Multiple sequence alignment - TraesCS7B01G348400

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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 TraesCS7B01G348400 chr7B 100.000 2922 0 0 1 2922 605394968 605397889 0.000000e+00 5397.0
1 TraesCS7B01G348400 chr7B 94.749 857 24 9 1 856 543846021 543846857 0.000000e+00 1314.0
2 TraesCS7B01G348400 chr7B 90.287 906 48 7 861 1730 543846894 543847795 0.000000e+00 1149.0
3 TraesCS7B01G348400 chr7B 76.238 1212 151 77 1781 2922 635127166 635126022 1.550000e-142 516.0
4 TraesCS7B01G348400 chr7B 97.647 85 2 0 2029 2113 605396930 605397014 2.350000e-31 147.0
5 TraesCS7B01G348400 chr7B 97.647 85 2 0 1963 2047 605396996 605397080 2.350000e-31 147.0
6 TraesCS7B01G348400 chr1B 90.136 1764 109 29 863 2588 51810413 51812149 0.000000e+00 2233.0
7 TraesCS7B01G348400 chr1B 88.993 1172 66 21 861 1987 665224330 665225483 0.000000e+00 1391.0
8 TraesCS7B01G348400 chr1B 95.632 870 20 2 1 870 665223382 665224233 0.000000e+00 1380.0
9 TraesCS7B01G348400 chr1B 94.470 868 30 2 3 870 51809526 51810375 0.000000e+00 1321.0
10 TraesCS7B01G348400 chr1B 86.393 463 49 11 2473 2922 665226013 665226474 7.270000e-136 494.0
11 TraesCS7B01G348400 chr1B 87.293 362 23 9 2569 2922 51812214 51812560 2.730000e-105 392.0
12 TraesCS7B01G348400 chr1B 93.701 254 16 0 2335 2588 665225821 665226074 5.910000e-102 381.0
13 TraesCS7B01G348400 chr1B 90.875 263 19 3 2067 2328 665225515 665225773 5.990000e-92 348.0
14 TraesCS7B01G348400 chr4A 94.816 1196 47 5 863 2047 677662815 677664006 0.000000e+00 1851.0
15 TraesCS7B01G348400 chr4A 94.444 666 19 1 205 870 677662130 677662777 0.000000e+00 1009.0
16 TraesCS7B01G348400 chr4A 96.071 560 22 0 2029 2588 677663922 677664481 0.000000e+00 913.0
17 TraesCS7B01G348400 chr4A 92.616 474 11 7 2473 2922 677664420 677664893 0.000000e+00 660.0
18 TraesCS7B01G348400 chr3B 94.860 856 26 2 1 856 465273863 465273026 0.000000e+00 1321.0
19 TraesCS7B01G348400 chr3B 94.743 856 27 2 1 856 465327801 465326964 0.000000e+00 1315.0
20 TraesCS7B01G348400 chr3B 95.045 666 15 1 205 870 752256387 752257034 0.000000e+00 1031.0
21 TraesCS7B01G348400 chr3B 96.687 483 15 1 2106 2588 752257462 752257943 0.000000e+00 802.0
22 TraesCS7B01G348400 chr3B 88.040 602 53 10 2335 2922 465222389 465221793 0.000000e+00 695.0
23 TraesCS7B01G348400 chr3B 90.891 516 28 10 1824 2328 465289237 465288730 0.000000e+00 675.0
24 TraesCS7B01G348400 chr3B 87.081 596 43 17 2335 2922 465288682 465288113 0.000000e+00 643.0
25 TraesCS7B01G348400 chr3B 91.789 475 14 7 2473 2922 752257882 752258356 3.180000e-179 638.0
26 TraesCS7B01G348400 chr3B 95.887 389 15 1 863 1250 752257072 752257460 1.910000e-176 628.0
27 TraesCS7B01G348400 chr3B 90.397 479 27 10 1861 2328 465222907 465222437 1.920000e-171 612.0
28 TraesCS7B01G348400 chr3B 90.792 467 25 9 861 1314 465272989 465272528 2.490000e-170 608.0
29 TraesCS7B01G348400 chr3B 90.196 51 4 1 1998 2047 465222711 465222661 6.760000e-07 65.8
30 TraesCS7B01G348400 chr3B 90.196 51 4 1 1998 2047 465289004 465288954 6.760000e-07 65.8
31 TraesCS7B01G348400 chr6D 93.953 860 27 6 1 856 463820116 463820954 0.000000e+00 1277.0
32 TraesCS7B01G348400 chr6D 92.061 655 37 2 1318 1957 463824342 463824996 0.000000e+00 907.0
33 TraesCS7B01G348400 chr6D 87.009 331 24 6 1011 1329 463821105 463821428 3.580000e-94 355.0
34 TraesCS7B01G348400 chr6D 83.636 275 18 14 2067 2319 463825120 463825389 1.750000e-57 233.0
35 TraesCS7B01G348400 chr6D 97.143 35 0 1 1954 1987 463825054 463825088 1.130000e-04 58.4
36 TraesCS7B01G348400 chr5D 93.619 862 28 8 1 856 494291878 494291038 0.000000e+00 1262.0
37 TraesCS7B01G348400 chr5D 90.415 772 57 5 1022 1783 494290863 494290099 0.000000e+00 1000.0
38 TraesCS7B01G348400 chr5D 81.849 595 62 27 2349 2922 348508719 348508150 2.650000e-125 459.0
39 TraesCS7B01G348400 chr5D 90.323 155 15 0 1803 1957 494290007 494289853 1.370000e-48 204.0
40 TraesCS7B01G348400 chr7D 94.472 814 25 4 1 814 459875642 459876435 0.000000e+00 1236.0
41 TraesCS7B01G348400 chr7D 81.894 718 56 38 2230 2922 53325931 53326599 3.310000e-149 538.0
42 TraesCS7B01G348400 chr7D 83.173 624 61 28 2335 2922 27276728 27277343 5.540000e-147 531.0
43 TraesCS7B01G348400 chr7D 92.258 155 12 0 1803 1957 459877418 459877572 1.360000e-53 220.0
44 TraesCS7B01G348400 chr7D 88.961 154 11 4 2067 2219 459877722 459877870 4.970000e-43 185.0
45 TraesCS7B01G348400 chr5B 92.907 860 34 7 1 856 549164303 549163467 0.000000e+00 1225.0
46 TraesCS7B01G348400 chr5B 89.342 957 75 8 1022 1955 549163306 549162354 0.000000e+00 1177.0
47 TraesCS7B01G348400 chr4B 94.326 705 19 8 2029 2733 498123977 498123294 0.000000e+00 1061.0
48 TraesCS7B01G348400 chr4B 98.214 112 2 0 1936 2047 498124004 498123893 2.300000e-46 196.0
49 TraesCS7B01G348400 chr4D 88.661 829 57 15 1022 1822 497687185 497688004 0.000000e+00 976.0
50 TraesCS7B01G348400 chr4D 87.933 779 69 11 1022 1783 12305997 12306767 0.000000e+00 894.0
51 TraesCS7B01G348400 chr4D 82.119 604 62 27 2340 2922 388110796 388111374 2.630000e-130 475.0
52 TraesCS7B01G348400 chr6A 88.288 777 67 10 1022 1779 53304931 53304160 0.000000e+00 909.0
53 TraesCS7B01G348400 chr2D 87.898 785 68 16 1133 1899 385380672 385379897 0.000000e+00 898.0
54 TraesCS7B01G348400 chr2D 81.882 712 60 38 2230 2922 649358037 649357376 1.190000e-148 536.0
55 TraesCS7B01G348400 chr2D 91.071 280 21 3 2647 2922 588215830 588216109 2.750000e-100 375.0
56 TraesCS7B01G348400 chrUn 80.293 751 102 30 1064 1783 11306140 11305405 2.580000e-145 525.0
57 TraesCS7B01G348400 chr1D 81.862 623 77 23 1189 1783 395418937 395419551 2.620000e-135 492.0
58 TraesCS7B01G348400 chr2A 79.944 713 83 38 2230 2922 36779966 36780638 1.230000e-128 470.0
59 TraesCS7B01G348400 chr3D 81.864 601 66 25 2340 2922 580706840 580707415 1.590000e-127 466.0
60 TraesCS7B01G348400 chr6B 92.780 277 19 1 2647 2922 679277324 679277048 1.630000e-107 399.0
61 TraesCS7B01G348400 chr3A 90.968 155 14 0 1803 1957 688021852 688021698 2.950000e-50 209.0


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 TraesCS7B01G348400 chr7B 605394968 605397889 2921 False 1897.000000 5397 98.431333 1 2922 3 chr7B.!!$F2 2921
1 TraesCS7B01G348400 chr7B 543846021 543847795 1774 False 1231.500000 1314 92.518000 1 1730 2 chr7B.!!$F1 1729
2 TraesCS7B01G348400 chr7B 635126022 635127166 1144 True 516.000000 516 76.238000 1781 2922 1 chr7B.!!$R1 1141
3 TraesCS7B01G348400 chr1B 51809526 51812560 3034 False 1315.333333 2233 90.633000 3 2922 3 chr1B.!!$F1 2919
4 TraesCS7B01G348400 chr1B 665223382 665226474 3092 False 798.800000 1391 91.118800 1 2922 5 chr1B.!!$F2 2921
5 TraesCS7B01G348400 chr4A 677662130 677664893 2763 False 1108.250000 1851 94.486750 205 2922 4 chr4A.!!$F1 2717
6 TraesCS7B01G348400 chr3B 465326964 465327801 837 True 1315.000000 1315 94.743000 1 856 1 chr3B.!!$R1 855
7 TraesCS7B01G348400 chr3B 465272528 465273863 1335 True 964.500000 1321 92.826000 1 1314 2 chr3B.!!$R3 1313
8 TraesCS7B01G348400 chr3B 752256387 752258356 1969 False 774.750000 1031 94.852000 205 2922 4 chr3B.!!$F1 2717
9 TraesCS7B01G348400 chr3B 465288113 465289237 1124 True 461.266667 675 89.389333 1824 2922 3 chr3B.!!$R4 1098
10 TraesCS7B01G348400 chr3B 465221793 465222907 1114 True 457.600000 695 89.544333 1861 2922 3 chr3B.!!$R2 1061
11 TraesCS7B01G348400 chr6D 463820116 463825389 5273 False 566.080000 1277 90.760400 1 2319 5 chr6D.!!$F1 2318
12 TraesCS7B01G348400 chr5D 494289853 494291878 2025 True 822.000000 1262 91.452333 1 1957 3 chr5D.!!$R2 1956
13 TraesCS7B01G348400 chr5D 348508150 348508719 569 True 459.000000 459 81.849000 2349 2922 1 chr5D.!!$R1 573
14 TraesCS7B01G348400 chr7D 459875642 459877870 2228 False 547.000000 1236 91.897000 1 2219 3 chr7D.!!$F3 2218
15 TraesCS7B01G348400 chr7D 53325931 53326599 668 False 538.000000 538 81.894000 2230 2922 1 chr7D.!!$F2 692
16 TraesCS7B01G348400 chr7D 27276728 27277343 615 False 531.000000 531 83.173000 2335 2922 1 chr7D.!!$F1 587
17 TraesCS7B01G348400 chr5B 549162354 549164303 1949 True 1201.000000 1225 91.124500 1 1955 2 chr5B.!!$R1 1954
18 TraesCS7B01G348400 chr4B 498123294 498124004 710 True 628.500000 1061 96.270000 1936 2733 2 chr4B.!!$R1 797
19 TraesCS7B01G348400 chr4D 497687185 497688004 819 False 976.000000 976 88.661000 1022 1822 1 chr4D.!!$F3 800
20 TraesCS7B01G348400 chr4D 12305997 12306767 770 False 894.000000 894 87.933000 1022 1783 1 chr4D.!!$F1 761
21 TraesCS7B01G348400 chr4D 388110796 388111374 578 False 475.000000 475 82.119000 2340 2922 1 chr4D.!!$F2 582
22 TraesCS7B01G348400 chr6A 53304160 53304931 771 True 909.000000 909 88.288000 1022 1779 1 chr6A.!!$R1 757
23 TraesCS7B01G348400 chr2D 385379897 385380672 775 True 898.000000 898 87.898000 1133 1899 1 chr2D.!!$R1 766
24 TraesCS7B01G348400 chr2D 649357376 649358037 661 True 536.000000 536 81.882000 2230 2922 1 chr2D.!!$R2 692
25 TraesCS7B01G348400 chrUn 11305405 11306140 735 True 525.000000 525 80.293000 1064 1783 1 chrUn.!!$R1 719
26 TraesCS7B01G348400 chr1D 395418937 395419551 614 False 492.000000 492 81.862000 1189 1783 1 chr1D.!!$F1 594
27 TraesCS7B01G348400 chr2A 36779966 36780638 672 False 470.000000 470 79.944000 2230 2922 1 chr2A.!!$F1 692
28 TraesCS7B01G348400 chr3D 580706840 580707415 575 False 466.000000 466 81.864000 2340 2922 1 chr3D.!!$F1 582

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
234 237 0.179062 CTGAGGCTACCACTGCATCC 60.179 60.0 0.0 0.0 40.04 3.51 F
1365 4522 0.616395 TGGAGCCGTCATAACCCAGA 60.616 55.0 0.0 0.0 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1462 4622 0.179001 ACCACCTTGCTGTACCAACC 60.179 55.0 0.0 0.0 0.00 3.77 R
2881 6723 0.879090 GGTGCCTAAACCAAAGGACG 59.121 55.0 0.0 0.0 40.22 4.79 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
76 77 5.316987 AGGATAACCTGGAAAGTTCACTTG 58.683 41.667 0.00 0.00 45.92 3.16
77 78 5.070685 GGATAACCTGGAAAGTTCACTTGT 58.929 41.667 0.00 0.00 36.12 3.16
234 237 0.179062 CTGAGGCTACCACTGCATCC 60.179 60.000 0.00 0.00 40.04 3.51
300 303 6.090628 CAGAGAACTACAAGATGCAAGAGAAC 59.909 42.308 0.00 0.00 0.00 3.01
301 304 6.014669 AGAGAACTACAAGATGCAAGAGAACT 60.015 38.462 0.00 0.00 0.00 3.01
302 305 7.177568 AGAGAACTACAAGATGCAAGAGAACTA 59.822 37.037 0.00 0.00 0.00 2.24
303 306 7.093992 AGAACTACAAGATGCAAGAGAACTAC 58.906 38.462 0.00 0.00 0.00 2.73
304 307 6.346477 ACTACAAGATGCAAGAGAACTACA 57.654 37.500 0.00 0.00 0.00 2.74
305 308 6.759272 ACTACAAGATGCAAGAGAACTACAA 58.241 36.000 0.00 0.00 0.00 2.41
306 309 6.870965 ACTACAAGATGCAAGAGAACTACAAG 59.129 38.462 0.00 0.00 0.00 3.16
307 310 5.858381 ACAAGATGCAAGAGAACTACAAGA 58.142 37.500 0.00 0.00 0.00 3.02
308 311 6.471146 ACAAGATGCAAGAGAACTACAAGAT 58.529 36.000 0.00 0.00 0.00 2.40
309 312 6.370994 ACAAGATGCAAGAGAACTACAAGATG 59.629 38.462 0.00 0.00 0.00 2.90
310 313 4.874966 AGATGCAAGAGAACTACAAGATGC 59.125 41.667 0.00 0.00 0.00 3.91
311 314 4.006780 TGCAAGAGAACTACAAGATGCA 57.993 40.909 0.00 0.00 39.95 3.96
312 315 4.388485 TGCAAGAGAACTACAAGATGCAA 58.612 39.130 0.00 0.00 39.36 4.08
313 316 4.453478 TGCAAGAGAACTACAAGATGCAAG 59.547 41.667 0.00 0.00 39.36 4.01
314 317 4.692625 GCAAGAGAACTACAAGATGCAAGA 59.307 41.667 0.00 0.00 33.00 3.02
315 318 5.163874 GCAAGAGAACTACAAGATGCAAGAG 60.164 44.000 0.00 0.00 33.00 2.85
316 319 5.991933 AGAGAACTACAAGATGCAAGAGA 57.008 39.130 0.00 0.00 0.00 3.10
317 320 6.352016 AGAGAACTACAAGATGCAAGAGAA 57.648 37.500 0.00 0.00 0.00 2.87
386 389 9.565090 CATTAGGAACCTGAAGATGAATCATTA 57.435 33.333 0.00 0.00 0.00 1.90
521 524 7.201848 GGGACATGAGAATCTGATAAAATGCAA 60.202 37.037 0.00 0.00 34.92 4.08
606 609 7.397221 AGTTGAAGTTGATCCATGACATCTTA 58.603 34.615 0.00 0.00 0.00 2.10
620 623 5.759059 TGACATCTTAAAGGAATGAGGCAT 58.241 37.500 0.00 0.00 0.00 4.40
858 871 5.331876 ACTCCTGTATGCTCAAGTTAGAC 57.668 43.478 0.00 0.00 0.00 2.59
1061 1240 2.613506 CGTTGGGCCGAACAGGAAC 61.614 63.158 27.43 3.25 45.00 3.62
1101 1306 2.281966 GGGGGAAAACTAGGGTTAGGT 58.718 52.381 0.00 0.00 34.90 3.08
1158 1370 2.485582 CGATCTCGCAGTCGGTGT 59.514 61.111 0.00 0.00 34.39 4.16
1357 4514 0.683973 GGATCTCATGGAGCCGTCAT 59.316 55.000 3.23 0.00 40.91 3.06
1365 4522 0.616395 TGGAGCCGTCATAACCCAGA 60.616 55.000 0.00 0.00 0.00 3.86
1453 4612 4.073425 AGATCTTCTCCCCTCTGAAACT 57.927 45.455 0.00 0.00 0.00 2.66
1462 4622 3.008375 TCCCCTCTGAAACTCTGATTGTG 59.992 47.826 0.00 0.00 0.00 3.33
1514 4682 5.311265 GTTGAATGGCATGATGATCCTCTA 58.689 41.667 0.00 0.00 0.00 2.43
1579 4747 1.134670 GCGTAGGCTGAGAGGTGAAAT 60.135 52.381 0.00 0.00 35.83 2.17
1726 4906 7.451731 AGGGGAAATATCAGAATGTTGTCTA 57.548 36.000 0.00 0.00 37.40 2.59
1992 5450 1.811965 TGCCAAATGTTGATCACCTCG 59.188 47.619 0.00 0.00 0.00 4.63
2057 5648 2.821969 AGTGCCAAATGTTGATCACCTC 59.178 45.455 0.00 0.00 35.80 3.85
2058 5649 2.557924 GTGCCAAATGTTGATCACCTCA 59.442 45.455 0.00 0.00 32.01 3.86
2059 5650 2.821378 TGCCAAATGTTGATCACCTCAG 59.179 45.455 0.00 0.00 34.68 3.35
2061 5652 3.128242 GCCAAATGTTGATCACCTCAGAG 59.872 47.826 0.00 0.00 34.68 3.35
2062 5653 4.582869 CCAAATGTTGATCACCTCAGAGA 58.417 43.478 0.00 0.00 34.68 3.10
2063 5654 5.191426 CCAAATGTTGATCACCTCAGAGAT 58.809 41.667 0.00 0.00 34.68 2.75
2064 5655 5.066117 CCAAATGTTGATCACCTCAGAGATG 59.934 44.000 0.00 0.00 34.68 2.90
2065 5656 3.257469 TGTTGATCACCTCAGAGATGC 57.743 47.619 0.00 0.00 34.68 3.91
2067 5658 1.870064 TGATCACCTCAGAGATGCCA 58.130 50.000 0.00 0.00 0.00 4.92
2068 5659 2.190538 TGATCACCTCAGAGATGCCAA 58.809 47.619 0.00 0.00 0.00 4.52
2069 5660 2.573009 TGATCACCTCAGAGATGCCAAA 59.427 45.455 0.00 0.00 0.00 3.28
2070 5661 3.201487 TGATCACCTCAGAGATGCCAAAT 59.799 43.478 0.00 0.00 0.00 2.32
2071 5662 2.995283 TCACCTCAGAGATGCCAAATG 58.005 47.619 0.00 0.00 0.00 2.32
2072 5663 1.404391 CACCTCAGAGATGCCAAATGC 59.596 52.381 0.00 0.00 41.77 3.56
2073 5664 1.030457 CCTCAGAGATGCCAAATGCC 58.970 55.000 0.00 0.00 40.16 4.40
2074 5665 1.683938 CCTCAGAGATGCCAAATGCCA 60.684 52.381 0.00 0.00 40.16 4.92
2075 5666 2.097036 CTCAGAGATGCCAAATGCCAA 58.903 47.619 0.00 0.00 40.16 4.52
2091 5682 2.892215 TGCCAAATGAGCATTGAGTTGA 59.108 40.909 0.00 0.00 34.69 3.18
2092 5683 3.057104 TGCCAAATGAGCATTGAGTTGAG 60.057 43.478 0.00 0.00 34.69 3.02
2093 5684 3.057033 GCCAAATGAGCATTGAGTTGAGT 60.057 43.478 0.00 0.00 0.00 3.41
2094 5685 4.560108 GCCAAATGAGCATTGAGTTGAGTT 60.560 41.667 0.00 0.00 0.00 3.01
2095 5686 4.921515 CCAAATGAGCATTGAGTTGAGTTG 59.078 41.667 0.00 0.00 0.00 3.16
2103 5694 4.736793 GCATTGAGTTGAGTTGTTCACAAG 59.263 41.667 0.00 0.00 36.39 3.16
2115 5706 2.757314 TGTTCACAAGTGCCAAATGACA 59.243 40.909 0.00 0.00 0.00 3.58
2201 5792 6.147581 GCATAATATGTTCACAGGAGCATTG 58.852 40.000 1.92 0.00 41.53 2.82
2290 5920 6.209391 AGCACAAATAACTAAGTTTCCAGCAT 59.791 34.615 0.00 0.00 0.00 3.79
2421 6104 1.988107 TGGAAGAAGGAGCACCAGAAT 59.012 47.619 2.07 0.00 38.94 2.40
2547 6230 0.535780 TCTTGCACTTGCTGACCCTG 60.536 55.000 2.33 0.00 42.66 4.45
2556 6323 0.764890 TGCTGACCCTGTAGCACTTT 59.235 50.000 0.00 0.00 44.36 2.66
2561 6343 2.438021 TGACCCTGTAGCACTTTCACTT 59.562 45.455 0.00 0.00 0.00 3.16
2589 6419 3.324846 TCTTGCAGAAGAAGACCTTGCTA 59.675 43.478 0.00 0.00 35.14 3.49
2861 6703 1.243342 GCCCACAGTTGCTGCATGTA 61.243 55.000 1.84 0.00 34.37 2.29
2881 6723 4.947388 TGTAATAGTGGCCATTCTTGAACC 59.053 41.667 9.72 0.00 0.00 3.62
2902 6744 1.886542 GTCCTTTGGTTTAGGCACCTG 59.113 52.381 0.00 0.00 37.75 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
76 77 6.708285 TCTCTTCTTTAAGGTGGTGGATAAC 58.292 40.000 0.00 0.00 33.22 1.89
77 78 6.945636 TCTCTTCTTTAAGGTGGTGGATAA 57.054 37.500 0.00 0.00 33.22 1.75
223 226 1.600636 CCACAACGGATGCAGTGGT 60.601 57.895 11.41 0.00 44.95 4.16
234 237 1.210931 CTTCATGGCAGCCACAACG 59.789 57.895 19.10 5.92 35.80 4.10
300 303 7.386299 ACTTTGTACTTCTCTTGCATCTTGTAG 59.614 37.037 0.00 0.00 0.00 2.74
301 304 7.171508 CACTTTGTACTTCTCTTGCATCTTGTA 59.828 37.037 0.00 0.00 0.00 2.41
302 305 6.017605 CACTTTGTACTTCTCTTGCATCTTGT 60.018 38.462 0.00 0.00 0.00 3.16
303 306 6.369005 CACTTTGTACTTCTCTTGCATCTTG 58.631 40.000 0.00 0.00 0.00 3.02
304 307 5.049129 GCACTTTGTACTTCTCTTGCATCTT 60.049 40.000 0.00 0.00 0.00 2.40
305 308 4.453819 GCACTTTGTACTTCTCTTGCATCT 59.546 41.667 0.00 0.00 0.00 2.90
306 309 4.453819 AGCACTTTGTACTTCTCTTGCATC 59.546 41.667 0.00 0.00 0.00 3.91
307 310 4.214971 CAGCACTTTGTACTTCTCTTGCAT 59.785 41.667 0.00 0.00 0.00 3.96
308 311 3.561310 CAGCACTTTGTACTTCTCTTGCA 59.439 43.478 0.00 0.00 0.00 4.08
309 312 3.809832 TCAGCACTTTGTACTTCTCTTGC 59.190 43.478 0.00 0.00 0.00 4.01
310 313 5.698089 TCATCAGCACTTTGTACTTCTCTTG 59.302 40.000 0.00 0.00 0.00 3.02
311 314 5.858381 TCATCAGCACTTTGTACTTCTCTT 58.142 37.500 0.00 0.00 0.00 2.85
312 315 5.474578 TCATCAGCACTTTGTACTTCTCT 57.525 39.130 0.00 0.00 0.00 3.10
313 316 5.106908 GGTTCATCAGCACTTTGTACTTCTC 60.107 44.000 0.00 0.00 0.00 2.87
314 317 4.757149 GGTTCATCAGCACTTTGTACTTCT 59.243 41.667 0.00 0.00 0.00 2.85
315 318 4.757149 AGGTTCATCAGCACTTTGTACTTC 59.243 41.667 0.00 0.00 0.00 3.01
316 319 4.516698 CAGGTTCATCAGCACTTTGTACTT 59.483 41.667 0.00 0.00 0.00 2.24
317 320 4.067896 CAGGTTCATCAGCACTTTGTACT 58.932 43.478 0.00 0.00 0.00 2.73
386 389 5.012561 TCAGCTAGCTTTTCCTTCTCTTTCT 59.987 40.000 16.46 0.00 0.00 2.52
521 524 3.274095 GCTGGAGCTTTAACTCATCCT 57.726 47.619 0.00 0.00 38.50 3.24
545 548 2.677836 TCAAGTGACTTGAACTGCACAC 59.322 45.455 24.40 0.00 45.84 3.82
606 609 6.607970 TCATCTTCATATGCCTCATTCCTTT 58.392 36.000 0.00 0.00 0.00 3.11
620 623 6.666980 CCTCATCTACCCAGATCATCTTCATA 59.333 42.308 0.00 0.00 39.62 2.15
858 871 3.717400 TGAGCAATCTAACTAGAGCCG 57.283 47.619 0.00 0.00 35.50 5.52
1015 1194 3.937778 TTAATAACCAGGGCCTACACC 57.062 47.619 5.28 0.00 0.00 4.16
1061 1240 1.520590 CCAAATGCACAAACCGTTTCG 59.479 47.619 0.00 0.00 0.00 3.46
1101 1306 4.508128 GAATCGCCTCCGCCGTCA 62.508 66.667 0.00 0.00 0.00 4.35
1165 1380 1.073025 ATTGAGTTGGACGCAGCCA 59.927 52.632 0.00 0.00 35.78 4.75
1357 4514 0.706433 AGTACCTCCGGTCTGGGTTA 59.294 55.000 13.98 0.00 37.09 2.85
1365 4522 1.751927 CAGGCGTAGTACCTCCGGT 60.752 63.158 0.00 0.00 40.16 5.28
1453 4612 2.105649 TGCTGTACCAACCACAATCAGA 59.894 45.455 0.00 0.00 0.00 3.27
1462 4622 0.179001 ACCACCTTGCTGTACCAACC 60.179 55.000 0.00 0.00 0.00 3.77
1514 4682 5.828299 TCAAATCACTCAAAAACTTCGGT 57.172 34.783 0.00 0.00 0.00 4.69
1579 4747 6.972328 GTGATCTTCAAACAAAGCAACACTTA 59.028 34.615 0.00 0.00 37.75 2.24
1726 4906 5.359860 CCTACCACAAAGACAAGAAAAAGGT 59.640 40.000 0.00 0.00 0.00 3.50
1933 5298 8.264347 TGCACTTCATTACTAGGATGAACATAA 58.736 33.333 15.70 4.72 38.29 1.90
2063 5654 1.279558 ATGCTCATTTGGCATTTGGCA 59.720 42.857 2.26 2.26 46.62 4.92
2064 5655 2.032680 ATGCTCATTTGGCATTTGGC 57.967 45.000 0.00 0.00 46.62 4.52
2070 5661 2.892215 TCAACTCAATGCTCATTTGGCA 59.108 40.909 0.00 0.00 44.05 4.92
2071 5662 3.057033 ACTCAACTCAATGCTCATTTGGC 60.057 43.478 0.00 0.00 0.00 4.52
2072 5663 4.778534 ACTCAACTCAATGCTCATTTGG 57.221 40.909 0.00 0.00 0.00 3.28
2073 5664 5.526115 ACAACTCAACTCAATGCTCATTTG 58.474 37.500 0.00 0.00 0.00 2.32
2074 5665 5.779529 ACAACTCAACTCAATGCTCATTT 57.220 34.783 0.00 0.00 0.00 2.32
2075 5666 5.300034 TGAACAACTCAACTCAATGCTCATT 59.700 36.000 0.00 0.00 0.00 2.57
2091 5682 3.446873 TCATTTGGCACTTGTGAACAACT 59.553 39.130 4.79 1.27 0.00 3.16
2092 5683 3.551485 GTCATTTGGCACTTGTGAACAAC 59.449 43.478 4.79 0.00 0.00 3.32
2093 5684 3.194329 TGTCATTTGGCACTTGTGAACAA 59.806 39.130 4.79 6.15 0.00 2.83
2094 5685 2.757314 TGTCATTTGGCACTTGTGAACA 59.243 40.909 4.79 0.09 0.00 3.18
2095 5686 3.435105 TGTCATTTGGCACTTGTGAAC 57.565 42.857 4.79 0.00 0.00 3.18
2103 5694 3.921119 TCTGTCATTGTCATTTGGCAC 57.079 42.857 0.00 0.00 0.00 5.01
2115 5706 5.779529 ACAACTCAATGCTTTCTGTCATT 57.220 34.783 0.00 0.00 33.56 2.57
2201 5792 6.017440 TGTGCTTAGGTCATTTGTGAACTTAC 60.017 38.462 0.84 0.00 37.08 2.34
2421 6104 5.108187 AGATTTTCTGCAGGAGCTTCATA 57.892 39.130 15.13 0.00 42.74 2.15
2589 6419 1.196766 TCAGGATCACAGCAGCCACT 61.197 55.000 0.00 0.00 0.00 4.00
2861 6703 3.016736 CGGTTCAAGAATGGCCACTATT 58.983 45.455 8.16 0.00 0.00 1.73
2881 6723 0.879090 GGTGCCTAAACCAAAGGACG 59.121 55.000 0.00 0.00 40.22 4.79


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

AutoCloner maintained by Alex Coulton.