Multiple sequence alignment - TraesCS6D01G106100

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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 TraesCS6D01G106100 chr6D 100.000 2615 0 0 1 2615 69271902 69269288 0.000000e+00 4830.0
1 TraesCS6D01G106100 chr6D 91.262 1030 65 11 832 1851 69299230 69298216 0.000000e+00 1380.0
2 TraesCS6D01G106100 chr6D 80.845 757 96 17 59 772 343136552 343137302 1.370000e-152 549.0
3 TraesCS6D01G106100 chr6D 80.779 411 62 10 1919 2315 69298033 69297626 3.270000e-79 305.0
4 TraesCS6D01G106100 chr6D 86.555 238 12 8 2318 2544 69296123 69295895 7.230000e-61 244.0
5 TraesCS6D01G106100 chr6A 90.415 1857 105 24 1 1845 87313228 87311433 0.000000e+00 2375.0
6 TraesCS6D01G106100 chr6A 91.318 956 56 11 832 1776 87497378 87496439 0.000000e+00 1280.0
7 TraesCS6D01G106100 chr6A 83.916 286 26 11 2232 2504 87311097 87310819 3.340000e-64 255.0
8 TraesCS6D01G106100 chr6B 91.991 1411 86 14 835 2229 144372427 144371028 0.000000e+00 1954.0
9 TraesCS6D01G106100 chr6B 84.667 300 19 9 2215 2493 144371007 144370714 9.220000e-70 274.0
10 TraesCS6D01G106100 chr6B 83.206 131 14 5 1995 2119 541949903 541949775 2.130000e-21 113.0
11 TraesCS6D01G106100 chr4D 85.052 669 74 13 104 751 450534106 450534769 0.000000e+00 658.0
12 TraesCS6D01G106100 chr4D 96.970 66 0 2 1 65 387617449 387617513 2.750000e-20 110.0
13 TraesCS6D01G106100 chr7B 81.399 629 97 11 68 681 200709485 200710108 1.810000e-136 496.0
14 TraesCS6D01G106100 chr7B 83.898 118 11 5 1993 2106 162140725 162140838 3.560000e-19 106.0
15 TraesCS6D01G106100 chr7D 81.202 649 85 16 77 692 483874851 483875495 3.020000e-134 488.0
16 TraesCS6D01G106100 chr2B 80.518 657 105 12 56 696 772231152 772231801 1.410000e-132 483.0
17 TraesCS6D01G106100 chr2B 84.685 111 15 1 2018 2126 361573982 361574092 2.750000e-20 110.0
18 TraesCS6D01G106100 chr2B 89.873 79 6 2 3 80 362717356 362717279 1.660000e-17 100.0
19 TraesCS6D01G106100 chr2B 90.323 62 6 0 1919 1980 479014048 479013987 6.000000e-12 82.4
20 TraesCS6D01G106100 chr3B 80.894 649 84 20 56 670 425370874 425371516 2.350000e-130 475.0
21 TraesCS6D01G106100 chr3B 90.323 62 5 1 1917 1978 40239395 40239335 2.160000e-11 80.5
22 TraesCS6D01G106100 chr2A 82.642 530 78 9 56 573 733449632 733449105 8.530000e-125 457.0
23 TraesCS6D01G106100 chr2A 84.017 463 59 8 56 506 430599138 430599597 5.170000e-117 431.0
24 TraesCS6D01G106100 chr2D 78.788 693 116 19 65 740 53125451 53124773 1.110000e-118 436.0
25 TraesCS6D01G106100 chr2D 79.968 619 95 15 56 661 398470125 398470727 1.860000e-116 429.0
26 TraesCS6D01G106100 chr2D 91.892 74 4 2 1 74 132141318 132141247 4.600000e-18 102.0
27 TraesCS6D01G106100 chr2D 91.892 74 2 2 3 75 571011929 571011859 1.660000e-17 100.0
28 TraesCS6D01G106100 chr2D 81.102 127 22 1 1996 2120 639634034 639633908 1.660000e-17 100.0
29 TraesCS6D01G106100 chr2D 92.857 70 2 3 1 70 296471427 296471493 5.960000e-17 99.0
30 TraesCS6D01G106100 chr2D 90.323 62 6 0 1919 1980 54175880 54175819 6.000000e-12 82.4
31 TraesCS6D01G106100 chr2D 89.831 59 6 0 1919 1977 601173734 601173792 2.790000e-10 76.8
32 TraesCS6D01G106100 chr5D 85.372 417 50 8 56 465 532821264 532821676 3.110000e-114 422.0
33 TraesCS6D01G106100 chr5D 83.193 119 18 1 1995 2111 346639788 346639906 9.900000e-20 108.0
34 TraesCS6D01G106100 chr1B 77.730 696 117 21 56 736 673629474 673628802 2.440000e-105 392.0
35 TraesCS6D01G106100 chr1B 75.155 483 102 13 1122 1595 631235841 631235368 7.330000e-51 211.0
36 TraesCS6D01G106100 chr1B 90.164 61 5 1 1919 1979 328643771 328643712 7.760000e-11 78.7
37 TraesCS6D01G106100 chr1D 82.836 268 42 2 509 773 203458912 203459178 1.210000e-58 237.0
38 TraesCS6D01G106100 chr1D 95.588 68 3 0 1 68 303113819 303113752 2.750000e-20 110.0
39 TraesCS6D01G106100 chr1D 93.103 58 3 1 1921 1978 248986223 248986167 1.670000e-12 84.2
40 TraesCS6D01G106100 chr1A 75.523 478 93 19 1122 1587 551493921 551493456 2.040000e-51 213.0
41 TraesCS6D01G106100 chr1A 80.469 128 11 7 1854 1979 297698381 297698266 4.640000e-13 86.1
42 TraesCS6D01G106100 chr1A 90.164 61 4 2 1919 1978 394878124 394878183 7.760000e-11 78.7
43 TraesCS6D01G106100 chr5B 85.915 142 16 3 1995 2132 448126284 448126425 5.830000e-32 148.0
44 TraesCS6D01G106100 chr3D 86.822 129 13 3 1995 2120 85449387 85449514 9.760000e-30 141.0
45 TraesCS6D01G106100 chr7A 85.385 130 14 3 1995 2120 543778164 543778292 2.110000e-26 130.0
46 TraesCS6D01G106100 chr4B 93.056 72 4 1 1 72 446177207 446177277 1.280000e-18 104.0
47 TraesCS6D01G106100 chr3A 94.118 68 4 0 3 70 409052627 409052560 1.280000e-18 104.0


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 TraesCS6D01G106100 chr6D 69269288 69271902 2614 True 4830 4830 100.000000 1 2615 1 chr6D.!!$R1 2614
1 TraesCS6D01G106100 chr6D 69295895 69299230 3335 True 643 1380 86.198667 832 2544 3 chr6D.!!$R2 1712
2 TraesCS6D01G106100 chr6D 343136552 343137302 750 False 549 549 80.845000 59 772 1 chr6D.!!$F1 713
3 TraesCS6D01G106100 chr6A 87310819 87313228 2409 True 1315 2375 87.165500 1 2504 2 chr6A.!!$R2 2503
4 TraesCS6D01G106100 chr6A 87496439 87497378 939 True 1280 1280 91.318000 832 1776 1 chr6A.!!$R1 944
5 TraesCS6D01G106100 chr6B 144370714 144372427 1713 True 1114 1954 88.329000 835 2493 2 chr6B.!!$R2 1658
6 TraesCS6D01G106100 chr4D 450534106 450534769 663 False 658 658 85.052000 104 751 1 chr4D.!!$F2 647
7 TraesCS6D01G106100 chr7B 200709485 200710108 623 False 496 496 81.399000 68 681 1 chr7B.!!$F2 613
8 TraesCS6D01G106100 chr7D 483874851 483875495 644 False 488 488 81.202000 77 692 1 chr7D.!!$F1 615
9 TraesCS6D01G106100 chr2B 772231152 772231801 649 False 483 483 80.518000 56 696 1 chr2B.!!$F2 640
10 TraesCS6D01G106100 chr3B 425370874 425371516 642 False 475 475 80.894000 56 670 1 chr3B.!!$F1 614
11 TraesCS6D01G106100 chr2A 733449105 733449632 527 True 457 457 82.642000 56 573 1 chr2A.!!$R1 517
12 TraesCS6D01G106100 chr2D 53124773 53125451 678 True 436 436 78.788000 65 740 1 chr2D.!!$R1 675
13 TraesCS6D01G106100 chr2D 398470125 398470727 602 False 429 429 79.968000 56 661 1 chr2D.!!$F2 605
14 TraesCS6D01G106100 chr1B 673628802 673629474 672 True 392 392 77.730000 56 736 1 chr1B.!!$R3 680

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
498 567 0.104304 GACGGATGTTACGGAGGCAT 59.896 55.0 0.0 0.0 35.23 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2326 4126 1.064003 TTTCTGGCAAGAGGGCTGTA 58.936 50.0 0.0 0.0 43.83 2.74 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
61 62 2.962253 GGCGACGTATCAGCAGGC 60.962 66.667 0.00 0.00 0.00 4.85
498 567 0.104304 GACGGATGTTACGGAGGCAT 59.896 55.000 0.00 0.00 35.23 4.40
536 608 6.530019 AGTTTCAGTTCTTTTGGTTCATGT 57.470 33.333 0.00 0.00 0.00 3.21
554 626 2.438434 CCGGACATGGGGAACAGC 60.438 66.667 0.00 0.00 0.00 4.40
626 719 7.247728 TGTAAATGTAATGAAATCCGTCAAGC 58.752 34.615 0.00 0.00 0.00 4.01
628 721 5.741388 ATGTAATGAAATCCGTCAAGCTC 57.259 39.130 0.00 0.00 0.00 4.09
642 737 4.796830 CGTCAAGCTCAAATGAAATCCATG 59.203 41.667 0.00 0.00 35.24 3.66
674 769 4.958509 TGAAATCCGGCCGTGTTTATATA 58.041 39.130 26.12 8.77 0.00 0.86
757 855 2.568696 AGTGTCGGATGTCATCTTCG 57.431 50.000 12.54 8.68 0.00 3.79
768 866 1.018910 TCATCTTCGTCGCATCCGTA 58.981 50.000 0.00 0.00 35.54 4.02
777 875 2.585869 CGCATCCGTATCCGTGCAC 61.586 63.158 6.82 6.82 36.26 4.57
779 877 1.490693 GCATCCGTATCCGTGCACTG 61.491 60.000 16.19 8.86 36.44 3.66
784 882 1.202417 CCGTATCCGTGCACTGATCTT 60.202 52.381 24.69 7.48 0.00 2.40
787 885 2.306341 ATCCGTGCACTGATCTTCTG 57.694 50.000 17.04 0.00 0.00 3.02
789 887 1.073964 CCGTGCACTGATCTTCTGTG 58.926 55.000 16.19 9.40 45.44 3.66
816 914 6.321181 ACATACGGATGCAGGTGAAAATTTAT 59.679 34.615 7.78 0.00 36.43 1.40
847 945 1.804748 GCCCTAAGAACAAAGACCACG 59.195 52.381 0.00 0.00 0.00 4.94
851 953 3.988517 CCTAAGAACAAAGACCACGACTC 59.011 47.826 0.00 0.00 0.00 3.36
852 954 2.135664 AGAACAAAGACCACGACTCG 57.864 50.000 0.00 0.00 0.00 4.18
853 955 1.137513 GAACAAAGACCACGACTCGG 58.862 55.000 2.98 0.00 0.00 4.63
855 957 0.249322 ACAAAGACCACGACTCGGTG 60.249 55.000 2.98 0.00 36.69 4.94
857 959 1.001048 CAAAGACCACGACTCGGTGTA 60.001 52.381 2.98 0.00 36.69 2.90
858 960 0.595095 AAGACCACGACTCGGTGTAC 59.405 55.000 2.98 0.00 36.69 2.90
908 1011 6.479990 CACTCAGACTCACAGTTCAAATTACA 59.520 38.462 0.00 0.00 0.00 2.41
931 1034 0.963856 TCAATGCCAGCAAGCTCCAG 60.964 55.000 0.00 0.00 0.00 3.86
1344 1456 4.760047 CACGGCCCCAGGAAGACG 62.760 72.222 0.00 3.24 0.00 4.18
1387 1499 2.361357 AGGAGAGCGGCTACGTGT 60.361 61.111 0.60 0.00 43.45 4.49
1814 1937 4.584638 TTACATGTGCTATGTTTCCCCT 57.415 40.909 9.11 0.00 33.76 4.79
1815 1938 3.456380 ACATGTGCTATGTTTCCCCTT 57.544 42.857 0.00 0.00 0.00 3.95
1816 1939 3.778265 ACATGTGCTATGTTTCCCCTTT 58.222 40.909 0.00 0.00 0.00 3.11
1860 2111 1.860240 AGCTAGATGGTAGTCCCTCCA 59.140 52.381 0.00 0.00 38.14 3.86
2198 2457 7.654022 TTTCTGGTATAATGGGTCAAATTCC 57.346 36.000 0.00 0.00 0.00 3.01
2201 2460 4.884744 TGGTATAATGGGTCAAATTCCACG 59.115 41.667 0.00 0.00 35.67 4.94
2222 2481 6.465781 CCACGAAGTTTGACATCGAATAAATG 59.534 38.462 11.90 0.25 41.25 2.32
2342 4142 1.137872 CTAGTACAGCCCTCTTGCCAG 59.862 57.143 0.00 0.00 0.00 4.85
2394 4204 4.148871 CACTGTTCGTGTCAGACATGTTAG 59.851 45.833 20.19 17.57 38.84 2.34
2395 4205 4.037565 ACTGTTCGTGTCAGACATGTTAGA 59.962 41.667 20.19 9.18 36.53 2.10
2396 4206 4.939271 TGTTCGTGTCAGACATGTTAGAA 58.061 39.130 20.19 11.72 36.53 2.10
2397 4207 4.743151 TGTTCGTGTCAGACATGTTAGAAC 59.257 41.667 20.19 20.14 36.53 3.01
2398 4208 3.561503 TCGTGTCAGACATGTTAGAACG 58.438 45.455 20.19 10.43 36.53 3.95
2514 4335 0.112606 TGGCCAACCCAACCGATTTA 59.887 50.000 0.61 0.00 41.82 1.40
2544 4365 3.652018 GTTTCGCCGAAACTACAGC 57.348 52.632 29.79 7.56 45.65 4.40
2545 4366 0.165295 GTTTCGCCGAAACTACAGCC 59.835 55.000 29.79 6.88 45.65 4.85
2546 4367 0.952010 TTTCGCCGAAACTACAGCCC 60.952 55.000 8.43 0.00 0.00 5.19
2547 4368 3.186047 CGCCGAAACTACAGCCCG 61.186 66.667 0.00 0.00 0.00 6.13
2548 4369 3.497031 GCCGAAACTACAGCCCGC 61.497 66.667 0.00 0.00 0.00 6.13
2549 4370 3.186047 CCGAAACTACAGCCCGCG 61.186 66.667 0.00 0.00 0.00 6.46
2550 4371 2.431942 CGAAACTACAGCCCGCGT 60.432 61.111 4.92 0.00 0.00 6.01
2551 4372 2.442188 CGAAACTACAGCCCGCGTC 61.442 63.158 4.92 0.00 0.00 5.19
2552 4373 1.080025 GAAACTACAGCCCGCGTCT 60.080 57.895 4.92 0.00 0.00 4.18
2553 4374 1.352156 GAAACTACAGCCCGCGTCTG 61.352 60.000 19.76 19.76 37.56 3.51
2554 4375 2.095978 AAACTACAGCCCGCGTCTGT 62.096 55.000 26.67 26.67 45.71 3.41
2555 4376 2.202623 CTACAGCCCGCGTCTGTC 60.203 66.667 27.09 3.79 43.13 3.51
2556 4377 3.701604 CTACAGCCCGCGTCTGTCC 62.702 68.421 27.09 1.42 43.13 4.02
2558 4379 4.457496 CAGCCCGCGTCTGTCCAT 62.457 66.667 14.99 0.00 0.00 3.41
2559 4380 2.758327 AGCCCGCGTCTGTCCATA 60.758 61.111 4.92 0.00 0.00 2.74
2560 4381 2.585247 GCCCGCGTCTGTCCATAC 60.585 66.667 4.92 0.00 0.00 2.39
2561 4382 3.077519 GCCCGCGTCTGTCCATACT 62.078 63.158 4.92 0.00 0.00 2.12
2562 4383 1.226974 CCCGCGTCTGTCCATACTG 60.227 63.158 4.92 0.00 0.00 2.74
2563 4384 1.226974 CCGCGTCTGTCCATACTGG 60.227 63.158 4.92 0.00 39.43 4.00
2564 4385 1.878522 CGCGTCTGTCCATACTGGC 60.879 63.158 0.00 0.00 37.47 4.85
2565 4386 1.521681 GCGTCTGTCCATACTGGCC 60.522 63.158 0.00 0.00 37.47 5.36
2566 4387 1.144057 CGTCTGTCCATACTGGCCC 59.856 63.158 0.00 0.00 37.47 5.80
2567 4388 1.144057 GTCTGTCCATACTGGCCCG 59.856 63.158 0.00 0.00 37.47 6.13
2568 4389 2.203070 CTGTCCATACTGGCCCGC 60.203 66.667 0.00 0.00 37.47 6.13
2569 4390 3.006133 TGTCCATACTGGCCCGCA 61.006 61.111 0.00 0.00 37.47 5.69
2570 4391 2.203070 GTCCATACTGGCCCGCAG 60.203 66.667 0.00 0.00 37.47 5.18
2571 4392 4.175337 TCCATACTGGCCCGCAGC 62.175 66.667 0.00 0.00 37.47 5.25
2592 4413 2.805353 CGTCTTCGCCCACAGTCG 60.805 66.667 0.00 0.00 0.00 4.18
2593 4414 2.338984 GTCTTCGCCCACAGTCGT 59.661 61.111 0.00 0.00 0.00 4.34
2594 4415 1.300697 GTCTTCGCCCACAGTCGTT 60.301 57.895 0.00 0.00 0.00 3.85
2595 4416 1.300620 TCTTCGCCCACAGTCGTTG 60.301 57.895 0.00 0.00 0.00 4.10
2596 4417 1.594293 CTTCGCCCACAGTCGTTGT 60.594 57.895 0.00 0.00 41.94 3.32
2597 4418 1.153329 TTCGCCCACAGTCGTTGTT 60.153 52.632 0.00 0.00 38.16 2.83
2598 4419 0.745128 TTCGCCCACAGTCGTTGTTT 60.745 50.000 0.00 0.00 38.16 2.83
2599 4420 0.745128 TCGCCCACAGTCGTTGTTTT 60.745 50.000 0.00 0.00 38.16 2.43
2600 4421 0.099791 CGCCCACAGTCGTTGTTTTT 59.900 50.000 0.00 0.00 38.16 1.94
2601 4422 1.835121 GCCCACAGTCGTTGTTTTTC 58.165 50.000 0.00 0.00 38.16 2.29
2602 4423 1.133407 GCCCACAGTCGTTGTTTTTCA 59.867 47.619 0.00 0.00 38.16 2.69
2603 4424 2.223711 GCCCACAGTCGTTGTTTTTCAT 60.224 45.455 0.00 0.00 38.16 2.57
2604 4425 3.736740 GCCCACAGTCGTTGTTTTTCATT 60.737 43.478 0.00 0.00 38.16 2.57
2605 4426 4.429108 CCCACAGTCGTTGTTTTTCATTT 58.571 39.130 0.00 0.00 38.16 2.32
2606 4427 4.867608 CCCACAGTCGTTGTTTTTCATTTT 59.132 37.500 0.00 0.00 38.16 1.82
2607 4428 5.350091 CCCACAGTCGTTGTTTTTCATTTTT 59.650 36.000 0.00 0.00 38.16 1.94
2608 4429 6.454981 CCCACAGTCGTTGTTTTTCATTTTTC 60.455 38.462 0.00 0.00 38.16 2.29
2609 4430 6.454981 CCACAGTCGTTGTTTTTCATTTTTCC 60.455 38.462 0.00 0.00 38.16 3.13
2610 4431 6.310224 CACAGTCGTTGTTTTTCATTTTTCCT 59.690 34.615 0.00 0.00 38.16 3.36
2611 4432 6.310224 ACAGTCGTTGTTTTTCATTTTTCCTG 59.690 34.615 0.00 0.00 36.31 3.86
2612 4433 6.310224 CAGTCGTTGTTTTTCATTTTTCCTGT 59.690 34.615 0.00 0.00 0.00 4.00
2613 4434 6.310224 AGTCGTTGTTTTTCATTTTTCCTGTG 59.690 34.615 0.00 0.00 0.00 3.66
2614 4435 5.578727 TCGTTGTTTTTCATTTTTCCTGTGG 59.421 36.000 0.00 0.00 0.00 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 1.878522 GTGGCCTGCTGATACGTCG 60.879 63.158 3.32 0.00 0.00 5.12
97 99 4.504916 CGCCTCCTGCTCAGTCGG 62.505 72.222 0.00 0.00 38.05 4.79
100 102 4.079850 CAGCGCCTCCTGCTCAGT 62.080 66.667 2.29 0.00 41.72 3.41
498 567 2.224426 TGAAACTTCGCCTTTCCAGCTA 60.224 45.455 0.00 0.00 0.00 3.32
536 608 2.966732 GCTGTTCCCCATGTCCGGA 61.967 63.158 0.00 0.00 0.00 5.14
554 626 1.140161 TCTAAATGGTCGTCGGCGG 59.860 57.895 10.62 0.00 38.89 6.13
642 737 4.454504 ACGGCCGGATTTCATATAAACATC 59.545 41.667 31.76 0.00 0.00 3.06
674 769 9.500785 AAATTCAATTAAACATGACCGGATTTT 57.499 25.926 9.46 2.05 0.00 1.82
768 866 1.552337 ACAGAAGATCAGTGCACGGAT 59.448 47.619 29.02 29.02 33.56 4.18
777 875 2.862536 CCGTATGTGCACAGAAGATCAG 59.137 50.000 25.71 7.81 0.00 2.90
779 877 3.165058 TCCGTATGTGCACAGAAGATC 57.835 47.619 25.71 9.10 0.00 2.75
784 882 0.248843 TGCATCCGTATGTGCACAGA 59.751 50.000 25.84 18.94 45.60 3.41
787 885 0.744414 ACCTGCATCCGTATGTGCAC 60.744 55.000 10.75 10.75 45.60 4.57
789 887 0.461870 TCACCTGCATCCGTATGTGC 60.462 55.000 0.00 0.00 41.61 4.57
794 892 5.067153 CCATAAATTTTCACCTGCATCCGTA 59.933 40.000 0.00 0.00 0.00 4.02
847 945 0.169894 GGAGGAACGTACACCGAGTC 59.830 60.000 0.00 0.00 40.70 3.36
851 953 1.214589 CTGGGAGGAACGTACACCG 59.785 63.158 0.00 0.00 44.03 4.94
852 954 0.245813 GACTGGGAGGAACGTACACC 59.754 60.000 0.00 0.00 0.00 4.16
853 955 0.245813 GGACTGGGAGGAACGTACAC 59.754 60.000 0.00 0.00 0.00 2.90
855 957 1.192428 ATGGACTGGGAGGAACGTAC 58.808 55.000 0.00 0.00 0.00 3.67
857 959 1.831736 CTTATGGACTGGGAGGAACGT 59.168 52.381 0.00 0.00 0.00 3.99
858 960 1.831736 ACTTATGGACTGGGAGGAACG 59.168 52.381 0.00 0.00 0.00 3.95
908 1011 1.271656 GAGCTTGCTGGCATTGACTTT 59.728 47.619 0.00 0.00 34.17 2.66
1740 1857 9.238368 ACCATCGAAAATCTTTTTACATAAGGA 57.762 29.630 0.00 0.00 0.00 3.36
1816 1939 5.843673 TTCACATCTTGTAGCCACAAAAA 57.156 34.783 0.00 0.00 43.92 1.94
1823 1946 6.090483 TCTAGCTATTCACATCTTGTAGCC 57.910 41.667 0.00 0.00 38.76 3.93
1908 2161 6.486253 TCACTCATTTCAGTATTTCAGTGC 57.514 37.500 0.00 0.00 31.87 4.40
1909 2162 7.864686 TGTTCACTCATTTCAGTATTTCAGTG 58.135 34.615 0.00 0.00 32.87 3.66
1985 2239 7.875554 TGTGCAGAACATCTTATAGTGTTTGTA 59.124 33.333 0.00 0.00 38.57 2.41
2060 2317 7.124147 TCCAGAATCGAATGTATATAGGCATGA 59.876 37.037 0.00 0.00 0.00 3.07
2198 2457 7.015289 ACATTTATTCGATGTCAAACTTCGTG 58.985 34.615 12.98 7.27 43.49 4.35
2201 2460 9.820229 TGTTACATTTATTCGATGTCAAACTTC 57.180 29.630 0.00 0.00 38.58 3.01
2326 4126 1.064003 TTTCTGGCAAGAGGGCTGTA 58.936 50.000 0.00 0.00 43.83 2.74
2416 4226 6.743575 AGAAGTCATTCGGTTCCAAATTAG 57.256 37.500 0.00 0.00 40.58 1.73
2432 4243 5.869579 AGCTGGTGATAAAGAAAGAAGTCA 58.130 37.500 0.00 0.00 0.00 3.41
2514 4335 4.025401 CGAAACCTGCGCGCCTTT 62.025 61.111 30.77 22.04 0.00 3.11
2533 4354 2.431942 ACGCGGGCTGTAGTTTCG 60.432 61.111 12.47 0.00 0.00 3.46
2544 4365 1.226974 CAGTATGGACAGACGCGGG 60.227 63.158 12.47 1.38 0.00 6.13
2545 4366 4.402192 CAGTATGGACAGACGCGG 57.598 61.111 12.47 0.00 0.00 6.46
2575 4396 2.805353 CGACTGTGGGCGAAGACG 60.805 66.667 0.00 0.00 33.41 4.18
2576 4397 1.300697 AACGACTGTGGGCGAAGAC 60.301 57.895 0.00 0.00 0.00 3.01
2577 4398 1.300620 CAACGACTGTGGGCGAAGA 60.301 57.895 0.00 0.00 0.00 2.87
2578 4399 1.157870 AACAACGACTGTGGGCGAAG 61.158 55.000 0.00 0.00 38.67 3.79
2579 4400 0.745128 AAACAACGACTGTGGGCGAA 60.745 50.000 0.00 0.00 38.67 4.70
2580 4401 0.745128 AAAACAACGACTGTGGGCGA 60.745 50.000 0.00 0.00 38.67 5.54
2581 4402 0.099791 AAAAACAACGACTGTGGGCG 59.900 50.000 0.00 0.00 38.67 6.13
2582 4403 1.133407 TGAAAAACAACGACTGTGGGC 59.867 47.619 0.00 0.00 38.67 5.36
2583 4404 3.708563 ATGAAAAACAACGACTGTGGG 57.291 42.857 0.00 0.00 38.67 4.61
2584 4405 6.401955 AAAAATGAAAAACAACGACTGTGG 57.598 33.333 0.00 0.00 38.67 4.17
2585 4406 6.310224 AGGAAAAATGAAAAACAACGACTGTG 59.690 34.615 0.00 0.00 38.67 3.66
2586 4407 6.310224 CAGGAAAAATGAAAAACAACGACTGT 59.690 34.615 0.00 0.00 41.27 3.55
2587 4408 6.310224 ACAGGAAAAATGAAAAACAACGACTG 59.690 34.615 0.00 0.00 0.00 3.51
2588 4409 6.310224 CACAGGAAAAATGAAAAACAACGACT 59.690 34.615 0.00 0.00 0.00 4.18
2589 4410 6.454981 CCACAGGAAAAATGAAAAACAACGAC 60.455 38.462 0.00 0.00 0.00 4.34
2590 4411 5.578727 CCACAGGAAAAATGAAAAACAACGA 59.421 36.000 0.00 0.00 0.00 3.85
2591 4412 5.794720 CCACAGGAAAAATGAAAAACAACG 58.205 37.500 0.00 0.00 0.00 4.10


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

AutoCloner maintained by Alex Coulton.