Multiple sequence alignment - TraesCS1A01G062800

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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 TraesCS1A01G062800 chr1A 100.000 3202 0 0 1 3202 42714494 42717695 0.000000e+00 5914.0
1 TraesCS1A01G062800 chr1A 96.811 2634 79 3 570 3202 42679901 42682530 0.000000e+00 4394.0
2 TraesCS1A01G062800 chr1A 98.006 1404 23 3 1800 3202 42667748 42669147 0.000000e+00 2433.0
3 TraesCS1A01G062800 chr1A 94.409 948 49 4 570 1515 42755436 42756381 0.000000e+00 1454.0
4 TraesCS1A01G062800 chr1A 98.011 553 11 0 2650 3202 42691328 42691880 0.000000e+00 961.0
5 TraesCS1A01G062800 chr1A 88.447 528 53 5 1867 2388 42799864 42800389 5.830000e-177 630.0
6 TraesCS1A01G062800 chr4A 91.702 952 67 11 570 1515 295204723 295205668 0.000000e+00 1310.0
7 TraesCS1A01G062800 chr4A 91.176 952 75 9 570 1515 200572078 200573026 0.000000e+00 1284.0
8 TraesCS1A01G062800 chr4A 83.230 322 49 3 2877 3194 29461321 29461641 1.120000e-74 291.0
9 TraesCS1A01G062800 chr5A 91.492 952 70 9 570 1515 466638974 466639920 0.000000e+00 1299.0
10 TraesCS1A01G062800 chr5A 91.118 957 72 12 571 1518 275553925 275552973 0.000000e+00 1284.0
11 TraesCS1A01G062800 chr5A 93.153 555 25 12 19 569 511826310 511826855 0.000000e+00 802.0
12 TraesCS1A01G062800 chr5A 92.240 567 28 12 9 569 651159412 651158856 0.000000e+00 789.0
13 TraesCS1A01G062800 chr5A 91.783 572 36 10 2 569 429573198 429573762 0.000000e+00 785.0
14 TraesCS1A01G062800 chr5A 92.049 566 29 13 9 569 651166562 651166008 0.000000e+00 782.0
15 TraesCS1A01G062800 chr5A 91.783 572 30 14 2 569 511819295 511819853 0.000000e+00 780.0
16 TraesCS1A01G062800 chr5A 92.405 553 31 9 19 569 475932772 475932229 0.000000e+00 778.0
17 TraesCS1A01G062800 chr7A 91.195 954 73 10 570 1515 409590173 409591123 0.000000e+00 1286.0
18 TraesCS1A01G062800 chr7A 91.014 957 74 11 570 1518 537500937 537499985 0.000000e+00 1280.0
19 TraesCS1A01G062800 chr7A 96.970 33 1 0 2171 2203 133669341 133669309 4.460000e-04 56.5
20 TraesCS1A01G062800 chr3A 91.195 954 72 10 570 1518 389524300 389523354 0.000000e+00 1286.0
21 TraesCS1A01G062800 chr3A 92.995 571 27 9 2 569 62647336 62646776 0.000000e+00 821.0
22 TraesCS1A01G062800 chr3A 91.463 574 28 17 2 569 634595403 634595961 0.000000e+00 769.0
23 TraesCS1A01G062800 chr3A 91.274 573 32 14 2 569 588024222 588024781 0.000000e+00 765.0
24 TraesCS1A01G062800 chr3A 93.617 94 4 2 1718 1811 19063439 19063348 4.310000e-29 139.0
25 TraesCS1A01G062800 chr3A 91.919 99 7 1 1704 1801 359664923 359665021 1.550000e-28 137.0
26 TraesCS1A01G062800 chr1D 91.723 592 37 6 1798 2380 43281417 43282005 0.000000e+00 811.0
27 TraesCS1A01G062800 chr1D 87.767 515 50 7 2547 3058 43282250 43282754 9.890000e-165 590.0
28 TraesCS1A01G062800 chr1D 95.146 206 5 1 1516 1716 43281213 43281418 1.430000e-83 320.0
29 TraesCS1A01G062800 chr1D 82.703 185 28 3 2964 3146 290948929 290948747 9.190000e-36 161.0
30 TraesCS1A01G062800 chr1D 76.689 296 56 9 2900 3193 317683948 317683664 5.530000e-33 152.0
31 TraesCS1A01G062800 chr1D 95.652 92 3 1 1718 1808 192809919 192810010 2.570000e-31 147.0
32 TraesCS1A01G062800 chr1D 95.556 90 3 1 1718 1806 268076129 268076040 3.330000e-30 143.0
33 TraesCS1A01G062800 chr1D 94.505 91 4 1 1714 1803 47310447 47310357 4.310000e-29 139.0
34 TraesCS1A01G062800 chr1B 90.815 577 40 5 1822 2386 63192582 63193157 0.000000e+00 760.0
35 TraesCS1A01G062800 chr1B 82.834 367 40 7 2396 2744 63193328 63193689 1.120000e-79 307.0
36 TraesCS1A01G062800 chr1B 87.374 198 14 6 1520 1707 63192325 63192521 1.930000e-52 217.0
37 TraesCS1A01G062800 chr1B 92.857 98 6 1 1705 1801 624302716 624302619 1.200000e-29 141.0
38 TraesCS1A01G062800 chr2A 84.351 262 39 2 2900 3160 619569564 619569824 4.100000e-64 255.0
39 TraesCS1A01G062800 chr2A 82.007 289 49 3 2875 3160 772766147 772766435 3.190000e-60 243.0
40 TraesCS1A01G062800 chr5B 83.704 270 42 2 2893 3160 129349550 129349281 1.470000e-63 254.0
41 TraesCS1A01G062800 chr7D 82.414 290 48 3 2877 3164 605758978 605758690 1.910000e-62 250.0
42 TraesCS1A01G062800 chr7D 82.437 279 47 2 2877 3154 285239795 285239518 3.190000e-60 243.0
43 TraesCS1A01G062800 chr7D 96.591 88 2 1 1718 1804 234804177 234804090 9.260000e-31 145.0
44 TraesCS1A01G062800 chr7D 94.624 93 2 3 1718 1808 86323476 86323385 1.200000e-29 141.0
45 TraesCS1A01G062800 chr5D 81.553 309 52 4 2877 3182 29153295 29153601 1.910000e-62 250.0
46 TraesCS1A01G062800 chr5D 80.623 289 53 2 2877 3163 197123355 197123642 1.500000e-53 220.0
47 TraesCS1A01G062800 chr5D 82.857 210 34 2 2877 3085 565657992 565657784 1.520000e-43 187.0
48 TraesCS1A01G062800 chr5D 82.902 193 32 1 2926 3118 247376401 247376210 4.250000e-39 172.0
49 TraesCS1A01G062800 chr5D 97.619 84 2 0 1718 1801 420877436 420877353 9.260000e-31 145.0
50 TraesCS1A01G062800 chr5D 95.556 90 3 1 1718 1806 54613401 54613312 3.330000e-30 143.0
51 TraesCS1A01G062800 chr2D 82.168 286 48 3 2877 3160 21312104 21312388 3.190000e-60 243.0
52 TraesCS1A01G062800 chr2D 88.496 113 9 4 1718 1826 308500341 308500453 2.000000e-27 134.0
53 TraesCS1A01G062800 chr2D 91.837 49 0 1 3158 3202 156601970 156601922 7.410000e-07 65.8
54 TraesCS1A01G062800 chr7B 81.818 253 44 2 2885 3135 152344261 152344009 9.000000e-51 211.0
55 TraesCS1A01G062800 chr7B 94.624 93 4 1 1718 1809 26879174 26879266 3.330000e-30 143.0
56 TraesCS1A01G062800 chr4B 82.283 254 33 4 2907 3160 128033818 128033577 3.240000e-50 209.0
57 TraesCS1A01G062800 chr4B 81.749 263 35 5 2900 3160 4548106 4548357 1.160000e-49 207.0
58 TraesCS1A01G062800 chr4B 79.585 289 43 7 2875 3160 120286062 120285787 3.260000e-45 193.0
59 TraesCS1A01G062800 chr4B 79.200 250 50 2 2899 3147 265441629 265441877 4.250000e-39 172.0
60 TraesCS1A01G062800 chr4B 77.491 271 57 4 2899 3167 268299823 268299555 3.310000e-35 159.0
61 TraesCS1A01G062800 chr4B 79.295 227 44 3 2899 3124 158702940 158702716 4.280000e-34 156.0
62 TraesCS1A01G062800 chr3D 82.018 228 41 0 2877 3104 590315328 590315555 9.060000e-46 195.0
63 TraesCS1A01G062800 chr3D 79.592 245 48 2 2904 3147 218661635 218661878 1.180000e-39 174.0
64 TraesCS1A01G062800 chr3D 97.619 84 2 0 1718 1801 16318067 16318150 9.260000e-31 145.0
65 TraesCS1A01G062800 chr6D 79.699 266 47 5 2903 3167 249290268 249290009 5.450000e-43 185.0
66 TraesCS1A01G062800 chr6D 77.397 292 53 6 2877 3167 454651540 454651819 9.190000e-36 161.0
67 TraesCS1A01G062800 chr6D 87.500 136 14 2 2964 3098 201188930 201188797 1.540000e-33 154.0
68 TraesCS1A01G062800 chr6D 81.921 177 30 2 2992 3167 25474396 25474221 7.160000e-32 148.0
69 TraesCS1A01G062800 chr6D 77.407 270 47 9 2900 3167 450392678 450392421 7.160000e-32 148.0
70 TraesCS1A01G062800 chr6D 94.681 94 3 2 1715 1806 160314873 160314780 9.260000e-31 145.0
71 TraesCS1A01G062800 chr6D 95.556 90 3 1 1718 1806 411828805 411828894 3.330000e-30 143.0
72 TraesCS1A01G062800 chr6D 76.718 262 53 6 2900 3160 442508333 442508079 4.310000e-29 139.0
73 TraesCS1A01G062800 chr6D 78.744 207 34 5 2900 3106 342162076 342161880 2.590000e-26 130.0
74 TraesCS1A01G062800 chr6D 81.169 154 28 1 2992 3144 261203217 261203370 4.340000e-24 122.0
75 TraesCS1A01G062800 chr6D 91.837 49 0 1 3158 3202 128261159 128261111 7.410000e-07 65.8
76 TraesCS1A01G062800 chr4D 79.545 264 38 7 2900 3160 332060638 332060388 1.180000e-39 174.0
77 TraesCS1A01G062800 chr4D 77.287 317 57 10 2876 3189 109373354 109373658 4.250000e-39 172.0
78 TraesCS1A01G062800 chr4D 82.162 185 29 3 2964 3146 146122314 146122132 4.280000e-34 156.0
79 TraesCS1A01G062800 chr4D 95.556 90 3 1 1718 1806 278810209 278810120 3.330000e-30 143.0
80 TraesCS1A01G062800 chr4D 93.478 92 6 0 1718 1809 230661475 230661384 1.550000e-28 137.0
81 TraesCS1A01G062800 chr4D 90.000 50 0 2 3157 3202 322661280 322661328 3.450000e-05 60.2
82 TraesCS1A01G062800 chrUn 95.506 89 2 2 1715 1801 279936303 279936215 1.200000e-29 141.0
83 TraesCS1A01G062800 chrUn 95.506 89 2 2 1715 1801 395541690 395541602 1.200000e-29 141.0
84 TraesCS1A01G062800 chrUn 96.471 85 2 1 1718 1801 37289249 37289165 4.310000e-29 139.0
85 TraesCS1A01G062800 chrUn 96.471 85 2 1 1718 1801 37292425 37292341 4.310000e-29 139.0
86 TraesCS1A01G062800 chrUn 94.444 90 4 1 1718 1806 320245606 320245695 1.550000e-28 137.0
87 TraesCS1A01G062800 chrUn 93.548 93 3 3 1718 1808 42362365 42362456 5.570000e-28 135.0
88 TraesCS1A01G062800 chrUn 95.294 85 3 1 1718 1801 35713257 35713341 2.000000e-27 134.0
89 TraesCS1A01G062800 chrUn 93.407 91 5 1 1718 1807 122302185 122302095 2.000000e-27 134.0
90 TraesCS1A01G062800 chrUn 95.294 85 3 1 1718 1801 332242461 332242545 2.000000e-27 134.0
91 TraesCS1A01G062800 chrUn 90.722 97 7 2 1707 1801 324448609 324448705 9.320000e-26 128.0
92 TraesCS1A01G062800 chrUn 88.889 54 1 2 3153 3202 11766775 11766723 9.590000e-06 62.1
93 TraesCS1A01G062800 chr6A 92.632 95 4 3 1709 1801 560694300 560694393 2.000000e-27 134.0


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 TraesCS1A01G062800 chr1A 42714494 42717695 3201 False 5914.000000 5914 100.000000 1 3202 1 chr1A.!!$F4 3201
1 TraesCS1A01G062800 chr1A 42679901 42682530 2629 False 4394.000000 4394 96.811000 570 3202 1 chr1A.!!$F2 2632
2 TraesCS1A01G062800 chr1A 42667748 42669147 1399 False 2433.000000 2433 98.006000 1800 3202 1 chr1A.!!$F1 1402
3 TraesCS1A01G062800 chr1A 42755436 42756381 945 False 1454.000000 1454 94.409000 570 1515 1 chr1A.!!$F5 945
4 TraesCS1A01G062800 chr1A 42691328 42691880 552 False 961.000000 961 98.011000 2650 3202 1 chr1A.!!$F3 552
5 TraesCS1A01G062800 chr1A 42799864 42800389 525 False 630.000000 630 88.447000 1867 2388 1 chr1A.!!$F6 521
6 TraesCS1A01G062800 chr4A 295204723 295205668 945 False 1310.000000 1310 91.702000 570 1515 1 chr4A.!!$F3 945
7 TraesCS1A01G062800 chr4A 200572078 200573026 948 False 1284.000000 1284 91.176000 570 1515 1 chr4A.!!$F2 945
8 TraesCS1A01G062800 chr5A 466638974 466639920 946 False 1299.000000 1299 91.492000 570 1515 1 chr5A.!!$F2 945
9 TraesCS1A01G062800 chr5A 275552973 275553925 952 True 1284.000000 1284 91.118000 571 1518 1 chr5A.!!$R1 947
10 TraesCS1A01G062800 chr5A 511826310 511826855 545 False 802.000000 802 93.153000 19 569 1 chr5A.!!$F4 550
11 TraesCS1A01G062800 chr5A 651158856 651159412 556 True 789.000000 789 92.240000 9 569 1 chr5A.!!$R3 560
12 TraesCS1A01G062800 chr5A 429573198 429573762 564 False 785.000000 785 91.783000 2 569 1 chr5A.!!$F1 567
13 TraesCS1A01G062800 chr5A 651166008 651166562 554 True 782.000000 782 92.049000 9 569 1 chr5A.!!$R4 560
14 TraesCS1A01G062800 chr5A 511819295 511819853 558 False 780.000000 780 91.783000 2 569 1 chr5A.!!$F3 567
15 TraesCS1A01G062800 chr5A 475932229 475932772 543 True 778.000000 778 92.405000 19 569 1 chr5A.!!$R2 550
16 TraesCS1A01G062800 chr7A 409590173 409591123 950 False 1286.000000 1286 91.195000 570 1515 1 chr7A.!!$F1 945
17 TraesCS1A01G062800 chr7A 537499985 537500937 952 True 1280.000000 1280 91.014000 570 1518 1 chr7A.!!$R2 948
18 TraesCS1A01G062800 chr3A 389523354 389524300 946 True 1286.000000 1286 91.195000 570 1518 1 chr3A.!!$R3 948
19 TraesCS1A01G062800 chr3A 62646776 62647336 560 True 821.000000 821 92.995000 2 569 1 chr3A.!!$R2 567
20 TraesCS1A01G062800 chr3A 634595403 634595961 558 False 769.000000 769 91.463000 2 569 1 chr3A.!!$F3 567
21 TraesCS1A01G062800 chr3A 588024222 588024781 559 False 765.000000 765 91.274000 2 569 1 chr3A.!!$F2 567
22 TraesCS1A01G062800 chr1D 43281213 43282754 1541 False 573.666667 811 91.545333 1516 3058 3 chr1D.!!$F2 1542
23 TraesCS1A01G062800 chr1B 63192325 63193689 1364 False 428.000000 760 87.007667 1520 2744 3 chr1B.!!$F1 1224

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
106 112 1.837747 GTTCACGCACAGAAAAACACG 59.162 47.619 0.00 0.00 0.00 4.49 F
899 922 3.020984 AGGGTTTGAAGTTTCGAAAGCA 58.979 40.909 11.66 7.35 32.65 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1173 1199 0.910088 AAGGGTAGTGAGGTGGAGCC 60.91 60.0 0.0 0.0 37.58 4.70 R
2725 3004 0.739813 ACTATTGCAGAACCGGCGAC 60.74 55.0 9.3 0.0 0.00 5.19 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
106 112 1.837747 GTTCACGCACAGAAAAACACG 59.162 47.619 0.00 0.00 0.00 4.49
159 166 9.524496 AATACTAAAGTAAATTTTTCCCCGACT 57.476 29.630 0.00 0.00 33.76 4.18
161 168 5.717078 AAAGTAAATTTTTCCCCGACTCC 57.283 39.130 0.00 0.00 0.00 3.85
162 169 4.376225 AGTAAATTTTTCCCCGACTCCA 57.624 40.909 0.00 0.00 0.00 3.86
163 170 4.732065 AGTAAATTTTTCCCCGACTCCAA 58.268 39.130 0.00 0.00 0.00 3.53
210 217 4.497291 TTACTCCGGACCTAAAATGCAT 57.503 40.909 0.00 0.00 0.00 3.96
211 218 3.366052 ACTCCGGACCTAAAATGCATT 57.634 42.857 5.99 5.99 0.00 3.56
212 219 3.697166 ACTCCGGACCTAAAATGCATTT 58.303 40.909 18.99 18.99 34.92 2.32
252 259 7.547722 GCATTTTTCCCTATCCAAATAAAACGT 59.452 33.333 0.00 0.00 0.00 3.99
457 474 4.982241 ACAAAATCTCCAACTCTCTCCA 57.018 40.909 0.00 0.00 0.00 3.86
505 522 5.569355 TCTAGGATCAACCAAAATGCAAGA 58.431 37.500 0.00 0.00 42.04 3.02
663 684 3.767131 GGCAACTTGGGTTATGTTGGTAT 59.233 43.478 0.00 0.00 41.95 2.73
899 922 3.020984 AGGGTTTGAAGTTTCGAAAGCA 58.979 40.909 11.66 7.35 32.65 3.91
986 1011 7.598278 TGACTTAATTAAAATGCATCAACCGT 58.402 30.769 0.00 0.00 0.00 4.83
1104 1129 4.065789 TGATCGCTTCTAGCTTCTCGATA 58.934 43.478 0.00 0.00 39.60 2.92
1173 1199 1.009078 TATGCTTAGTGCTTGCTGCG 58.991 50.000 0.00 0.00 46.63 5.18
1200 1228 2.386113 ACCTCACTACCCTTTCCTACCT 59.614 50.000 0.00 0.00 0.00 3.08
1423 1452 3.378427 GGATCTAGCATTTGTGGTTGTCC 59.622 47.826 0.00 0.00 0.00 4.02
1687 1726 7.177832 TCCGACAAATTCTCTAGGATTAACA 57.822 36.000 0.00 0.00 0.00 2.41
1716 1755 2.688958 TCGAAAGGAGCCTCTAGTTAGC 59.311 50.000 0.00 0.00 0.00 3.09
1791 1830 8.571336 CAAAGTTGAGTCATCTATTTTGGAACT 58.429 33.333 4.14 0.00 35.65 3.01
1878 1948 5.654603 TTAATCGACTGCCTTGACTCTTA 57.345 39.130 0.00 0.00 0.00 2.10
1913 1983 1.131638 ATCGAATGCTTCCAGGCCTA 58.868 50.000 3.98 0.00 0.00 3.93
1950 2020 4.272748 GTCTGAGAACTGGTTGTTTACACC 59.727 45.833 0.00 0.00 39.30 4.16
2559 2833 4.270008 TCAATCTCTAGGACGATGTGACA 58.730 43.478 0.00 0.00 0.00 3.58
2610 2884 1.678101 GTTCTTTGCCACTGAGCAGTT 59.322 47.619 0.00 0.00 45.13 3.16
2759 3038 3.991773 GCAATAGTTTGGTCACGTACTCA 59.008 43.478 0.00 0.00 33.22 3.41
2863 3142 3.925379 TCTTGCATCTCGTGTAACATGT 58.075 40.909 0.00 0.00 35.74 3.21
3122 3402 7.054124 TGAACATTACACTCTCTTGTTTTCCT 58.946 34.615 0.00 0.00 31.09 3.36
3147 3427 2.064434 TTTGGTCCTGATGCACAACA 57.936 45.000 0.00 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 83 3.271729 TCTGTGCGTGAACCAGTTTTTA 58.728 40.909 0.00 0.00 0.00 1.52
83 89 2.159448 TGTTTTTCTGTGCGTGAACCAG 60.159 45.455 0.00 0.00 0.00 4.00
84 90 1.813178 TGTTTTTCTGTGCGTGAACCA 59.187 42.857 0.00 0.00 0.00 3.67
86 92 1.837747 CGTGTTTTTCTGTGCGTGAAC 59.162 47.619 0.00 0.00 0.00 3.18
94 100 7.320399 AGATTTTCTTTTCCGTGTTTTTCTGT 58.680 30.769 0.00 0.00 0.00 3.41
106 112 5.386958 AGCCCGTTTAGATTTTCTTTTCC 57.613 39.130 0.00 0.00 0.00 3.13
172 179 5.277634 CGGAGTAAAGTTCATTTTGTTCGGT 60.278 40.000 0.00 0.00 32.01 4.69
252 259 2.417515 GGTTTTGCCGGAGTTTTGTTCA 60.418 45.455 5.05 0.00 0.00 3.18
457 474 0.535102 CACGCAACTCAAGGACCCTT 60.535 55.000 0.00 0.00 36.60 3.95
663 684 4.155462 CACCGGATAAGCTAAGCGTATAGA 59.845 45.833 9.46 0.00 33.80 1.98
899 922 4.483243 CCCATAACCGCGGGCACT 62.483 66.667 31.76 13.29 35.09 4.40
986 1011 0.037697 GACCATCACGGCTACACACA 60.038 55.000 0.00 0.00 39.03 3.72
1087 1112 3.733727 GCAACTATCGAGAAGCTAGAAGC 59.266 47.826 0.00 0.00 42.84 3.86
1104 1129 2.740981 CGAGAAGAGAAGCAATGCAACT 59.259 45.455 8.35 5.91 0.00 3.16
1173 1199 0.910088 AAGGGTAGTGAGGTGGAGCC 60.910 60.000 0.00 0.00 37.58 4.70
1423 1452 5.063060 CGACTACGGAACCCAAAATAAGAAG 59.937 44.000 0.00 0.00 35.72 2.85
1537 1568 2.503356 CCTGCTGACTCCCTAACTTCAT 59.497 50.000 0.00 0.00 0.00 2.57
1716 1755 4.575885 TCTATTTTGGAACGGAAGGAGTG 58.424 43.478 0.00 0.00 0.00 3.51
1779 1818 6.712276 AGTTACTCCCTCAGTTCCAAAATAG 58.288 40.000 0.00 0.00 36.43 1.73
1791 1830 6.834451 CCACTATCTTAAGAGTTACTCCCTCA 59.166 42.308 11.53 0.00 0.00 3.86
1878 1948 4.743057 TTCGATGTCTGACAGATCCAAT 57.257 40.909 16.46 0.81 0.00 3.16
1950 2020 2.510768 AGAACTATTTAGCTCCGCGG 57.489 50.000 22.12 22.12 0.00 6.46
1970 2040 8.900781 GTCCTCTATACAAACTGACATGTAGTA 58.099 37.037 0.00 0.00 35.64 1.82
2559 2833 2.507058 TGCAGGAGAGGATGTTATTGCT 59.493 45.455 0.00 0.00 0.00 3.91
2610 2884 1.617850 GCATGATTTGGTGGGTTGACA 59.382 47.619 0.00 0.00 0.00 3.58
2721 3000 2.665185 GCAGAACCGGCGACAACT 60.665 61.111 9.30 0.00 0.00 3.16
2725 3004 0.739813 ACTATTGCAGAACCGGCGAC 60.740 55.000 9.30 0.00 0.00 5.19
2759 3038 1.146930 CGTATGGGCTGTGGCTGAT 59.853 57.895 0.00 0.00 38.73 2.90
2863 3142 6.371278 ACGGAGGAAGTAGTTCATAGGAATA 58.629 40.000 12.31 0.00 35.05 1.75
3122 3402 2.034053 GTGCATCAGGACCAAAACGAAA 59.966 45.455 0.00 0.00 0.00 3.46
3147 3427 9.303116 CACTATGGGTAGTCTAAGTCATCTTAT 57.697 37.037 0.00 0.00 39.12 1.73


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

AutoCloner maintained by Alex Coulton.