Multiple sequence alignment - TraesCS1D01G252800

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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 TraesCS1D01G252800 chr1D 100.000 2701 0 0 1 2701 344747860 344745160 0.000000e+00 4988.0
1 TraesCS1D01G252800 chr1D 96.602 1501 43 2 1 1493 344707322 344705822 0.000000e+00 2483.0
2 TraesCS1D01G252800 chr1D 95.447 1208 52 3 1495 2701 344705759 344704554 0.000000e+00 1923.0
3 TraesCS1D01G252800 chr1D 76.511 1175 233 27 5 1163 297787856 297789003 4.290000e-168 601.0
4 TraesCS1D01G252800 chr1D 97.177 248 7 0 2454 2701 51637495 51637742 1.290000e-113 420.0
5 TraesCS1D01G252800 chr1D 97.166 247 7 0 2455 2701 64272088 64272334 4.640000e-113 418.0
6 TraesCS1D01G252800 chr1D 100.000 207 0 0 2802 3008 344745059 344744853 1.690000e-102 383.0
7 TraesCS1D01G252800 chr1D 76.087 552 113 16 1490 2033 297734441 297733901 1.370000e-68 270.0
8 TraesCS1D01G252800 chr1D 75.769 520 107 15 1522 2033 297751732 297751224 8.330000e-61 244.0
9 TraesCS1D01G252800 chr1D 81.818 264 48 0 1230 1493 297814813 297815076 3.900000e-54 222.0
10 TraesCS1D01G252800 chr1D 81.609 261 48 0 1233 1493 297752086 297751826 1.820000e-52 217.0
11 TraesCS1D01G252800 chr1D 91.241 137 11 1 2046 2182 344213357 344213492 5.120000e-43 185.0
12 TraesCS1D01G252800 chr1D 97.561 41 0 1 2420 2460 344693213 344693174 5.380000e-08 69.4
13 TraesCS1D01G252800 chrUn 99.862 1450 1 1 1253 2701 398792511 398793960 0.000000e+00 2665.0
14 TraesCS1D01G252800 chrUn 99.885 868 0 1 1249 2116 375174704 375173838 0.000000e+00 1596.0
15 TraesCS1D01G252800 chrUn 95.360 862 34 1 48 903 375175581 375174720 0.000000e+00 1365.0
16 TraesCS1D01G252800 chrUn 96.059 406 14 1 456 861 477555911 477556314 0.000000e+00 660.0
17 TraesCS1D01G252800 chrUn 100.000 207 0 0 2802 3008 209979780 209979574 1.690000e-102 383.0
18 TraesCS1D01G252800 chr1A 93.405 925 56 4 1498 2418 444458292 444457369 0.000000e+00 1365.0
19 TraesCS1D01G252800 chr1A 95.691 557 22 1 653 1207 444459162 444458606 0.000000e+00 894.0
20 TraesCS1D01G252800 chr1A 91.586 618 45 4 1 612 444459772 444459156 0.000000e+00 846.0
21 TraesCS1D01G252800 chr1A 76.109 1172 240 26 40 1198 370836175 370835031 7.230000e-161 577.0
22 TraesCS1D01G252800 chr1A 75.522 1197 255 25 13 1198 370749344 370748175 1.220000e-153 553.0
23 TraesCS1D01G252800 chr1A 95.203 271 13 0 1223 1493 444458628 444458358 2.140000e-116 429.0
24 TraesCS1D01G252800 chr1A 95.349 43 1 1 2418 2460 444429430 444429389 1.940000e-07 67.6
25 TraesCS1D01G252800 chr1B 95.745 705 29 1 500 1204 465935370 465936073 0.000000e+00 1134.0
26 TraesCS1D01G252800 chr1B 91.971 548 29 5 1495 2040 465936386 465936920 0.000000e+00 754.0
27 TraesCS1D01G252800 chr1B 94.292 438 24 1 12 448 465934474 465934911 0.000000e+00 669.0
28 TraesCS1D01G252800 chr1B 75.618 1214 267 25 1 1198 462375719 462376919 2.600000e-160 575.0
29 TraesCS1D01G252800 chr1B 75.167 1200 260 31 13 1198 462092045 462093220 5.710000e-147 531.0
30 TraesCS1D01G252800 chr1B 78.562 751 140 21 456 1196 461685383 461686122 2.710000e-130 475.0
31 TraesCS1D01G252800 chr1B 73.906 1211 263 37 1 1189 462306689 462307868 1.280000e-118 436.0
32 TraesCS1D01G252800 chr1B 94.834 271 13 1 1223 1493 465936054 465936323 3.590000e-114 422.0
33 TraesCS1D01G252800 chr1B 75.181 552 117 16 1490 2033 461767335 461767874 3.000000e-60 243.0
34 TraesCS1D01G252800 chr1B 80.255 314 55 7 887 1197 461837916 461838225 2.330000e-56 230.0
35 TraesCS1D01G252800 chr1B 81.439 264 49 0 1230 1493 461999515 461999778 1.820000e-52 217.0
36 TraesCS1D01G252800 chr1B 81.273 267 46 4 1230 1493 462464828 462465093 2.350000e-51 213.0
37 TraesCS1D01G252800 chr1B 79.928 279 43 9 1760 2033 461760789 461761059 3.060000e-45 193.0
38 TraesCS1D01G252800 chr1B 91.971 137 11 0 2046 2182 466324206 466324070 3.060000e-45 193.0
39 TraesCS1D01G252800 chr3D 97.967 246 5 0 2456 2701 244728011 244727766 7.710000e-116 427.0
40 TraesCS1D01G252800 chr2D 97.967 246 5 0 2456 2701 364890540 364890785 7.710000e-116 427.0
41 TraesCS1D01G252800 chr2D 97.561 246 6 0 2456 2701 33075745 33075500 3.590000e-114 422.0
42 TraesCS1D01G252800 chr2D 97.561 246 6 0 2456 2701 362776584 362776339 3.590000e-114 422.0
43 TraesCS1D01G252800 chr2D 97.129 209 3 2 2802 3008 425461447 425461240 1.720000e-92 350.0
44 TraesCS1D01G252800 chr2D 97.115 208 3 3 2802 3008 134856498 134856703 6.170000e-92 348.0
45 TraesCS1D01G252800 chr2D 96.618 207 5 2 2803 3008 375543336 375543131 2.870000e-90 342.0
46 TraesCS1D01G252800 chr2D 96.618 207 5 2 2802 3008 425452350 425452146 2.870000e-90 342.0
47 TraesCS1D01G252800 chr6D 97.166 247 7 0 2455 2701 300546212 300546458 4.640000e-113 418.0
48 TraesCS1D01G252800 chr6D 96.635 208 5 2 2802 3008 112035366 112035160 7.980000e-91 344.0
49 TraesCS1D01G252800 chr4D 96.226 212 2 4 2802 3008 152015461 152015251 2.870000e-90 342.0
50 TraesCS1D01G252800 chr4D 95.714 210 4 3 2802 3008 150049507 150049714 1.730000e-87 333.0
51 TraesCS1D01G252800 chr5D 96.190 210 4 3 2802 3008 108096608 108096816 1.030000e-89 340.0
52 TraesCS1D01G252800 chr7B 87.967 241 22 5 2184 2418 382612529 382612768 8.210000e-71 278.0
53 TraesCS1D01G252800 chr4B 87.560 209 19 5 2216 2418 430052157 430052364 5.010000e-58 235.0
54 TraesCS1D01G252800 chr4B 88.000 200 18 4 2216 2410 430239619 430239817 6.480000e-57 231.0
55 TraesCS1D01G252800 chr4B 86.765 204 21 5 2217 2415 430268187 430268389 3.900000e-54 222.0
56 TraesCS1D01G252800 chr4B 86.341 205 21 4 2216 2414 429933292 429933495 1.820000e-52 217.0


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 TraesCS1D01G252800 chr1D 344744853 344747860 3007 True 2685.50 4988 100.00000 1 3008 2 chr1D.!!$R5 3007
1 TraesCS1D01G252800 chr1D 344704554 344707322 2768 True 2203.00 2483 96.02450 1 2701 2 chr1D.!!$R4 2700
2 TraesCS1D01G252800 chr1D 297787856 297789003 1147 False 601.00 601 76.51100 5 1163 1 chr1D.!!$F3 1158
3 TraesCS1D01G252800 chr1D 297733901 297734441 540 True 270.00 270 76.08700 1490 2033 1 chr1D.!!$R1 543
4 TraesCS1D01G252800 chr1D 297751224 297752086 862 True 230.50 244 78.68900 1233 2033 2 chr1D.!!$R3 800
5 TraesCS1D01G252800 chrUn 398792511 398793960 1449 False 2665.00 2665 99.86200 1253 2701 1 chrUn.!!$F1 1448
6 TraesCS1D01G252800 chrUn 375173838 375175581 1743 True 1480.50 1596 97.62250 48 2116 2 chrUn.!!$R2 2068
7 TraesCS1D01G252800 chr1A 444457369 444459772 2403 True 883.50 1365 93.97125 1 2418 4 chr1A.!!$R4 2417
8 TraesCS1D01G252800 chr1A 370835031 370836175 1144 True 577.00 577 76.10900 40 1198 1 chr1A.!!$R2 1158
9 TraesCS1D01G252800 chr1A 370748175 370749344 1169 True 553.00 553 75.52200 13 1198 1 chr1A.!!$R1 1185
10 TraesCS1D01G252800 chr1B 465934474 465936920 2446 False 744.75 1134 94.21050 12 2040 4 chr1B.!!$F10 2028
11 TraesCS1D01G252800 chr1B 462375719 462376919 1200 False 575.00 575 75.61800 1 1198 1 chr1B.!!$F8 1197
12 TraesCS1D01G252800 chr1B 462092045 462093220 1175 False 531.00 531 75.16700 13 1198 1 chr1B.!!$F6 1185
13 TraesCS1D01G252800 chr1B 461685383 461686122 739 False 475.00 475 78.56200 456 1196 1 chr1B.!!$F1 740
14 TraesCS1D01G252800 chr1B 462306689 462307868 1179 False 436.00 436 73.90600 1 1189 1 chr1B.!!$F7 1188
15 TraesCS1D01G252800 chr1B 461767335 461767874 539 False 243.00 243 75.18100 1490 2033 1 chr1B.!!$F3 543

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
418 427 0.109723 GGGCTGTTGGTGTAGGTTCA 59.89 55.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2009 2512 5.00901 GGGCATGTATAATGAAGGTGAACAG 59.991 44.0 0.0 0.0 0.0 3.16 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
160 163 4.551126 GTGAGATTTTTGCTGATTCGTTCG 59.449 41.667 0.00 0.00 0.00 3.95
405 414 3.400054 GGTTCTAGCGGGGGCTGT 61.400 66.667 0.00 0.00 0.00 4.40
415 424 2.535331 GGGGGCTGTTGGTGTAGGT 61.535 63.158 0.00 0.00 0.00 3.08
418 427 0.109723 GGGCTGTTGGTGTAGGTTCA 59.890 55.000 0.00 0.00 0.00 3.18
472 486 1.136565 GGTGTGTGTGTGTGTGTGC 59.863 57.895 0.00 0.00 0.00 4.57
474 488 2.277247 GTGTGTGTGTGTGTGCGC 60.277 61.111 0.00 0.00 0.00 6.09
595 1011 4.323477 CCGGTTGGGCGGAGACAA 62.323 66.667 0.00 0.00 37.00 3.18
597 1013 2.430367 GGTTGGGCGGAGACAACT 59.570 61.111 7.38 0.00 43.18 3.16
876 1296 7.065683 ACACAATGAGCGTCATATATTTTGACA 59.934 33.333 15.02 0.00 42.90 3.58
1130 1556 6.371548 ACTTGAGAAAATTCTATGCGTGCTTA 59.628 34.615 0.00 0.00 37.73 3.09
2142 2647 1.254026 ACGCAAGCTACCACTAGTGA 58.746 50.000 24.68 4.16 45.62 3.41
2823 3329 1.800399 AAAACAAACGCACGTGTACG 58.200 45.000 18.38 15.40 46.33 3.67
2837 3343 2.154389 CGTGTACGTCCTGTTAAGTTGC 59.846 50.000 0.00 0.00 34.11 4.17
2838 3344 2.154389 GTGTACGTCCTGTTAAGTTGCG 59.846 50.000 0.00 0.00 0.00 4.85
2839 3345 1.125566 GTACGTCCTGTTAAGTTGCGC 59.874 52.381 0.00 0.00 0.00 6.09
2840 3346 1.226030 ACGTCCTGTTAAGTTGCGCC 61.226 55.000 4.18 0.00 0.00 6.53
2841 3347 0.949105 CGTCCTGTTAAGTTGCGCCT 60.949 55.000 4.18 0.00 0.00 5.52
2842 3348 0.517316 GTCCTGTTAAGTTGCGCCTG 59.483 55.000 4.18 0.00 0.00 4.85
2843 3349 0.605319 TCCTGTTAAGTTGCGCCTGG 60.605 55.000 4.18 0.57 0.00 4.45
2844 3350 1.586154 CCTGTTAAGTTGCGCCTGGG 61.586 60.000 4.18 0.00 0.00 4.45
2845 3351 2.200170 CTGTTAAGTTGCGCCTGGGC 62.200 60.000 4.18 0.82 37.85 5.36
2855 3361 2.359975 GCCTGGGCGCTGTTTAGT 60.360 61.111 7.64 0.00 0.00 2.24
2856 3362 1.971695 GCCTGGGCGCTGTTTAGTT 60.972 57.895 7.64 0.00 0.00 2.24
2857 3363 1.524008 GCCTGGGCGCTGTTTAGTTT 61.524 55.000 7.64 0.00 0.00 2.66
2858 3364 0.521735 CCTGGGCGCTGTTTAGTTTC 59.478 55.000 7.64 0.00 0.00 2.78
2859 3365 1.234821 CTGGGCGCTGTTTAGTTTCA 58.765 50.000 7.64 0.00 0.00 2.69
2860 3366 1.197721 CTGGGCGCTGTTTAGTTTCAG 59.802 52.381 7.64 0.00 35.12 3.02
2861 3367 1.202710 TGGGCGCTGTTTAGTTTCAGA 60.203 47.619 7.64 0.00 34.02 3.27
2862 3368 2.084546 GGGCGCTGTTTAGTTTCAGAT 58.915 47.619 7.64 0.00 34.02 2.90
2863 3369 2.096013 GGGCGCTGTTTAGTTTCAGATC 59.904 50.000 7.64 0.00 34.02 2.75
2864 3370 2.222819 GGCGCTGTTTAGTTTCAGATCG 60.223 50.000 7.64 0.00 34.02 3.69
2865 3371 2.784665 GCGCTGTTTAGTTTCAGATCGC 60.785 50.000 0.00 0.00 36.60 4.58
2866 3372 2.411748 CGCTGTTTAGTTTCAGATCGCA 59.588 45.455 0.00 0.00 34.02 5.10
2867 3373 3.722082 CGCTGTTTAGTTTCAGATCGCAC 60.722 47.826 0.00 0.00 34.02 5.34
2868 3374 3.186409 GCTGTTTAGTTTCAGATCGCACA 59.814 43.478 0.00 0.00 34.02 4.57
2869 3375 4.702392 CTGTTTAGTTTCAGATCGCACAC 58.298 43.478 0.00 0.00 34.02 3.82
2870 3376 3.496884 TGTTTAGTTTCAGATCGCACACC 59.503 43.478 0.00 0.00 0.00 4.16
2871 3377 2.380084 TAGTTTCAGATCGCACACCC 57.620 50.000 0.00 0.00 0.00 4.61
2872 3378 0.321653 AGTTTCAGATCGCACACCCC 60.322 55.000 0.00 0.00 0.00 4.95
2873 3379 0.605319 GTTTCAGATCGCACACCCCA 60.605 55.000 0.00 0.00 0.00 4.96
2874 3380 0.327924 TTTCAGATCGCACACCCCAT 59.672 50.000 0.00 0.00 0.00 4.00
2875 3381 1.199615 TTCAGATCGCACACCCCATA 58.800 50.000 0.00 0.00 0.00 2.74
2876 3382 1.199615 TCAGATCGCACACCCCATAA 58.800 50.000 0.00 0.00 0.00 1.90
2877 3383 1.138859 TCAGATCGCACACCCCATAAG 59.861 52.381 0.00 0.00 0.00 1.73
2878 3384 0.179045 AGATCGCACACCCCATAAGC 60.179 55.000 0.00 0.00 0.00 3.09
2879 3385 1.152963 ATCGCACACCCCATAAGCC 60.153 57.895 0.00 0.00 0.00 4.35
2880 3386 1.635817 ATCGCACACCCCATAAGCCT 61.636 55.000 0.00 0.00 0.00 4.58
2881 3387 0.978667 TCGCACACCCCATAAGCCTA 60.979 55.000 0.00 0.00 0.00 3.93
2882 3388 0.532862 CGCACACCCCATAAGCCTAG 60.533 60.000 0.00 0.00 0.00 3.02
2883 3389 0.546598 GCACACCCCATAAGCCTAGT 59.453 55.000 0.00 0.00 0.00 2.57
2884 3390 1.766496 GCACACCCCATAAGCCTAGTA 59.234 52.381 0.00 0.00 0.00 1.82
2885 3391 2.224305 GCACACCCCATAAGCCTAGTAG 60.224 54.545 0.00 0.00 0.00 2.57
2886 3392 2.047830 ACACCCCATAAGCCTAGTAGC 58.952 52.381 0.00 0.00 0.00 3.58
2887 3393 1.000955 CACCCCATAAGCCTAGTAGCG 59.999 57.143 0.00 0.00 38.01 4.26
2888 3394 0.037232 CCCCATAAGCCTAGTAGCGC 60.037 60.000 0.00 0.00 38.01 5.92
2889 3395 0.037232 CCCATAAGCCTAGTAGCGCC 60.037 60.000 2.29 0.00 38.01 6.53
2890 3396 0.037232 CCATAAGCCTAGTAGCGCCC 60.037 60.000 2.29 0.00 38.01 6.13
2891 3397 0.388649 CATAAGCCTAGTAGCGCCCG 60.389 60.000 2.29 0.00 38.01 6.13
2892 3398 0.826672 ATAAGCCTAGTAGCGCCCGT 60.827 55.000 2.29 0.00 38.01 5.28
2893 3399 1.039233 TAAGCCTAGTAGCGCCCGTT 61.039 55.000 2.29 0.00 38.01 4.44
2894 3400 1.039233 AAGCCTAGTAGCGCCCGTTA 61.039 55.000 2.29 0.00 38.01 3.18
2895 3401 1.007618 GCCTAGTAGCGCCCGTTAG 60.008 63.158 2.29 1.05 0.00 2.34
2896 3402 1.732417 GCCTAGTAGCGCCCGTTAGT 61.732 60.000 2.29 0.00 0.00 2.24
2897 3403 0.743097 CCTAGTAGCGCCCGTTAGTT 59.257 55.000 2.29 0.00 0.00 2.24
2898 3404 1.135721 CCTAGTAGCGCCCGTTAGTTT 59.864 52.381 2.29 0.00 0.00 2.66
2899 3405 2.417787 CCTAGTAGCGCCCGTTAGTTTT 60.418 50.000 2.29 0.00 0.00 2.43
2900 3406 2.174363 AGTAGCGCCCGTTAGTTTTT 57.826 45.000 2.29 0.00 0.00 1.94
2948 3454 9.936759 TTAAAAACAGAAAAGTTCCAATCTTGT 57.063 25.926 0.00 0.00 0.00 3.16
2950 3456 9.936759 AAAAACAGAAAAGTTCCAATCTTGTAA 57.063 25.926 0.00 0.00 0.00 2.41
2951 3457 9.936759 AAAACAGAAAAGTTCCAATCTTGTAAA 57.063 25.926 0.00 0.00 0.00 2.01
2952 3458 9.936759 AAACAGAAAAGTTCCAATCTTGTAAAA 57.063 25.926 0.00 0.00 0.00 1.52
2954 3460 9.750125 ACAGAAAAGTTCCAATCTTGTAAAATC 57.250 29.630 0.00 0.00 0.00 2.17
2955 3461 9.971922 CAGAAAAGTTCCAATCTTGTAAAATCT 57.028 29.630 0.00 0.00 0.00 2.40
2956 3462 9.971922 AGAAAAGTTCCAATCTTGTAAAATCTG 57.028 29.630 0.00 0.00 0.00 2.90
2957 3463 9.750125 GAAAAGTTCCAATCTTGTAAAATCTGT 57.250 29.630 0.00 0.00 0.00 3.41
2960 3466 9.750125 AAGTTCCAATCTTGTAAAATCTGTTTC 57.250 29.630 0.00 0.00 0.00 2.78
2961 3467 9.136323 AGTTCCAATCTTGTAAAATCTGTTTCT 57.864 29.630 0.00 0.00 0.00 2.52
2962 3468 9.399403 GTTCCAATCTTGTAAAATCTGTTTCTC 57.601 33.333 0.00 0.00 0.00 2.87
2963 3469 8.924511 TCCAATCTTGTAAAATCTGTTTCTCT 57.075 30.769 0.00 0.00 0.00 3.10
2964 3470 9.354673 TCCAATCTTGTAAAATCTGTTTCTCTT 57.645 29.630 0.00 0.00 0.00 2.85
2969 3475 9.847224 TCTTGTAAAATCTGTTTCTCTTAGGTT 57.153 29.630 0.00 0.00 0.00 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.019673 CGCCAGATTCAATGGAGTGG 58.980 55.000 0.00 0.00 40.51 4.00
61 64 0.948050 ATGAGAGGGAGAGGGTGGAT 59.052 55.000 0.00 0.00 0.00 3.41
160 163 2.747855 CCAAGGTCCTTCGCCAGC 60.748 66.667 0.00 0.00 0.00 4.85
405 414 2.553466 CCCGGAATTGAACCTACACCAA 60.553 50.000 0.73 0.00 0.00 3.67
415 424 3.367288 GGGTTTCCCCGGAATTGAA 57.633 52.632 0.73 0.00 42.41 2.69
478 492 2.425610 CACACACACACATGCGCG 60.426 61.111 0.00 0.00 0.00 6.86
480 494 0.376502 TCAACACACACACACATGCG 59.623 50.000 0.00 0.00 0.00 4.73
483 507 5.581126 AGAAAATCAACACACACACACAT 57.419 34.783 0.00 0.00 0.00 3.21
594 1010 2.052782 GGTCACAACCACAAGGAGTT 57.947 50.000 0.00 0.00 45.68 3.01
595 1011 3.800826 GGTCACAACCACAAGGAGT 57.199 52.632 0.00 0.00 45.68 3.85
810 1230 4.101448 CCTGTCCCCTTCTGCCCG 62.101 72.222 0.00 0.00 0.00 6.13
2009 2512 5.009010 GGGCATGTATAATGAAGGTGAACAG 59.991 44.000 0.00 0.00 0.00 3.16
2142 2647 6.293698 TGCATATGTATTGCTTGATGAGTCT 58.706 36.000 4.29 0.00 40.77 3.24
2803 3309 2.167591 CGTACACGTGCGTTTGTTTTT 58.832 42.857 17.22 0.00 34.04 1.94
2804 3310 1.800399 CGTACACGTGCGTTTGTTTT 58.200 45.000 17.22 0.00 34.04 2.43
2805 3311 3.495382 CGTACACGTGCGTTTGTTT 57.505 47.368 17.22 0.00 34.04 2.83
2816 3322 2.154389 GCAACTTAACAGGACGTACACG 59.846 50.000 0.00 0.00 46.33 4.49
2817 3323 2.154389 CGCAACTTAACAGGACGTACAC 59.846 50.000 0.00 0.00 0.00 2.90
2818 3324 2.396601 CGCAACTTAACAGGACGTACA 58.603 47.619 0.00 0.00 0.00 2.90
2819 3325 1.125566 GCGCAACTTAACAGGACGTAC 59.874 52.381 0.30 0.00 0.00 3.67
2820 3326 1.421382 GCGCAACTTAACAGGACGTA 58.579 50.000 0.30 0.00 0.00 3.57
2821 3327 1.226030 GGCGCAACTTAACAGGACGT 61.226 55.000 10.83 0.00 0.00 4.34
2822 3328 0.949105 AGGCGCAACTTAACAGGACG 60.949 55.000 10.83 0.00 0.00 4.79
2823 3329 0.517316 CAGGCGCAACTTAACAGGAC 59.483 55.000 10.83 0.00 0.00 3.85
2824 3330 0.605319 CCAGGCGCAACTTAACAGGA 60.605 55.000 10.83 0.00 0.00 3.86
2825 3331 1.586154 CCCAGGCGCAACTTAACAGG 61.586 60.000 10.83 0.00 0.00 4.00
2826 3332 1.875963 CCCAGGCGCAACTTAACAG 59.124 57.895 10.83 0.00 0.00 3.16
2827 3333 2.265182 GCCCAGGCGCAACTTAACA 61.265 57.895 10.83 0.00 0.00 2.41
2828 3334 2.566529 GCCCAGGCGCAACTTAAC 59.433 61.111 10.83 0.00 0.00 2.01
2838 3344 1.524008 AAACTAAACAGCGCCCAGGC 61.524 55.000 2.29 0.00 37.85 4.85
2839 3345 0.521735 GAAACTAAACAGCGCCCAGG 59.478 55.000 2.29 0.00 0.00 4.45
2840 3346 1.197721 CTGAAACTAAACAGCGCCCAG 59.802 52.381 2.29 0.00 0.00 4.45
2841 3347 1.202710 TCTGAAACTAAACAGCGCCCA 60.203 47.619 2.29 0.00 34.57 5.36
2842 3348 1.519408 TCTGAAACTAAACAGCGCCC 58.481 50.000 2.29 0.00 34.57 6.13
2843 3349 2.222819 CGATCTGAAACTAAACAGCGCC 60.223 50.000 2.29 0.00 34.57 6.53
2844 3350 2.784665 GCGATCTGAAACTAAACAGCGC 60.785 50.000 0.00 0.00 37.97 5.92
2845 3351 2.411748 TGCGATCTGAAACTAAACAGCG 59.588 45.455 0.00 0.00 34.57 5.18
2846 3352 3.186409 TGTGCGATCTGAAACTAAACAGC 59.814 43.478 0.00 0.00 34.57 4.40
2847 3353 4.377431 GGTGTGCGATCTGAAACTAAACAG 60.377 45.833 0.00 0.00 35.72 3.16
2848 3354 3.496884 GGTGTGCGATCTGAAACTAAACA 59.503 43.478 0.00 0.00 0.00 2.83
2849 3355 3.120304 GGGTGTGCGATCTGAAACTAAAC 60.120 47.826 0.00 0.00 0.00 2.01
2850 3356 3.071479 GGGTGTGCGATCTGAAACTAAA 58.929 45.455 0.00 0.00 0.00 1.85
2851 3357 2.614481 GGGGTGTGCGATCTGAAACTAA 60.614 50.000 0.00 0.00 0.00 2.24
2852 3358 1.066430 GGGGTGTGCGATCTGAAACTA 60.066 52.381 0.00 0.00 0.00 2.24
2853 3359 0.321653 GGGGTGTGCGATCTGAAACT 60.322 55.000 0.00 0.00 0.00 2.66
2854 3360 0.605319 TGGGGTGTGCGATCTGAAAC 60.605 55.000 0.00 0.00 0.00 2.78
2855 3361 0.327924 ATGGGGTGTGCGATCTGAAA 59.672 50.000 0.00 0.00 0.00 2.69
2856 3362 1.199615 TATGGGGTGTGCGATCTGAA 58.800 50.000 0.00 0.00 0.00 3.02
2857 3363 1.138859 CTTATGGGGTGTGCGATCTGA 59.861 52.381 0.00 0.00 0.00 3.27
2858 3364 1.586422 CTTATGGGGTGTGCGATCTG 58.414 55.000 0.00 0.00 0.00 2.90
2859 3365 0.179045 GCTTATGGGGTGTGCGATCT 60.179 55.000 0.00 0.00 0.00 2.75
2860 3366 1.166531 GGCTTATGGGGTGTGCGATC 61.167 60.000 0.00 0.00 0.00 3.69
2861 3367 1.152963 GGCTTATGGGGTGTGCGAT 60.153 57.895 0.00 0.00 0.00 4.58
2862 3368 0.978667 TAGGCTTATGGGGTGTGCGA 60.979 55.000 0.00 0.00 0.00 5.10
2863 3369 0.532862 CTAGGCTTATGGGGTGTGCG 60.533 60.000 0.00 0.00 0.00 5.34
2864 3370 0.546598 ACTAGGCTTATGGGGTGTGC 59.453 55.000 0.00 0.00 0.00 4.57
2865 3371 2.224305 GCTACTAGGCTTATGGGGTGTG 60.224 54.545 0.00 0.00 0.00 3.82
2866 3372 2.047830 GCTACTAGGCTTATGGGGTGT 58.952 52.381 0.00 0.00 0.00 4.16
2867 3373 1.000955 CGCTACTAGGCTTATGGGGTG 59.999 57.143 0.00 0.00 0.00 4.61
2868 3374 1.339097 CGCTACTAGGCTTATGGGGT 58.661 55.000 0.00 0.00 0.00 4.95
2869 3375 0.037232 GCGCTACTAGGCTTATGGGG 60.037 60.000 0.00 0.00 0.00 4.96
2870 3376 0.037232 GGCGCTACTAGGCTTATGGG 60.037 60.000 7.64 0.00 0.00 4.00
2871 3377 0.037232 GGGCGCTACTAGGCTTATGG 60.037 60.000 7.64 0.00 0.00 2.74
2872 3378 0.388649 CGGGCGCTACTAGGCTTATG 60.389 60.000 7.64 0.00 0.00 1.90
2873 3379 0.826672 ACGGGCGCTACTAGGCTTAT 60.827 55.000 7.64 0.00 0.00 1.73
2874 3380 1.039233 AACGGGCGCTACTAGGCTTA 61.039 55.000 7.64 0.00 0.00 3.09
2875 3381 1.039233 TAACGGGCGCTACTAGGCTT 61.039 55.000 7.64 0.00 0.00 4.35
2876 3382 1.453762 CTAACGGGCGCTACTAGGCT 61.454 60.000 7.64 0.00 0.00 4.58
2877 3383 1.007618 CTAACGGGCGCTACTAGGC 60.008 63.158 7.64 0.00 0.00 3.93
2878 3384 0.743097 AACTAACGGGCGCTACTAGG 59.257 55.000 7.64 0.00 0.00 3.02
2879 3385 2.573941 AAACTAACGGGCGCTACTAG 57.426 50.000 7.64 6.11 0.00 2.57
2880 3386 3.317603 AAAAACTAACGGGCGCTACTA 57.682 42.857 7.64 0.00 0.00 1.82
2881 3387 2.174363 AAAAACTAACGGGCGCTACT 57.826 45.000 7.64 0.00 0.00 2.57
2922 3428 9.936759 ACAAGATTGGAACTTTTCTGTTTTTAA 57.063 25.926 0.00 0.00 0.00 1.52
2924 3430 9.936759 TTACAAGATTGGAACTTTTCTGTTTTT 57.063 25.926 0.00 0.00 0.00 1.94
2925 3431 9.936759 TTTACAAGATTGGAACTTTTCTGTTTT 57.063 25.926 0.00 0.00 28.88 2.43
2926 3432 9.936759 TTTTACAAGATTGGAACTTTTCTGTTT 57.063 25.926 0.00 0.00 28.88 2.83
2928 3434 9.750125 GATTTTACAAGATTGGAACTTTTCTGT 57.250 29.630 0.00 0.00 28.88 3.41
2929 3435 9.971922 AGATTTTACAAGATTGGAACTTTTCTG 57.028 29.630 0.00 0.00 28.88 3.02
2930 3436 9.971922 CAGATTTTACAAGATTGGAACTTTTCT 57.028 29.630 0.00 0.00 28.88 2.52
2931 3437 9.750125 ACAGATTTTACAAGATTGGAACTTTTC 57.250 29.630 0.00 0.00 28.88 2.29
2934 3440 9.750125 GAAACAGATTTTACAAGATTGGAACTT 57.250 29.630 0.00 0.00 28.88 2.66
2935 3441 9.136323 AGAAACAGATTTTACAAGATTGGAACT 57.864 29.630 0.00 0.00 28.88 3.01
2936 3442 9.399403 GAGAAACAGATTTTACAAGATTGGAAC 57.601 33.333 0.00 0.00 28.88 3.62
2937 3443 9.354673 AGAGAAACAGATTTTACAAGATTGGAA 57.645 29.630 0.00 0.00 0.00 3.53
2938 3444 8.924511 AGAGAAACAGATTTTACAAGATTGGA 57.075 30.769 0.00 0.00 0.00 3.53
2943 3449 9.847224 AACCTAAGAGAAACAGATTTTACAAGA 57.153 29.630 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.