Multiple sequence alignment - TraesCS6D01G163800

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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 TraesCS6D01G163800 chr6D 100.000 3672 0 0 1 3672 142991089 142987418 0.000000e+00 6782.0
1 TraesCS6D01G163800 chr6D 93.730 622 26 4 3061 3672 401761728 401761110 0.000000e+00 920.0
2 TraesCS6D01G163800 chr6D 76.386 830 162 25 1111 1929 143092300 143091494 2.040000e-112 416.0
3 TraesCS6D01G163800 chr6D 93.923 181 8 2 2893 3070 401794605 401794425 1.680000e-68 270.0
4 TraesCS6D01G163800 chr6B 95.604 1888 67 3 795 2678 248512021 248510146 0.000000e+00 3013.0
5 TraesCS6D01G163800 chr6B 94.878 1347 69 0 1302 2648 249449107 249447761 0.000000e+00 2106.0
6 TraesCS6D01G163800 chr6B 89.723 866 72 4 1880 2742 249385677 249384826 0.000000e+00 1090.0
7 TraesCS6D01G163800 chr6B 89.452 730 50 2 1013 1742 249386425 249385723 0.000000e+00 896.0
8 TraesCS6D01G163800 chr6B 92.857 490 23 5 2893 3372 45846459 45845972 0.000000e+00 701.0
9 TraesCS6D01G163800 chr6B 92.368 380 18 2 753 1124 249449545 249449169 6.980000e-147 531.0
10 TraesCS6D01G163800 chr6B 83.972 574 49 16 57 622 345630801 345631339 9.100000e-141 510.0
11 TraesCS6D01G163800 chr6B 96.246 293 8 1 3383 3672 45841962 45841670 9.230000e-131 477.0
12 TraesCS6D01G163800 chr6B 76.737 662 117 21 1103 1764 255211361 255210737 5.880000e-88 335.0
13 TraesCS6D01G163800 chr6B 89.046 283 11 9 56 331 636975581 636975850 2.110000e-87 333.0
14 TraesCS6D01G163800 chr6B 89.960 249 21 3 57 302 213300978 213300731 5.920000e-83 318.0
15 TraesCS6D01G163800 chr6B 87.793 213 9 4 752 964 249386621 249386426 2.200000e-57 233.0
16 TraesCS6D01G163800 chr6A 94.881 1934 83 7 969 2892 188001259 187999332 0.000000e+00 3009.0
17 TraesCS6D01G163800 chr6A 87.629 970 60 30 26 977 188002444 188001517 0.000000e+00 1072.0
18 TraesCS6D01G163800 chr6A 79.335 692 126 10 1103 1793 205114750 205115425 1.540000e-128 470.0
19 TraesCS6D01G163800 chr4D 95.012 1303 45 3 801 2103 7654823 7656105 0.000000e+00 2028.0
20 TraesCS6D01G163800 chr4D 92.120 698 40 11 2101 2784 7704368 7705064 0.000000e+00 970.0
21 TraesCS6D01G163800 chr4D 87.266 534 32 16 56 581 368504820 368504315 8.840000e-161 577.0
22 TraesCS6D01G163800 chr3D 98.082 782 15 0 2891 3672 583472014 583472795 0.000000e+00 1362.0
23 TraesCS6D01G163800 chr3D 84.790 572 42 23 20 581 93972470 93971934 1.940000e-147 532.0
24 TraesCS6D01G163800 chr3D 75.441 851 161 35 1115 1936 48348771 48349602 1.610000e-98 370.0
25 TraesCS6D01G163800 chr3D 75.422 830 162 34 1121 1929 48252167 48251359 7.490000e-97 364.0
26 TraesCS6D01G163800 chr3D 84.848 66 10 0 2428 2493 26814164 26814099 2.370000e-07 67.6
27 TraesCS6D01G163800 chr3A 88.314 599 34 8 2893 3457 9809685 9809089 0.000000e+00 686.0
28 TraesCS6D01G163800 chr3A 88.889 207 13 1 3468 3664 9787408 9787202 2.830000e-61 246.0
29 TraesCS6D01G163800 chr3A 86.239 109 15 0 641 749 732420523 732420631 6.440000e-23 119.0
30 TraesCS6D01G163800 chr3A 86.239 109 15 0 641 749 732420707 732420815 6.440000e-23 119.0
31 TraesCS6D01G163800 chr3A 84.034 119 17 2 642 759 686515110 686514993 3.000000e-21 113.0
32 TraesCS6D01G163800 chr2D 83.735 664 55 25 1 639 651641814 651642449 2.460000e-161 579.0
33 TraesCS6D01G163800 chr2D 83.959 586 50 22 69 638 37532659 37533216 4.200000e-144 521.0
34 TraesCS6D01G163800 chr2D 79.562 137 26 2 616 752 27266474 27266340 3.020000e-16 97.1
35 TraesCS6D01G163800 chr5B 86.250 560 36 17 56 602 571508152 571508683 1.480000e-158 569.0
36 TraesCS6D01G163800 chr7D 85.640 578 38 22 21 583 122526961 122527508 1.910000e-157 566.0
37 TraesCS6D01G163800 chr7D 82.909 667 45 33 3 639 550686352 550685725 1.500000e-148 536.0
38 TraesCS6D01G163800 chr7D 83.533 583 42 23 69 638 87756094 87755553 2.550000e-136 496.0
39 TraesCS6D01G163800 chr7D 84.821 112 14 2 641 752 184167521 184167413 3.880000e-20 110.0
40 TraesCS6D01G163800 chr2B 86.397 544 35 23 46 581 723051103 723051615 3.200000e-155 558.0
41 TraesCS6D01G163800 chr2B 72.814 526 119 20 2038 2553 764107475 764106964 1.370000e-34 158.0
42 TraesCS6D01G163800 chr2B 92.453 53 4 0 1 53 723051034 723051086 3.930000e-10 76.8
43 TraesCS6D01G163800 chr7A 85.688 538 40 13 57 583 411539092 411538581 1.940000e-147 532.0
44 TraesCS6D01G163800 chr7A 83.333 120 14 5 642 757 705472313 705472196 5.020000e-19 106.0
45 TraesCS6D01G163800 chr7B 77.512 836 166 15 1103 1933 682283729 682282911 1.980000e-132 483.0
46 TraesCS6D01G163800 chr7B 89.960 249 20 4 57 302 705732977 705733223 2.130000e-82 316.0
47 TraesCS6D01G163800 chr3B 75.060 834 161 36 1127 1933 76115201 76116014 9.760000e-91 344.0
48 TraesCS6D01G163800 chr5A 85.965 114 14 2 640 752 514038746 514038858 1.790000e-23 121.0
49 TraesCS6D01G163800 chr2A 84.821 112 15 2 641 752 757322460 757322569 1.080000e-20 111.0


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 TraesCS6D01G163800 chr6D 142987418 142991089 3671 True 6782.000000 6782 100.000000 1 3672 1 chr6D.!!$R1 3671
1 TraesCS6D01G163800 chr6D 401761110 401761728 618 True 920.000000 920 93.730000 3061 3672 1 chr6D.!!$R3 611
2 TraesCS6D01G163800 chr6D 143091494 143092300 806 True 416.000000 416 76.386000 1111 1929 1 chr6D.!!$R2 818
3 TraesCS6D01G163800 chr6B 248510146 248512021 1875 True 3013.000000 3013 95.604000 795 2678 1 chr6B.!!$R4 1883
4 TraesCS6D01G163800 chr6B 249447761 249449545 1784 True 1318.500000 2106 93.623000 753 2648 2 chr6B.!!$R7 1895
5 TraesCS6D01G163800 chr6B 249384826 249386621 1795 True 739.666667 1090 88.989333 752 2742 3 chr6B.!!$R6 1990
6 TraesCS6D01G163800 chr6B 345630801 345631339 538 False 510.000000 510 83.972000 57 622 1 chr6B.!!$F1 565
7 TraesCS6D01G163800 chr6B 255210737 255211361 624 True 335.000000 335 76.737000 1103 1764 1 chr6B.!!$R5 661
8 TraesCS6D01G163800 chr6A 187999332 188002444 3112 True 2040.500000 3009 91.255000 26 2892 2 chr6A.!!$R1 2866
9 TraesCS6D01G163800 chr6A 205114750 205115425 675 False 470.000000 470 79.335000 1103 1793 1 chr6A.!!$F1 690
10 TraesCS6D01G163800 chr4D 7654823 7656105 1282 False 2028.000000 2028 95.012000 801 2103 1 chr4D.!!$F1 1302
11 TraesCS6D01G163800 chr4D 7704368 7705064 696 False 970.000000 970 92.120000 2101 2784 1 chr4D.!!$F2 683
12 TraesCS6D01G163800 chr4D 368504315 368504820 505 True 577.000000 577 87.266000 56 581 1 chr4D.!!$R1 525
13 TraesCS6D01G163800 chr3D 583472014 583472795 781 False 1362.000000 1362 98.082000 2891 3672 1 chr3D.!!$F2 781
14 TraesCS6D01G163800 chr3D 93971934 93972470 536 True 532.000000 532 84.790000 20 581 1 chr3D.!!$R3 561
15 TraesCS6D01G163800 chr3D 48348771 48349602 831 False 370.000000 370 75.441000 1115 1936 1 chr3D.!!$F1 821
16 TraesCS6D01G163800 chr3D 48251359 48252167 808 True 364.000000 364 75.422000 1121 1929 1 chr3D.!!$R2 808
17 TraesCS6D01G163800 chr3A 9809089 9809685 596 True 686.000000 686 88.314000 2893 3457 1 chr3A.!!$R2 564
18 TraesCS6D01G163800 chr2D 651641814 651642449 635 False 579.000000 579 83.735000 1 639 1 chr2D.!!$F2 638
19 TraesCS6D01G163800 chr2D 37532659 37533216 557 False 521.000000 521 83.959000 69 638 1 chr2D.!!$F1 569
20 TraesCS6D01G163800 chr5B 571508152 571508683 531 False 569.000000 569 86.250000 56 602 1 chr5B.!!$F1 546
21 TraesCS6D01G163800 chr7D 122526961 122527508 547 False 566.000000 566 85.640000 21 583 1 chr7D.!!$F1 562
22 TraesCS6D01G163800 chr7D 550685725 550686352 627 True 536.000000 536 82.909000 3 639 1 chr7D.!!$R3 636
23 TraesCS6D01G163800 chr7D 87755553 87756094 541 True 496.000000 496 83.533000 69 638 1 chr7D.!!$R1 569
24 TraesCS6D01G163800 chr2B 723051034 723051615 581 False 317.400000 558 89.425000 1 581 2 chr2B.!!$F1 580
25 TraesCS6D01G163800 chr7A 411538581 411539092 511 True 532.000000 532 85.688000 57 583 1 chr7A.!!$R1 526
26 TraesCS6D01G163800 chr7B 682282911 682283729 818 True 483.000000 483 77.512000 1103 1933 1 chr7B.!!$R1 830
27 TraesCS6D01G163800 chr3B 76115201 76116014 813 False 344.000000 344 75.060000 1127 1933 1 chr3B.!!$F1 806

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
842 927 1.167851 GCTGCACAAAGCCACAGATA 58.832 50.000 0.00 0.0 44.83 1.98 F
1566 1927 1.007734 GACGGAGATTATCGCGGCA 60.008 57.895 6.13 0.0 31.97 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2578 2952 0.692476 CCTCTGTCATGTCCAACCCA 59.308 55.0 0.00 0.0 0.0 4.51 R
3323 3724 0.179124 AGTTCTTCTCGATCGGCTGC 60.179 55.0 16.41 0.0 0.0 5.25 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
267 309 5.889219 ACGCAAAAATCAAAAGGCAAAAAT 58.111 29.167 0.00 0.00 0.00 1.82
268 310 7.020914 ACGCAAAAATCAAAAGGCAAAAATA 57.979 28.000 0.00 0.00 0.00 1.40
326 371 8.873215 AGAGATGTCCTTGTAAATGTATAACG 57.127 34.615 0.00 0.00 0.00 3.18
327 372 8.692710 AGAGATGTCCTTGTAAATGTATAACGA 58.307 33.333 0.00 0.00 0.00 3.85
328 373 9.477484 GAGATGTCCTTGTAAATGTATAACGAT 57.523 33.333 0.00 0.00 0.00 3.73
329 374 9.477484 AGATGTCCTTGTAAATGTATAACGATC 57.523 33.333 0.00 0.00 0.00 3.69
330 375 9.256477 GATGTCCTTGTAAATGTATAACGATCA 57.744 33.333 0.00 0.00 0.00 2.92
331 376 9.778741 ATGTCCTTGTAAATGTATAACGATCAT 57.221 29.630 0.00 0.00 0.00 2.45
332 377 9.256477 TGTCCTTGTAAATGTATAACGATCATC 57.744 33.333 0.00 0.00 0.00 2.92
333 378 8.709646 GTCCTTGTAAATGTATAACGATCATCC 58.290 37.037 0.00 0.00 0.00 3.51
334 379 7.876068 TCCTTGTAAATGTATAACGATCATCCC 59.124 37.037 0.00 0.00 0.00 3.85
335 380 7.119262 CCTTGTAAATGTATAACGATCATCCCC 59.881 40.741 0.00 0.00 0.00 4.81
336 381 6.160684 TGTAAATGTATAACGATCATCCCCG 58.839 40.000 0.00 0.00 0.00 5.73
337 382 2.736144 TGTATAACGATCATCCCCGC 57.264 50.000 0.00 0.00 0.00 6.13
338 383 1.964933 TGTATAACGATCATCCCCGCA 59.035 47.619 0.00 0.00 0.00 5.69
339 384 2.365941 TGTATAACGATCATCCCCGCAA 59.634 45.455 0.00 0.00 0.00 4.85
340 385 2.631160 ATAACGATCATCCCCGCAAA 57.369 45.000 0.00 0.00 0.00 3.68
341 386 2.404923 TAACGATCATCCCCGCAAAA 57.595 45.000 0.00 0.00 0.00 2.44
342 387 1.540267 AACGATCATCCCCGCAAAAA 58.460 45.000 0.00 0.00 0.00 1.94
434 480 7.667635 AGAAAAAGCTAGCTATCAGGTTTCTTT 59.332 33.333 19.70 7.76 41.51 2.52
435 481 8.863872 AAAAAGCTAGCTATCAGGTTTCTTTA 57.136 30.769 19.70 0.00 41.51 1.85
520 579 2.741985 CATCAAGGCGGACGCACA 60.742 61.111 18.95 0.00 44.11 4.57
543 602 7.169140 CACAATGAGGTAGTTTTTAGTTTTGGC 59.831 37.037 0.00 0.00 0.00 4.52
554 613 7.445707 AGTTTTTAGTTTTGGCCTTTGACAAAA 59.554 29.630 3.32 2.31 42.38 2.44
556 615 6.917217 TTAGTTTTGGCCTTTGACAAAATG 57.083 33.333 9.32 0.00 45.09 2.32
557 616 4.198530 AGTTTTGGCCTTTGACAAAATGG 58.801 39.130 9.32 2.13 45.09 3.16
639 716 4.166246 TCTATGTGACATAGACGGACCT 57.834 45.455 26.66 0.00 0.00 3.85
652 729 3.315470 AGACGGACCTGAAAAGAAAAAGC 59.685 43.478 0.00 0.00 0.00 3.51
653 730 3.020984 ACGGACCTGAAAAGAAAAAGCA 58.979 40.909 0.00 0.00 0.00 3.91
744 821 5.410067 TGGCACATCTAAAAATGCTTTAGC 58.590 37.500 0.00 0.00 38.18 3.09
817 902 4.659111 AAACCCCTTTAAACGTCTTTGG 57.341 40.909 0.00 0.00 0.00 3.28
842 927 1.167851 GCTGCACAAAGCCACAGATA 58.832 50.000 0.00 0.00 44.83 1.98
1464 1825 4.452733 GTCCACTCCTTCCGCCCG 62.453 72.222 0.00 0.00 0.00 6.13
1551 1912 2.805353 CGCTCGGTGAACCTGACG 60.805 66.667 0.00 0.00 0.00 4.35
1566 1927 1.007734 GACGGAGATTATCGCGGCA 60.008 57.895 6.13 0.00 31.97 5.69
1965 2339 2.211675 GCGACAATCTAGCTGCGAG 58.788 57.895 3.13 3.13 0.00 5.03
2273 2647 4.735132 TGACGCTACGCCAGTGCC 62.735 66.667 0.00 0.00 38.41 5.01
2593 2967 1.074775 GGCTGGGTTGGACATGACA 59.925 57.895 0.00 0.00 0.00 3.58
2709 3088 1.290203 ATGCCAGCAATAACGACGAG 58.710 50.000 0.00 0.00 0.00 4.18
2728 3107 7.444792 ACGACGAGTAAACAAGGAGATCTATAT 59.555 37.037 0.00 0.00 0.00 0.86
2729 3108 8.933807 CGACGAGTAAACAAGGAGATCTATATA 58.066 37.037 0.00 0.00 0.00 0.86
2777 3166 2.881513 TGAAATTGCTTCGTGGTTGCTA 59.118 40.909 0.00 0.00 36.78 3.49
2833 3222 9.996554 AATTCGAAATAAAGGGAAAAGAATTGT 57.003 25.926 0.00 0.00 35.37 2.71
2835 3224 8.404107 TCGAAATAAAGGGAAAAGAATTGTCT 57.596 30.769 0.00 0.00 34.72 3.41
2863 3252 9.785982 ATAGATTAATTAAGAAGAGAGTTGGCC 57.214 33.333 3.94 0.00 0.00 5.36
2864 3253 7.866870 AGATTAATTAAGAAGAGAGTTGGCCT 58.133 34.615 3.32 0.00 0.00 5.19
2865 3254 7.772757 AGATTAATTAAGAAGAGAGTTGGCCTG 59.227 37.037 3.32 0.00 0.00 4.85
2866 3255 5.505181 AATTAAGAAGAGAGTTGGCCTGA 57.495 39.130 3.32 0.00 0.00 3.86
2867 3256 5.707066 ATTAAGAAGAGAGTTGGCCTGAT 57.293 39.130 3.32 0.00 0.00 2.90
2868 3257 6.814954 ATTAAGAAGAGAGTTGGCCTGATA 57.185 37.500 3.32 0.00 0.00 2.15
2869 3258 6.620877 TTAAGAAGAGAGTTGGCCTGATAA 57.379 37.500 3.32 0.00 0.00 1.75
2870 3259 5.505181 AAGAAGAGAGTTGGCCTGATAAA 57.495 39.130 3.32 0.00 0.00 1.40
2871 3260 5.707066 AGAAGAGAGTTGGCCTGATAAAT 57.293 39.130 3.32 0.00 0.00 1.40
2872 3261 6.072199 AGAAGAGAGTTGGCCTGATAAATT 57.928 37.500 3.32 0.00 0.00 1.82
2873 3262 7.200434 AGAAGAGAGTTGGCCTGATAAATTA 57.800 36.000 3.32 0.00 0.00 1.40
2874 3263 7.633789 AGAAGAGAGTTGGCCTGATAAATTAA 58.366 34.615 3.32 0.00 0.00 1.40
2875 3264 8.109634 AGAAGAGAGTTGGCCTGATAAATTAAA 58.890 33.333 3.32 0.00 0.00 1.52
2876 3265 8.650143 AAGAGAGTTGGCCTGATAAATTAAAA 57.350 30.769 3.32 0.00 0.00 1.52
2877 3266 8.650143 AGAGAGTTGGCCTGATAAATTAAAAA 57.350 30.769 3.32 0.00 0.00 1.94
2959 3348 2.100087 TGCGTCAGGCTTTATCGTGATA 59.900 45.455 0.00 0.00 44.05 2.15
3172 3563 0.541063 TGGTCGTGAGGTGCCTCTTA 60.541 55.000 17.96 2.43 43.12 2.10
3179 3570 3.751175 CGTGAGGTGCCTCTTAAAAATCA 59.249 43.478 17.96 0.00 43.12 2.57
3201 3592 0.179015 TAGCCGTTTGGGTTGAGCAA 60.179 50.000 0.00 0.00 45.97 3.91
3278 3678 7.224522 ACAGTACAGTTATCTCTACGGTTTT 57.775 36.000 0.00 0.00 0.00 2.43
3294 3695 4.202111 ACGGTTTTGCAAATTCAGTTAGCT 60.202 37.500 13.65 0.00 0.00 3.32
3323 3724 2.702592 TTGGCAAGTAGGATTACCGG 57.297 50.000 0.00 0.00 41.83 5.28
3554 3978 2.555325 ACCTTGACGAGTCACGAATGTA 59.445 45.455 10.71 0.00 45.77 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
267 309 9.669887 TTCTAGGCTACCAACGATTTATTTTTA 57.330 29.630 0.00 0.00 0.00 1.52
268 310 8.570068 TTCTAGGCTACCAACGATTTATTTTT 57.430 30.769 0.00 0.00 0.00 1.94
340 385 7.624360 TTGCCTCTGATCGTTATACATTTTT 57.376 32.000 0.00 0.00 0.00 1.94
341 386 7.624360 TTTGCCTCTGATCGTTATACATTTT 57.376 32.000 0.00 0.00 0.00 1.82
342 387 7.624360 TTTTGCCTCTGATCGTTATACATTT 57.376 32.000 0.00 0.00 0.00 2.32
343 388 6.238484 GCTTTTGCCTCTGATCGTTATACATT 60.238 38.462 0.00 0.00 40.15 2.71
344 389 5.237344 GCTTTTGCCTCTGATCGTTATACAT 59.763 40.000 0.00 0.00 40.15 2.29
345 390 4.570772 GCTTTTGCCTCTGATCGTTATACA 59.429 41.667 0.00 0.00 40.15 2.29
346 391 5.084385 GCTTTTGCCTCTGATCGTTATAC 57.916 43.478 0.00 0.00 40.15 1.47
434 480 2.889045 CTGGTTGCTAGCTACCCGTATA 59.111 50.000 35.32 20.90 40.30 1.47
435 481 1.687123 CTGGTTGCTAGCTACCCGTAT 59.313 52.381 35.32 0.00 40.30 3.06
520 579 6.553476 AGGCCAAAACTAAAAACTACCTCATT 59.447 34.615 5.01 0.00 0.00 2.57
543 602 7.551035 TTGTTTGATTCCATTTTGTCAAAGG 57.449 32.000 0.00 0.00 40.16 3.11
700 777 8.979574 GTGCCATAAGTATTACACATCTAAGTC 58.020 37.037 0.00 0.00 30.46 3.01
717 794 9.241317 CTAAAGCATTTTTAGATGTGCCATAAG 57.759 33.333 1.40 0.00 40.09 1.73
722 799 5.956171 GCTAAAGCATTTTTAGATGTGCC 57.044 39.130 10.06 0.00 40.09 5.01
744 821 9.766277 GATCTACTAGAATCTTTTGCAGTTTTG 57.234 33.333 0.00 0.00 0.00 2.44
1551 1912 2.363788 TGTATGCCGCGATAATCTCC 57.636 50.000 8.23 0.00 0.00 3.71
1566 1927 1.740285 GGTGGAGTCCGCGATGTAT 59.260 57.895 16.46 0.00 34.37 2.29
1832 2205 2.504244 CGTCGACCAGGTCTTCGC 60.504 66.667 17.95 4.08 35.15 4.70
1997 2371 8.655651 AACAGAGCAGCTAAAGATTAGTAATC 57.344 34.615 14.05 14.05 38.20 1.75
2165 2539 3.311110 GTCCTCCGTCACCCTGCA 61.311 66.667 0.00 0.00 0.00 4.41
2324 2698 2.355363 CGCCCACGAGTTCACGAA 60.355 61.111 0.00 0.00 43.93 3.85
2578 2952 0.692476 CCTCTGTCATGTCCAACCCA 59.308 55.000 0.00 0.00 0.00 4.51
2593 2967 2.373707 GGTGATGCCAGCCTCCTCT 61.374 63.158 0.00 0.00 37.17 3.69
2743 3132 5.151297 AGCAATTTCACCCGATGATTTTT 57.849 34.783 0.00 0.00 37.11 1.94
2753 3142 0.958822 ACCACGAAGCAATTTCACCC 59.041 50.000 0.00 0.00 35.43 4.61
2755 3144 1.786579 GCAACCACGAAGCAATTTCAC 59.213 47.619 0.00 0.00 35.43 3.18
2808 3197 9.639601 GACAATTCTTTTCCCTTTATTTCGAAT 57.360 29.630 0.00 0.00 0.00 3.34
2809 3198 8.856103 AGACAATTCTTTTCCCTTTATTTCGAA 58.144 29.630 0.00 0.00 0.00 3.71
2810 3199 8.404107 AGACAATTCTTTTCCCTTTATTTCGA 57.596 30.769 0.00 0.00 0.00 3.71
2811 3200 8.296713 TGAGACAATTCTTTTCCCTTTATTTCG 58.703 33.333 0.00 0.00 29.47 3.46
2817 3206 9.539194 AATCTATGAGACAATTCTTTTCCCTTT 57.461 29.630 0.00 0.00 29.47 3.11
2839 3228 7.772757 CAGGCCAACTCTCTTCTTAATTAATCT 59.227 37.037 5.01 0.00 0.00 2.40
2847 3236 6.620877 TTTATCAGGCCAACTCTCTTCTTA 57.379 37.500 5.01 0.00 0.00 2.10
2849 3238 5.707066 ATTTATCAGGCCAACTCTCTTCT 57.293 39.130 5.01 0.00 0.00 2.85
2850 3239 7.865706 TTAATTTATCAGGCCAACTCTCTTC 57.134 36.000 5.01 0.00 0.00 2.87
2882 3271 1.200020 CAGCATTTTCGGGTCTTCACC 59.800 52.381 0.00 0.00 42.90 4.02
2883 3272 1.880027 ACAGCATTTTCGGGTCTTCAC 59.120 47.619 0.00 0.00 0.00 3.18
2884 3273 2.270352 ACAGCATTTTCGGGTCTTCA 57.730 45.000 0.00 0.00 0.00 3.02
2885 3274 3.308530 CAAACAGCATTTTCGGGTCTTC 58.691 45.455 0.00 0.00 0.00 2.87
2886 3275 2.035832 CCAAACAGCATTTTCGGGTCTT 59.964 45.455 0.00 0.00 0.00 3.01
2887 3276 1.613437 CCAAACAGCATTTTCGGGTCT 59.387 47.619 0.00 0.00 0.00 3.85
2888 3277 1.339929 ACCAAACAGCATTTTCGGGTC 59.660 47.619 0.00 0.00 0.00 4.46
2889 3278 1.068434 CACCAAACAGCATTTTCGGGT 59.932 47.619 0.00 0.00 0.00 5.28
2946 3335 4.083802 GGCTGGAACATATCACGATAAAGC 60.084 45.833 0.00 0.00 38.20 3.51
2959 3348 3.009723 CAAGAATACGTGGCTGGAACAT 58.990 45.455 0.00 0.00 38.20 2.71
3172 3563 5.222079 ACCCAAACGGCTAAATGATTTTT 57.778 34.783 0.00 0.00 33.26 1.94
3179 3570 1.544246 GCTCAACCCAAACGGCTAAAT 59.456 47.619 0.00 0.00 33.26 1.40
3201 3592 2.680805 CGACATGGGCAAGTAATCACCT 60.681 50.000 0.00 0.00 0.00 4.00
3278 3678 3.426560 CGCATGAGCTAACTGAATTTGCA 60.427 43.478 0.00 0.00 41.01 4.08
3294 3695 2.009051 CTACTTGCCAATGACGCATGA 58.991 47.619 0.00 0.00 35.83 3.07
3323 3724 0.179124 AGTTCTTCTCGATCGGCTGC 60.179 55.000 16.41 0.00 0.00 5.25
3554 3978 5.608437 TCAGGGTAATCTTCAGCCAGATATT 59.392 40.000 0.00 0.00 35.96 1.28


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

AutoCloner maintained by Alex Coulton.