59.496 57.895 2.36 0.00 41.49 3.02
2146 2744 2.418083 CCCTCCAAAATCGGCAGCC 61.418 63.158 0.00 0.00 0.00 4.85
2149 2747 2.362375 GGCCCTCCAAAATCGGCA 60.362 61.111 0.00 0.00 43.50 5.69
2177 2775 3.087253 CACTATGGCCCCCACCGA 61.087 66.667 0.00 0.00 35.80 4.69
2245 2854 0.675633 CCCCCTGCAAAACTTGACTG 59.324 55.000 0.00 0.00 0.00 3.51
2246 2855 3.131850 CCCCCTGCAAAACTTGACT 57.868 52.632 0.00 0.00 0.00 3.41
2302 2917 3.769300 AGAAGAAGAAGAAGAGCCTCTCC 59.231 47.826 0.00 0.00 0.00 3.71
2324 2945 4.283363 AGCAGAGCAGATTCTGAAGAAA 57.717 40.909 17.87 0.00 45.95 2.52
2393 3017 3.911868 TCAAATTTTGAACATGGCGGAG 58.088 40.909 9.36 0.00 36.59 4.63
2435 3059 4.101585 TCAACACTGTTCAAGATGAGGAGT 59.898 41.667 0.00 0.00 0.00 3.85
2438 3062 3.750130 CCTCAACACTGTTCAAGATGAGG 59.250 47.826 9.83 9.83 42.57 3.86
2600 3227 5.656859 GTGAAGTAAAATCTGGCCCCTAATT 59.343 40.000 0.00 0.00 0.00 1.40
2604 3231 2.291605 GGTGAAGTAAAATCTGGCCCCT 60.292 50.000 0.00 0.00 0.00 4.79
2639 3267 7.444183 AGAATGAATCAACTAGAAACGACCAAA 59.556 33.333 0.00 0.00 0.00 3.28
2711 3341 2.730550 TTTTCGGACGGAGGAAGTAC 57.269 50.000 0.00 0.00 0.00 2.73
2712 3342 4.019174 AGTATTTTCGGACGGAGGAAGTA 58.981 43.478 0.00 0.00 0.00 2.24
2713 3343 2.830321 AGTATTTTCGGACGGAGGAAGT 59.170 45.455 0.00 0.00 0.00 3.01
2714 3344 3.521947 AGTATTTTCGGACGGAGGAAG 57.478 47.619 0.00 0.00 0.00 3.46
2715 3345 3.007182 ACAAGTATTTTCGGACGGAGGAA 59.993 43.478 0.00 0.00 0.00 3.36
2716 3346 2.564062 ACAAGTATTTTCGGACGGAGGA 59.436 45.455 0.00 0.00 0.00 3.71
2717 3347 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2718 3348 2.597305 CGACAAGTATTTTCGGACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
2719 3349 2.598589 CGACAAGTATTTTCGGACGGA 58.401 47.619 0.00 0.00 0.00 4.69
2725 3355 5.022021 GCAATTCTCCGACAAGTATTTTCG 58.978 41.667 0.00 0.00 0.00 3.46
2726 3356 5.938322 TGCAATTCTCCGACAAGTATTTTC 58.062 37.500 0.00 0.00 0.00 2.29
2727 3357 5.957842 TGCAATTCTCCGACAAGTATTTT 57.042 34.783 0.00 0.00 0.00 1.82
2728 3358 7.624360 TTATGCAATTCTCCGACAAGTATTT 57.376 32.000 0.00 0.00 0.00 1.40
2729 3359 7.624360 TTTATGCAATTCTCCGACAAGTATT 57.376 32.000 0.00 0.00 0.00 1.89
2730 3360 7.624360 TTTTATGCAATTCTCCGACAAGTAT 57.376 32.000 0.00 0.00 0.00 2.12
2731 3361 7.441890 TTTTTATGCAATTCTCCGACAAGTA 57.558 32.000 0.00 0.00 0.00 2.24
2732 3362 5.957842 TTTTATGCAATTCTCCGACAAGT 57.042 34.783 0.00 0.00 0.00 3.16
2733 3363 6.254157 CCATTTTTATGCAATTCTCCGACAAG 59.746 38.462 0.00 0.00 0.00 3.16
2734 3364 6.071672 TCCATTTTTATGCAATTCTCCGACAA 60.072 34.615 0.00 0.00 0.00 3.18
2735 3365 5.417266 TCCATTTTTATGCAATTCTCCGACA 59.583 36.000 0.00 0.00 0.00 4.35
2736 3366 5.890334 TCCATTTTTATGCAATTCTCCGAC 58.110 37.500 0.00 0.00 0.00 4.79
2737 3367 6.096705 ACATCCATTTTTATGCAATTCTCCGA 59.903 34.615 0.00 0.00 0.00 4.55
2738 3368 6.275335 ACATCCATTTTTATGCAATTCTCCG 58.725 36.000 0.00 0.00 0.00 4.63
2739 3369 9.415544 GATACATCCATTTTTATGCAATTCTCC 57.584 33.333 0.00 0.00 0.00 3.71
2746 3376 9.407380 AGTTGTAGATACATCCATTTTTATGCA 57.593 29.630 0.00 0.00 35.89 3.96
2779 3409 9.421399 TGTCAGAGGAATAAATGTATCTAGACA 57.579 33.333 0.00 0.00 0.00 3.41
2789 3419 9.708222 CGAAAATACTTGTCAGAGGAATAAATG 57.292 33.333 0.00 0.00 0.00 2.32
2790 3420 8.893727 CCGAAAATACTTGTCAGAGGAATAAAT 58.106 33.333 0.00 0.00 0.00 1.40
2791 3421 8.098286 TCCGAAAATACTTGTCAGAGGAATAAA 58.902 33.333 0.00 0.00 0.00 1.40
2792 3422 7.548075 GTCCGAAAATACTTGTCAGAGGAATAA 59.452 37.037 0.00 0.00 0.00 1.40
2793 3423 7.039882 GTCCGAAAATACTTGTCAGAGGAATA 58.960 38.462 0.00 0.00 0.00 1.75
2794 3424 5.875359 GTCCGAAAATACTTGTCAGAGGAAT 59.125 40.000 0.00 0.00 0.00 3.01
2795 3425 5.235516 GTCCGAAAATACTTGTCAGAGGAA 58.764 41.667 0.00 0.00 0.00 3.36
2796 3426 4.617530 CGTCCGAAAATACTTGTCAGAGGA 60.618 45.833 0.00 0.00 0.00 3.71
2797 3427 3.612860 CGTCCGAAAATACTTGTCAGAGG 59.387 47.826 0.00 0.00 0.00 3.69
2798 3428 3.612860 CCGTCCGAAAATACTTGTCAGAG 59.387 47.826 0.00 0.00 0.00 3.35
2799 3429 3.256383 TCCGTCCGAAAATACTTGTCAGA 59.744 43.478 0.00 0.00 0.00 3.27
2800 3430 3.581755 TCCGTCCGAAAATACTTGTCAG 58.418 45.455 0.00 0.00 0.00 3.51
2801 3431 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
2802 3432 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
2803 3433 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
2804 3434 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
2805 3435 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
2806 3436 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
2807 3437 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
2808 3438 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
2809 3439 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
2810 3440 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
2811 3441 0.038744 AGTACTCCCTCCGTCCGAAA 59.961 55.000 0.00 0.00 0.00 3.46
2812 3442 0.679002 CAGTACTCCCTCCGTCCGAA 60.679 60.000 0.00 0.00 0.00 4.30
2813 3443 1.077930 CAGTACTCCCTCCGTCCGA 60.078 63.158 0.00 0.00 0.00 4.55
2814 3444 2.119655 CCAGTACTCCCTCCGTCCG 61.120 68.421 0.00 0.00 0.00 4.79
2815 3445 0.614134 AACCAGTACTCCCTCCGTCC 60.614 60.000 0.00 0.00 0.00 4.79
2816 3446 1.067071 CAAACCAGTACTCCCTCCGTC 60.067 57.143 0.00 0.00 0.00 4.79
2817 3447 0.974383 CAAACCAGTACTCCCTCCGT 59.026 55.000 0.00 0.00 0.00 4.69
2818 3448 1.263356 TCAAACCAGTACTCCCTCCG 58.737 55.000 0.00 0.00 0.00 4.63
2819 3449 3.782656 TTTCAAACCAGTACTCCCTCC 57.217 47.619 0.00 0.00 0.00 4.30
2820 3450 7.067129 GGAATATTTTCAAACCAGTACTCCCTC 59.933 40.741 0.00 0.00 33.23 4.30
2821 3451 6.890268 GGAATATTTTCAAACCAGTACTCCCT 59.110 38.462 0.00 0.00 33.23 4.20
2822 3452 6.890268 AGGAATATTTTCAAACCAGTACTCCC 59.110 38.462 0.00 0.00 33.23 4.30
2823 3453 7.610305 TCAGGAATATTTTCAAACCAGTACTCC 59.390 37.037 0.00 0.00 33.23 3.85
2824 3454 8.561738 TCAGGAATATTTTCAAACCAGTACTC 57.438 34.615 0.00 0.00 33.23 2.59
2825 3455 7.611855 CCTCAGGAATATTTTCAAACCAGTACT 59.388 37.037 0.00 0.00 33.23 2.73
3048 3678 2.082140 AGTGGATCGCACATACCCTA 57.918 50.000 14.31 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.