Multiple sequence alignment - TraesCS3A01G147500

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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 TraesCS3A01G147500 chr3A 100.000 5145 0 0 1 5145 128721155 128716011 0.000000e+00 9502.0
1 TraesCS3A01G147500 chr3A 84.817 955 82 30 1394 2328 128585664 128584753 0.000000e+00 902.0
2 TraesCS3A01G147500 chr3A 91.474 563 47 1 3113 3674 128583204 128582642 0.000000e+00 773.0
3 TraesCS3A01G147500 chr3A 88.317 505 28 13 868 1341 128586711 128586207 1.240000e-160 577.0
4 TraesCS3A01G147500 chr3A 89.722 360 32 2 3791 4145 128582437 128582078 6.070000e-124 455.0
5 TraesCS3A01G147500 chr3A 80.184 651 76 22 4271 4891 128581864 128581237 6.120000e-119 438.0
6 TraesCS3A01G147500 chr3A 85.276 326 34 4 2737 3059 128583788 128583474 1.790000e-84 324.0
7 TraesCS3A01G147500 chr3A 88.608 237 19 5 4139 4375 128582045 128581817 1.090000e-71 281.0
8 TraesCS3A01G147500 chr3A 90.909 187 13 4 2431 2614 128584678 128584493 1.110000e-61 248.0
9 TraesCS3A01G147500 chr3A 93.827 81 5 0 3703 3783 128582554 128582474 7.000000e-24 122.0
10 TraesCS3A01G147500 chr3A 97.222 36 1 0 4679 4714 655588445 655588410 1.550000e-05 62.1
11 TraesCS3A01G147500 chr3A 94.444 36 2 0 4680 4715 181697722 181697687 7.200000e-04 56.5
12 TraesCS3A01G147500 chr3A 94.444 36 2 0 4679 4714 197848162 197848197 7.200000e-04 56.5
13 TraesCS3A01G147500 chr1A 98.804 4430 47 5 717 5145 389767396 389771820 0.000000e+00 7882.0
14 TraesCS3A01G147500 chr1A 96.749 646 18 3 1 644 389766507 389767151 0.000000e+00 1074.0
15 TraesCS3A01G147500 chr1A 84.705 948 90 28 1401 2328 389798912 389799824 0.000000e+00 896.0
16 TraesCS3A01G147500 chr1A 91.652 563 46 1 3113 3674 389801374 389801936 0.000000e+00 778.0
17 TraesCS3A01G147500 chr1A 87.600 500 31 13 869 1337 389798167 389798666 7.530000e-153 551.0
18 TraesCS3A01G147500 chr1A 90.476 357 32 1 3791 4145 389802141 389802497 2.170000e-128 470.0
19 TraesCS3A01G147500 chr1A 80.312 640 74 22 4271 4880 389802712 389803329 2.200000e-118 436.0
20 TraesCS3A01G147500 chr1A 85.276 326 34 4 2737 3059 389800789 389801103 1.790000e-84 324.0
21 TraesCS3A01G147500 chr1A 87.705 244 21 6 4133 4375 389802524 389802759 5.070000e-70 276.0
22 TraesCS3A01G147500 chr1A 91.304 184 12 4 2431 2611 389799899 389800081 1.110000e-61 248.0
23 TraesCS3A01G147500 chr1A 93.827 81 5 0 3703 3783 389802024 389802104 7.000000e-24 122.0
24 TraesCS3A01G147500 chr1A 100.000 33 0 0 4680 4712 521899667 521899635 1.550000e-05 62.1
25 TraesCS3A01G147500 chr1A 97.143 35 1 0 4680 4714 535439267 535439301 5.560000e-05 60.2
26 TraesCS3A01G147500 chr1D 96.542 1793 59 3 835 2625 309852144 309853935 0.000000e+00 2964.0
27 TraesCS3A01G147500 chr1D 96.985 1393 29 4 2624 4010 309853968 309855353 0.000000e+00 2327.0
28 TraesCS3A01G147500 chr1D 86.605 1508 123 39 869 2328 309916800 309918276 0.000000e+00 1592.0
29 TraesCS3A01G147500 chr1D 95.640 711 28 2 4006 4716 309901242 309901949 0.000000e+00 1138.0
30 TraesCS3A01G147500 chr1D 92.115 558 43 1 3113 3669 309919839 309920396 0.000000e+00 785.0
31 TraesCS3A01G147500 chr1D 90.196 357 33 1 3791 4145 309920605 309920961 1.010000e-126 464.0
32 TraesCS3A01G147500 chr1D 85.015 327 33 4 2737 3059 309919243 309919557 8.310000e-83 318.0
33 TraesCS3A01G147500 chr1D 79.093 507 65 19 4271 4748 309921175 309921669 1.390000e-80 311.0
34 TraesCS3A01G147500 chr1D 93.204 206 14 0 4722 4927 309911933 309912138 2.330000e-78 303.0
35 TraesCS3A01G147500 chr1D 88.285 239 15 8 4139 4375 309920995 309921222 1.830000e-69 274.0
36 TraesCS3A01G147500 chr1D 90.000 120 9 3 4770 4887 309921741 309921859 8.920000e-33 152.0
37 TraesCS3A01G147500 chr1D 92.593 81 6 0 3703 3783 309920488 309920568 3.250000e-22 117.0
38 TraesCS3A01G147500 chr1D 91.250 80 7 0 5066 5145 309912136 309912215 5.450000e-20 110.0
39 TraesCS3A01G147500 chr1D 88.636 44 5 0 2624 2667 328757578 328757535 3.000000e-03 54.7
40 TraesCS3A01G147500 chr1B 95.047 1797 71 14 870 2660 419768964 419770748 0.000000e+00 2809.0
41 TraesCS3A01G147500 chr1B 85.063 1513 115 55 869 2328 419940766 419942220 0.000000e+00 1439.0
42 TraesCS3A01G147500 chr1B 95.983 722 19 2 3703 4414 419772060 419772781 0.000000e+00 1164.0
43 TraesCS3A01G147500 chr1B 94.622 595 29 3 3113 3704 419771400 419771994 0.000000e+00 918.0
44 TraesCS3A01G147500 chr1B 91.104 607 32 14 13 609 307134444 307135038 0.000000e+00 802.0
45 TraesCS3A01G147500 chr1B 91.829 563 42 3 3113 3674 419949043 419949602 0.000000e+00 782.0
46 TraesCS3A01G147500 chr1B 94.015 518 23 5 4410 4927 419780423 419780932 0.000000e+00 778.0
47 TraesCS3A01G147500 chr1B 93.734 383 13 3 2718 3096 419770749 419771124 9.670000e-157 564.0
48 TraesCS3A01G147500 chr1B 91.379 348 30 0 3791 4138 419949808 419950155 1.300000e-130 477.0
49 TraesCS3A01G147500 chr1B 84.663 326 36 4 2737 3059 419948449 419948763 3.870000e-81 313.0
50 TraesCS3A01G147500 chr1B 91.304 184 12 4 2431 2611 419942301 419942483 1.110000e-61 248.0
51 TraesCS3A01G147500 chr1B 86.634 202 10 10 4133 4326 419950191 419950383 1.880000e-49 207.0
52 TraesCS3A01G147500 chr1B 89.103 156 15 2 4913 5068 634163060 634162907 5.260000e-45 193.0
53 TraesCS3A01G147500 chr1B 93.827 81 5 0 3703 3783 419949691 419949771 7.000000e-24 122.0
54 TraesCS3A01G147500 chr1B 85.321 109 8 4 4340 4440 419950341 419950449 7.050000e-19 106.0
55 TraesCS3A01G147500 chr1B 90.476 42 4 0 2624 2665 268215261 268215302 7.200000e-04 56.5
56 TraesCS3A01G147500 chr1B 90.476 42 4 0 2624 2665 630905870 630905911 7.200000e-04 56.5
57 TraesCS3A01G147500 chr5B 89.138 847 58 16 1 834 48875527 48874702 0.000000e+00 1024.0
58 TraesCS3A01G147500 chr5B 76.142 591 99 29 140 697 691771247 691771828 6.560000e-69 272.0
59 TraesCS3A01G147500 chr5B 84.375 64 10 0 604 667 470363077 470363140 4.300000e-06 63.9
60 TraesCS3A01G147500 chr5B 100.000 28 0 0 4687 4714 102078850 102078823 9.000000e-03 52.8
61 TraesCS3A01G147500 chr6B 91.854 712 42 10 1 705 637852872 637853574 0.000000e+00 979.0
62 TraesCS3A01G147500 chr6B 84.127 63 10 0 605 667 719799038 719799100 1.550000e-05 62.1
63 TraesCS3A01G147500 chr2A 90.153 721 49 20 1 705 767802353 767803067 0.000000e+00 918.0
64 TraesCS3A01G147500 chr2A 76.316 152 22 11 4471 4608 368129130 368128979 9.240000e-08 69.4
65 TraesCS3A01G147500 chr2A 95.000 40 1 1 2621 2659 762700342 762700303 1.550000e-05 62.1
66 TraesCS3A01G147500 chr6D 88.821 653 48 18 68 705 53760374 53761016 0.000000e+00 778.0
67 TraesCS3A01G147500 chr6D 80.720 389 52 17 140 514 462179789 462180168 1.090000e-71 281.0
68 TraesCS3A01G147500 chr3D 88.169 617 52 14 68 669 104828286 104827676 0.000000e+00 715.0
69 TraesCS3A01G147500 chr4B 79.897 388 55 16 140 514 520266864 520267241 3.950000e-66 263.0
70 TraesCS3A01G147500 chr4B 90.476 42 4 0 2624 2665 17960339 17960298 7.200000e-04 56.5
71 TraesCS3A01G147500 chrUn 86.207 232 20 11 6 233 66805841 66805618 1.850000e-59 241.0
72 TraesCS3A01G147500 chr4A 86.207 232 20 11 6 233 587333914 587333691 1.850000e-59 241.0
73 TraesCS3A01G147500 chr7A 87.075 147 19 0 4924 5070 75200230 75200084 3.190000e-37 167.0
74 TraesCS3A01G147500 chr7A 86.331 139 19 0 4927 5065 492846079 492846217 8.920000e-33 152.0
75 TraesCS3A01G147500 chr5D 100.000 33 0 0 584 616 390419427 390419459 1.550000e-05 62.1
76 TraesCS3A01G147500 chr7B 89.130 46 4 1 2621 2665 376254335 376254290 7.200000e-04 56.5


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 TraesCS3A01G147500 chr3A 128716011 128721155 5144 True 9502.000000 9502 100.000000 1 5145 1 chr3A.!!$R1 5144
1 TraesCS3A01G147500 chr3A 128581237 128586711 5474 True 457.777778 902 88.126000 868 4891 9 chr3A.!!$R4 4023
2 TraesCS3A01G147500 chr1A 389766507 389771820 5313 False 4478.000000 7882 97.776500 1 5145 2 chr1A.!!$F2 5144
3 TraesCS3A01G147500 chr1A 389798167 389803329 5162 False 455.666667 896 88.095222 869 4880 9 chr1A.!!$F3 4011
4 TraesCS3A01G147500 chr1D 309852144 309855353 3209 False 2645.500000 2964 96.763500 835 4010 2 chr1D.!!$F2 3175
5 TraesCS3A01G147500 chr1D 309901242 309901949 707 False 1138.000000 1138 95.640000 4006 4716 1 chr1D.!!$F1 710
6 TraesCS3A01G147500 chr1D 309916800 309921859 5059 False 501.625000 1592 87.987750 869 4887 8 chr1D.!!$F4 4018
7 TraesCS3A01G147500 chr1B 419768964 419772781 3817 False 1363.750000 2809 94.846500 870 4414 4 chr1B.!!$F5 3544
8 TraesCS3A01G147500 chr1B 419940766 419942483 1717 False 843.500000 1439 88.183500 869 2611 2 chr1B.!!$F6 1742
9 TraesCS3A01G147500 chr1B 307134444 307135038 594 False 802.000000 802 91.104000 13 609 1 chr1B.!!$F2 596
10 TraesCS3A01G147500 chr1B 419780423 419780932 509 False 778.000000 778 94.015000 4410 4927 1 chr1B.!!$F3 517
11 TraesCS3A01G147500 chr1B 419948449 419950449 2000 False 334.500000 782 88.942167 2737 4440 6 chr1B.!!$F7 1703
12 TraesCS3A01G147500 chr5B 48874702 48875527 825 True 1024.000000 1024 89.138000 1 834 1 chr5B.!!$R1 833
13 TraesCS3A01G147500 chr5B 691771247 691771828 581 False 272.000000 272 76.142000 140 697 1 chr5B.!!$F2 557
14 TraesCS3A01G147500 chr6B 637852872 637853574 702 False 979.000000 979 91.854000 1 705 1 chr6B.!!$F1 704
15 TraesCS3A01G147500 chr2A 767802353 767803067 714 False 918.000000 918 90.153000 1 705 1 chr2A.!!$F1 704
16 TraesCS3A01G147500 chr6D 53760374 53761016 642 False 778.000000 778 88.821000 68 705 1 chr6D.!!$F1 637
17 TraesCS3A01G147500 chr3D 104827676 104828286 610 True 715.000000 715 88.169000 68 669 1 chr3D.!!$R1 601

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
664 718 0.179000 GCCAGGGACAGTGATGGTAG 59.821 60.000 0.00 0.00 35.17 3.18 F
754 980 0.255033 GGCCCTGACGGTAGGAAAAT 59.745 55.000 8.63 0.00 40.42 1.82 F
1053 1285 0.468226 ACGTGAAGCTGACCAAGGAA 59.532 50.000 0.00 0.00 0.00 3.36 F
1370 1634 2.036733 TGACGTGGAATTTCCTTCTCGT 59.963 45.455 16.25 18.21 42.25 4.18 F
2136 2933 3.399330 ACGAACAAACCATGGTAGACTG 58.601 45.455 20.12 15.23 0.00 3.51 F
2677 3549 7.010183 AGTCATAACGTTTGGTTCTGATTATCG 59.990 37.037 5.91 0.00 41.81 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1671 2455 3.312697 GCAGGACCGCTAAAGGATTTAAG 59.687 47.826 1.67 0.00 40.54 1.85 R
1854 2648 3.815401 ACAGTCTCTAACAAACACATGCC 59.185 43.478 0.00 0.00 0.00 4.40 R
2639 3511 5.370875 ACGTTATGACTACTACTCCCTCT 57.629 43.478 0.00 0.00 0.00 3.69 R
2677 3549 6.039382 AGGGTCAACTTTAACAATGAGAACAC 59.961 38.462 0.00 0.00 0.00 3.32 R
3958 5836 0.987294 AGCAGTGGACTATGCAAGGT 59.013 50.000 0.00 0.00 45.01 3.50 R
4414 6487 1.885887 ACACAGGCAATGCATAACGTT 59.114 42.857 7.79 5.88 0.00 3.99 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
272 291 6.100004 ACTAGTGAGTGGTTCATATTCAACG 58.900 40.000 0.00 0.00 38.29 4.10
505 556 0.263468 AGGGAAGGAGTAGAGAGGGC 59.737 60.000 0.00 0.00 0.00 5.19
636 690 3.248888 GTCCCCAGCTGTAGGGTTATAT 58.751 50.000 22.99 0.00 45.28 0.86
658 712 1.982395 CTACCGCCAGGGACAGTGA 60.982 63.158 0.00 0.00 43.47 3.41
661 715 2.124983 CGCCAGGGACAGTGATGG 60.125 66.667 0.00 0.50 35.84 3.51
662 716 2.959484 CGCCAGGGACAGTGATGGT 61.959 63.158 0.00 0.00 35.17 3.55
663 717 1.613317 CGCCAGGGACAGTGATGGTA 61.613 60.000 0.00 0.00 35.17 3.25
664 718 0.179000 GCCAGGGACAGTGATGGTAG 59.821 60.000 0.00 0.00 35.17 3.18
665 719 0.833287 CCAGGGACAGTGATGGTAGG 59.167 60.000 0.00 0.00 0.00 3.18
666 720 0.833287 CAGGGACAGTGATGGTAGGG 59.167 60.000 0.00 0.00 0.00 3.53
667 721 0.326618 AGGGACAGTGATGGTAGGGG 60.327 60.000 0.00 0.00 0.00 4.79
668 722 1.345715 GGGACAGTGATGGTAGGGGG 61.346 65.000 0.00 0.00 0.00 5.40
669 723 0.326238 GGACAGTGATGGTAGGGGGA 60.326 60.000 0.00 0.00 0.00 4.81
670 724 1.123928 GACAGTGATGGTAGGGGGAG 58.876 60.000 0.00 0.00 0.00 4.30
671 725 0.326618 ACAGTGATGGTAGGGGGAGG 60.327 60.000 0.00 0.00 0.00 4.30
672 726 1.056700 CAGTGATGGTAGGGGGAGGG 61.057 65.000 0.00 0.00 0.00 4.30
673 727 1.770518 GTGATGGTAGGGGGAGGGG 60.771 68.421 0.00 0.00 0.00 4.79
674 728 2.121918 GATGGTAGGGGGAGGGGG 60.122 72.222 0.00 0.00 0.00 5.40
708 762 4.577246 CCGTCTAGGGCTGCGAGC 62.577 72.222 0.00 0.11 41.46 5.03
709 763 4.914420 CGTCTAGGGCTGCGAGCG 62.914 72.222 0.00 0.00 43.62 5.03
710 764 4.577246 GTCTAGGGCTGCGAGCGG 62.577 72.222 0.00 0.00 43.62 5.52
712 766 3.217017 CTAGGGCTGCGAGCGGTA 61.217 66.667 5.75 0.00 43.62 4.02
713 767 3.200887 CTAGGGCTGCGAGCGGTAG 62.201 68.421 5.75 0.00 43.62 3.18
754 980 0.255033 GGCCCTGACGGTAGGAAAAT 59.745 55.000 8.63 0.00 40.42 1.82
756 982 2.017113 GCCCTGACGGTAGGAAAATGG 61.017 57.143 8.63 0.00 40.42 3.16
757 983 1.280998 CCCTGACGGTAGGAAAATGGT 59.719 52.381 8.63 0.00 40.42 3.55
758 984 2.629051 CCTGACGGTAGGAAAATGGTC 58.371 52.381 1.25 0.00 40.42 4.02
759 985 2.027561 CCTGACGGTAGGAAAATGGTCA 60.028 50.000 1.25 0.00 40.42 4.02
760 986 3.262420 CTGACGGTAGGAAAATGGTCAG 58.738 50.000 4.80 4.80 43.46 3.51
761 987 2.901192 TGACGGTAGGAAAATGGTCAGA 59.099 45.455 0.00 0.00 31.45 3.27
762 988 3.517901 TGACGGTAGGAAAATGGTCAGAT 59.482 43.478 0.00 0.00 31.45 2.90
763 989 4.120589 GACGGTAGGAAAATGGTCAGATC 58.879 47.826 0.00 0.00 0.00 2.75
764 990 3.775316 ACGGTAGGAAAATGGTCAGATCT 59.225 43.478 0.00 0.00 0.00 2.75
765 991 4.960469 ACGGTAGGAAAATGGTCAGATCTA 59.040 41.667 0.00 0.00 0.00 1.98
766 992 5.424252 ACGGTAGGAAAATGGTCAGATCTAA 59.576 40.000 0.00 0.00 0.00 2.10
805 1031 6.259550 AGGTCAAATCTCAATTTTCTTCGG 57.740 37.500 0.00 0.00 32.69 4.30
806 1032 5.770162 AGGTCAAATCTCAATTTTCTTCGGT 59.230 36.000 0.00 0.00 32.69 4.69
810 1036 9.458374 GTCAAATCTCAATTTTCTTCGGTAAAA 57.542 29.630 0.00 0.00 32.69 1.52
825 1051 6.007936 TCGGTAAAATGGTCAAAACATGAG 57.992 37.500 0.00 0.00 39.19 2.90
1003 1235 1.667154 CGAGGAGAGGACGGCAATGA 61.667 60.000 0.00 0.00 0.00 2.57
1053 1285 0.468226 ACGTGAAGCTGACCAAGGAA 59.532 50.000 0.00 0.00 0.00 3.36
1370 1634 2.036733 TGACGTGGAATTTCCTTCTCGT 59.963 45.455 16.25 18.21 42.25 4.18
1671 2455 4.442192 CCATAGAGGCTAGGTGTTTCAGTC 60.442 50.000 0.00 0.00 0.00 3.51
1854 2648 9.883142 TTAGGCTTATATTGTTTCCCATTTTTG 57.117 29.630 0.00 0.00 0.00 2.44
2020 2816 5.989551 TTGTGTTACCTCCTTTTTACGTC 57.010 39.130 0.00 0.00 0.00 4.34
2136 2933 3.399330 ACGAACAAACCATGGTAGACTG 58.601 45.455 20.12 15.23 0.00 3.51
2677 3549 7.010183 AGTCATAACGTTTGGTTCTGATTATCG 59.990 37.037 5.91 0.00 41.81 2.92
3958 5836 0.976641 ACCAGAACTCTCCATGCGAA 59.023 50.000 0.00 0.00 0.00 4.70
4305 6260 1.280710 TGATAGAATGTTGCCCGTGGT 59.719 47.619 0.00 0.00 0.00 4.16
4380 6446 6.015434 CCTGCGGGCATATACTATATGTATGA 60.015 42.308 14.84 0.17 41.55 2.15
4414 6487 2.661718 TGTGAGCGGTATGTCCTATCA 58.338 47.619 0.00 0.00 0.00 2.15
4554 6640 8.651589 AGATGCCATTTGATTCATAGAATGAT 57.348 30.769 9.96 0.00 39.39 2.45
4623 6710 7.018249 TGTGTAGGATATATAGAGACCAGTCCA 59.982 40.741 0.00 0.00 0.00 4.02
5098 7255 4.079850 CAGGAGCTGCGGCAGAGT 62.080 66.667 32.72 18.81 41.70 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
272 291 6.155475 AGATGTTCTCTAATCACTAGTGGC 57.845 41.667 22.48 3.45 30.26 5.01
329 361 6.889722 CACCCCTATTTTTGAACTAAGATGGA 59.110 38.462 0.00 0.00 0.00 3.41
331 363 7.938140 TCACCCCTATTTTTGAACTAAGATG 57.062 36.000 0.00 0.00 0.00 2.90
636 690 2.443390 GTCCCTGGCGGTAGGCTA 60.443 66.667 0.00 0.00 44.18 3.93
691 745 4.577246 GCTCGCAGCCCTAGACGG 62.577 72.222 0.00 0.00 34.48 4.79
692 746 4.914420 CGCTCGCAGCCCTAGACG 62.914 72.222 0.00 0.00 38.18 4.18
693 747 4.577246 CCGCTCGCAGCCCTAGAC 62.577 72.222 0.00 0.00 38.18 2.59
694 748 3.709348 TACCGCTCGCAGCCCTAGA 62.709 63.158 0.00 0.00 38.18 2.43
695 749 3.200887 CTACCGCTCGCAGCCCTAG 62.201 68.421 3.09 0.00 38.18 3.02
696 750 3.217017 CTACCGCTCGCAGCCCTA 61.217 66.667 3.09 0.00 38.18 3.53
701 755 3.296709 AACACCCTACCGCTCGCAG 62.297 63.158 0.00 0.00 0.00 5.18
702 756 3.291101 GAACACCCTACCGCTCGCA 62.291 63.158 0.00 0.00 0.00 5.10
703 757 2.508663 GAACACCCTACCGCTCGC 60.509 66.667 0.00 0.00 0.00 5.03
704 758 0.736325 CTTGAACACCCTACCGCTCG 60.736 60.000 0.00 0.00 0.00 5.03
705 759 0.391263 CCTTGAACACCCTACCGCTC 60.391 60.000 0.00 0.00 0.00 5.03
706 760 1.125711 ACCTTGAACACCCTACCGCT 61.126 55.000 0.00 0.00 0.00 5.52
707 761 0.250597 AACCTTGAACACCCTACCGC 60.251 55.000 0.00 0.00 0.00 5.68
708 762 2.613725 GGTAACCTTGAACACCCTACCG 60.614 54.545 0.00 0.00 0.00 4.02
709 763 2.613725 CGGTAACCTTGAACACCCTACC 60.614 54.545 0.00 0.00 0.00 3.18
710 764 2.691927 CGGTAACCTTGAACACCCTAC 58.308 52.381 0.00 0.00 0.00 3.18
711 765 1.002315 GCGGTAACCTTGAACACCCTA 59.998 52.381 0.00 0.00 0.00 3.53
712 766 0.250597 GCGGTAACCTTGAACACCCT 60.251 55.000 0.00 0.00 0.00 4.34
713 767 1.239296 GGCGGTAACCTTGAACACCC 61.239 60.000 0.00 0.00 0.00 4.61
714 768 1.571215 CGGCGGTAACCTTGAACACC 61.571 60.000 0.00 0.00 0.00 4.16
715 769 0.881600 ACGGCGGTAACCTTGAACAC 60.882 55.000 13.24 0.00 0.00 3.32
782 1008 5.770162 ACCGAAGAAAATTGAGATTTGACCT 59.230 36.000 0.00 0.00 35.69 3.85
806 1032 8.772705 GCAAAATCTCATGTTTTGACCATTTTA 58.227 29.630 18.93 0.00 45.02 1.52
810 1036 5.240121 GGCAAAATCTCATGTTTTGACCAT 58.760 37.500 18.93 0.00 44.81 3.55
811 1037 4.630111 GGCAAAATCTCATGTTTTGACCA 58.370 39.130 18.93 0.00 44.81 4.02
1238 1502 0.877071 CCACACTGGATGCACTTCAC 59.123 55.000 0.00 0.00 40.96 3.18
1370 1634 0.899717 GGGCAGACCAAATGCAAGGA 60.900 55.000 9.85 0.00 45.68 3.36
1671 2455 3.312697 GCAGGACCGCTAAAGGATTTAAG 59.687 47.826 1.67 0.00 40.54 1.85
1854 2648 3.815401 ACAGTCTCTAACAAACACATGCC 59.185 43.478 0.00 0.00 0.00 4.40
2020 2816 6.677781 TTGAAAACTGTCTCAACTGGTAAG 57.322 37.500 2.20 0.00 0.00 2.34
2611 3449 9.201989 TCCCATAATATAAGACATAGGCAGTAG 57.798 37.037 0.00 0.00 0.00 2.57
2639 3511 5.370875 ACGTTATGACTACTACTCCCTCT 57.629 43.478 0.00 0.00 0.00 3.69
2677 3549 6.039382 AGGGTCAACTTTAACAATGAGAACAC 59.961 38.462 0.00 0.00 0.00 3.32
3958 5836 0.987294 AGCAGTGGACTATGCAAGGT 59.013 50.000 0.00 0.00 45.01 3.50
4305 6260 7.454380 TGGTCTCCACACATATATATCACATGA 59.546 37.037 0.00 0.00 0.00 3.07
4414 6487 1.885887 ACACAGGCAATGCATAACGTT 59.114 42.857 7.79 5.88 0.00 3.99
4554 6640 8.519526 CACTAGCACAAACCTAATGGAAAAATA 58.480 33.333 0.00 0.00 37.04 1.40
4623 6710 4.035112 TGTAGGACCGGATTTCCTATGTT 58.965 43.478 19.29 0.00 45.54 2.71
5002 7159 2.359975 GTGGAGCCAGGAAACCGG 60.360 66.667 0.00 0.00 0.00 5.28
5098 7255 1.327690 CCAAGCCGCCACCTCTACTA 61.328 60.000 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.