Multiple sequence alignment - TraesCS2D01G489000

Loading Multiple Alignment...

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 TraesCS2D01G489000 chr2D 100.000 2137 0 0 1271 3407 588225736 588227872 0.000000e+00 3947.0
1 TraesCS2D01G489000 chr2D 100.000 1024 0 0 1 1024 588224466 588225489 0.000000e+00 1892.0
2 TraesCS2D01G489000 chr2D 84.667 150 20 1 1831 1980 208608435 208608581 2.740000e-31 147.0
3 TraesCS2D01G489000 chr2D 96.875 32 1 0 622 653 336652358 336652327 2.000000e-03 54.7
4 TraesCS2D01G489000 chr2B 90.892 2185 118 34 1279 3407 711530630 711532789 0.000000e+00 2857.0
5 TraesCS2D01G489000 chr2B 90.078 383 17 8 653 1024 711529893 711530265 8.550000e-131 477.0
6 TraesCS2D01G489000 chr2A 90.263 2208 121 38 1271 3407 722816993 722819177 0.000000e+00 2800.0
7 TraesCS2D01G489000 chr2A 86.723 354 26 14 648 994 722816542 722816881 1.150000e-99 374.0
8 TraesCS2D01G489000 chr2A 89.695 262 19 4 653 910 722815159 722815416 9.120000e-86 327.0
9 TraesCS2D01G489000 chr2A 79.121 182 24 9 442 617 678165402 678165229 2.780000e-21 113.0
10 TraesCS2D01G489000 chr5D 94.780 613 27 3 1 611 445725764 445726373 0.000000e+00 950.0
11 TraesCS2D01G489000 chr1D 94.617 613 28 3 1 611 9417378 9417987 0.000000e+00 944.0
12 TraesCS2D01G489000 chr1D 87.000 100 9 2 1776 1871 41573777 41573876 3.590000e-20 110.0
13 TraesCS2D01G489000 chr3A 96.212 528 18 2 1 527 748836766 748836240 0.000000e+00 863.0
14 TraesCS2D01G489000 chr4D 83.386 638 56 26 2691 3305 506466314 506465704 2.310000e-151 545.0
15 TraesCS2D01G489000 chr3B 82.704 636 68 19 2691 3305 800140533 800139919 8.370000e-146 527.0
16 TraesCS2D01G489000 chr3B 77.331 697 66 36 1711 2401 800142574 800141964 9.120000e-86 327.0
17 TraesCS2D01G489000 chr5A 82.362 635 67 22 2691 3305 702752741 702752132 8.430000e-141 510.0
18 TraesCS2D01G489000 chr5A 80.292 274 25 20 2367 2626 702753620 702753362 2.700000e-41 180.0
19 TraesCS2D01G489000 chr5A 79.121 182 28 7 442 620 284706278 284706452 2.150000e-22 117.0
20 TraesCS2D01G489000 chr5A 100.000 35 0 0 618 652 685990942 685990908 7.890000e-07 65.8
21 TraesCS2D01G489000 chr7B 96.751 277 7 2 1 276 740258525 740258250 8.610000e-126 460.0
22 TraesCS2D01G489000 chr7B 91.129 248 18 2 372 618 740257870 740257626 1.960000e-87 333.0
23 TraesCS2D01G489000 chr7B 78.889 180 28 7 442 618 684145776 684145948 2.780000e-21 113.0
24 TraesCS2D01G489000 chr4B 79.938 648 55 28 2691 3295 663865166 663864551 1.140000e-109 407.0
25 TraesCS2D01G489000 chr4B 79.938 648 55 28 2691 3295 663873200 663872585 1.140000e-109 407.0
26 TraesCS2D01G489000 chr4B 79.938 648 55 28 2691 3295 663877416 663876801 1.140000e-109 407.0
27 TraesCS2D01G489000 chr4B 79.815 649 55 29 2691 3295 663859308 663858692 1.470000e-108 403.0
28 TraesCS2D01G489000 chr4B 76.049 739 94 40 1697 2421 662564891 662565560 1.190000e-79 307.0
29 TraesCS2D01G489000 chr4B 79.823 451 32 21 2881 3295 663870349 663869922 1.200000e-69 274.0
30 TraesCS2D01G489000 chr4B 89.116 147 12 3 2279 2421 663860659 663860513 2.700000e-41 180.0
31 TraesCS2D01G489000 chr4B 89.116 147 12 3 2279 2421 663866517 663866371 2.700000e-41 180.0
32 TraesCS2D01G489000 chr4B 89.116 147 12 3 2279 2421 663878767 663878621 2.700000e-41 180.0
33 TraesCS2D01G489000 chr1A 87.361 269 19 6 2107 2363 41372260 41372525 9.250000e-76 294.0
34 TraesCS2D01G489000 chr1A 86.989 269 20 7 2107 2363 42196141 42196406 4.300000e-74 289.0
35 TraesCS2D01G489000 chr1A 83.942 274 24 10 1776 2046 41371974 41372230 9.440000e-61 244.0
36 TraesCS2D01G489000 chr1A 83.212 274 26 10 1776 2046 42195855 42196111 2.040000e-57 233.0
37 TraesCS2D01G489000 chr1A 85.897 78 9 2 1855 1931 320508186 320508262 7.840000e-12 82.4
38 TraesCS2D01G489000 chr3D 78.860 421 48 21 1942 2358 270481695 270481312 2.630000e-61 246.0
39 TraesCS2D01G489000 chr7A 76.329 414 62 19 1942 2351 145760126 145760507 4.490000e-44 189.0
40 TraesCS2D01G489000 chr7A 75.669 411 62 27 1946 2351 119549385 119549762 1.630000e-38 171.0
41 TraesCS2D01G489000 chr7A 78.889 180 28 6 442 618 12878448 12878276 2.780000e-21 113.0
42 TraesCS2D01G489000 chr7A 97.222 36 1 0 617 652 663788299 663788264 1.020000e-05 62.1
43 TraesCS2D01G489000 chr4A 76.703 279 48 7 340 616 312908088 312907825 4.580000e-29 139.0
44 TraesCS2D01G489000 chr4A 78.771 179 28 7 442 617 30409123 30409294 9.990000e-21 111.0
45 TraesCS2D01G489000 chr6D 100.000 36 0 0 618 653 6859763 6859798 2.190000e-07 67.6
46 TraesCS2D01G489000 chr6D 96.970 33 1 0 618 650 323692680 323692712 4.750000e-04 56.5
47 TraesCS2D01G489000 chr6B 100.000 36 0 0 618 653 135311689 135311724 2.190000e-07 67.6


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 TraesCS2D01G489000 chr2D 588224466 588227872 3406 False 2919.50 3947 100.000000 1 3407 2 chr2D.!!$F2 3406
1 TraesCS2D01G489000 chr2B 711529893 711532789 2896 False 1667.00 2857 90.485000 653 3407 2 chr2B.!!$F1 2754
2 TraesCS2D01G489000 chr2A 722815159 722819177 4018 False 1167.00 2800 88.893667 648 3407 3 chr2A.!!$F1 2759
3 TraesCS2D01G489000 chr5D 445725764 445726373 609 False 950.00 950 94.780000 1 611 1 chr5D.!!$F1 610
4 TraesCS2D01G489000 chr1D 9417378 9417987 609 False 944.00 944 94.617000 1 611 1 chr1D.!!$F1 610
5 TraesCS2D01G489000 chr3A 748836240 748836766 526 True 863.00 863 96.212000 1 527 1 chr3A.!!$R1 526
6 TraesCS2D01G489000 chr4D 506465704 506466314 610 True 545.00 545 83.386000 2691 3305 1 chr4D.!!$R1 614
7 TraesCS2D01G489000 chr3B 800139919 800142574 2655 True 427.00 527 80.017500 1711 3305 2 chr3B.!!$R1 1594
8 TraesCS2D01G489000 chr5A 702752132 702753620 1488 True 345.00 510 81.327000 2367 3305 2 chr5A.!!$R2 938
9 TraesCS2D01G489000 chr7B 740257626 740258525 899 True 396.50 460 93.940000 1 618 2 chr7B.!!$R1 617
10 TraesCS2D01G489000 chr4B 662564891 662565560 669 False 307.00 307 76.049000 1697 2421 1 chr4B.!!$F1 724
11 TraesCS2D01G489000 chr4B 663858692 663878767 20075 True 304.75 407 83.350000 2279 3295 8 chr4B.!!$R1 1016
12 TraesCS2D01G489000 chr1A 41371974 41372525 551 False 269.00 294 85.651500 1776 2363 2 chr1A.!!$F2 587
13 TraesCS2D01G489000 chr1A 42195855 42196406 551 False 261.00 289 85.100500 1776 2363 2 chr1A.!!$F3 587

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
651 937 0.107410 TGTGGTGGATATTGGCGTCC 60.107 55.0 0.00 0.0 35.02 4.79 F
652 938 0.180406 GTGGTGGATATTGGCGTCCT 59.820 55.0 0.00 0.0 35.49 3.85 F
935 2619 0.397675 TGTGATCCGGCCATCTCTCT 60.398 55.0 2.24 0.0 0.00 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1661 3498 1.073444 CCCACATCCCATCAGATCAGG 59.927 57.143 0.0 0.0 0.00 3.86 R
2024 3912 1.178534 CGATGGAGGAGGAGGAGAGC 61.179 65.000 0.0 0.0 0.00 4.09 R
2707 5889 2.043022 CGAAACGCATCGCAAACAC 58.957 52.632 0.0 0.0 35.85 3.32 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
100 101 4.329545 TGGAAGCCCGTGGACAGC 62.330 66.667 0.00 0.00 34.29 4.40
203 204 5.452078 TGAGTTTTTATGCAAGGGAAGTG 57.548 39.130 0.00 0.00 0.00 3.16
230 232 3.496155 GCTTTCAGCTTGTACATCTTGC 58.504 45.455 0.00 0.00 38.45 4.01
240 242 4.584638 TGTACATCTTGCCTGGGTAAAT 57.415 40.909 0.00 0.00 0.00 1.40
417 703 1.523934 GCAAACAAGTGCACATGAAGC 59.476 47.619 27.42 21.33 44.29 3.86
488 774 7.472334 AATCATTCCTACTGCATGTTTTCTT 57.528 32.000 0.00 0.00 0.00 2.52
489 775 6.258230 TCATTCCTACTGCATGTTTTCTTG 57.742 37.500 0.00 0.00 0.00 3.02
585 871 1.611977 GCCCCAAGTTTTAGTTTCGCT 59.388 47.619 0.00 0.00 0.00 4.93
620 906 3.164269 CAGGACCGGCCCTGCTAT 61.164 66.667 24.90 0.00 46.16 2.97
621 907 2.366972 AGGACCGGCCCTGCTATT 60.367 61.111 9.27 0.00 37.37 1.73
622 908 1.074775 AGGACCGGCCCTGCTATTA 60.075 57.895 9.27 0.00 37.37 0.98
623 909 0.473886 AGGACCGGCCCTGCTATTAT 60.474 55.000 9.27 0.00 37.37 1.28
624 910 0.321653 GGACCGGCCCTGCTATTATG 60.322 60.000 0.00 0.00 0.00 1.90
625 911 0.955919 GACCGGCCCTGCTATTATGC 60.956 60.000 0.00 0.00 0.00 3.14
626 912 1.675641 CCGGCCCTGCTATTATGCC 60.676 63.158 0.00 0.00 38.74 4.40
627 913 1.073025 CGGCCCTGCTATTATGCCA 59.927 57.895 0.00 0.00 42.27 4.92
628 914 1.237285 CGGCCCTGCTATTATGCCAC 61.237 60.000 0.00 0.00 42.27 5.01
629 915 0.178992 GGCCCTGCTATTATGCCACA 60.179 55.000 0.00 0.00 41.76 4.17
630 916 0.954452 GCCCTGCTATTATGCCACAC 59.046 55.000 0.00 0.00 0.00 3.82
631 917 1.229428 CCCTGCTATTATGCCACACG 58.771 55.000 0.00 0.00 0.00 4.49
632 918 1.475034 CCCTGCTATTATGCCACACGT 60.475 52.381 0.00 0.00 0.00 4.49
633 919 1.599071 CCTGCTATTATGCCACACGTG 59.401 52.381 15.48 15.48 0.00 4.49
634 920 2.279741 CTGCTATTATGCCACACGTGT 58.720 47.619 17.22 17.22 0.00 4.49
635 921 2.006169 TGCTATTATGCCACACGTGTG 58.994 47.619 36.13 36.13 45.23 3.82
647 933 0.732571 CACGTGTGGTGGATATTGGC 59.267 55.000 7.58 0.00 43.16 4.52
648 934 0.742990 ACGTGTGGTGGATATTGGCG 60.743 55.000 0.00 0.00 0.00 5.69
649 935 0.742990 CGTGTGGTGGATATTGGCGT 60.743 55.000 0.00 0.00 0.00 5.68
650 936 1.014352 GTGTGGTGGATATTGGCGTC 58.986 55.000 0.00 0.00 0.00 5.19
651 937 0.107410 TGTGGTGGATATTGGCGTCC 60.107 55.000 0.00 0.00 35.02 4.79
652 938 0.180406 GTGGTGGATATTGGCGTCCT 59.820 55.000 0.00 0.00 35.49 3.85
653 939 0.916086 TGGTGGATATTGGCGTCCTT 59.084 50.000 0.00 0.00 35.49 3.36
654 940 1.134220 TGGTGGATATTGGCGTCCTTC 60.134 52.381 0.00 0.00 35.49 3.46
655 941 1.134220 GGTGGATATTGGCGTCCTTCA 60.134 52.381 0.00 0.00 35.49 3.02
656 942 2.487265 GGTGGATATTGGCGTCCTTCAT 60.487 50.000 0.00 0.00 35.49 2.57
657 943 3.214328 GTGGATATTGGCGTCCTTCATT 58.786 45.455 0.00 0.00 35.49 2.57
702 988 9.733556 TTCTGGCTCATTACTTACTTTTTCATA 57.266 29.630 0.00 0.00 0.00 2.15
796 2480 0.669318 CTGGCAGCCAAACTTGCATG 60.669 55.000 17.03 0.00 30.80 4.06
814 2498 3.740832 GCATGCCAAGTAAACCTTTTGAC 59.259 43.478 6.36 0.00 0.00 3.18
840 2524 3.391382 CGGAAGGAGGCCCGTTCT 61.391 66.667 19.40 0.00 40.78 3.01
891 2575 2.202676 GCTCTCAGTCCGCTTCCG 60.203 66.667 0.00 0.00 0.00 4.30
935 2619 0.397675 TGTGATCCGGCCATCTCTCT 60.398 55.000 2.24 0.00 0.00 3.10
940 2624 2.588314 CGGCCATCTCTCTGCTGC 60.588 66.667 2.24 0.00 0.00 5.25
946 2630 2.309613 CCATCTCTCTGCTGCTCTACT 58.690 52.381 0.00 0.00 0.00 2.57
953 2640 1.204231 TCTGCTGCTCTACTCTTGCTG 59.796 52.381 0.00 0.00 0.00 4.41
966 2663 0.463620 CTTGCTGCCTACCCTCTCTC 59.536 60.000 0.00 0.00 0.00 3.20
1322 3142 3.810896 GATTTGGGGTGCGTCGGC 61.811 66.667 0.00 0.00 40.52 5.54
1435 3255 1.764180 GCTTGATCTGCTCTGCTCGC 61.764 60.000 0.00 0.00 0.00 5.03
1463 3289 0.447801 GTGCGTTGGTCTGGCTATTG 59.552 55.000 0.00 0.00 0.00 1.90
1466 3292 1.376609 CGTTGGTCTGGCTATTGGGC 61.377 60.000 0.00 0.00 41.27 5.36
1590 3427 4.820744 GGGCGGGGCATGTGATGT 62.821 66.667 0.00 0.00 0.00 3.06
1611 3448 0.869454 GAGCAGAGCATTCGAGTCGG 60.869 60.000 13.54 0.00 0.00 4.79
1620 3457 0.464452 ATTCGAGTCGGATTGGGGAC 59.536 55.000 13.54 0.00 0.00 4.46
1751 3609 7.515643 GTCGATTTTTGGAGTTTAATTCGAGA 58.484 34.615 0.00 0.00 35.60 4.04
1759 3617 8.624367 TTGGAGTTTAATTCGAGATTTTACCA 57.376 30.769 0.00 0.00 0.00 3.25
1760 3618 8.263940 TGGAGTTTAATTCGAGATTTTACCAG 57.736 34.615 0.00 0.00 0.00 4.00
1761 3619 7.148306 TGGAGTTTAATTCGAGATTTTACCAGC 60.148 37.037 0.00 0.00 0.00 4.85
1762 3620 7.065923 GGAGTTTAATTCGAGATTTTACCAGCT 59.934 37.037 0.00 0.00 0.00 4.24
1763 3621 8.336801 AGTTTAATTCGAGATTTTACCAGCTT 57.663 30.769 0.00 0.00 0.00 3.74
1764 3622 9.444600 AGTTTAATTCGAGATTTTACCAGCTTA 57.555 29.630 0.00 0.00 0.00 3.09
1783 3641 6.541641 CAGCTTATATTCAACTTGAAGCTCCT 59.458 38.462 10.67 0.00 45.84 3.69
2024 3912 4.760047 CACCCCCGCCTCTTCACG 62.760 72.222 0.00 0.00 0.00 4.35
2050 3940 1.531840 CCTCCTCCATCGATCCCGT 60.532 63.158 0.00 0.00 37.05 5.28
2052 3942 0.823769 CTCCTCCATCGATCCCGTCA 60.824 60.000 0.00 0.00 37.05 4.35
2468 4804 1.891150 ACATCTTCAGCAAAGGCAAGG 59.109 47.619 0.00 0.00 44.61 3.61
2485 4821 1.076485 GGCATCCATCCAACAGCCT 60.076 57.895 0.00 0.00 39.02 4.58
2486 4822 0.183492 GGCATCCATCCAACAGCCTA 59.817 55.000 0.00 0.00 39.02 3.93
2521 4863 0.037447 AGCAGCTCCCTGTTTCTTCC 59.963 55.000 0.00 0.00 41.26 3.46
2533 4875 3.407698 TGTTTCTTCCGCATGCTTTCTA 58.592 40.909 17.13 0.00 0.00 2.10
2589 4936 7.490962 TTAACAAGTCCAGTTTGATGTAGTG 57.509 36.000 0.00 0.00 0.00 2.74
2594 4941 3.933332 GTCCAGTTTGATGTAGTGCTACC 59.067 47.826 6.87 0.00 35.26 3.18
2683 5828 4.083537 TGCCTTGCACTTTAGTTGAATACG 60.084 41.667 0.00 0.00 31.71 3.06
2768 5958 2.037772 ACCTTGATCTGTGACGCTTTCT 59.962 45.455 0.00 0.00 0.00 2.52
2945 18397 3.640967 CAGAGATAAACAGGGGAGAGGAG 59.359 52.174 0.00 0.00 0.00 3.69
2954 18406 0.537828 GGGGAGAGGAGCTAGTACCG 60.538 65.000 0.00 0.00 0.00 4.02
2963 18415 2.621998 GGAGCTAGTACCGTATTGCAGA 59.378 50.000 0.00 0.00 0.00 4.26
2993 18446 4.320870 TGTTTTACGAACTGGAGATTCCC 58.679 43.478 0.00 0.00 35.03 3.97
3014 18467 8.575649 TTCCCCAATAATCTTTAGAAGTGTTC 57.424 34.615 0.00 0.00 0.00 3.18
3262 24643 9.601217 TCCTAGAAGCATTTTCAGAAAGTATAC 57.399 33.333 0.00 0.00 0.00 1.47
3347 24730 6.554419 TCAACTGATGAAACACTTGTTCAAG 58.446 36.000 10.50 10.50 37.25 3.02
3364 24747 5.241506 TGTTCAAGGCCTTCTTCACTAAATG 59.758 40.000 17.29 0.00 32.41 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 101 6.042638 TCATCTCTGTAAAGACCCTTCAAG 57.957 41.667 0.00 0.00 0.00 3.02
230 232 6.650390 CCTTTCATCAAACAAATTTACCCAGG 59.350 38.462 0.00 0.00 0.00 4.45
240 242 6.316640 TCGAACACTACCTTTCATCAAACAAA 59.683 34.615 0.00 0.00 0.00 2.83
311 313 9.599866 AGTTGTATCTTGATATTTCGTTGATGA 57.400 29.630 0.00 0.00 0.00 2.92
454 740 7.864686 TGCAGTAGGAATGATTATGATTTTCG 58.135 34.615 0.00 0.00 0.00 3.46
488 774 7.569639 TTTTTGCTTGTACAACATACTACCA 57.430 32.000 3.59 0.00 0.00 3.25
551 837 0.757188 TGGGGCCTTTCGCTTCAAAA 60.757 50.000 0.84 0.00 37.74 2.44
552 838 0.757188 TTGGGGCCTTTCGCTTCAAA 60.757 50.000 0.84 0.00 37.74 2.69
553 839 1.152652 TTGGGGCCTTTCGCTTCAA 60.153 52.632 0.84 0.00 37.74 2.69
554 840 1.603455 CTTGGGGCCTTTCGCTTCA 60.603 57.895 0.84 0.00 37.74 3.02
556 842 0.759060 AAACTTGGGGCCTTTCGCTT 60.759 50.000 0.84 0.00 37.74 4.68
557 843 0.759060 AAAACTTGGGGCCTTTCGCT 60.759 50.000 0.84 0.00 37.74 4.93
558 844 0.963225 TAAAACTTGGGGCCTTTCGC 59.037 50.000 0.84 0.00 0.00 4.70
559 845 2.235891 ACTAAAACTTGGGGCCTTTCG 58.764 47.619 0.84 0.00 0.00 3.46
560 846 4.628074 GAAACTAAAACTTGGGGCCTTTC 58.372 43.478 0.84 0.00 0.00 2.62
561 847 3.069016 CGAAACTAAAACTTGGGGCCTTT 59.931 43.478 0.84 0.00 0.00 3.11
562 848 2.626266 CGAAACTAAAACTTGGGGCCTT 59.374 45.455 0.84 0.00 0.00 4.35
563 849 2.235891 CGAAACTAAAACTTGGGGCCT 58.764 47.619 0.84 0.00 0.00 5.19
585 871 0.622154 TGAGATTTTAGGGGCCCGGA 60.622 55.000 18.95 6.51 0.00 5.14
626 912 1.737236 CCAATATCCACCACACGTGTG 59.263 52.381 36.13 36.13 45.23 3.82
627 913 1.948611 GCCAATATCCACCACACGTGT 60.949 52.381 17.22 17.22 41.26 4.49
628 914 0.732571 GCCAATATCCACCACACGTG 59.267 55.000 15.48 15.48 42.62 4.49
629 915 0.742990 CGCCAATATCCACCACACGT 60.743 55.000 0.00 0.00 0.00 4.49
630 916 0.742990 ACGCCAATATCCACCACACG 60.743 55.000 0.00 0.00 0.00 4.49
631 917 1.014352 GACGCCAATATCCACCACAC 58.986 55.000 0.00 0.00 0.00 3.82
632 918 0.107410 GGACGCCAATATCCACCACA 60.107 55.000 0.00 0.00 34.87 4.17
633 919 0.180406 AGGACGCCAATATCCACCAC 59.820 55.000 0.00 0.00 37.47 4.16
634 920 0.916086 AAGGACGCCAATATCCACCA 59.084 50.000 0.00 0.00 37.47 4.17
635 921 1.134220 TGAAGGACGCCAATATCCACC 60.134 52.381 0.00 0.00 37.47 4.61
636 922 2.325583 TGAAGGACGCCAATATCCAC 57.674 50.000 0.00 0.00 37.47 4.02
637 923 3.576078 AATGAAGGACGCCAATATCCA 57.424 42.857 0.00 0.00 37.47 3.41
638 924 6.002062 CTTAAATGAAGGACGCCAATATCC 57.998 41.667 0.00 0.00 34.98 2.59
729 2409 8.364142 GGATCAAACTCTGCTGTCTATATTAGT 58.636 37.037 0.00 0.00 0.00 2.24
739 2419 4.083110 CGAATTTGGATCAAACTCTGCTGT 60.083 41.667 0.00 0.00 36.13 4.40
796 2480 4.379339 TGTGTCAAAAGGTTTACTTGGC 57.621 40.909 0.00 0.00 39.96 4.52
814 2498 1.447643 CCTCCTTCCGGGCTATGTG 59.552 63.158 0.00 0.00 34.39 3.21
874 2558 2.202676 CGGAAGCGGACTGAGAGC 60.203 66.667 0.00 0.00 0.00 4.09
891 2575 0.034089 GGATGGGGTATATGGGCAGC 60.034 60.000 0.00 0.00 0.00 5.25
935 2619 0.390866 GCAGCAAGAGTAGAGCAGCA 60.391 55.000 0.00 0.00 40.04 4.41
940 2624 1.410882 GGGTAGGCAGCAAGAGTAGAG 59.589 57.143 0.00 0.00 0.00 2.43
946 2630 0.041833 AGAGAGGGTAGGCAGCAAGA 59.958 55.000 0.00 0.00 0.00 3.02
953 2640 3.597728 CGGCGAGAGAGGGTAGGC 61.598 72.222 0.00 0.00 0.00 3.93
1379 3199 4.717313 GGGGGAACAGCCACGGTC 62.717 72.222 0.00 0.00 42.92 4.79
1387 3207 3.322466 AGCACGGAGGGGGAACAG 61.322 66.667 0.00 0.00 0.00 3.16
1392 3212 3.775654 GAGACAGCACGGAGGGGG 61.776 72.222 0.00 0.00 0.00 5.40
1523 3354 1.202348 CGAAATCTCCCCAAGCCAAAC 59.798 52.381 0.00 0.00 0.00 2.93
1579 3416 2.481854 CTCTGCTCTACATCACATGCC 58.518 52.381 0.00 0.00 0.00 4.40
1582 3419 4.378774 GAATGCTCTGCTCTACATCACAT 58.621 43.478 0.00 0.00 0.00 3.21
1590 3427 1.332065 CGACTCGAATGCTCTGCTCTA 59.668 52.381 0.00 0.00 0.00 2.43
1611 3448 1.379443 GGAAACCCCGTCCCCAATC 60.379 63.158 0.00 0.00 0.00 2.67
1658 3495 3.474600 CACATCCCATCAGATCAGGTTC 58.525 50.000 0.00 0.00 0.00 3.62
1659 3496 2.174210 CCACATCCCATCAGATCAGGTT 59.826 50.000 0.00 0.00 0.00 3.50
1660 3497 1.773052 CCACATCCCATCAGATCAGGT 59.227 52.381 0.00 0.00 0.00 4.00
1661 3498 1.073444 CCCACATCCCATCAGATCAGG 59.927 57.143 0.00 0.00 0.00 3.86
1662 3499 1.773052 ACCCACATCCCATCAGATCAG 59.227 52.381 0.00 0.00 0.00 2.90
1663 3500 1.491754 CACCCACATCCCATCAGATCA 59.508 52.381 0.00 0.00 0.00 2.92
1664 3501 1.492176 ACACCCACATCCCATCAGATC 59.508 52.381 0.00 0.00 0.00 2.75
1665 3502 1.213678 CACACCCACATCCCATCAGAT 59.786 52.381 0.00 0.00 0.00 2.90
1760 3618 6.292596 CGAGGAGCTTCAAGTTGAATATAAGC 60.293 42.308 18.35 16.83 35.59 3.09
1761 3619 6.292596 GCGAGGAGCTTCAAGTTGAATATAAG 60.293 42.308 18.35 7.85 44.04 1.73
1762 3620 5.523916 GCGAGGAGCTTCAAGTTGAATATAA 59.476 40.000 18.35 0.00 44.04 0.98
1763 3621 5.050490 GCGAGGAGCTTCAAGTTGAATATA 58.950 41.667 18.35 0.00 44.04 0.86
1764 3622 3.873952 GCGAGGAGCTTCAAGTTGAATAT 59.126 43.478 18.35 10.16 44.04 1.28
1765 3623 3.262420 GCGAGGAGCTTCAAGTTGAATA 58.738 45.455 18.35 0.00 44.04 1.75
1766 3624 2.079925 GCGAGGAGCTTCAAGTTGAAT 58.920 47.619 18.35 5.09 44.04 2.57
1767 3625 1.512926 GCGAGGAGCTTCAAGTTGAA 58.487 50.000 17.16 17.16 44.04 2.69
1775 3633 1.493311 CACAAACGCGAGGAGCTTC 59.507 57.895 15.93 0.00 45.59 3.86
1783 3641 2.176926 TTGCTCTGCACAAACGCGA 61.177 52.632 15.93 0.00 38.71 5.87
2010 3898 4.821589 GAGCGTGAAGAGGCGGGG 62.822 72.222 0.00 0.00 38.06 5.73
2011 3899 3.708220 GAGAGCGTGAAGAGGCGGG 62.708 68.421 0.00 0.00 38.06 6.13
2012 3900 2.202676 GAGAGCGTGAAGAGGCGG 60.203 66.667 0.00 0.00 38.06 6.13
2013 3901 2.202676 GGAGAGCGTGAAGAGGCG 60.203 66.667 0.00 0.00 38.06 5.52
2024 3912 1.178534 CGATGGAGGAGGAGGAGAGC 61.179 65.000 0.00 0.00 0.00 4.09
2468 4804 2.157738 GATAGGCTGTTGGATGGATGC 58.842 52.381 0.00 0.00 0.00 3.91
2521 4863 5.750547 TCAGAAAGATAGTAGAAAGCATGCG 59.249 40.000 13.01 0.00 0.00 4.73
2589 4936 3.978687 ACGAGCATACAGTAATGGTAGC 58.021 45.455 0.00 0.00 37.69 3.58
2594 4941 7.411264 GCAGATTCATACGAGCATACAGTAATG 60.411 40.741 0.00 0.00 0.00 1.90
2707 5889 2.043022 CGAAACGCATCGCAAACAC 58.957 52.632 0.00 0.00 35.85 3.32
2768 5958 3.033764 GCTGACGCGGTTCGACAA 61.034 61.111 12.47 0.00 41.72 3.18
2921 6125 4.232122 TCCTCTCCCCTGTTTATCTCTGTA 59.768 45.833 0.00 0.00 0.00 2.74
2922 6126 3.012959 TCCTCTCCCCTGTTTATCTCTGT 59.987 47.826 0.00 0.00 0.00 3.41
2945 18397 5.986004 ATTTTCTGCAATACGGTACTAGC 57.014 39.130 0.00 0.00 0.00 3.42
3014 18467 4.756084 ATGCCTTTTCGAACAAGAGAAG 57.244 40.909 16.62 9.05 33.62 2.85
3262 24643 3.517602 TGTAACCTTGTACTATGCTGCG 58.482 45.455 0.00 0.00 0.00 5.18
3347 24730 7.285401 TGGATATTTCATTTAGTGAAGAAGGCC 59.715 37.037 0.00 0.00 46.85 5.19
3364 24747 7.042725 TGTTCGATTCGATGAAGTGGATATTTC 60.043 37.037 9.96 0.00 35.23 2.17


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

AutoCloner maintained by Alex Coulton.