Multiple sequence alignment - TraesCS6A01G343700

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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 TraesCS6A01G343700 chr6A 100.000 4262 0 0 1 4262 577882615 577878354 0.000000e+00 7871.0
1 TraesCS6A01G343700 chr6A 86.016 2367 235 51 989 3325 578039635 578037335 0.000000e+00 2449.0
2 TraesCS6A01G343700 chr6A 95.263 950 32 4 3326 4262 135352425 135351476 0.000000e+00 1493.0
3 TraesCS6A01G343700 chr6A 92.447 940 35 6 3325 4262 226513014 226513919 0.000000e+00 1310.0
4 TraesCS6A01G343700 chr6A 92.365 943 30 8 3325 4262 293905172 293904267 0.000000e+00 1304.0
5 TraesCS6A01G343700 chr6A 96.552 580 16 3 3325 3901 168028340 168027762 0.000000e+00 957.0
6 TraesCS6A01G343700 chr6D 94.132 2505 78 33 1 2467 431211677 431209204 0.000000e+00 3747.0
7 TraesCS6A01G343700 chr6D 95.879 825 34 0 2501 3325 431209204 431208380 0.000000e+00 1336.0
8 TraesCS6A01G343700 chr6D 86.851 1156 114 24 1023 2171 431269986 431268862 0.000000e+00 1258.0
9 TraesCS6A01G343700 chr6D 85.573 1116 120 20 2237 3325 431268543 431267442 0.000000e+00 1131.0
10 TraesCS6A01G343700 chr6D 88.889 252 21 7 668 915 309995691 309995939 1.930000e-78 303.0
11 TraesCS6A01G343700 chr6D 82.222 225 35 3 1646 1868 3040746 3040525 5.630000e-44 189.0
12 TraesCS6A01G343700 chr6D 92.771 83 6 0 1147 1229 3040953 3040871 2.080000e-23 121.0
13 TraesCS6A01G343700 chr6B 86.701 2331 216 43 1023 3325 650924906 650922642 0.000000e+00 2501.0
14 TraesCS6A01G343700 chr6B 94.049 1546 53 20 945 2478 650805596 650804078 0.000000e+00 2309.0
15 TraesCS6A01G343700 chr6B 92.850 937 34 3 3326 4262 7445613 7444710 0.000000e+00 1328.0
16 TraesCS6A01G343700 chr6B 95.383 823 36 2 2504 3325 650804083 650803262 0.000000e+00 1308.0
17 TraesCS6A01G343700 chr2A 94.350 938 39 5 3326 4262 758124590 758125514 0.000000e+00 1426.0
18 TraesCS6A01G343700 chr2A 78.476 525 89 20 146 665 653912619 653913124 5.320000e-84 322.0
19 TraesCS6A01G343700 chr2A 88.060 268 24 2 1140 1399 474320185 474319918 1.150000e-80 311.0
20 TraesCS6A01G343700 chr2A 85.417 240 29 3 667 904 755252942 755253177 1.180000e-60 244.0
21 TraesCS6A01G343700 chr2A 97.297 37 1 0 1514 1550 474319917 474319881 3.560000e-06 63.9
22 TraesCS6A01G343700 chr7B 93.191 940 35 5 3326 4262 603861178 603862091 0.000000e+00 1354.0
23 TraesCS6A01G343700 chr5A 92.964 938 41 10 3325 4262 677708674 677709586 0.000000e+00 1343.0
24 TraesCS6A01G343700 chr5A 88.803 259 18 2 668 915 699319374 699319632 1.490000e-79 307.0
25 TraesCS6A01G343700 chr1A 92.971 939 37 15 3326 4262 488525299 488526210 0.000000e+00 1341.0
26 TraesCS6A01G343700 chr1A 86.076 237 28 5 681 915 10586567 10586334 2.540000e-62 250.0
27 TraesCS6A01G343700 chr1A 92.754 69 5 0 847 915 548963510 548963578 2.710000e-17 100.0
28 TraesCS6A01G343700 chr7A 92.429 951 40 7 3326 4262 50603777 50602845 0.000000e+00 1328.0
29 TraesCS6A01G343700 chr7A 98.271 347 6 0 3916 4262 1874993 1874647 3.640000e-170 608.0
30 TraesCS6A01G343700 chr7A 82.844 443 57 17 1 437 283133356 283132927 3.110000e-101 379.0
31 TraesCS6A01G343700 chr4A 92.317 794 32 12 3325 4114 153301966 153301198 0.000000e+00 1101.0
32 TraesCS6A01G343700 chr4A 87.352 253 24 7 668 915 731306606 731306357 2.510000e-72 283.0
33 TraesCS6A01G343700 chr4B 93.494 538 14 2 3726 4262 3918940 3919457 0.000000e+00 780.0
34 TraesCS6A01G343700 chr4B 84.211 266 26 7 663 915 495074614 495074352 1.180000e-60 244.0
35 TraesCS6A01G343700 chr4B 89.552 67 7 0 849 915 613205938 613205872 7.590000e-13 86.1
36 TraesCS6A01G343700 chr3D 94.062 421 19 3 3846 4262 2021269 2020851 6.010000e-178 634.0
37 TraesCS6A01G343700 chr3D 76.126 222 43 10 455 669 269757880 269758098 1.620000e-19 108.0
38 TraesCS6A01G343700 chr5B 98.276 348 6 0 3915 4262 247449111 247448764 1.010000e-170 610.0
39 TraesCS6A01G343700 chr7D 94.315 387 16 3 3878 4262 18233430 18233048 4.750000e-164 588.0
40 TraesCS6A01G343700 chr7D 79.052 654 119 17 14 661 627849468 627848827 2.350000e-117 433.0
41 TraesCS6A01G343700 chr7D 78.867 653 115 20 14 661 628086628 628085994 1.830000e-113 420.0
42 TraesCS6A01G343700 chr7D 78.714 653 120 18 14 661 628005322 628004684 6.590000e-113 418.0
43 TraesCS6A01G343700 chr7D 79.698 596 105 15 71 661 627732013 627731429 2.370000e-112 416.0
44 TraesCS6A01G343700 chr7D 87.549 257 25 7 663 915 104505518 104505265 1.500000e-74 291.0
45 TraesCS6A01G343700 chr7D 86.498 237 27 4 681 915 496109063 496109296 5.470000e-64 255.0
46 TraesCS6A01G343700 chr7D 77.744 328 55 12 305 627 1065401 1065087 7.280000e-43 185.0
47 TraesCS6A01G343700 chr7D 76.303 211 38 11 466 669 17006967 17007172 7.540000e-18 102.0
48 TraesCS6A01G343700 chr3A 78.806 670 117 16 7 669 654211282 654210631 1.100000e-115 427.0
49 TraesCS6A01G343700 chr3A 89.431 246 14 3 681 915 424088833 424089077 2.490000e-77 300.0
50 TraesCS6A01G343700 chr3A 86.486 259 25 7 667 915 480139089 480138831 4.200000e-70 276.0
51 TraesCS6A01G343700 chr2D 83.599 439 56 11 1 437 465569409 465569833 8.590000e-107 398.0
52 TraesCS6A01G343700 chr2B 82.688 439 63 8 1 437 506860546 506860973 1.120000e-100 377.0
53 TraesCS6A01G343700 chr1B 85.878 262 22 4 668 915 17140514 17140774 9.090000e-67 265.0
54 TraesCS6A01G343700 chrUn 97.619 42 1 0 1514 1555 40196085 40196126 5.910000e-09 73.1


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 TraesCS6A01G343700 chr6A 577878354 577882615 4261 True 7871.0 7871 100.0000 1 4262 1 chr6A.!!$R4 4261
1 TraesCS6A01G343700 chr6A 578037335 578039635 2300 True 2449.0 2449 86.0160 989 3325 1 chr6A.!!$R5 2336
2 TraesCS6A01G343700 chr6A 135351476 135352425 949 True 1493.0 1493 95.2630 3326 4262 1 chr6A.!!$R1 936
3 TraesCS6A01G343700 chr6A 226513014 226513919 905 False 1310.0 1310 92.4470 3325 4262 1 chr6A.!!$F1 937
4 TraesCS6A01G343700 chr6A 293904267 293905172 905 True 1304.0 1304 92.3650 3325 4262 1 chr6A.!!$R3 937
5 TraesCS6A01G343700 chr6A 168027762 168028340 578 True 957.0 957 96.5520 3325 3901 1 chr6A.!!$R2 576
6 TraesCS6A01G343700 chr6D 431208380 431211677 3297 True 2541.5 3747 95.0055 1 3325 2 chr6D.!!$R2 3324
7 TraesCS6A01G343700 chr6D 431267442 431269986 2544 True 1194.5 1258 86.2120 1023 3325 2 chr6D.!!$R3 2302
8 TraesCS6A01G343700 chr6B 650922642 650924906 2264 True 2501.0 2501 86.7010 1023 3325 1 chr6B.!!$R2 2302
9 TraesCS6A01G343700 chr6B 650803262 650805596 2334 True 1808.5 2309 94.7160 945 3325 2 chr6B.!!$R3 2380
10 TraesCS6A01G343700 chr6B 7444710 7445613 903 True 1328.0 1328 92.8500 3326 4262 1 chr6B.!!$R1 936
11 TraesCS6A01G343700 chr2A 758124590 758125514 924 False 1426.0 1426 94.3500 3326 4262 1 chr2A.!!$F3 936
12 TraesCS6A01G343700 chr2A 653912619 653913124 505 False 322.0 322 78.4760 146 665 1 chr2A.!!$F1 519
13 TraesCS6A01G343700 chr7B 603861178 603862091 913 False 1354.0 1354 93.1910 3326 4262 1 chr7B.!!$F1 936
14 TraesCS6A01G343700 chr5A 677708674 677709586 912 False 1343.0 1343 92.9640 3325 4262 1 chr5A.!!$F1 937
15 TraesCS6A01G343700 chr1A 488525299 488526210 911 False 1341.0 1341 92.9710 3326 4262 1 chr1A.!!$F1 936
16 TraesCS6A01G343700 chr7A 50602845 50603777 932 True 1328.0 1328 92.4290 3326 4262 1 chr7A.!!$R2 936
17 TraesCS6A01G343700 chr4A 153301198 153301966 768 True 1101.0 1101 92.3170 3325 4114 1 chr4A.!!$R1 789
18 TraesCS6A01G343700 chr4B 3918940 3919457 517 False 780.0 780 93.4940 3726 4262 1 chr4B.!!$F1 536
19 TraesCS6A01G343700 chr7D 627848827 627849468 641 True 433.0 433 79.0520 14 661 1 chr7D.!!$R5 647
20 TraesCS6A01G343700 chr7D 628085994 628086628 634 True 420.0 420 78.8670 14 661 1 chr7D.!!$R7 647
21 TraesCS6A01G343700 chr7D 628004684 628005322 638 True 418.0 418 78.7140 14 661 1 chr7D.!!$R6 647
22 TraesCS6A01G343700 chr7D 627731429 627732013 584 True 416.0 416 79.6980 71 661 1 chr7D.!!$R4 590
23 TraesCS6A01G343700 chr3A 654210631 654211282 651 True 427.0 427 78.8060 7 669 1 chr3A.!!$R2 662

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
463 476 2.221055 GCTCGTTGCGATAAATAGGGTG 59.779 50.000 0.00 0.00 34.61 4.61 F
1039 1108 1.071471 CCCATGCACCTATCGACCC 59.929 63.158 0.00 0.00 0.00 4.46 F
2128 2203 1.559368 AAGTAAAGCCCATGCATGCA 58.441 45.000 25.04 25.04 41.13 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2268 2636 0.032912 TGGATGCTGCCATGATGGTT 60.033 50.0 13.84 0.0 40.46 3.67 R
2385 2762 0.334335 TGGAAGTATTGGCATGGGCA 59.666 50.0 0.00 0.0 43.71 5.36 R
3527 3942 0.173481 TGGCGCACTGTGTCTAGATC 59.827 55.0 10.83 0.0 0.00 2.75 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
186 188 9.672086 CAAAGATTTAATGTTCTGGACGTTTTA 57.328 29.630 0.00 0.00 38.42 1.52
190 192 9.620660 GATTTAATGTTCTGGACGTTTTACAAT 57.379 29.630 0.00 0.00 38.42 2.71
462 475 2.480845 GCTCGTTGCGATAAATAGGGT 58.519 47.619 0.00 0.00 34.61 4.34
463 476 2.221055 GCTCGTTGCGATAAATAGGGTG 59.779 50.000 0.00 0.00 34.61 4.61
497 517 4.746729 GCATGTGCATGAAAATAACTGGA 58.253 39.130 15.53 0.00 41.20 3.86
549 569 4.201685 CCCATGTACGAAATTCTGACGTTC 60.202 45.833 0.00 0.00 40.61 3.95
577 597 6.628185 TCTTTTCTAATAGACGAAGGGACAC 58.372 40.000 10.72 0.00 0.00 3.67
578 598 6.436532 TCTTTTCTAATAGACGAAGGGACACT 59.563 38.462 10.72 0.00 0.00 3.55
585 605 3.170717 AGACGAAGGGACACTTATCCAA 58.829 45.455 0.00 0.00 40.21 3.53
590 610 4.377897 GAAGGGACACTTATCCAATACCG 58.622 47.826 0.00 0.00 40.21 4.02
594 614 3.433173 GGACACTTATCCAATACCGCCTT 60.433 47.826 0.00 0.00 38.77 4.35
662 685 5.627499 AGAAACGCATCTTGCTTTATTGA 57.373 34.783 0.00 0.00 42.25 2.57
672 695 7.659390 GCATCTTGCTTTATTGATAGGTACTCT 59.341 37.037 0.00 0.00 40.96 3.24
677 700 6.839134 TGCTTTATTGATAGGTACTCTCTCCA 59.161 38.462 0.00 0.00 41.75 3.86
905 941 8.821147 TCTTATACGCAGACTAAAAAGAAACA 57.179 30.769 0.00 0.00 0.00 2.83
997 1062 7.816411 AGGTGTAGCATTCCTCCTATAAAAAT 58.184 34.615 0.00 0.00 0.00 1.82
1039 1108 1.071471 CCCATGCACCTATCGACCC 59.929 63.158 0.00 0.00 0.00 4.46
1040 1109 1.695114 CCCATGCACCTATCGACCCA 61.695 60.000 0.00 0.00 0.00 4.51
1481 1556 4.457496 CGACATCAGCCACGGCCT 62.457 66.667 3.95 0.00 43.17 5.19
1951 2026 3.444034 CAGGAAGGTGATCTACGTGAAGA 59.556 47.826 0.00 0.00 0.00 2.87
2124 2199 1.904287 ACGAAAGTAAAGCCCATGCA 58.096 45.000 0.00 0.00 46.88 3.96
2125 2200 2.446435 ACGAAAGTAAAGCCCATGCAT 58.554 42.857 0.00 0.00 46.88 3.96
2126 2201 2.164219 ACGAAAGTAAAGCCCATGCATG 59.836 45.455 20.19 20.19 46.88 4.06
2127 2202 2.543641 GAAAGTAAAGCCCATGCATGC 58.456 47.619 21.69 11.82 41.13 4.06
2128 2203 1.559368 AAGTAAAGCCCATGCATGCA 58.441 45.000 25.04 25.04 41.13 3.96
2268 2636 9.158233 CTTGAAGAAGAAATTATTACGTACCCA 57.842 33.333 0.00 0.00 0.00 4.51
2354 2731 3.322828 GTCGCCTGTACCCTCCAAATATA 59.677 47.826 0.00 0.00 0.00 0.86
2362 2739 6.126409 TGTACCCTCCAAATATAAAAGGCAG 58.874 40.000 0.00 0.00 0.00 4.85
2378 2755 3.026694 AGGCAGAAGCAACCCAAATATC 58.973 45.455 0.00 0.00 44.61 1.63
2379 2756 2.760092 GGCAGAAGCAACCCAAATATCA 59.240 45.455 0.00 0.00 44.61 2.15
2380 2757 3.195396 GGCAGAAGCAACCCAAATATCAA 59.805 43.478 0.00 0.00 44.61 2.57
2381 2758 4.322650 GGCAGAAGCAACCCAAATATCAAA 60.323 41.667 0.00 0.00 44.61 2.69
2382 2759 5.422145 GCAGAAGCAACCCAAATATCAAAT 58.578 37.500 0.00 0.00 41.58 2.32
2383 2760 6.406849 GGCAGAAGCAACCCAAATATCAAATA 60.407 38.462 0.00 0.00 44.61 1.40
2384 2761 7.212274 GCAGAAGCAACCCAAATATCAAATAT 58.788 34.615 0.00 0.00 41.58 1.28
2385 2762 7.712205 GCAGAAGCAACCCAAATATCAAATATT 59.288 33.333 0.00 0.00 41.58 1.28
2403 2780 1.484038 TTGCCCATGCCAATACTTCC 58.516 50.000 0.00 0.00 36.33 3.46
2466 2843 6.284891 TCATCCATCTCATCGCAATATGTA 57.715 37.500 0.00 0.00 0.00 2.29
2467 2844 6.101997 TCATCCATCTCATCGCAATATGTAC 58.898 40.000 0.00 0.00 0.00 2.90
2492 2869 8.140628 ACTATGTTGCACTATCAGTAGAAGATG 58.859 37.037 0.00 0.00 0.00 2.90
2493 2870 5.664457 TGTTGCACTATCAGTAGAAGATGG 58.336 41.667 0.00 0.00 0.00 3.51
2495 2872 3.070159 TGCACTATCAGTAGAAGATGGGC 59.930 47.826 0.00 0.00 0.00 5.36
2497 2874 4.626042 CACTATCAGTAGAAGATGGGCAC 58.374 47.826 0.00 0.00 0.00 5.01
2498 2875 4.343526 CACTATCAGTAGAAGATGGGCACT 59.656 45.833 0.00 0.00 0.00 4.40
2499 2876 4.586841 ACTATCAGTAGAAGATGGGCACTC 59.413 45.833 0.00 0.00 0.00 3.51
2508 2910 3.159213 AGATGGGCACTCATGTTTCAA 57.841 42.857 0.00 0.00 0.00 2.69
2616 3026 2.348411 GCTTCATAGCAAAGGGCCTA 57.652 50.000 6.41 0.00 46.95 3.93
2631 3041 2.213499 GGCCTAACCATCATCAACGAG 58.787 52.381 0.00 0.00 38.86 4.18
2820 3230 1.312371 CCGCGGTGGTCATCCAAAAT 61.312 55.000 19.50 0.00 46.15 1.82
2843 3253 2.202932 CATCCGTCCCAGGAAGCG 60.203 66.667 0.00 0.00 44.50 4.68
2880 3290 3.492353 ATGATCACGGCCCAGGGG 61.492 66.667 7.91 3.48 38.57 4.79
3001 3411 1.891150 GGAAGAAGTACTCACGGACCA 59.109 52.381 0.00 0.00 0.00 4.02
3060 3470 3.249189 GGGTGGCTGGAGTGGTCA 61.249 66.667 0.00 0.00 0.00 4.02
3172 3582 1.065109 CACACGTCACTGTCCACGA 59.935 57.895 14.02 0.00 39.38 4.35
3292 3703 3.016031 TGTCATGTTGTTTGTGCTCTGT 58.984 40.909 0.00 0.00 0.00 3.41
3320 3731 4.118168 ACTTGGAACATGGAACCAGATT 57.882 40.909 0.00 0.00 39.30 2.40
3387 3798 4.235762 ACCAGACAAGCGGTGCGT 62.236 61.111 0.00 0.00 33.05 5.24
3415 3826 4.527038 AGTATATACTAATGGCGCACCACT 59.473 41.667 13.88 0.00 41.40 4.00
3460 3871 0.178068 CTACTAATGGCGCACCTGGT 59.822 55.000 10.83 4.70 36.63 4.00
3527 3942 3.275143 TGTCCAAACATACTAATGGCGG 58.725 45.455 0.00 0.00 37.43 6.13
3531 3946 4.102524 TCCAAACATACTAATGGCGGATCT 59.897 41.667 0.00 0.00 37.43 2.75
3968 4441 2.042435 CGCCTCCTCTCTTCCCCT 60.042 66.667 0.00 0.00 0.00 4.79
4135 4608 1.698506 TTGCATCCCCTTTTGTTCGT 58.301 45.000 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
317 320 9.996554 TCCTCTTTTTCTTTCTTGTTTCTTTTT 57.003 25.926 0.00 0.00 0.00 1.94
357 362 7.032580 TGGTCTGTGTTGTGTTTCTATTTTTG 58.967 34.615 0.00 0.00 0.00 2.44
462 475 1.039068 CACATGCAGGTGGGAAAACA 58.961 50.000 23.36 0.00 35.13 2.83
463 476 0.319813 GCACATGCAGGTGGGAAAAC 60.320 55.000 30.45 10.88 41.59 2.43
549 569 8.657729 GTCCCTTCGTCTATTAGAAAAGAAAAG 58.342 37.037 14.38 7.46 0.00 2.27
577 597 6.464222 TCTATTCAAGGCGGTATTGGATAAG 58.536 40.000 0.00 0.00 29.71 1.73
578 598 6.269077 TCTCTATTCAAGGCGGTATTGGATAA 59.731 38.462 0.00 0.00 29.71 1.75
585 605 7.054124 TGATTTTTCTCTATTCAAGGCGGTAT 58.946 34.615 0.00 0.00 0.00 2.73
875 911 9.647797 TCTTTTTAGTCTGCGTATAAGATTTGA 57.352 29.630 0.00 0.00 0.00 2.69
887 923 4.083802 CCCTCTGTTTCTTTTTAGTCTGCG 60.084 45.833 0.00 0.00 0.00 5.18
997 1062 2.009051 CGTACAAAGCATGAGCATGGA 58.991 47.619 12.00 0.00 45.49 3.41
1039 1108 0.385974 GCCAGCAGTAAAGCGTTGTG 60.386 55.000 0.00 0.00 40.15 3.33
1040 1109 1.841663 CGCCAGCAGTAAAGCGTTGT 61.842 55.000 0.00 0.00 43.45 3.32
1384 1456 2.048222 CGAGAGGTTGAGCGCCAA 60.048 61.111 2.29 5.36 0.00 4.52
1391 1463 2.687805 CGCGAGGACGAGAGGTTGA 61.688 63.158 0.00 0.00 41.48 3.18
1670 1745 4.821589 CGCTCCCGCCCTTGAGAC 62.822 72.222 0.00 0.00 0.00 3.36
1919 1994 4.479993 CCTTCCTGGCTGCTCCGG 62.480 72.222 0.00 0.00 41.11 5.14
2104 2179 3.060736 TGCATGGGCTTTACTTTCGTA 57.939 42.857 0.00 0.00 41.91 3.43
2105 2180 1.904287 TGCATGGGCTTTACTTTCGT 58.096 45.000 0.00 0.00 41.91 3.85
2268 2636 0.032912 TGGATGCTGCCATGATGGTT 60.033 50.000 13.84 0.00 40.46 3.67
2296 2664 5.569428 GCTGCTCCATTTTTGGGACTTTTAT 60.569 40.000 0.00 0.00 0.00 1.40
2301 2669 1.203100 AGCTGCTCCATTTTTGGGACT 60.203 47.619 0.00 0.00 0.00 3.85
2302 2670 1.067354 CAGCTGCTCCATTTTTGGGAC 60.067 52.381 0.00 0.00 0.00 4.46
2303 2671 1.259609 CAGCTGCTCCATTTTTGGGA 58.740 50.000 0.00 0.00 0.00 4.37
2354 2731 1.494960 TTGGGTTGCTTCTGCCTTTT 58.505 45.000 0.00 0.00 38.71 2.27
2362 2739 7.041848 GGCAATATTTGATATTTGGGTTGCTTC 60.042 37.037 0.00 0.00 33.34 3.86
2385 2762 0.334335 TGGAAGTATTGGCATGGGCA 59.666 50.000 0.00 0.00 43.71 5.36
2403 2780 6.586344 AGTGTATGGATCTAGTGACCAAATG 58.414 40.000 8.69 0.00 37.24 2.32
2466 2843 7.646548 TCTTCTACTGATAGTGCAACATAGT 57.353 36.000 0.00 0.00 41.43 2.12
2467 2844 7.598118 CCATCTTCTACTGATAGTGCAACATAG 59.402 40.741 0.00 0.00 41.43 2.23
2492 2869 2.340337 GCAATTGAAACATGAGTGCCC 58.660 47.619 10.34 0.00 0.00 5.36
2493 2870 2.340337 GGCAATTGAAACATGAGTGCC 58.660 47.619 10.34 7.00 42.88 5.01
2495 2872 3.557577 TCGGCAATTGAAACATGAGTG 57.442 42.857 10.34 0.00 0.00 3.51
2497 2874 4.100529 GACATCGGCAATTGAAACATGAG 58.899 43.478 10.34 0.00 0.00 2.90
2498 2875 3.505293 TGACATCGGCAATTGAAACATGA 59.495 39.130 10.34 0.00 0.00 3.07
2499 2876 3.609373 GTGACATCGGCAATTGAAACATG 59.391 43.478 10.34 7.49 0.00 3.21
2508 2910 2.011947 CATGTGAGTGACATCGGCAAT 58.988 47.619 0.00 0.00 43.96 3.56
2607 3017 3.365472 GTTGATGATGGTTAGGCCCTTT 58.635 45.455 0.00 0.00 36.04 3.11
2616 3026 0.744414 CGGCCTCGTTGATGATGGTT 60.744 55.000 0.00 0.00 0.00 3.67
2642 3052 4.335647 CCACCGCCTGGCTCTTGT 62.336 66.667 17.92 5.68 39.70 3.16
2849 3259 0.533755 GATCATGTCCTTCTGGCCGG 60.534 60.000 4.71 4.71 0.00 6.13
3001 3411 2.363306 AGAGAGCTCTCCATCACGAT 57.637 50.000 34.87 15.14 43.88 3.73
3060 3470 4.314440 TTGAGCGCGAACTGGCCT 62.314 61.111 12.10 0.00 0.00 5.19
3094 3504 0.331616 GGCCCACTGTTCCCATACTT 59.668 55.000 0.00 0.00 0.00 2.24
3172 3582 2.358247 GAACCGTGTGGCGTCCAT 60.358 61.111 1.90 0.00 39.70 3.41
3199 3609 5.186198 CCACGAGTCTCCCAAGATAAAATT 58.814 41.667 0.00 0.00 33.08 1.82
3292 3703 5.835819 TGGTTCCATGTTCCAAGTTAATCAA 59.164 36.000 0.00 0.00 0.00 2.57
3320 3731 6.869206 AGCCCTTTTTCTAGTAGTGATGTA 57.131 37.500 0.00 0.00 0.00 2.29
3415 3826 4.099419 TCAGCTCTAATGGCGTATCAGAAA 59.901 41.667 0.00 0.00 34.52 2.52
3460 3871 0.978667 TACTAATGGCGCACCCTGGA 60.979 55.000 10.83 0.00 33.59 3.86
3527 3942 0.173481 TGGCGCACTGTGTCTAGATC 59.827 55.000 10.83 0.00 0.00 2.75
3531 3946 1.548719 AGTAATGGCGCACTGTGTCTA 59.451 47.619 10.83 0.46 0.00 2.59
3968 4441 1.306970 GAGGGAGAGAGGGGTTCGA 59.693 63.158 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.