Multiple sequence alignment - TraesCS2A01G232100

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 TraesCS2A01G232100 chr2A 100.000 2252 0 0 1 2252 275353616 275351365 0.000000e+00 4159.0
1 TraesCS2A01G232100 chr2A 90.030 1314 92 17 950 2252 275334464 275333179 0.000000e+00 1664.0
2 TraesCS2A01G232100 chr2A 82.768 1445 186 46 18 1422 661855866 661854445 0.000000e+00 1230.0
3 TraesCS2A01G232100 chr2A 91.853 761 60 2 1 759 275335223 275334463 0.000000e+00 1061.0
4 TraesCS2A01G232100 chr2A 92.219 694 34 12 1571 2249 275331688 275331000 0.000000e+00 965.0
5 TraesCS2A01G232100 chr2A 93.519 432 20 8 1826 2252 346465068 346464640 8.770000e-179 636.0
6 TraesCS2A01G232100 chr2A 93.473 429 20 4 1826 2252 346470618 346470196 4.080000e-177 630.0
7 TraesCS2A01G232100 chr2A 90.213 470 33 10 1794 2252 180506949 180507416 3.200000e-168 601.0
8 TraesCS2A01G232100 chr2A 91.453 117 8 2 1308 1422 661846645 661846529 2.320000e-35 159.0
9 TraesCS2A01G232100 chr5A 89.648 1449 127 7 1 1446 304711785 304713213 0.000000e+00 1823.0
10 TraesCS2A01G232100 chr5A 87.130 1453 158 25 1 1446 108743436 108744866 0.000000e+00 1620.0
11 TraesCS2A01G232100 chr5A 87.705 976 94 20 398 1353 36042205 36041236 0.000000e+00 1114.0
12 TraesCS2A01G232100 chr5A 84.706 170 25 1 1458 1627 505855264 505855432 3.850000e-38 169.0
13 TraesCS2A01G232100 chr4A 82.703 1480 199 48 3 1445 685919218 685920677 0.000000e+00 1262.0
14 TraesCS2A01G232100 chr4A 89.860 927 89 4 521 1444 685935377 685936301 0.000000e+00 1186.0
15 TraesCS2A01G232100 chr4A 90.298 907 84 4 521 1423 490560337 490559431 0.000000e+00 1184.0
16 TraesCS2A01G232100 chr4A 87.045 687 74 12 1 682 414096485 414095809 0.000000e+00 761.0
17 TraesCS2A01G232100 chr4A 92.130 432 26 7 1826 2252 342094432 342094860 8.900000e-169 603.0
18 TraesCS2A01G232100 chr4A 91.898 432 27 7 1826 2252 342073236 342073664 4.140000e-167 597.0
19 TraesCS2A01G232100 chr4A 83.042 572 70 22 1 563 537726193 537726746 5.590000e-136 494.0
20 TraesCS2A01G232100 chr4A 100.000 35 0 0 1590 1624 353090748 353090782 5.190000e-07 65.8
21 TraesCS2A01G232100 chr7A 90.920 837 69 5 521 1353 394888129 394887296 0.000000e+00 1118.0
22 TraesCS2A01G232100 chr7A 90.856 514 39 8 1 509 273330680 273331190 0.000000e+00 682.0
23 TraesCS2A01G232100 chr7A 94.664 431 16 4 1826 2252 335285143 335284716 0.000000e+00 662.0
24 TraesCS2A01G232100 chr7A 92.974 427 26 3 1828 2252 335277448 335277024 8.840000e-174 619.0
25 TraesCS2A01G232100 chr7A 83.146 712 84 19 1 680 277308053 277308760 3.180000e-173 617.0
26 TraesCS2A01G232100 chr7A 83.006 712 85 20 1 680 277288337 277289044 1.480000e-171 612.0
27 TraesCS2A01G232100 chr7A 81.462 561 74 23 16 563 190563965 190563422 1.240000e-117 433.0
28 TraesCS2A01G232100 chr7A 89.571 163 16 1 1292 1454 391579997 391580158 2.930000e-49 206.0
29 TraesCS2A01G232100 chr7A 84.524 168 19 2 1458 1624 107956123 107956284 2.320000e-35 159.0
30 TraesCS2A01G232100 chr1A 91.581 677 54 3 6 680 209588741 209589416 0.000000e+00 931.0
31 TraesCS2A01G232100 chr1A 81.818 583 81 22 1 570 400730088 400730658 1.220000e-127 466.0
32 TraesCS2A01G232100 chr1A 85.561 187 24 3 1438 1624 447939950 447940133 2.280000e-45 193.0
33 TraesCS2A01G232100 chr1A 84.817 191 26 2 1437 1627 207903948 207903761 2.950000e-44 189.0
34 TraesCS2A01G232100 chr1A 84.574 188 26 3 1437 1624 447932203 447932387 1.370000e-42 183.0
35 TraesCS2A01G232100 chr1A 83.598 189 27 3 1437 1624 236882034 236882219 8.270000e-40 174.0
36 TraesCS2A01G232100 chr1A 93.846 65 3 1 1761 1824 424631709 424631773 1.840000e-16 97.1
37 TraesCS2A01G232100 chr1A 86.420 81 10 1 1610 1689 247877635 247877555 1.110000e-13 87.9
38 TraesCS2A01G232100 chr1A 91.071 56 5 0 1634 1689 247865665 247865610 2.400000e-10 76.8
39 TraesCS2A01G232100 chr3A 86.667 555 60 14 6 551 631681393 631680844 8.900000e-169 603.0
40 TraesCS2A01G232100 chr3A 83.951 81 12 1 1610 1689 396592030 396591950 2.400000e-10 76.8
41 TraesCS2A01G232100 chr3D 86.606 545 55 15 1 534 405796326 405796863 8.960000e-164 586.0
42 TraesCS2A01G232100 chr4B 85.470 117 15 2 1443 1558 345642157 345642042 1.090000e-23 121.0
43 TraesCS2A01G232100 chr1B 84.000 125 19 1 1458 1582 99860280 99860403 3.930000e-23 119.0
44 TraesCS2A01G232100 chr6A 85.294 68 7 2 1794 1858 462751180 462751113 1.440000e-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 TraesCS2A01G232100 chr2A 275351365 275353616 2251 True 4159 4159 100.000000 1 2252 1 chr2A.!!$R1 2251
1 TraesCS2A01G232100 chr2A 275331000 275335223 4223 True 1230 1664 91.367333 1 2252 3 chr2A.!!$R6 2251
2 TraesCS2A01G232100 chr2A 661854445 661855866 1421 True 1230 1230 82.768000 18 1422 1 chr2A.!!$R5 1404
3 TraesCS2A01G232100 chr5A 304711785 304713213 1428 False 1823 1823 89.648000 1 1446 1 chr5A.!!$F2 1445
4 TraesCS2A01G232100 chr5A 108743436 108744866 1430 False 1620 1620 87.130000 1 1446 1 chr5A.!!$F1 1445
5 TraesCS2A01G232100 chr5A 36041236 36042205 969 True 1114 1114 87.705000 398 1353 1 chr5A.!!$R1 955
6 TraesCS2A01G232100 chr4A 685919218 685920677 1459 False 1262 1262 82.703000 3 1445 1 chr4A.!!$F5 1442
7 TraesCS2A01G232100 chr4A 685935377 685936301 924 False 1186 1186 89.860000 521 1444 1 chr4A.!!$F6 923
8 TraesCS2A01G232100 chr4A 490559431 490560337 906 True 1184 1184 90.298000 521 1423 1 chr4A.!!$R2 902
9 TraesCS2A01G232100 chr4A 414095809 414096485 676 True 761 761 87.045000 1 682 1 chr4A.!!$R1 681
10 TraesCS2A01G232100 chr4A 537726193 537726746 553 False 494 494 83.042000 1 563 1 chr4A.!!$F4 562
11 TraesCS2A01G232100 chr7A 394887296 394888129 833 True 1118 1118 90.920000 521 1353 1 chr7A.!!$R4 832
12 TraesCS2A01G232100 chr7A 273330680 273331190 510 False 682 682 90.856000 1 509 1 chr7A.!!$F2 508
13 TraesCS2A01G232100 chr7A 277308053 277308760 707 False 617 617 83.146000 1 680 1 chr7A.!!$F4 679
14 TraesCS2A01G232100 chr7A 277288337 277289044 707 False 612 612 83.006000 1 680 1 chr7A.!!$F3 679
15 TraesCS2A01G232100 chr7A 190563422 190563965 543 True 433 433 81.462000 16 563 1 chr7A.!!$R1 547
16 TraesCS2A01G232100 chr1A 209588741 209589416 675 False 931 931 91.581000 6 680 1 chr1A.!!$F1 674
17 TraesCS2A01G232100 chr1A 400730088 400730658 570 False 466 466 81.818000 1 570 1 chr1A.!!$F3 569
18 TraesCS2A01G232100 chr3A 631680844 631681393 549 True 603 603 86.667000 6 551 1 chr3A.!!$R2 545
19 TraesCS2A01G232100 chr3D 405796326 405796863 537 False 586 586 86.606000 1 534 1 chr3D.!!$F1 533

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
561 709 0.034767 TGGTCCTCGTCGATGGTAGT 60.035 55.0 4.48 0.0 0.0 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1769 1930 0.322187 CCGAACCACCTTTCCCGATT 60.322 55.0 0.0 0.0 0.0 3.34 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
224 261 6.483974 GCAATGAATCCAAAAATGATGCCATA 59.516 34.615 0.00 0.00 31.59 2.74
295 343 2.845752 TTACGGGAGCGTGTCATGCC 62.846 60.000 13.52 5.32 0.00 4.40
320 368 1.060640 TGGTGGGGTGATCCTGGATAT 60.061 52.381 9.66 0.00 35.33 1.63
430 499 0.107508 CATGCATTCTCCACGGGTCT 60.108 55.000 0.00 0.00 0.00 3.85
457 527 1.202336 CGGCGGTTATACCTTCGAAGT 60.202 52.381 23.03 13.66 35.66 3.01
504 579 4.931601 CAGTGCAATGTAGAGCAAGTAGAA 59.068 41.667 5.87 0.00 43.20 2.10
513 642 1.275573 GAGCAAGTAGAAGTTCCCGGT 59.724 52.381 0.00 0.00 0.00 5.28
550 698 4.205587 AGTAGTGGTACTATTGGTCCTCG 58.794 47.826 0.00 0.00 37.76 4.63
551 699 3.097342 AGTGGTACTATTGGTCCTCGT 57.903 47.619 0.00 0.00 0.00 4.18
552 700 3.022406 AGTGGTACTATTGGTCCTCGTC 58.978 50.000 0.00 0.00 0.00 4.20
553 701 2.019249 TGGTACTATTGGTCCTCGTCG 58.981 52.381 0.00 0.00 0.00 5.12
554 702 2.292267 GGTACTATTGGTCCTCGTCGA 58.708 52.381 0.00 0.00 0.00 4.20
555 703 2.883386 GGTACTATTGGTCCTCGTCGAT 59.117 50.000 0.00 0.00 0.00 3.59
556 704 3.304525 GGTACTATTGGTCCTCGTCGATG 60.305 52.174 0.00 0.00 0.00 3.84
557 705 1.681793 ACTATTGGTCCTCGTCGATGG 59.318 52.381 4.48 0.00 0.00 3.51
558 706 1.681793 CTATTGGTCCTCGTCGATGGT 59.318 52.381 4.48 0.00 0.00 3.55
559 707 1.771565 ATTGGTCCTCGTCGATGGTA 58.228 50.000 4.48 0.00 0.00 3.25
560 708 1.100510 TTGGTCCTCGTCGATGGTAG 58.899 55.000 4.48 0.00 0.00 3.18
561 709 0.034767 TGGTCCTCGTCGATGGTAGT 60.035 55.000 4.48 0.00 0.00 2.73
562 710 0.381089 GGTCCTCGTCGATGGTAGTG 59.619 60.000 4.48 0.00 0.00 2.74
563 711 1.093159 GTCCTCGTCGATGGTAGTGT 58.907 55.000 4.48 0.00 0.00 3.55
564 712 1.471684 GTCCTCGTCGATGGTAGTGTT 59.528 52.381 4.48 0.00 0.00 3.32
565 713 2.094854 GTCCTCGTCGATGGTAGTGTTT 60.095 50.000 4.48 0.00 0.00 2.83
566 714 2.163010 TCCTCGTCGATGGTAGTGTTTC 59.837 50.000 4.48 0.00 0.00 2.78
567 715 2.094906 CCTCGTCGATGGTAGTGTTTCA 60.095 50.000 4.48 0.00 0.00 2.69
568 716 2.915463 CTCGTCGATGGTAGTGTTTCAC 59.085 50.000 4.48 0.00 34.10 3.18
650 798 0.313043 GAGGAACTTGACGTCCACGA 59.687 55.000 14.12 0.00 41.55 4.35
669 817 0.984230 AAGGCTTCGAGGGTCAATGA 59.016 50.000 0.00 0.00 0.00 2.57
685 833 5.221263 GGTCAATGATAGTGGTACTCGTGAT 60.221 44.000 0.00 0.00 0.00 3.06
728 876 1.590147 GTCCACCGGTCTTCGTGAT 59.410 57.895 2.59 0.00 37.11 3.06
769 918 2.120940 TCGGGGTGGCAGAGGTAA 59.879 61.111 0.00 0.00 0.00 2.85
774 923 0.618458 GGGTGGCAGAGGTAATCACA 59.382 55.000 0.00 0.00 0.00 3.58
775 924 1.004277 GGGTGGCAGAGGTAATCACAA 59.996 52.381 0.00 0.00 0.00 3.33
780 929 2.609459 GGCAGAGGTAATCACAACGATG 59.391 50.000 0.00 0.00 33.40 3.84
821 970 1.134487 CGCGTTTGTGCTACATGGG 59.866 57.895 0.00 0.00 0.00 4.00
860 1009 1.196127 GTACACGGCAAAAGTAGTGGC 59.804 52.381 0.00 0.00 38.78 5.01
867 1016 3.081804 GGCAAAAGTAGTGGCACTATGT 58.918 45.455 28.49 17.01 41.05 2.29
937 1086 1.588139 CGACGGTAGTGATTCCCGC 60.588 63.158 0.00 0.00 45.49 6.13
942 1091 1.869754 CGGTAGTGATTCCCGCATCAG 60.870 57.143 0.00 0.00 33.69 2.90
983 1133 1.065102 CGGTTCCACATCGATCGTAGT 59.935 52.381 15.94 11.91 0.00 2.73
1104 1254 2.436109 GAGGTGGTGGTGGTGCAT 59.564 61.111 0.00 0.00 0.00 3.96
1207 1357 1.952133 CGGTTGAAGACGAACGGCA 60.952 57.895 2.25 0.00 37.01 5.69
1213 1363 1.573829 GAAGACGAACGGCAATGGCA 61.574 55.000 7.75 0.00 43.71 4.92
1232 1382 1.196766 ACGGGTAACAAGGGAGGTCC 61.197 60.000 0.00 0.00 39.74 4.46
1322 1473 0.982704 AGTGAGCTTGCTGATGAGGT 59.017 50.000 0.00 0.00 0.00 3.85
1390 1541 1.294780 GCAGCTACAGTGAGGCAGT 59.705 57.895 0.00 0.00 0.00 4.40
1429 1580 1.201429 GGTGGAGGCAGGGAAAGAGA 61.201 60.000 0.00 0.00 0.00 3.10
1450 1601 4.444081 ACGGGGGAGGAGGTCGAG 62.444 72.222 0.00 0.00 0.00 4.04
1454 1605 4.779733 GGGAGGAGGTCGAGGCCA 62.780 72.222 5.01 0.00 0.00 5.36
1456 1607 2.363147 GAGGAGGTCGAGGCCAGT 60.363 66.667 5.01 0.00 0.00 4.00
1507 1658 3.001902 GCACACAGGATCCCGTCGA 62.002 63.158 8.55 0.00 0.00 4.20
1508 1659 1.816537 CACACAGGATCCCGTCGAT 59.183 57.895 8.55 0.00 0.00 3.59
1529 1680 1.811266 CGTGGCCTTGAGATGACGG 60.811 63.158 3.32 0.00 0.00 4.79
1559 1710 2.764637 ATTGGTTCCCTGGACGGCAC 62.765 60.000 0.00 0.00 0.00 5.01
1560 1711 3.948719 GGTTCCCTGGACGGCACA 61.949 66.667 0.00 0.00 0.00 4.57
1561 1712 2.668550 GTTCCCTGGACGGCACAC 60.669 66.667 0.00 0.00 0.00 3.82
1563 1714 2.747443 TTCCCTGGACGGCACACAA 61.747 57.895 0.00 0.00 0.00 3.33
1569 1720 2.656007 GACGGCACACAACGACGA 60.656 61.111 0.00 0.00 0.00 4.20
1586 1737 4.201724 ACGACGATAAAAGAAAGCATCAGC 60.202 41.667 0.00 0.00 42.56 4.26
1624 1775 2.284995 GGTGGAGGAGGAGCTGGT 60.285 66.667 0.00 0.00 0.00 4.00
1627 1788 2.284995 GGAGGAGGAGCTGGTGGT 60.285 66.667 0.00 0.00 0.00 4.16
1647 1808 4.777854 TGGAGCTCTAGGGCGGCA 62.778 66.667 14.64 0.00 37.29 5.69
1652 1813 2.109126 GCTCTAGGGCGGCAGTTTG 61.109 63.158 12.47 0.00 0.00 2.93
1679 1840 1.829096 GTAGGAGGAGAGCGGGGTC 60.829 68.421 0.00 0.00 0.00 4.46
1680 1841 3.417167 TAGGAGGAGAGCGGGGTCG 62.417 68.421 0.00 0.00 39.81 4.79
1692 1853 0.103208 CGGGGTCGATGGAGAGAAAG 59.897 60.000 0.00 0.00 39.00 2.62
1698 1859 3.462021 GTCGATGGAGAGAAAGGATTGG 58.538 50.000 0.00 0.00 0.00 3.16
1701 1862 0.253044 TGGAGAGAAAGGATTGGCCG 59.747 55.000 0.00 0.00 43.43 6.13
1741 1902 3.124686 CTCCTCTCCTAGCGGCAC 58.875 66.667 1.45 0.00 0.00 5.01
1757 1918 0.033504 GCACGAACAGGGAGACAAGA 59.966 55.000 0.00 0.00 0.00 3.02
1769 1930 2.774234 GGAGACAAGAATGAGGGGATCA 59.226 50.000 0.00 0.00 43.70 2.92
1855 4168 3.257627 CCTAGGGATTAGGTGGGCA 57.742 57.895 0.00 0.00 43.50 5.36
1868 4181 1.068121 GTGGGCAGGGCTATAGGAAT 58.932 55.000 1.04 0.00 0.00 3.01
1928 4243 5.488262 AGCTGAATTGGGCTTTTATGTTT 57.512 34.783 0.00 0.00 34.96 2.83
1929 4244 6.603940 AGCTGAATTGGGCTTTTATGTTTA 57.396 33.333 0.00 0.00 34.96 2.01
1930 4245 7.003402 AGCTGAATTGGGCTTTTATGTTTAA 57.997 32.000 0.00 0.00 34.96 1.52
1976 4294 8.453238 AAGAAAGAGAGGGTTAGAAAAAGAAC 57.547 34.615 0.00 0.00 0.00 3.01
1978 4296 8.275758 AGAAAGAGAGGGTTAGAAAAAGAACTT 58.724 33.333 0.00 0.00 0.00 2.66
2047 4365 6.800072 TTAACAAAAATGGTTGGAAGAGGT 57.200 33.333 0.00 0.00 32.50 3.85
2107 4425 6.588719 TCAAATGGGTTTGGATAGAAAGTG 57.411 37.500 1.55 0.00 43.85 3.16
2120 4438 1.700186 AGAAAGTGGGTGAGGAAGGTC 59.300 52.381 0.00 0.00 0.00 3.85
2191 4509 4.605183 TGTTGGGAAAGTTTGAGGAAGAA 58.395 39.130 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 4.705991 GGGGGTTATCGGAATTGTTGTTTA 59.294 41.667 0.00 0.00 0.00 2.01
224 261 0.539986 ACCGGAACCGATATGTTGCT 59.460 50.000 9.46 0.00 42.83 3.91
295 343 2.510906 GATCACCCCACCATCCGG 59.489 66.667 0.00 0.00 38.77 5.14
430 499 0.381801 GGTATAACCGCCGAGACGAA 59.618 55.000 0.00 0.00 34.06 3.85
457 527 2.124653 AACCGTCCCGTTTGCACA 60.125 55.556 0.00 0.00 0.00 4.57
513 642 3.002791 CACTACTTCCACTACGACCGTA 58.997 50.000 2.17 2.17 0.00 4.02
550 698 1.990563 CCGTGAAACACTACCATCGAC 59.009 52.381 0.00 0.00 35.74 4.20
551 699 1.670674 GCCGTGAAACACTACCATCGA 60.671 52.381 0.00 0.00 35.74 3.59
552 700 0.719465 GCCGTGAAACACTACCATCG 59.281 55.000 0.00 0.00 35.74 3.84
553 701 0.719465 CGCCGTGAAACACTACCATC 59.281 55.000 0.00 0.00 35.74 3.51
554 702 0.319083 TCGCCGTGAAACACTACCAT 59.681 50.000 0.00 0.00 35.74 3.55
555 703 0.319083 ATCGCCGTGAAACACTACCA 59.681 50.000 0.00 0.00 35.74 3.25
556 704 0.719465 CATCGCCGTGAAACACTACC 59.281 55.000 0.00 0.00 35.74 3.18
557 705 0.719465 CCATCGCCGTGAAACACTAC 59.281 55.000 0.00 0.00 35.74 2.73
558 706 0.319083 ACCATCGCCGTGAAACACTA 59.681 50.000 0.00 0.00 35.74 2.74
559 707 0.319083 TACCATCGCCGTGAAACACT 59.681 50.000 0.00 0.00 35.74 3.55
560 708 0.719465 CTACCATCGCCGTGAAACAC 59.281 55.000 0.00 0.00 35.74 3.32
561 709 0.319083 ACTACCATCGCCGTGAAACA 59.681 50.000 0.00 0.00 35.74 2.83
562 710 0.997196 GACTACCATCGCCGTGAAAC 59.003 55.000 0.00 0.00 0.00 2.78
563 711 0.604073 TGACTACCATCGCCGTGAAA 59.396 50.000 0.00 0.00 0.00 2.69
564 712 0.821517 ATGACTACCATCGCCGTGAA 59.178 50.000 0.00 0.00 0.00 3.18
565 713 0.821517 AATGACTACCATCGCCGTGA 59.178 50.000 0.00 0.00 33.53 4.35
566 714 1.209128 GAATGACTACCATCGCCGTG 58.791 55.000 0.00 0.00 33.53 4.94
567 715 0.821517 TGAATGACTACCATCGCCGT 59.178 50.000 0.00 0.00 33.53 5.68
568 716 1.209128 GTGAATGACTACCATCGCCG 58.791 55.000 0.00 0.00 33.53 6.46
650 798 0.984230 TCATTGACCCTCGAAGCCTT 59.016 50.000 0.00 0.00 0.00 4.35
665 813 4.649674 ACCATCACGAGTACCACTATCATT 59.350 41.667 0.00 0.00 0.00 2.57
669 817 4.579340 CACTACCATCACGAGTACCACTAT 59.421 45.833 0.00 0.00 0.00 2.12
685 833 2.708861 ACCATGTCAAGTTCCACTACCA 59.291 45.455 0.00 0.00 0.00 3.25
702 850 0.326238 AGACCGGTGGACCATACCAT 60.326 55.000 14.63 0.00 42.17 3.55
728 876 0.736636 CGGAGCATGTACGACTACCA 59.263 55.000 0.00 0.00 0.00 3.25
761 910 3.198068 CCCATCGTTGTGATTACCTCTG 58.802 50.000 0.00 0.00 34.13 3.35
769 918 0.991920 ACTTCCCCCATCGTTGTGAT 59.008 50.000 0.00 0.00 38.01 3.06
774 923 0.909623 CCACTACTTCCCCCATCGTT 59.090 55.000 0.00 0.00 0.00 3.85
775 924 0.252558 ACCACTACTTCCCCCATCGT 60.253 55.000 0.00 0.00 0.00 3.73
780 929 1.648116 TGTGTACCACTACTTCCCCC 58.352 55.000 0.00 0.00 35.11 5.40
834 983 5.810587 CACTACTTTTGCCGTGTACATCTAT 59.189 40.000 0.00 0.00 0.00 1.98
860 1009 3.745975 ACCACGACAATTGACACATAGTG 59.254 43.478 13.59 8.88 39.75 2.74
867 1016 3.135225 CCAAGTACCACGACAATTGACA 58.865 45.455 13.59 0.00 0.00 3.58
937 1086 5.487153 AGTACAACTACTCTACGCTGATG 57.513 43.478 0.00 0.00 0.00 3.07
942 1091 4.087265 CGTCAAGTACAACTACTCTACGC 58.913 47.826 0.00 0.00 35.73 4.42
983 1133 3.572682 GGACATCTACGATACATGGACCA 59.427 47.826 0.00 0.00 0.00 4.02
1104 1254 0.041238 CCTCCTGTGGGGTGTAGAGA 59.959 60.000 0.00 0.00 36.25 3.10
1207 1357 0.610785 CCCTTGTTACCCGTGCCATT 60.611 55.000 0.00 0.00 0.00 3.16
1213 1363 1.196766 GGACCTCCCTTGTTACCCGT 61.197 60.000 0.00 0.00 0.00 5.28
1303 1453 0.982704 ACCTCATCAGCAAGCTCACT 59.017 50.000 0.00 0.00 0.00 3.41
1369 1520 2.973899 CCTCACTGTAGCTGCGGT 59.026 61.111 10.88 10.88 0.00 5.68
1484 1635 2.187946 GGATCCTGTGTGCCTCCG 59.812 66.667 3.84 0.00 0.00 4.63
1493 1644 2.797278 GCCATCGACGGGATCCTGT 61.797 63.158 26.78 26.78 38.41 4.00
1496 1647 3.912907 ACGCCATCGACGGGATCC 61.913 66.667 1.92 1.92 39.41 3.36
1498 1649 4.221422 CCACGCCATCGACGGGAT 62.221 66.667 9.07 0.00 35.45 3.85
1529 1680 2.759560 AACCAATCCCCATGGCGC 60.760 61.111 6.09 0.00 41.89 6.53
1559 1710 4.768145 TGCTTTCTTTTATCGTCGTTGTG 58.232 39.130 0.00 0.00 0.00 3.33
1560 1711 5.178623 TGATGCTTTCTTTTATCGTCGTTGT 59.821 36.000 0.00 0.00 0.00 3.32
1561 1712 5.617609 TGATGCTTTCTTTTATCGTCGTTG 58.382 37.500 0.00 0.00 0.00 4.10
1563 1714 4.201724 GCTGATGCTTTCTTTTATCGTCGT 60.202 41.667 0.00 0.00 36.03 4.34
1569 1720 2.689983 CCCCGCTGATGCTTTCTTTTAT 59.310 45.455 0.00 0.00 36.97 1.40
1597 1748 2.043450 CCTCCACCTCGCCTCTCT 60.043 66.667 0.00 0.00 0.00 3.10
1624 1775 1.306141 CCCTAGAGCTCCACCACCA 60.306 63.158 10.93 0.00 0.00 4.17
1627 1788 2.759973 CGCCCTAGAGCTCCACCA 60.760 66.667 10.93 0.00 0.00 4.17
1647 1808 2.660802 CTACCCCGCGACCAAACT 59.339 61.111 8.23 0.00 0.00 2.66
1652 1813 4.828296 TCCTCCTACCCCGCGACC 62.828 72.222 8.23 0.00 0.00 4.79
1679 1840 2.216898 GCCAATCCTTTCTCTCCATCG 58.783 52.381 0.00 0.00 0.00 3.84
1680 1841 2.580962 GGCCAATCCTTTCTCTCCATC 58.419 52.381 0.00 0.00 0.00 3.51
1733 1894 2.992689 TCCCTGTTCGTGCCGCTA 60.993 61.111 0.00 0.00 0.00 4.26
1737 1898 0.951040 CTTGTCTCCCTGTTCGTGCC 60.951 60.000 0.00 0.00 0.00 5.01
1741 1902 3.257393 CTCATTCTTGTCTCCCTGTTCG 58.743 50.000 0.00 0.00 0.00 3.95
1744 1905 1.912043 CCCTCATTCTTGTCTCCCTGT 59.088 52.381 0.00 0.00 0.00 4.00
1757 1918 1.819753 TCCCGATTGATCCCCTCATT 58.180 50.000 0.00 0.00 32.72 2.57
1769 1930 0.322187 CCGAACCACCTTTCCCGATT 60.322 55.000 0.00 0.00 0.00 3.34
1855 4168 6.455320 TCTCTCCCTAATATTCCTATAGCCCT 59.545 42.308 0.00 0.00 0.00 5.19
1868 4181 5.252863 CCTCTCCATCTCTCTCTCCCTAATA 59.747 48.000 0.00 0.00 0.00 0.98
1945 4263 6.361768 TCTAACCCTCTCTTTCTTTTCTCC 57.638 41.667 0.00 0.00 0.00 3.71
1962 4280 8.297426 CCTATTGGTCAAGTTCTTTTTCTAACC 58.703 37.037 0.00 0.00 0.00 2.85
1976 4294 8.416329 CCAAGAAAAATATCCCTATTGGTCAAG 58.584 37.037 0.00 0.00 33.00 3.02
1978 4296 7.559897 GTCCAAGAAAAATATCCCTATTGGTCA 59.440 37.037 0.00 0.00 37.72 4.02
2047 4365 3.068873 AGTGCGGATTTAGTTTGCCAAAA 59.931 39.130 0.00 0.00 0.00 2.44
2095 4413 3.199442 TCCTCACCCACTTTCTATCCA 57.801 47.619 0.00 0.00 0.00 3.41
2102 4420 0.771755 GGACCTTCCTCACCCACTTT 59.228 55.000 0.00 0.00 32.53 2.66
2107 4425 1.290134 ATTCTGGACCTTCCTCACCC 58.710 55.000 0.00 0.00 37.46 4.61
2191 4509 2.846206 TCATGCCCATTCTACCTCAAGT 59.154 45.455 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.