Multiple sequence alignment - TraesCS5D01G223900

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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 TraesCS5D01G223900 chr5D 100.000 2926 0 0 1 2926 331836840 331839765 0.000000e+00 5404.0
1 TraesCS5D01G223900 chr5D 88.684 813 67 15 1010 1810 289355186 289354387 0.000000e+00 968.0
2 TraesCS5D01G223900 chr5D 86.351 359 34 8 2214 2557 30057039 30057397 7.650000e-101 377.0
3 TraesCS5D01G223900 chr1B 83.540 1938 135 75 701 2479 398840703 398838791 0.000000e+00 1642.0
4 TraesCS5D01G223900 chr1B 87.223 947 67 18 775 1667 398899355 398900301 0.000000e+00 1029.0
5 TraesCS5D01G223900 chr1B 87.831 830 75 12 988 1810 426496880 426496070 0.000000e+00 950.0
6 TraesCS5D01G223900 chr1B 89.023 747 65 10 1010 1743 133124017 133123275 0.000000e+00 909.0
7 TraesCS5D01G223900 chr1B 90.835 611 37 10 1 604 398841309 398840711 0.000000e+00 800.0
8 TraesCS5D01G223900 chr1B 92.929 198 9 4 2730 2924 398838253 398838058 1.720000e-72 283.0
9 TraesCS5D01G223900 chr1B 91.457 199 15 2 2730 2926 398966557 398966755 3.720000e-69 272.0
10 TraesCS5D01G223900 chr6D 85.657 1506 114 34 926 2352 124609387 124607905 0.000000e+00 1491.0
11 TraesCS5D01G223900 chr6D 87.371 776 52 10 1 733 122987247 122988019 0.000000e+00 848.0
12 TraesCS5D01G223900 chr6D 81.887 530 64 19 2219 2723 122991165 122991687 4.510000e-113 418.0
13 TraesCS5D01G223900 chr6D 87.213 305 30 5 2425 2721 122982257 122982560 3.610000e-89 339.0
14 TraesCS5D01G223900 chr6D 88.770 187 11 5 2730 2914 124607365 124607187 1.370000e-53 220.0
15 TraesCS5D01G223900 chr6D 92.982 57 4 0 873 929 122989522 122989578 1.870000e-12 84.2
16 TraesCS5D01G223900 chr6D 97.059 34 1 0 175 208 122987628 122987661 1.130000e-04 58.4
17 TraesCS5D01G223900 chr7D 83.264 1679 150 64 926 2557 545619879 545618285 0.000000e+00 1423.0
18 TraesCS5D01G223900 chr7D 83.303 1671 135 59 938 2516 545650509 545652127 0.000000e+00 1408.0
19 TraesCS5D01G223900 chr7D 89.168 1034 67 20 814 1816 545646942 545647961 0.000000e+00 1247.0
20 TraesCS5D01G223900 chr7D 88.337 806 35 18 1 768 545646162 545646946 0.000000e+00 913.0
21 TraesCS5D01G223900 chr7D 87.304 638 41 18 1781 2378 545647980 545648617 0.000000e+00 693.0
22 TraesCS5D01G223900 chr7D 83.010 671 55 26 1828 2457 545621638 545620986 1.180000e-153 553.0
23 TraesCS5D01G223900 chr7D 91.304 161 11 3 2730 2887 545649430 545649590 1.770000e-52 217.0
24 TraesCS5D01G223900 chr7D 93.846 65 4 0 2783 2847 546780784 546780848 6.670000e-17 99.0
25 TraesCS5D01G223900 chr7D 97.297 37 1 0 175 211 545646557 545646593 2.430000e-06 63.9
26 TraesCS5D01G223900 chr7D 100.000 28 0 0 1790 1817 509597955 509597928 5.000000e-03 52.8
27 TraesCS5D01G223900 chr7B 90.625 1024 67 14 814 1816 589700826 589699811 0.000000e+00 1332.0
28 TraesCS5D01G223900 chr7B 82.484 1667 142 68 938 2516 589935008 589936612 0.000000e+00 1323.0
29 TraesCS5D01G223900 chr7B 85.989 935 71 20 1477 2378 589737232 589738139 0.000000e+00 946.0
30 TraesCS5D01G223900 chr7B 88.431 752 65 11 1010 1743 589735446 589736193 0.000000e+00 887.0
31 TraesCS5D01G223900 chr7B 90.997 622 25 7 3 606 589701432 589700824 0.000000e+00 809.0
32 TraesCS5D01G223900 chr7B 82.882 701 53 18 1828 2479 589699738 589699056 4.230000e-158 568.0
33 TraesCS5D01G223900 chr7B 89.509 448 22 13 1781 2223 589692496 589692069 7.130000e-151 544.0
34 TraesCS5D01G223900 chr7B 85.714 392 38 9 2183 2557 588821528 588821138 5.880000e-107 398.0
35 TraesCS5D01G223900 chr7B 86.111 360 33 11 1594 1947 589921602 589921950 3.560000e-99 372.0
36 TraesCS5D01G223900 chr7B 91.457 199 15 2 2730 2926 589738955 589739153 3.720000e-69 272.0
37 TraesCS5D01G223900 chr7B 91.457 199 15 2 2730 2926 589923531 589923729 3.720000e-69 272.0
38 TraesCS5D01G223900 chr7B 81.910 199 21 5 2731 2926 589897980 589898166 1.400000e-33 154.0
39 TraesCS5D01G223900 chr7B 93.000 100 6 1 2822 2920 588876119 588876020 8.450000e-31 145.0
40 TraesCS5D01G223900 chr7B 89.091 55 2 2 926 976 589915707 589915761 6.770000e-07 65.8
41 TraesCS5D01G223900 chr7B 95.000 40 2 0 175 214 589701069 589701030 2.430000e-06 63.9
42 TraesCS5D01G223900 chr7A 86.235 1206 78 33 1015 2138 626992528 626991329 0.000000e+00 1227.0
43 TraesCS5D01G223900 chr7A 85.221 1245 95 46 1015 2223 628389883 628388692 0.000000e+00 1197.0
44 TraesCS5D01G223900 chr7A 89.851 808 55 14 1017 1816 628492196 628491408 0.000000e+00 1013.0
45 TraesCS5D01G223900 chr7A 86.674 878 33 16 1 816 628519680 628520535 0.000000e+00 896.0
46 TraesCS5D01G223900 chr7A 85.355 874 76 21 1080 1930 628520615 628521459 0.000000e+00 857.0
47 TraesCS5D01G223900 chr7A 85.254 590 55 13 1993 2557 627230231 627229649 1.950000e-161 579.0
48 TraesCS5D01G223900 chr7A 80.918 828 62 39 1781 2557 628487196 628486414 1.520000e-157 566.0
49 TraesCS5D01G223900 chr7A 86.638 464 42 4 2114 2557 626990574 626990111 2.030000e-136 496.0
50 TraesCS5D01G223900 chr7A 85.845 438 18 16 1794 2223 169957618 169957217 2.700000e-115 425.0
51 TraesCS5D01G223900 chr7A 83.755 474 36 13 2092 2557 628521691 628522131 7.550000e-111 411.0
52 TraesCS5D01G223900 chr7A 81.505 465 58 18 2278 2725 169955142 169954689 9.970000e-95 357.0
53 TraesCS5D01G223900 chr7A 87.805 328 7 5 1819 2138 627230566 627230264 1.290000e-93 353.0
54 TraesCS5D01G223900 chr7A 82.597 385 43 12 2341 2712 628647705 628648078 4.710000e-83 318.0
55 TraesCS5D01G223900 chr7A 93.793 145 9 0 2782 2926 169953207 169953063 4.910000e-53 219.0
56 TraesCS5D01G223900 chr7A 83.920 199 14 8 2730 2926 594414524 594414706 1.080000e-39 174.0
57 TraesCS5D01G223900 chr7A 78.378 222 19 9 722 929 628390216 628390010 1.840000e-22 117.0
58 TraesCS5D01G223900 chr7A 100.000 41 0 0 871 911 628520566 628520606 3.130000e-10 76.8
59 TraesCS5D01G223900 chr7A 97.297 37 1 0 175 211 628520057 628520093 2.430000e-06 63.9
60 TraesCS5D01G223900 chr6B 87.814 837 68 12 936 1750 216631680 216632504 0.000000e+00 950.0
61 TraesCS5D01G223900 chr6B 80.838 501 59 19 2219 2691 216633218 216633709 2.770000e-95 359.0
62 TraesCS5D01G223900 chr2B 86.395 588 30 12 1593 2138 135466323 135466902 5.400000e-167 597.0
63 TraesCS5D01G223900 chr2B 86.325 585 30 16 1593 2135 182131328 182130752 2.510000e-165 592.0
64 TraesCS5D01G223900 chr6A 82.176 533 61 18 2219 2725 158243974 158243450 7.490000e-116 427.0
65 TraesCS5D01G223900 chr6A 86.243 189 13 4 875 1050 158246112 158245924 2.980000e-45 193.0
66 TraesCS5D01G223900 chrUn 86.170 376 35 8 2199 2557 479833329 479832954 9.830000e-105 390.0
67 TraesCS5D01G223900 chr3D 93.333 45 3 0 814 858 43727740 43727696 1.880000e-07 67.6
68 TraesCS5D01G223900 chr3B 93.333 45 3 0 814 858 68347143 68347099 1.880000e-07 67.6
69 TraesCS5D01G223900 chr3A 91.111 45 4 0 814 858 55501605 55501561 8.760000e-06 62.1


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 TraesCS5D01G223900 chr5D 331836840 331839765 2925 False 5404.000000 5404 100.000000 1 2926 1 chr5D.!!$F2 2925
1 TraesCS5D01G223900 chr5D 289354387 289355186 799 True 968.000000 968 88.684000 1010 1810 1 chr5D.!!$R1 800
2 TraesCS5D01G223900 chr1B 398899355 398900301 946 False 1029.000000 1029 87.223000 775 1667 1 chr1B.!!$F1 892
3 TraesCS5D01G223900 chr1B 426496070 426496880 810 True 950.000000 950 87.831000 988 1810 1 chr1B.!!$R2 822
4 TraesCS5D01G223900 chr1B 133123275 133124017 742 True 909.000000 909 89.023000 1010 1743 1 chr1B.!!$R1 733
5 TraesCS5D01G223900 chr1B 398838058 398841309 3251 True 908.333333 1642 89.101333 1 2924 3 chr1B.!!$R3 2923
6 TraesCS5D01G223900 chr6D 124607187 124609387 2200 True 855.500000 1491 87.213500 926 2914 2 chr6D.!!$R1 1988
7 TraesCS5D01G223900 chr6D 122987247 122991687 4440 False 352.150000 848 89.824750 1 2723 4 chr6D.!!$F2 2722
8 TraesCS5D01G223900 chr7D 545618285 545621638 3353 True 988.000000 1423 83.137000 926 2557 2 chr7D.!!$R2 1631
9 TraesCS5D01G223900 chr7D 545646162 545652127 5965 False 756.983333 1408 89.452167 1 2887 6 chr7D.!!$F2 2886
10 TraesCS5D01G223900 chr7B 589935008 589936612 1604 False 1323.000000 1323 82.484000 938 2516 1 chr7B.!!$F3 1578
11 TraesCS5D01G223900 chr7B 589735446 589739153 3707 False 701.666667 946 88.625667 1010 2926 3 chr7B.!!$F4 1916
12 TraesCS5D01G223900 chr7B 589699056 589701432 2376 True 693.225000 1332 89.876000 3 2479 4 chr7B.!!$R4 2476
13 TraesCS5D01G223900 chr7B 589921602 589923729 2127 False 322.000000 372 88.784000 1594 2926 2 chr7B.!!$F5 1332
14 TraesCS5D01G223900 chr7A 628491408 628492196 788 True 1013.000000 1013 89.851000 1017 1816 1 chr7A.!!$R2 799
15 TraesCS5D01G223900 chr7A 626990111 626992528 2417 True 861.500000 1227 86.436500 1015 2557 2 chr7A.!!$R4 1542
16 TraesCS5D01G223900 chr7A 628388692 628390216 1524 True 657.000000 1197 81.799500 722 2223 2 chr7A.!!$R6 1501
17 TraesCS5D01G223900 chr7A 628486414 628487196 782 True 566.000000 566 80.918000 1781 2557 1 chr7A.!!$R1 776
18 TraesCS5D01G223900 chr7A 627229649 627230566 917 True 466.000000 579 86.529500 1819 2557 2 chr7A.!!$R5 738
19 TraesCS5D01G223900 chr7A 628519680 628522131 2451 False 460.940000 896 90.616200 1 2557 5 chr7A.!!$F3 2556
20 TraesCS5D01G223900 chr7A 169953063 169957618 4555 True 333.666667 425 87.047667 1794 2926 3 chr7A.!!$R3 1132
21 TraesCS5D01G223900 chr6B 216631680 216633709 2029 False 654.500000 950 84.326000 936 2691 2 chr6B.!!$F1 1755
22 TraesCS5D01G223900 chr2B 135466323 135466902 579 False 597.000000 597 86.395000 1593 2138 1 chr2B.!!$F1 545
23 TraesCS5D01G223900 chr2B 182130752 182131328 576 True 592.000000 592 86.325000 1593 2135 1 chr2B.!!$R1 542
24 TraesCS5D01G223900 chr6A 158243450 158246112 2662 True 310.000000 427 84.209500 875 2725 2 chr6A.!!$R1 1850

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
637 704 0.581529 CGAAAAGTGCAACGAGCTCA 59.418 50.000 15.4 0.0 45.86 4.26 F
1648 3280 1.003116 GCATGGCGTTATCAAGCTCAG 60.003 52.381 0.0 0.0 0.00 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1667 3299 0.175760 GCTTGAGCATACTCCCGTCA 59.824 55.0 0.00 0.00 42.74 4.35 R
2814 10459 0.250597 AGAGCAAGTGCACATGAGCA 60.251 50.0 25.26 14.17 45.16 4.26 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
21 22 2.795329 TCAGGATGGCTCCAAAAACTC 58.205 47.619 5.90 0.00 44.79 3.01
22 23 2.108075 TCAGGATGGCTCCAAAAACTCA 59.892 45.455 5.90 0.00 44.79 3.41
173 189 3.636282 TTTTTCTGTTAAAGGGCGCTC 57.364 42.857 7.64 1.48 0.00 5.03
255 271 4.578928 GTCTGCACCAAAGAGAAGGTAAAA 59.421 41.667 0.00 0.00 36.07 1.52
263 279 6.321435 ACCAAAGAGAAGGTAAAACTTTGAGG 59.679 38.462 16.09 6.27 45.45 3.86
383 417 1.609208 ATGAGGGCGATTATTGTGGC 58.391 50.000 0.00 0.00 0.00 5.01
400 434 2.515523 CGGGCTTGGCATCTCAGG 60.516 66.667 0.00 0.00 0.00 3.86
509 549 5.474532 TGTGGTTTTCAGAGGAAGAATCATG 59.525 40.000 0.00 0.00 33.82 3.07
537 604 1.435408 GCAGCCGAGAGCCTCAAATC 61.435 60.000 0.00 0.00 45.47 2.17
637 704 0.581529 CGAAAAGTGCAACGAGCTCA 59.418 50.000 15.40 0.00 45.86 4.26
671 738 1.959085 CAGCGGCCAAATCACAAGT 59.041 52.632 2.24 0.00 0.00 3.16
816 2308 1.270094 TGTTTCAGCACGTAGAGGTGG 60.270 52.381 4.67 0.00 46.01 4.61
859 2351 5.278463 GCTGAAACAAGTTGGAAAGATAGCA 60.278 40.000 7.96 0.00 0.00 3.49
860 2352 6.072112 TGAAACAAGTTGGAAAGATAGCAC 57.928 37.500 7.96 0.00 0.00 4.40
861 2353 5.827797 TGAAACAAGTTGGAAAGATAGCACT 59.172 36.000 7.96 0.00 0.00 4.40
862 2354 5.948992 AACAAGTTGGAAAGATAGCACTC 57.051 39.130 7.96 0.00 0.00 3.51
865 2357 4.213564 AGTTGGAAAGATAGCACTCCTG 57.786 45.455 0.77 0.00 0.00 3.86
866 2358 3.054802 AGTTGGAAAGATAGCACTCCTGG 60.055 47.826 0.77 0.00 0.00 4.45
867 2359 2.551270 TGGAAAGATAGCACTCCTGGT 58.449 47.619 0.00 0.00 0.00 4.00
868 2360 2.912956 TGGAAAGATAGCACTCCTGGTT 59.087 45.455 0.00 0.00 0.00 3.67
869 2361 3.274288 GGAAAGATAGCACTCCTGGTTG 58.726 50.000 0.00 0.00 0.00 3.77
1193 2813 2.513897 CAAAGCGTCCCGGATCCC 60.514 66.667 0.73 0.00 0.00 3.85
1560 3192 2.310233 CGGACACGGTGCAGTTCAG 61.310 63.158 8.30 0.00 36.18 3.02
1648 3280 1.003116 GCATGGCGTTATCAAGCTCAG 60.003 52.381 0.00 0.00 0.00 3.35
1675 3307 1.519455 GATGGCTCGTTGACGGGAG 60.519 63.158 7.72 0.00 43.86 4.30
1770 4739 2.270352 CCTTGTTGGTCTTGGTGCTA 57.730 50.000 0.00 0.00 0.00 3.49
1771 4740 2.154462 CCTTGTTGGTCTTGGTGCTAG 58.846 52.381 0.00 0.00 0.00 3.42
1773 4742 2.543777 TGTTGGTCTTGGTGCTAGTC 57.456 50.000 0.00 0.00 0.00 2.59
1774 4743 2.047061 TGTTGGTCTTGGTGCTAGTCT 58.953 47.619 0.00 0.00 0.00 3.24
1775 4744 2.037251 TGTTGGTCTTGGTGCTAGTCTC 59.963 50.000 0.00 0.00 0.00 3.36
1776 4745 0.888619 TGGTCTTGGTGCTAGTCTCG 59.111 55.000 0.00 0.00 0.00 4.04
1883 4999 6.212888 AGTGAATTTGGCCATCAATTAGTC 57.787 37.500 14.10 4.79 34.98 2.59
1952 5113 7.707624 ATGTAAAAGCATTGGATCTCTTTCA 57.292 32.000 0.00 0.00 0.00 2.69
2142 7500 3.953712 TTACTTGTCGCATCAGGAAGA 57.046 42.857 0.00 0.00 0.00 2.87
2163 7616 2.801679 ACGCCAAAAAGCATGTTTCATG 59.198 40.909 0.00 5.49 0.00 3.07
2197 7656 5.530915 TGGTGTATATGCTATTTTGCTGGAC 59.469 40.000 0.00 0.00 0.00 4.02
2373 8174 3.107601 TGGATCCACTGAGTTAAGGGAG 58.892 50.000 11.44 0.00 0.00 4.30
2399 8245 9.599322 GTTACAATGTCTGAATTCAAACTACAG 57.401 33.333 12.92 3.72 0.00 2.74
2408 8254 5.183713 TGAATTCAAACTACAGGGCTTCATG 59.816 40.000 5.45 0.00 0.00 3.07
2420 8266 4.082081 CAGGGCTTCATGCAAAATCAACTA 60.082 41.667 0.00 0.00 45.15 2.24
2422 8268 5.188359 AGGGCTTCATGCAAAATCAACTAAT 59.812 36.000 0.00 0.00 45.15 1.73
2426 8272 7.975616 GGCTTCATGCAAAATCAACTAATCTAA 59.024 33.333 0.00 0.00 45.15 2.10
2553 8418 2.953466 CCATTTTGACATGCTGGGAG 57.047 50.000 0.00 0.00 0.00 4.30
2613 8684 1.480954 GTGGCACGGAGGAGAAGAATA 59.519 52.381 0.00 0.00 0.00 1.75
2615 8686 2.771943 TGGCACGGAGGAGAAGAATAAT 59.228 45.455 0.00 0.00 0.00 1.28
2617 8688 3.810386 GGCACGGAGGAGAAGAATAATTC 59.190 47.826 0.00 0.00 0.00 2.17
2663 8735 3.118811 ACCCATGGTTTTTATCCATTGCG 60.119 43.478 11.73 0.00 42.92 4.85
2698 8788 6.317789 TCAATACTTCAAAACTTCCAGCAG 57.682 37.500 0.00 0.00 0.00 4.24
2699 8789 6.061441 TCAATACTTCAAAACTTCCAGCAGA 58.939 36.000 0.00 0.00 0.00 4.26
2712 8804 5.879223 ACTTCCAGCAGAACATTCAGAATAG 59.121 40.000 0.00 0.00 0.00 1.73
2725 8817 1.269723 CAGAATAGTAGCCATCGCGGA 59.730 52.381 6.13 0.00 41.18 5.54
2726 8818 1.961394 AGAATAGTAGCCATCGCGGAA 59.039 47.619 6.13 0.00 41.18 4.30
2727 8819 2.563179 AGAATAGTAGCCATCGCGGAAT 59.437 45.455 6.13 0.00 41.18 3.01
2728 8820 3.006967 AGAATAGTAGCCATCGCGGAATT 59.993 43.478 6.13 0.00 41.18 2.17
2757 10381 6.432783 TCCAAGAGACTGTTGTTTTTCAGAAA 59.567 34.615 11.09 0.00 35.84 2.52
2799 10444 7.274033 ACAATGCAGAATTTGTTTGTCATATCG 59.726 33.333 0.00 0.00 33.07 2.92
2866 10513 3.004024 ACTGCTGCAATTTTCGTTCAG 57.996 42.857 3.02 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 4.589216 AACAAGGGTTCAACATGACATG 57.411 40.909 14.02 14.02 29.00 3.21
22 23 6.723298 TTAAACAAGGGTTCAACATGACAT 57.277 33.333 0.00 0.00 35.82 3.06
173 189 2.094675 CCCTCCACAATAACAGCAAGG 58.905 52.381 0.00 0.00 0.00 3.61
255 271 1.980765 TCTCATGGACTGCCTCAAAGT 59.019 47.619 0.00 0.00 34.31 2.66
263 279 2.746362 CCAAACTTCTCTCATGGACTGC 59.254 50.000 0.00 0.00 32.82 4.40
383 417 2.515523 CCTGAGATGCCAAGCCCG 60.516 66.667 0.00 0.00 0.00 6.13
400 434 2.691526 TCAATCTGCCTGCAAATGATCC 59.308 45.455 0.00 0.00 0.00 3.36
509 549 2.743928 CTCGGCTGCAGGTTCCAC 60.744 66.667 17.12 0.00 0.00 4.02
537 604 3.027412 TCAGAGGAAAGCTAGCAGTAGG 58.973 50.000 18.83 0.00 0.00 3.18
622 689 0.104855 TGAGTGAGCTCGTTGCACTT 59.895 50.000 9.64 0.00 44.48 3.16
671 738 3.376859 CAGTGCAACAGACACTTGGTTTA 59.623 43.478 0.00 0.00 46.01 2.01
816 2308 3.300590 CAGCAAGAAAACAACGACAACAC 59.699 43.478 0.00 0.00 0.00 3.32
861 2353 4.947147 AAAGCGCGGCAACCAGGA 62.947 61.111 8.83 0.00 0.00 3.86
862 2354 4.404654 GAAAGCGCGGCAACCAGG 62.405 66.667 8.83 0.00 0.00 4.45
865 2357 4.445545 CTCGAAAGCGCGGCAACC 62.446 66.667 8.83 0.00 37.46 3.77
1560 3192 2.354773 GATCGATCCACGGGTCGC 60.355 66.667 14.76 0.00 42.82 5.19
1667 3299 0.175760 GCTTGAGCATACTCCCGTCA 59.824 55.000 0.00 0.00 42.74 4.35
1675 3307 2.830772 TTTGCATCGCTTGAGCATAC 57.169 45.000 3.65 0.00 42.21 2.39
2142 7500 2.593346 TGAAACATGCTTTTTGGCGT 57.407 40.000 0.00 0.00 34.52 5.68
2163 7616 7.672983 ATAGCATATACACCAATTGTACAGC 57.327 36.000 4.43 0.00 43.71 4.40
2191 7650 4.697352 ACAACATATCTGTTCTTGTCCAGC 59.303 41.667 0.00 0.00 43.76 4.85
2197 7656 9.903682 AAAATTCAGACAACATATCTGTTCTTG 57.096 29.630 2.18 0.00 43.76 3.02
2373 8174 9.599322 CTGTAGTTTGAATTCAGACATTGTAAC 57.401 33.333 25.83 16.45 33.85 2.50
2399 8245 3.323751 AGTTGATTTTGCATGAAGCCC 57.676 42.857 0.00 0.00 44.83 5.19
2420 8266 6.325919 TGCCAACGTTTCTCATTTTAGATT 57.674 33.333 0.00 0.00 0.00 2.40
2422 8268 5.066634 TGTTGCCAACGTTTCTCATTTTAGA 59.933 36.000 0.00 0.00 0.00 2.10
2426 8272 3.791973 TGTTGCCAACGTTTCTCATTT 57.208 38.095 0.00 0.00 0.00 2.32
2453 8299 3.840666 AGAGGAGGAAGAACTGCAATACA 59.159 43.478 0.00 0.00 0.00 2.29
2553 8418 2.768527 TCTCCTCCTTGGTCATGTCATC 59.231 50.000 0.00 0.00 37.07 2.92
2592 8457 0.832135 TTCTTCTCCTCCGTGCCACT 60.832 55.000 0.00 0.00 0.00 4.00
2613 8684 6.384015 ACCCTTTCTCTTTTGTTCAAGGAATT 59.616 34.615 0.00 0.00 33.86 2.17
2615 8686 5.269189 ACCCTTTCTCTTTTGTTCAAGGAA 58.731 37.500 0.00 0.00 33.86 3.36
2617 8688 5.598416 AACCCTTTCTCTTTTGTTCAAGG 57.402 39.130 0.00 0.00 0.00 3.61
2698 8788 5.107298 GCGATGGCTACTATTCTGAATGTTC 60.107 44.000 13.01 3.42 35.83 3.18
2699 8789 4.752101 GCGATGGCTACTATTCTGAATGTT 59.248 41.667 13.01 2.44 35.83 2.71
2712 8804 1.014352 ACAAATTCCGCGATGGCTAC 58.986 50.000 8.23 0.00 37.80 3.58
2763 10388 7.833786 ACAAATTCTGCATTGTTGAGATGTAT 58.166 30.769 0.00 0.00 36.39 2.29
2799 10444 1.607801 GAGCATTTTGGTGCCCTCCC 61.608 60.000 0.00 0.00 46.19 4.30
2814 10459 0.250597 AGAGCAAGTGCACATGAGCA 60.251 50.000 25.26 14.17 45.16 4.26
2866 10513 5.221048 GGTCTGATATTGGCACCAATTGTAC 60.221 44.000 19.49 10.94 43.32 2.90


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

AutoCloner maintained by Alex Coulton.