Multiple sequence alignment - TraesCS2D01G122400

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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 TraesCS2D01G122400 chr2D 100.000 2959 0 0 1 2959 71564660 71567618 0.000000e+00 5465
1 TraesCS2D01G122400 chr2D 89.115 2260 152 44 756 2959 71578101 71580322 0.000000e+00 2724
2 TraesCS2D01G122400 chr2D 80.538 1449 190 45 1541 2959 71470672 71472058 0.000000e+00 1029
3 TraesCS2D01G122400 chr2D 78.856 1608 225 62 1086 2656 71404725 71406254 0.000000e+00 979
4 TraesCS2D01G122400 chr2D 84.132 939 128 15 1059 1987 71598882 71599809 0.000000e+00 889
5 TraesCS2D01G122400 chr2D 80.690 927 130 25 1059 1951 70674207 70673296 0.000000e+00 675
6 TraesCS2D01G122400 chr2D 86.942 605 56 9 2368 2959 71410212 71410806 0.000000e+00 658
7 TraesCS2D01G122400 chr2D 90.529 454 34 3 2008 2461 71600086 71600530 2.540000e-165 592
8 TraesCS2D01G122400 chr2D 84.416 539 82 2 194 730 606150203 606149665 2.020000e-146 529
9 TraesCS2D01G122400 chr2D 88.124 421 33 9 2048 2461 70672921 70672511 4.430000e-133 484
10 TraesCS2D01G122400 chr2D 83.197 488 56 11 2486 2959 71600521 71600996 9.800000e-115 424
11 TraesCS2D01G122400 chr2D 84.615 429 57 6 1154 1574 71470124 71470551 4.560000e-113 418
12 TraesCS2D01G122400 chr2D 81.996 511 69 14 2368 2875 71464835 71465325 2.120000e-111 412
13 TraesCS2D01G122400 chr2D 82.253 293 37 10 769 1051 71598635 71598922 3.810000e-59 239
14 TraesCS2D01G122400 chr2D 88.489 139 11 3 769 902 71391147 71391285 2.360000e-36 163
15 TraesCS2D01G122400 chr2D 73.913 276 61 4 1207 1471 70633521 70633796 1.880000e-17 100
16 TraesCS2D01G122400 chr2B 87.437 2953 253 61 59 2959 107782240 107785126 0.000000e+00 3290
17 TraesCS2D01G122400 chr2B 87.393 936 105 10 1526 2461 107793907 107794829 0.000000e+00 1062
18 TraesCS2D01G122400 chr2B 83.257 657 77 14 2315 2954 107578242 107578882 9.200000e-160 573
19 TraesCS2D01G122400 chr2B 84.826 547 51 17 1921 2461 107023389 107022869 3.380000e-144 521
20 TraesCS2D01G122400 chr2B 80.096 628 113 12 110 730 721694791 721695413 9.670000e-125 457
21 TraesCS2D01G122400 chr2B 80.556 612 87 22 1594 2199 107577647 107578232 2.710000e-120 442
22 TraesCS2D01G122400 chr2B 84.161 423 62 4 1155 1574 107577057 107577477 3.550000e-109 405
23 TraesCS2D01G122400 chr2B 82.621 351 53 8 1133 1481 107039102 107038758 1.330000e-78 303
24 TraesCS2D01G122400 chr2B 81.186 388 58 6 1516 1889 107038637 107038251 6.200000e-77 298
25 TraesCS2D01G122400 chr2B 88.776 196 21 1 2492 2687 107022872 107022678 3.810000e-59 239
26 TraesCS2D01G122400 chr2B 86.916 214 21 3 2498 2711 107794834 107795040 1.770000e-57 233
27 TraesCS2D01G122400 chr2B 82.500 280 24 15 818 1081 107576750 107577020 3.840000e-54 222
28 TraesCS2D01G122400 chr2B 86.408 206 16 10 846 1049 107793138 107793333 6.420000e-52 215
29 TraesCS2D01G122400 chr2B 87.075 147 14 4 1435 1577 107793719 107793864 8.490000e-36 161
30 TraesCS2D01G122400 chr2A 90.626 2283 142 39 732 2959 70643717 70645982 0.000000e+00 2964
31 TraesCS2D01G122400 chr2A 85.423 1420 173 22 1059 2461 70655074 70656476 0.000000e+00 1445
32 TraesCS2D01G122400 chr2A 84.177 948 100 24 1532 2461 70156029 70155114 0.000000e+00 874
33 TraesCS2D01G122400 chr2A 86.116 605 61 10 2368 2959 70278469 70277875 5.380000e-177 630
34 TraesCS2D01G122400 chr2A 77.049 854 144 30 2127 2959 70144247 70143425 7.530000e-121 444
35 TraesCS2D01G122400 chr2A 83.065 496 53 12 2486 2959 70656467 70656953 3.530000e-114 422
36 TraesCS2D01G122400 chr2A 84.670 424 61 3 1154 1574 70234883 70234461 1.270000e-113 420
37 TraesCS2D01G122400 chr2A 81.800 511 70 15 2368 2875 70240076 70239586 9.870000e-110 407
38 TraesCS2D01G122400 chr2A 85.979 378 34 6 2599 2959 70230600 70230225 1.290000e-103 387
39 TraesCS2D01G122400 chr2A 80.911 461 72 15 1070 1526 70156733 70156285 1.690000e-92 350
40 TraesCS2D01G122400 chr2A 84.906 265 19 10 818 1069 70654879 70655135 6.330000e-62 248
41 TraesCS2D01G122400 chr2A 89.888 178 16 2 1 177 70214844 70214668 8.250000e-56 228
42 TraesCS2D01G122400 chr2A 80.417 240 25 12 769 988 70193016 70193253 2.360000e-36 163
43 TraesCS2D01G122400 chr2A 77.778 297 24 22 769 1050 70235232 70234963 8.550000e-31 145
44 TraesCS2D01G122400 chr1B 82.240 625 97 11 112 730 26425725 26425109 7.260000e-146 527
45 TraesCS2D01G122400 chr4D 82.183 623 96 11 113 730 276141318 276141930 3.380000e-144 521
46 TraesCS2D01G122400 chr4D 80.619 614 107 7 113 721 415302897 415302291 5.780000e-127 464
47 TraesCS2D01G122400 chr6D 81.106 651 112 8 88 732 429133680 429134325 7.320000e-141 510
48 TraesCS2D01G122400 chr5D 81.511 622 109 5 113 732 336043520 336044137 9.460000e-140 507
49 TraesCS2D01G122400 chr5B 82.655 565 92 6 113 674 90991709 90992270 2.050000e-136 496
50 TraesCS2D01G122400 chr7A 80.640 625 111 10 111 730 64548051 64547432 2.670000e-130 475
51 TraesCS2D01G122400 chr4A 77.064 436 73 19 317 745 160247692 160247277 2.970000e-55 226


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 TraesCS2D01G122400 chr2D 71564660 71567618 2958 False 5465.000000 5465 100.000000 1 2959 1 chr2D.!!$F4 2958
1 TraesCS2D01G122400 chr2D 71578101 71580322 2221 False 2724.000000 2724 89.115000 756 2959 1 chr2D.!!$F5 2203
2 TraesCS2D01G122400 chr2D 71404725 71410806 6081 False 818.500000 979 82.899000 1086 2959 2 chr2D.!!$F6 1873
3 TraesCS2D01G122400 chr2D 71470124 71472058 1934 False 723.500000 1029 82.576500 1154 2959 2 chr2D.!!$F7 1805
4 TraesCS2D01G122400 chr2D 70672511 70674207 1696 True 579.500000 675 84.407000 1059 2461 2 chr2D.!!$R2 1402
5 TraesCS2D01G122400 chr2D 71598635 71600996 2361 False 536.000000 889 85.027750 769 2959 4 chr2D.!!$F8 2190
6 TraesCS2D01G122400 chr2D 606149665 606150203 538 True 529.000000 529 84.416000 194 730 1 chr2D.!!$R1 536
7 TraesCS2D01G122400 chr2B 107782240 107785126 2886 False 3290.000000 3290 87.437000 59 2959 1 chr2B.!!$F1 2900
8 TraesCS2D01G122400 chr2B 721694791 721695413 622 False 457.000000 457 80.096000 110 730 1 chr2B.!!$F2 620
9 TraesCS2D01G122400 chr2B 107793138 107795040 1902 False 417.750000 1062 86.948000 846 2711 4 chr2B.!!$F4 1865
10 TraesCS2D01G122400 chr2B 107576750 107578882 2132 False 410.500000 573 82.618500 818 2954 4 chr2B.!!$F3 2136
11 TraesCS2D01G122400 chr2B 107022678 107023389 711 True 380.000000 521 86.801000 1921 2687 2 chr2B.!!$R1 766
12 TraesCS2D01G122400 chr2B 107038251 107039102 851 True 300.500000 303 81.903500 1133 1889 2 chr2B.!!$R2 756
13 TraesCS2D01G122400 chr2A 70643717 70645982 2265 False 2964.000000 2964 90.626000 732 2959 1 chr2A.!!$F2 2227
14 TraesCS2D01G122400 chr2A 70654879 70656953 2074 False 705.000000 1445 84.464667 818 2959 3 chr2A.!!$F3 2141
15 TraesCS2D01G122400 chr2A 70277875 70278469 594 True 630.000000 630 86.116000 2368 2959 1 chr2A.!!$R4 591
16 TraesCS2D01G122400 chr2A 70155114 70156733 1619 True 612.000000 874 82.544000 1070 2461 2 chr2A.!!$R5 1391
17 TraesCS2D01G122400 chr2A 70143425 70144247 822 True 444.000000 444 77.049000 2127 2959 1 chr2A.!!$R1 832
18 TraesCS2D01G122400 chr2A 70230225 70235232 5007 True 317.333333 420 82.809000 769 2959 3 chr2A.!!$R6 2190
19 TraesCS2D01G122400 chr1B 26425109 26425725 616 True 527.000000 527 82.240000 112 730 1 chr1B.!!$R1 618
20 TraesCS2D01G122400 chr4D 276141318 276141930 612 False 521.000000 521 82.183000 113 730 1 chr4D.!!$F1 617
21 TraesCS2D01G122400 chr4D 415302291 415302897 606 True 464.000000 464 80.619000 113 721 1 chr4D.!!$R1 608
22 TraesCS2D01G122400 chr6D 429133680 429134325 645 False 510.000000 510 81.106000 88 732 1 chr6D.!!$F1 644
23 TraesCS2D01G122400 chr5D 336043520 336044137 617 False 507.000000 507 81.511000 113 732 1 chr5D.!!$F1 619
24 TraesCS2D01G122400 chr5B 90991709 90992270 561 False 496.000000 496 82.655000 113 674 1 chr5B.!!$F1 561
25 TraesCS2D01G122400 chr7A 64547432 64548051 619 True 475.000000 475 80.640000 111 730 1 chr7A.!!$R1 619

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
766 794 0.110678 TAACATTTCACCCGGTGGCA 59.889 50.000 17.76 4.94 33.87 4.92 F
991 1062 0.179097 CAGGAGCTAGGGTTTCTCGC 60.179 60.000 0.00 0.00 34.73 5.03 F
1415 1558 1.486310 TGGATCCACTTCGGGATTCAG 59.514 52.381 11.44 0.00 45.98 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1669 2452 1.768275 TGCTCTGAGGAGGACAACAAA 59.232 47.619 6.83 0.0 39.80 2.83 R
1895 2681 1.831389 GAAAGCAAGCTGTCGCGTGA 61.831 55.000 5.77 0.0 46.62 4.35 R
2741 10851 2.226962 AGGCACAATGGCAATTCTCT 57.773 45.000 5.10 0.0 46.46 3.10 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
52 53 9.905171 ACAATCTCATTTCTCTTTTCTTTTAGC 57.095 29.630 0.00 0.00 0.00 3.09
53 54 9.351570 CAATCTCATTTCTCTTTTCTTTTAGCC 57.648 33.333 0.00 0.00 0.00 3.93
54 55 7.133891 TCTCATTTCTCTTTTCTTTTAGCCG 57.866 36.000 0.00 0.00 0.00 5.52
55 56 6.710744 TCTCATTTCTCTTTTCTTTTAGCCGT 59.289 34.615 0.00 0.00 0.00 5.68
56 57 7.876068 TCTCATTTCTCTTTTCTTTTAGCCGTA 59.124 33.333 0.00 0.00 0.00 4.02
57 58 8.561738 TCATTTCTCTTTTCTTTTAGCCGTAT 57.438 30.769 0.00 0.00 0.00 3.06
94 95 7.198390 TCTTGAAAGAAATTCTGCAACAAGAG 58.802 34.615 19.57 8.30 38.92 2.85
153 156 4.731853 TGGTCCGGCCCATCTCCA 62.732 66.667 0.00 0.00 36.04 3.86
178 181 3.799286 TTTGGGCCATGGACGTGCA 62.799 57.895 18.40 13.59 0.00 4.57
301 309 6.484643 CAGTAGGAATAATGTCTCCCATGTTG 59.515 42.308 0.00 0.00 32.82 3.33
311 319 5.630121 TGTCTCCCATGTTGTATTTCTGTT 58.370 37.500 0.00 0.00 0.00 3.16
328 336 2.492088 CTGTTCCGATGGTGTGTCTAGA 59.508 50.000 0.00 0.00 0.00 2.43
395 403 1.334160 TTCGGTCAGTGCTGGTCTTA 58.666 50.000 0.00 0.00 0.00 2.10
556 565 6.097839 ACTTCCTGACTGTCTACTACAACAAA 59.902 38.462 9.51 0.00 37.74 2.83
576 603 1.079405 TTTGCCCGACTCCGATGAC 60.079 57.895 0.00 0.00 38.22 3.06
578 605 3.515286 GCCCGACTCCGATGACGA 61.515 66.667 0.00 0.00 42.66 4.20
595 622 3.310860 GAAGGGGTGATGACGGCGT 62.311 63.158 14.65 14.65 0.00 5.68
647 674 4.143333 CGCTAGGTGGTCCACGGG 62.143 72.222 15.93 6.96 34.83 5.28
689 716 7.724305 TTACCTTTAGTGTTCTTTGTGCTAG 57.276 36.000 0.00 0.00 0.00 3.42
700 727 6.985645 TGTTCTTTGTGCTAGCAAAATTGAAT 59.014 30.769 25.85 0.00 37.82 2.57
722 750 9.838339 TGAATAGAATAGATTGAAAGTTCCTCC 57.162 33.333 0.00 0.00 0.00 4.30
766 794 0.110678 TAACATTTCACCCGGTGGCA 59.889 50.000 17.76 4.94 33.87 4.92
767 795 0.757188 AACATTTCACCCGGTGGCAA 60.757 50.000 17.76 11.08 33.87 4.52
883 922 2.076597 AAAACCCCCTCCCCTGTTCG 62.077 60.000 0.00 0.00 0.00 3.95
991 1062 0.179097 CAGGAGCTAGGGTTTCTCGC 60.179 60.000 0.00 0.00 34.73 5.03
996 1067 1.810030 CTAGGGTTTCTCGCACCGC 60.810 63.158 0.00 0.00 34.79 5.68
1067 1150 2.178521 GGAGCACATCGTCGTCGT 59.821 61.111 1.33 0.00 38.33 4.34
1187 1303 2.427245 CGGCGGGAGTCCTCATCTT 61.427 63.158 9.58 0.00 0.00 2.40
1192 1308 1.686428 CGGGAGTCCTCATCTTCCTGA 60.686 57.143 9.58 0.00 0.00 3.86
1193 1309 2.472029 GGGAGTCCTCATCTTCCTGAA 58.528 52.381 9.58 0.00 0.00 3.02
1205 1321 2.281761 CCTGAACTTGGCGGCTGT 60.282 61.111 11.43 6.45 0.00 4.40
1346 1462 2.244117 ATCATCCTTGCGGTGCTCGT 62.244 55.000 2.43 0.00 41.72 4.18
1348 1464 2.942796 ATCCTTGCGGTGCTCGTGA 61.943 57.895 2.43 0.00 41.72 4.35
1415 1558 1.486310 TGGATCCACTTCGGGATTCAG 59.514 52.381 11.44 0.00 45.98 3.02
1447 1626 5.935206 TCGTGCAAATTAACTCCTTGTGATA 59.065 36.000 0.00 0.00 0.00 2.15
1492 1711 5.670485 CAGTACATAGGCCAGTGTTATCAA 58.330 41.667 16.83 0.00 0.00 2.57
1494 1713 6.425114 CAGTACATAGGCCAGTGTTATCAATC 59.575 42.308 16.83 2.58 0.00 2.67
1496 1715 6.006275 ACATAGGCCAGTGTTATCAATCTT 57.994 37.500 5.01 0.00 0.00 2.40
1497 1716 6.058183 ACATAGGCCAGTGTTATCAATCTTC 58.942 40.000 5.01 0.00 0.00 2.87
1499 1718 5.957771 AGGCCAGTGTTATCAATCTTCTA 57.042 39.130 5.01 0.00 0.00 2.10
1501 1728 6.904626 AGGCCAGTGTTATCAATCTTCTAAT 58.095 36.000 5.01 0.00 0.00 1.73
1503 1730 8.494433 AGGCCAGTGTTATCAATCTTCTAATTA 58.506 33.333 5.01 0.00 0.00 1.40
1625 2405 5.954150 ACTTCATTTGCATCCTACCATTTCT 59.046 36.000 0.00 0.00 0.00 2.52
1628 2408 5.591472 TCATTTGCATCCTACCATTTCTGAG 59.409 40.000 0.00 0.00 0.00 3.35
1770 2556 3.006940 GTGCTTGGATTTGTCGTGGATA 58.993 45.455 0.00 0.00 0.00 2.59
1779 2565 2.325583 TGTCGTGGATATGGCCTTTC 57.674 50.000 3.32 0.00 0.00 2.62
1790 2576 5.045578 GGATATGGCCTTTCTCCTGCTAATA 60.046 44.000 3.32 0.00 0.00 0.98
1895 2681 2.637382 GGATGTGGGGACATTTGGTTTT 59.363 45.455 0.00 0.00 46.14 2.43
1953 2749 3.188667 CGTTCTTAGTTTTTGGAGGGAGC 59.811 47.826 0.00 0.00 0.00 4.70
1971 2767 2.978824 GCTAGGCGGACAGGAACA 59.021 61.111 0.00 0.00 0.00 3.18
1994 2790 2.439507 ACCATCACAGTTCTGTTGAGGT 59.560 45.455 2.47 8.09 0.00 3.85
1995 2791 3.646162 ACCATCACAGTTCTGTTGAGGTA 59.354 43.478 14.17 0.00 0.00 3.08
2231 3326 2.978156 TTTCCTCTGGTCATTGCCTT 57.022 45.000 0.00 0.00 0.00 4.35
2573 8129 2.027561 ACAAGTCTTGGCTATGGCGTAA 60.028 45.455 16.85 0.00 39.81 3.18
2641 10737 5.181245 CCATGTTTCGTGACTCTGGTAAAAT 59.819 40.000 0.00 0.00 0.00 1.82
2741 10851 5.294356 CGCTATGCCCACTACATTTTAGTA 58.706 41.667 0.00 0.00 0.00 1.82
2742 10852 5.405571 CGCTATGCCCACTACATTTTAGTAG 59.594 44.000 0.00 0.00 45.44 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 9.905171 GCTAAAAGAAAAGAGAAATGAGATTGT 57.095 29.630 0.00 0.00 0.00 2.71
27 28 9.351570 GGCTAAAAGAAAAGAGAAATGAGATTG 57.648 33.333 0.00 0.00 0.00 2.67
28 29 8.239998 CGGCTAAAAGAAAAGAGAAATGAGATT 58.760 33.333 0.00 0.00 0.00 2.40
29 30 7.391833 ACGGCTAAAAGAAAAGAGAAATGAGAT 59.608 33.333 0.00 0.00 0.00 2.75
30 31 6.710744 ACGGCTAAAAGAAAAGAGAAATGAGA 59.289 34.615 0.00 0.00 0.00 3.27
31 32 6.903419 ACGGCTAAAAGAAAAGAGAAATGAG 58.097 36.000 0.00 0.00 0.00 2.90
32 33 6.877611 ACGGCTAAAAGAAAAGAGAAATGA 57.122 33.333 0.00 0.00 0.00 2.57
36 37 9.886132 AGATTATACGGCTAAAAGAAAAGAGAA 57.114 29.630 0.00 0.00 0.00 2.87
37 38 9.886132 AAGATTATACGGCTAAAAGAAAAGAGA 57.114 29.630 0.00 0.00 0.00 3.10
50 51 9.832445 TTTCAAGAGAAATAAGATTATACGGCT 57.168 29.630 0.00 0.00 38.76 5.52
70 71 7.198390 TCTCTTGTTGCAGAATTTCTTTCAAG 58.802 34.615 15.67 15.67 36.75 3.02
84 85 3.403038 GCTAAGGTCTTCTCTTGTTGCA 58.597 45.455 0.00 0.00 0.00 4.08
94 95 4.938832 GGAGAAAGAAAGGCTAAGGTCTTC 59.061 45.833 0.00 0.00 36.23 2.87
178 181 2.003548 GGGGTGGCCAAGATCCTCT 61.004 63.158 7.24 0.00 0.00 3.69
301 309 4.000988 ACACACCATCGGAACAGAAATAC 58.999 43.478 0.00 0.00 0.00 1.89
311 319 2.366533 GACTCTAGACACACCATCGGA 58.633 52.381 0.00 0.00 0.00 4.55
328 336 2.597805 ACACGCCCTCTGACGACT 60.598 61.111 0.00 0.00 0.00 4.18
395 403 3.181418 ACCAGATCCAAACAAATCCACCT 60.181 43.478 0.00 0.00 0.00 4.00
527 536 3.488363 AGTAGACAGTCAGGAAGTCGTT 58.512 45.455 2.66 0.00 37.36 3.85
556 565 1.079127 CATCGGAGTCGGGCAAACT 60.079 57.895 0.00 0.00 36.95 2.66
576 603 2.511600 GCCGTCATCACCCCTTCG 60.512 66.667 0.00 0.00 0.00 3.79
578 605 3.310860 GACGCCGTCATCACCCCTT 62.311 63.158 13.23 0.00 32.09 3.95
647 674 6.688637 AGGTAATAAAAATTACGACCAGGC 57.311 37.500 0.00 0.00 37.76 4.85
743 771 3.843999 CCACCGGGTGAAATGTTAAATG 58.156 45.455 28.36 3.04 35.23 2.32
744 772 2.232696 GCCACCGGGTGAAATGTTAAAT 59.767 45.455 28.36 0.00 35.23 1.40
766 794 1.141053 GATAGTGGGTGCCCGATTCTT 59.859 52.381 2.44 0.00 39.42 2.52
767 795 0.759346 GATAGTGGGTGCCCGATTCT 59.241 55.000 2.44 1.82 39.42 2.40
779 807 1.273606 CCGGGTATGCAGAGATAGTGG 59.726 57.143 0.00 0.00 0.00 4.00
786 814 1.068741 GGTTCTACCGGGTATGCAGAG 59.931 57.143 6.32 0.00 0.00 3.35
789 817 2.214235 GGGTTCTACCGGGTATGCA 58.786 57.895 6.32 0.00 39.83 3.96
883 922 1.947456 GTGGGAAATGGGATTAGCGAC 59.053 52.381 0.00 0.00 0.00 5.19
927 977 2.123897 AGTGGTTGGGTTGCGCTT 60.124 55.556 9.73 0.00 0.00 4.68
930 980 3.353836 CGGAGTGGTTGGGTTGCG 61.354 66.667 0.00 0.00 0.00 4.85
931 981 3.670377 GCGGAGTGGTTGGGTTGC 61.670 66.667 0.00 0.00 0.00 4.17
996 1067 4.498520 ACGGTCAGCGCCATCGAG 62.499 66.667 15.94 0.89 38.10 4.04
1056 1139 2.126463 AGCACCACGACGACGATG 60.126 61.111 15.32 10.02 42.66 3.84
1112 1204 3.047718 GCCACGACGACGATCCTCA 62.048 63.158 15.32 0.00 42.66 3.86
1178 1294 2.026822 GCCAAGTTCAGGAAGATGAGGA 60.027 50.000 0.00 0.00 0.00 3.71
1187 1303 2.032528 CAGCCGCCAAGTTCAGGA 59.967 61.111 0.00 0.00 0.00 3.86
1192 1308 2.697147 ATCCACACAGCCGCCAAGTT 62.697 55.000 0.00 0.00 0.00 2.66
1193 1309 3.196207 ATCCACACAGCCGCCAAGT 62.196 57.895 0.00 0.00 0.00 3.16
1205 1321 0.035152 GGCCACAGACATGATCCACA 60.035 55.000 0.00 0.00 0.00 4.17
1415 1558 5.220796 GGAGTTAATTTGCACGATACCTTCC 60.221 44.000 0.00 0.00 0.00 3.46
1447 1626 3.243068 GCTGCAATTCGACCGGAATAAAT 60.243 43.478 9.46 0.00 44.59 1.40
1527 1863 7.961283 GGACAACCTGAACTACGAAATTAATTC 59.039 37.037 0.10 0.00 34.52 2.17
1625 2405 9.399797 GATGAACATTATATATGGAATGGCTCA 57.600 33.333 11.26 12.12 37.37 4.26
1628 2408 7.283127 ACGGATGAACATTATATATGGAATGGC 59.717 37.037 11.26 5.39 37.37 4.40
1663 2446 5.445069 TCTGAGGAGGACAACAAATTCAAA 58.555 37.500 0.00 0.00 0.00 2.69
1669 2452 1.768275 TGCTCTGAGGAGGACAACAAA 59.232 47.619 6.83 0.00 39.80 2.83
1699 2485 2.354259 CAGTCAACTCTGGCCTGATTC 58.646 52.381 13.33 2.78 0.00 2.52
1770 2556 3.718956 ACTATTAGCAGGAGAAAGGCCAT 59.281 43.478 5.01 0.00 0.00 4.40
1779 2565 5.543507 AGACCAATGACTATTAGCAGGAG 57.456 43.478 0.00 0.00 0.00 3.69
1790 2576 4.678256 TCTCTACCAGAAGACCAATGACT 58.322 43.478 0.00 0.00 0.00 3.41
1895 2681 1.831389 GAAAGCAAGCTGTCGCGTGA 61.831 55.000 5.77 0.00 46.62 4.35
1971 2767 3.470709 CTCAACAGAACTGTGATGGTGT 58.529 45.455 8.25 0.00 44.13 4.16
1995 2791 9.534434 AAGCAAAAGGGGGAGGTATATATATAT 57.466 33.333 10.10 10.10 0.00 0.86
2231 3326 7.421087 TCCCAATTTCATCATGAATGCTAAA 57.579 32.000 0.00 0.00 36.11 1.85
2494 8044 8.186821 GGGAAATTATCACTGACAAGAATTCTG 58.813 37.037 9.17 6.08 0.00 3.02
2741 10851 2.226962 AGGCACAATGGCAATTCTCT 57.773 45.000 5.10 0.00 46.46 3.10
2742 10852 2.997986 CAAAGGCACAATGGCAATTCTC 59.002 45.455 5.10 0.00 46.46 2.87


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

AutoCloner maintained by Alex Coulton.