Multiple sequence alignment - TraesCS4A01G483100

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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 TraesCS4A01G483100 chr4A 100.000 2549 0 0 1 2549 738255083 738257631 0.000000e+00 4708
1 TraesCS4A01G483100 chr4A 94.740 1502 53 9 638 2133 598584614 598583133 0.000000e+00 2313
2 TraesCS4A01G483100 chr4A 95.745 517 15 4 1980 2496 705527681 705527172 0.000000e+00 826
3 TraesCS4A01G483100 chr2D 95.893 1948 50 10 602 2543 610930657 610932580 0.000000e+00 3127
4 TraesCS4A01G483100 chr2D 95.350 1613 45 11 942 2549 64509070 64510657 0.000000e+00 2536
5 TraesCS4A01G483100 chr2D 89.260 838 36 18 1719 2548 331198519 331199310 0.000000e+00 1000
6 TraesCS4A01G483100 chr2D 96.506 601 20 1 1 601 616461314 616460715 0.000000e+00 992
7 TraesCS4A01G483100 chr2D 96.656 598 19 1 4 601 616495394 616494798 0.000000e+00 992
8 TraesCS4A01G483100 chr2D 96.173 601 23 0 1 601 68531308 68531908 0.000000e+00 983
9 TraesCS4A01G483100 chr1B 94.223 1956 74 18 599 2549 672221810 672223731 0.000000e+00 2950
10 TraesCS4A01G483100 chr1B 93.705 1954 93 9 602 2549 582666189 582664260 0.000000e+00 2900
11 TraesCS4A01G483100 chr1B 91.888 1997 96 29 592 2549 542264930 542266899 0.000000e+00 2730
12 TraesCS4A01G483100 chr1B 93.868 897 27 10 1655 2549 374501800 374502670 0.000000e+00 1327
13 TraesCS4A01G483100 chr1B 92.206 834 38 8 1719 2549 571672157 571672966 0.000000e+00 1155
14 TraesCS4A01G483100 chr1B 92.769 567 26 11 1981 2543 232742294 232742849 0.000000e+00 806
15 TraesCS4A01G483100 chr4B 93.555 1955 91 14 600 2548 534922953 534921028 0.000000e+00 2880
16 TraesCS4A01G483100 chr4B 92.538 1903 102 16 602 2496 546331516 546329646 0.000000e+00 2691
17 TraesCS4A01G483100 chr4B 91.490 1986 104 27 602 2549 645967796 645965838 0.000000e+00 2671
18 TraesCS4A01G483100 chr4B 94.035 570 21 5 1980 2549 372351549 372350993 0.000000e+00 852
19 TraesCS4A01G483100 chr4B 93.333 570 22 5 1980 2549 622330364 622329811 0.000000e+00 828
20 TraesCS4A01G483100 chrUn 92.524 1993 84 20 596 2548 60558703 60560670 0.000000e+00 2795
21 TraesCS4A01G483100 chrUn 92.611 1624 88 12 931 2549 37355417 37353821 0.000000e+00 2305
22 TraesCS4A01G483100 chrUn 92.611 1624 88 12 931 2549 287430944 287429348 0.000000e+00 2305
23 TraesCS4A01G483100 chrUn 96.506 601 21 0 1 601 131472887 131473487 0.000000e+00 994
24 TraesCS4A01G483100 chrUn 90.157 762 41 18 1793 2549 93725105 93724373 0.000000e+00 961
25 TraesCS4A01G483100 chrUn 90.832 709 38 13 1793 2496 353552413 353551727 0.000000e+00 924
26 TraesCS4A01G483100 chr5B 92.095 1986 92 30 601 2549 26059379 26057422 0.000000e+00 2737
27 TraesCS4A01G483100 chr5B 93.949 1537 72 8 602 2134 76431899 76430380 0.000000e+00 2303
28 TraesCS4A01G483100 chr7B 92.068 1954 107 19 607 2549 54520694 54518778 0.000000e+00 2706
29 TraesCS4A01G483100 chr7B 93.350 1624 77 12 931 2549 22314002 22315599 0.000000e+00 2372
30 TraesCS4A01G483100 chr3B 93.986 1613 68 12 942 2549 687040438 687042026 0.000000e+00 2414
31 TraesCS4A01G483100 chr3B 94.152 1556 66 11 586 2133 792939401 792940939 0.000000e+00 2346
32 TraesCS4A01G483100 chr3B 93.728 574 20 7 1980 2549 13425362 13425923 0.000000e+00 846
33 TraesCS4A01G483100 chr3B 88.840 681 42 15 1793 2469 20306487 20307137 0.000000e+00 806
34 TraesCS4A01G483100 chr6B 94.301 1544 69 6 597 2135 527993582 527992053 0.000000e+00 2346
35 TraesCS4A01G483100 chr7D 92.465 783 35 10 1719 2496 94496167 94495404 0.000000e+00 1098
36 TraesCS4A01G483100 chr7D 92.525 709 30 7 1793 2496 577660062 577659372 0.000000e+00 994
37 TraesCS4A01G483100 chr7D 96.346 602 20 2 1 601 74350071 74349471 0.000000e+00 989
38 TraesCS4A01G483100 chr4D 92.455 782 37 7 1719 2496 459101080 459100317 0.000000e+00 1098
39 TraesCS4A01G483100 chr4D 92.318 781 38 8 1719 2496 43271421 43270660 0.000000e+00 1090
40 TraesCS4A01G483100 chr4D 89.976 828 48 16 1719 2543 459885128 459884333 0.000000e+00 1037
41 TraesCS4A01G483100 chr4D 91.096 730 35 12 1773 2496 496431972 496431267 0.000000e+00 961
42 TraesCS4A01G483100 chr3D 92.347 784 35 13 1719 2496 132626723 132625959 0.000000e+00 1092
43 TraesCS4A01G483100 chr3D 96.173 601 23 0 1 601 595254842 595255442 0.000000e+00 983
44 TraesCS4A01G483100 chr3D 90.179 784 31 13 1719 2496 475107990 475108733 0.000000e+00 979
45 TraesCS4A01G483100 chr3D 89.514 782 34 9 1719 2496 108651732 108650995 0.000000e+00 946
46 TraesCS4A01G483100 chr1D 91.349 786 34 10 1719 2496 17039409 17038650 0.000000e+00 1044
47 TraesCS4A01G483100 chr1D 90.806 707 40 8 1793 2496 26487536 26488220 0.000000e+00 922
48 TraesCS4A01G483100 chr1D 92.877 365 20 3 2134 2496 25466010 25466370 2.250000e-145 525
49 TraesCS4A01G483100 chr1D 90.640 406 20 5 1719 2119 25465633 25466025 8.080000e-145 523
50 TraesCS4A01G483100 chr1D 92.077 366 22 4 2134 2496 435235553 435235192 2.260000e-140 508
51 TraesCS4A01G483100 chr6D 96.672 601 20 0 1 601 459138826 459138226 0.000000e+00 1000
52 TraesCS4A01G483100 chr6D 96.506 601 21 0 1 601 278848027 278848627 0.000000e+00 994
53 TraesCS4A01G483100 chr6D 96.173 601 23 0 1 601 278856017 278856617 0.000000e+00 983
54 TraesCS4A01G483100 chr6D 91.655 707 35 9 1793 2496 277566010 277565325 0.000000e+00 957
55 TraesCS4A01G483100 chr6D 91.384 708 37 7 1793 2496 109964608 109965295 0.000000e+00 948
56 TraesCS4A01G483100 chr6D 90.819 708 35 10 1793 2496 52520347 52519666 0.000000e+00 920
57 TraesCS4A01G483100 chr6D 88.348 781 42 17 1719 2496 429625912 429626646 0.000000e+00 893
58 TraesCS4A01G483100 chr6D 86.111 720 31 19 1793 2504 5446050 5445392 0.000000e+00 712
59 TraesCS4A01G483100 chr6D 89.578 403 23 7 1719 2119 12106815 12106430 6.340000e-136 494
60 TraesCS4A01G483100 chr6D 90.411 365 21 3 2134 2496 12106445 12106093 3.840000e-128 468
61 TraesCS4A01G483100 chr6D 89.256 363 21 3 2134 2496 28979598 28979254 3.010000e-119 438
62 TraesCS4A01G483100 chr6D 84.866 337 19 10 2134 2469 448519203 448519508 6.850000e-81 311
63 TraesCS4A01G483100 chr6D 83.976 337 22 8 2134 2469 312542600 312542295 6.900000e-76 294
64 TraesCS4A01G483100 chr5D 90.670 761 39 13 1793 2549 482330767 482330035 0.000000e+00 983
65 TraesCS4A01G483100 chr5D 91.785 706 37 9 1793 2496 520496139 520495453 0.000000e+00 963
66 TraesCS4A01G483100 chr5D 91.396 709 38 7 1793 2496 213960680 213961370 0.000000e+00 950


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 TraesCS4A01G483100 chr4A 738255083 738257631 2548 False 4708 4708 100.0000 1 2549 1 chr4A.!!$F1 2548
1 TraesCS4A01G483100 chr4A 598583133 598584614 1481 True 2313 2313 94.7400 638 2133 1 chr4A.!!$R1 1495
2 TraesCS4A01G483100 chr4A 705527172 705527681 509 True 826 826 95.7450 1980 2496 1 chr4A.!!$R2 516
3 TraesCS4A01G483100 chr2D 610930657 610932580 1923 False 3127 3127 95.8930 602 2543 1 chr2D.!!$F4 1941
4 TraesCS4A01G483100 chr2D 64509070 64510657 1587 False 2536 2536 95.3500 942 2549 1 chr2D.!!$F1 1607
5 TraesCS4A01G483100 chr2D 331198519 331199310 791 False 1000 1000 89.2600 1719 2548 1 chr2D.!!$F3 829
6 TraesCS4A01G483100 chr2D 616460715 616461314 599 True 992 992 96.5060 1 601 1 chr2D.!!$R1 600
7 TraesCS4A01G483100 chr2D 616494798 616495394 596 True 992 992 96.6560 4 601 1 chr2D.!!$R2 597
8 TraesCS4A01G483100 chr2D 68531308 68531908 600 False 983 983 96.1730 1 601 1 chr2D.!!$F2 600
9 TraesCS4A01G483100 chr1B 672221810 672223731 1921 False 2950 2950 94.2230 599 2549 1 chr1B.!!$F5 1950
10 TraesCS4A01G483100 chr1B 582664260 582666189 1929 True 2900 2900 93.7050 602 2549 1 chr1B.!!$R1 1947
11 TraesCS4A01G483100 chr1B 542264930 542266899 1969 False 2730 2730 91.8880 592 2549 1 chr1B.!!$F3 1957
12 TraesCS4A01G483100 chr1B 374501800 374502670 870 False 1327 1327 93.8680 1655 2549 1 chr1B.!!$F2 894
13 TraesCS4A01G483100 chr1B 571672157 571672966 809 False 1155 1155 92.2060 1719 2549 1 chr1B.!!$F4 830
14 TraesCS4A01G483100 chr1B 232742294 232742849 555 False 806 806 92.7690 1981 2543 1 chr1B.!!$F1 562
15 TraesCS4A01G483100 chr4B 534921028 534922953 1925 True 2880 2880 93.5550 600 2548 1 chr4B.!!$R2 1948
16 TraesCS4A01G483100 chr4B 546329646 546331516 1870 True 2691 2691 92.5380 602 2496 1 chr4B.!!$R3 1894
17 TraesCS4A01G483100 chr4B 645965838 645967796 1958 True 2671 2671 91.4900 602 2549 1 chr4B.!!$R5 1947
18 TraesCS4A01G483100 chr4B 372350993 372351549 556 True 852 852 94.0350 1980 2549 1 chr4B.!!$R1 569
19 TraesCS4A01G483100 chr4B 622329811 622330364 553 True 828 828 93.3330 1980 2549 1 chr4B.!!$R4 569
20 TraesCS4A01G483100 chrUn 60558703 60560670 1967 False 2795 2795 92.5240 596 2548 1 chrUn.!!$F1 1952
21 TraesCS4A01G483100 chrUn 37353821 37355417 1596 True 2305 2305 92.6110 931 2549 1 chrUn.!!$R1 1618
22 TraesCS4A01G483100 chrUn 287429348 287430944 1596 True 2305 2305 92.6110 931 2549 1 chrUn.!!$R3 1618
23 TraesCS4A01G483100 chrUn 131472887 131473487 600 False 994 994 96.5060 1 601 1 chrUn.!!$F2 600
24 TraesCS4A01G483100 chrUn 93724373 93725105 732 True 961 961 90.1570 1793 2549 1 chrUn.!!$R2 756
25 TraesCS4A01G483100 chrUn 353551727 353552413 686 True 924 924 90.8320 1793 2496 1 chrUn.!!$R4 703
26 TraesCS4A01G483100 chr5B 26057422 26059379 1957 True 2737 2737 92.0950 601 2549 1 chr5B.!!$R1 1948
27 TraesCS4A01G483100 chr5B 76430380 76431899 1519 True 2303 2303 93.9490 602 2134 1 chr5B.!!$R2 1532
28 TraesCS4A01G483100 chr7B 54518778 54520694 1916 True 2706 2706 92.0680 607 2549 1 chr7B.!!$R1 1942
29 TraesCS4A01G483100 chr7B 22314002 22315599 1597 False 2372 2372 93.3500 931 2549 1 chr7B.!!$F1 1618
30 TraesCS4A01G483100 chr3B 687040438 687042026 1588 False 2414 2414 93.9860 942 2549 1 chr3B.!!$F3 1607
31 TraesCS4A01G483100 chr3B 792939401 792940939 1538 False 2346 2346 94.1520 586 2133 1 chr3B.!!$F4 1547
32 TraesCS4A01G483100 chr3B 13425362 13425923 561 False 846 846 93.7280 1980 2549 1 chr3B.!!$F1 569
33 TraesCS4A01G483100 chr3B 20306487 20307137 650 False 806 806 88.8400 1793 2469 1 chr3B.!!$F2 676
34 TraesCS4A01G483100 chr6B 527992053 527993582 1529 True 2346 2346 94.3010 597 2135 1 chr6B.!!$R1 1538
35 TraesCS4A01G483100 chr7D 94495404 94496167 763 True 1098 1098 92.4650 1719 2496 1 chr7D.!!$R2 777
36 TraesCS4A01G483100 chr7D 577659372 577660062 690 True 994 994 92.5250 1793 2496 1 chr7D.!!$R3 703
37 TraesCS4A01G483100 chr7D 74349471 74350071 600 True 989 989 96.3460 1 601 1 chr7D.!!$R1 600
38 TraesCS4A01G483100 chr4D 459100317 459101080 763 True 1098 1098 92.4550 1719 2496 1 chr4D.!!$R2 777
39 TraesCS4A01G483100 chr4D 43270660 43271421 761 True 1090 1090 92.3180 1719 2496 1 chr4D.!!$R1 777
40 TraesCS4A01G483100 chr4D 459884333 459885128 795 True 1037 1037 89.9760 1719 2543 1 chr4D.!!$R3 824
41 TraesCS4A01G483100 chr4D 496431267 496431972 705 True 961 961 91.0960 1773 2496 1 chr4D.!!$R4 723
42 TraesCS4A01G483100 chr3D 132625959 132626723 764 True 1092 1092 92.3470 1719 2496 1 chr3D.!!$R2 777
43 TraesCS4A01G483100 chr3D 595254842 595255442 600 False 983 983 96.1730 1 601 1 chr3D.!!$F2 600
44 TraesCS4A01G483100 chr3D 475107990 475108733 743 False 979 979 90.1790 1719 2496 1 chr3D.!!$F1 777
45 TraesCS4A01G483100 chr3D 108650995 108651732 737 True 946 946 89.5140 1719 2496 1 chr3D.!!$R1 777
46 TraesCS4A01G483100 chr1D 17038650 17039409 759 True 1044 1044 91.3490 1719 2496 1 chr1D.!!$R1 777
47 TraesCS4A01G483100 chr1D 26487536 26488220 684 False 922 922 90.8060 1793 2496 1 chr1D.!!$F1 703
48 TraesCS4A01G483100 chr1D 25465633 25466370 737 False 524 525 91.7585 1719 2496 2 chr1D.!!$F2 777
49 TraesCS4A01G483100 chr6D 459138226 459138826 600 True 1000 1000 96.6720 1 601 1 chr6D.!!$R6 600
50 TraesCS4A01G483100 chr6D 278848027 278848627 600 False 994 994 96.5060 1 601 1 chr6D.!!$F2 600
51 TraesCS4A01G483100 chr6D 278856017 278856617 600 False 983 983 96.1730 1 601 1 chr6D.!!$F3 600
52 TraesCS4A01G483100 chr6D 277565325 277566010 685 True 957 957 91.6550 1793 2496 1 chr6D.!!$R4 703
53 TraesCS4A01G483100 chr6D 109964608 109965295 687 False 948 948 91.3840 1793 2496 1 chr6D.!!$F1 703
54 TraesCS4A01G483100 chr6D 52519666 52520347 681 True 920 920 90.8190 1793 2496 1 chr6D.!!$R3 703
55 TraesCS4A01G483100 chr6D 429625912 429626646 734 False 893 893 88.3480 1719 2496 1 chr6D.!!$F4 777
56 TraesCS4A01G483100 chr6D 5445392 5446050 658 True 712 712 86.1110 1793 2504 1 chr6D.!!$R1 711
57 TraesCS4A01G483100 chr6D 12106093 12106815 722 True 481 494 89.9945 1719 2496 2 chr6D.!!$R7 777
58 TraesCS4A01G483100 chr5D 482330035 482330767 732 True 983 983 90.6700 1793 2549 1 chr5D.!!$R1 756
59 TraesCS4A01G483100 chr5D 520495453 520496139 686 True 963 963 91.7850 1793 2496 1 chr5D.!!$R2 703
60 TraesCS4A01G483100 chr5D 213960680 213961370 690 False 950 950 91.3960 1793 2496 1 chr5D.!!$F1 703

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
338 339 0.912487 TTCCATTAGGACCCCGCTGT 60.912 55.000 0.00 0.0 45.73 4.40 F
1130 1226 1.000843 TCACACATCGAGGAACCACAG 59.999 52.381 3.06 0.0 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1350 1446 0.037882 CTTCTTCCAGAGCTCGTGCA 60.038 55.0 12.58 0.0 42.74 4.57 R
1948 2054 1.337118 GTGCATTTTCCACCCCTTCA 58.663 50.0 0.00 0.0 0.00 3.02 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
82 83 3.263170 TGCTTAATGCTTGTCACTAGGGA 59.737 43.478 0.00 0.00 43.37 4.20
225 226 6.323996 AGTGACAATAATCGGGATACTTCTCA 59.676 38.462 0.00 0.00 0.00 3.27
338 339 0.912487 TTCCATTAGGACCCCGCTGT 60.912 55.000 0.00 0.00 45.73 4.40
344 345 2.523740 TAGGACCCCGCTGTCATGGA 62.524 60.000 0.00 0.00 36.97 3.41
409 410 7.473366 AGCACGTATGACTATATTCGGAATAG 58.527 38.462 15.08 7.60 33.87 1.73
418 419 7.834681 TGACTATATTCGGAATAGATGCCTACT 59.165 37.037 15.08 0.00 32.35 2.57
445 446 5.591877 ACATTGATGAATTGGAGCTAGTTCC 59.408 40.000 18.20 18.20 37.77 3.62
532 533 3.466836 CAATGCCTACGAGCTTTCCATA 58.533 45.455 0.00 0.00 0.00 2.74
560 561 7.446319 ACTGGTTTACGCTTATTTACTTTTCCT 59.554 33.333 0.00 0.00 0.00 3.36
563 564 9.467258 GGTTTACGCTTATTTACTTTTCCTTTT 57.533 29.630 0.00 0.00 0.00 2.27
718 719 3.454375 GACTCGTTCTGTGAACTTTGGA 58.546 45.455 8.51 0.00 0.00 3.53
1085 1181 4.662961 CGTCTGTCCGCAGTGCCA 62.663 66.667 10.11 0.48 43.05 4.92
1130 1226 1.000843 TCACACATCGAGGAACCACAG 59.999 52.381 3.06 0.00 0.00 3.66
1294 1390 5.759059 TGGCCAAGACTCTGATAAATGAAT 58.241 37.500 0.61 0.00 0.00 2.57
1299 1395 6.971184 CCAAGACTCTGATAAATGAATTGCAC 59.029 38.462 0.00 0.00 0.00 4.57
1561 1658 7.267128 TGGAAATGCATGAATTATGAAGGAAC 58.733 34.615 0.00 0.00 39.21 3.62
1967 2074 1.337118 TGAAGGGGTGGAAAATGCAC 58.663 50.000 0.00 0.00 38.03 4.57
1968 2075 1.337118 GAAGGGGTGGAAAATGCACA 58.663 50.000 4.42 0.00 40.73 4.57
1969 2076 1.691434 GAAGGGGTGGAAAATGCACAA 59.309 47.619 4.42 0.00 40.73 3.33
1970 2077 1.799933 AGGGGTGGAAAATGCACAAA 58.200 45.000 4.42 0.00 40.73 2.83
1971 2078 2.122768 AGGGGTGGAAAATGCACAAAA 58.877 42.857 4.42 0.00 40.73 2.44
1972 2079 2.507471 AGGGGTGGAAAATGCACAAAAA 59.493 40.909 4.42 0.00 40.73 1.94
2059 2168 3.262686 GCGCTGGTAACCGCTAGC 61.263 66.667 4.06 4.06 46.14 3.42
2519 2669 7.334858 TGATAAGATGCAACACAAGTACCATA 58.665 34.615 0.00 0.00 0.00 2.74
2521 2671 8.752005 ATAAGATGCAACACAAGTACCATAAT 57.248 30.769 0.00 0.00 0.00 1.28
2529 2679 8.349983 GCAACACAAGTACCATAATAATAAGGG 58.650 37.037 0.00 0.00 0.00 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 8.944029 CATCAATCTCAGAACATAATGGATACC 58.056 37.037 0.00 0.00 0.00 2.73
82 83 1.278985 TCTGAAATCATGGCACTCGGT 59.721 47.619 0.00 0.00 0.00 4.69
225 226 4.780021 ACTCCTCAAACTATGGTCATCACT 59.220 41.667 0.00 0.00 0.00 3.41
310 311 3.117625 GGGTCCTAATGGAAACTAAGGGG 60.118 52.174 0.00 0.00 45.18 4.79
338 339 3.913799 TCTTTTGTCCTACCCTTCCATGA 59.086 43.478 0.00 0.00 0.00 3.07
374 375 9.944376 ATATAGTCATACGTGCTTATGGAAAAT 57.056 29.630 0.00 0.00 31.33 1.82
409 410 7.864379 CCAATTCATCAATGTAAAGTAGGCATC 59.136 37.037 0.00 0.00 0.00 3.91
418 419 8.579850 AACTAGCTCCAATTCATCAATGTAAA 57.420 30.769 0.00 0.00 0.00 2.01
445 446 4.112634 CAGTCATAACATAGGGTGACACG 58.887 47.826 10.82 0.00 42.51 4.49
557 558 7.446931 TGCAGTGATTGTAACAATAGAAAAGGA 59.553 33.333 0.00 0.00 0.00 3.36
560 561 9.809096 TTTTGCAGTGATTGTAACAATAGAAAA 57.191 25.926 0.00 0.00 30.70 2.29
612 613 3.074687 TGGACACCACTAAGGGCAAAATA 59.925 43.478 0.00 0.00 43.89 1.40
613 614 2.158385 TGGACACCACTAAGGGCAAAAT 60.158 45.455 0.00 0.00 43.89 1.82
718 719 1.633774 ACGTTGACCTGATGGAGACT 58.366 50.000 0.00 0.00 37.04 3.24
936 939 2.494918 CTAGCTTCCCACCGTCGG 59.505 66.667 10.48 10.48 0.00 4.79
1085 1181 2.915659 TCCGGTCAACACTCGCCT 60.916 61.111 0.00 0.00 0.00 5.52
1092 1188 0.395312 GAGAAACCCTCCGGTCAACA 59.605 55.000 0.00 0.00 43.71 3.33
1294 1390 2.168326 TCTTCATGCTCTTCGTGCAA 57.832 45.000 0.00 0.00 44.01 4.08
1299 1395 3.730061 GCAACCATTCTTCATGCTCTTCG 60.730 47.826 0.00 0.00 34.29 3.79
1350 1446 0.037882 CTTCTTCCAGAGCTCGTGCA 60.038 55.000 12.58 0.00 42.74 4.57
1542 1639 6.839124 ACAAGTTCCTTCATAATTCATGCA 57.161 33.333 0.00 0.00 34.35 3.96
1828 1931 7.774625 ACATTTTCCATGACATTTTGGTCTTTT 59.225 29.630 0.00 0.00 38.61 2.27
1948 2054 1.337118 GTGCATTTTCCACCCCTTCA 58.663 50.000 0.00 0.00 0.00 3.02
1949 2056 1.337118 TGTGCATTTTCCACCCCTTC 58.663 50.000 0.00 0.00 32.30 3.46
1950 2057 1.799933 TTGTGCATTTTCCACCCCTT 58.200 45.000 0.00 0.00 32.30 3.95
2059 2168 2.880268 TGTCAAACTCTTGCCATCTGTG 59.120 45.455 0.00 0.00 32.14 3.66
2496 2643 8.752005 ATTATGGTACTTGTGTTGCATCTTAT 57.248 30.769 0.00 0.00 0.00 1.73
2497 2644 9.674068 TTATTATGGTACTTGTGTTGCATCTTA 57.326 29.630 0.00 0.00 0.00 2.10
2499 2646 8.752005 ATTATTATGGTACTTGTGTTGCATCT 57.248 30.769 0.00 0.00 0.00 2.90
2504 2651 9.403583 ACCCTTATTATTATGGTACTTGTGTTG 57.596 33.333 0.00 0.00 0.00 3.33
2519 2669 6.155737 ACTGTCCGTGAACTACCCTTATTATT 59.844 38.462 0.00 0.00 0.00 1.40
2521 2671 5.018809 ACTGTCCGTGAACTACCCTTATTA 58.981 41.667 0.00 0.00 0.00 0.98


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

AutoCloner maintained by Alex Coulton.