Multiple sequence alignment - TraesCS5D01G286900

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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 TraesCS5D01G286900 chr5D 100.000 3328 0 0 1 3328 386957414 386960741 0.000000e+00 6146.0
1 TraesCS5D01G286900 chr5D 83.448 1595 175 40 705 2239 370777233 370778798 0.000000e+00 1400.0
2 TraesCS5D01G286900 chr5D 85.252 1390 112 37 747 2075 388411529 388412886 0.000000e+00 1345.0
3 TraesCS5D01G286900 chr5D 85.366 1353 107 27 775 2075 353953580 353954893 0.000000e+00 1317.0
4 TraesCS5D01G286900 chr5D 88.300 1094 100 15 1005 2080 388380749 388381832 0.000000e+00 1286.0
5 TraesCS5D01G286900 chr5D 84.985 686 48 20 2224 2864 370784759 370785434 0.000000e+00 645.0
6 TraesCS5D01G286900 chr5D 86.583 477 49 7 2491 2962 386951696 386952162 2.290000e-141 512.0
7 TraesCS5D01G286900 chr5D 93.277 119 8 0 3210 3328 386952852 386952970 3.410000e-40 176.0
8 TraesCS5D01G286900 chr5D 87.931 116 10 3 2219 2332 353955012 353955125 2.080000e-27 134.0
9 TraesCS5D01G286900 chr5D 95.556 45 2 0 3172 3216 386952785 386952829 4.610000e-09 73.1
10 TraesCS5D01G286900 chr5A 88.220 1927 106 39 235 2074 489660671 489662563 0.000000e+00 2189.0
11 TraesCS5D01G286900 chr5A 89.564 1399 77 23 760 2122 489677164 489678529 0.000000e+00 1711.0
12 TraesCS5D01G286900 chr5A 85.083 1267 104 31 839 2047 491583807 491585046 0.000000e+00 1214.0
13 TraesCS5D01G286900 chr5A 90.152 853 68 10 1278 2122 489763905 489764749 0.000000e+00 1096.0
14 TraesCS5D01G286900 chr5A 88.235 663 51 11 1615 2256 489682229 489682885 0.000000e+00 767.0
15 TraesCS5D01G286900 chr5A 88.967 571 44 10 1519 2075 491569383 491569948 0.000000e+00 688.0
16 TraesCS5D01G286900 chr5A 88.116 345 34 4 2882 3219 489768064 489768408 1.440000e-108 403.0
17 TraesCS5D01G286900 chr5A 82.489 474 48 24 2360 2824 489665217 489665664 1.870000e-102 383.0
18 TraesCS5D01G286900 chr5A 92.000 225 17 1 1 224 489658618 489658842 6.930000e-82 315.0
19 TraesCS5D01G286900 chr5A 89.167 240 19 2 2980 3216 489683405 489683640 3.250000e-75 292.0
20 TraesCS5D01G286900 chr5A 86.131 274 18 4 2194 2447 489678554 489678827 9.090000e-71 278.0
21 TraesCS5D01G286900 chr5A 87.079 178 14 2 2194 2369 489662626 489662796 3.390000e-45 193.0
22 TraesCS5D01G286900 chr5A 93.496 123 8 0 3206 3328 489683659 489683781 2.040000e-42 183.0
23 TraesCS5D01G286900 chr5A 93.496 123 8 0 3206 3328 489768424 489768546 2.040000e-42 183.0
24 TraesCS5D01G286900 chr5A 80.000 85 13 3 3133 3216 489678872 489678953 3.590000e-05 60.2
25 TraesCS5D01G286900 chr5A 94.737 38 2 0 3179 3216 489765112 489765149 3.590000e-05 60.2
26 TraesCS5D01G286900 chr6D 88.977 1642 82 32 695 2259 60557265 60555646 0.000000e+00 1938.0
27 TraesCS5D01G286900 chr6D 95.798 119 5 0 3210 3328 60555166 60555048 3.390000e-45 193.0
28 TraesCS5D01G286900 chr6D 94.444 90 4 1 3131 3219 60555275 60555186 1.610000e-28 137.0
29 TraesCS5D01G286900 chr7D 86.317 1659 141 41 747 2347 437591884 437593514 0.000000e+00 1727.0
30 TraesCS5D01G286900 chr7D 82.735 585 56 24 2389 2941 437631612 437632183 2.320000e-131 479.0
31 TraesCS5D01G286900 chr7D 94.958 119 5 1 3099 3216 437632385 437632503 5.670000e-43 185.0
32 TraesCS5D01G286900 chr7B 86.291 1634 138 36 700 2272 456503009 456501401 0.000000e+00 1698.0
33 TraesCS5D01G286900 chr7B 87.956 274 29 2 2668 2941 456497873 456497604 1.490000e-83 320.0
34 TraesCS5D01G286900 chr7B 87.037 108 10 3 2349 2452 456501400 456501293 5.830000e-23 119.0
35 TraesCS5D01G286900 chr5B 89.867 1283 57 10 890 2122 465053699 465054958 0.000000e+00 1581.0
36 TraesCS5D01G286900 chr5B 89.903 515 33 6 1 506 465051928 465052432 0.000000e+00 645.0
37 TraesCS5D01G286900 chr5B 84.756 492 50 13 2487 2962 465045929 465046411 1.400000e-128 470.0
38 TraesCS5D01G286900 chr5B 90.476 252 16 6 695 943 465053467 465053713 3.200000e-85 326.0
39 TraesCS5D01G286900 chr5B 87.179 273 16 4 2194 2447 465054983 465055255 3.250000e-75 292.0
40 TraesCS5D01G286900 chr5B 94.118 119 7 0 3210 3328 465047058 465047176 7.330000e-42 182.0
41 TraesCS5D01G286900 chr5B 95.556 45 2 0 3172 3216 465046990 465047034 4.610000e-09 73.1
42 TraesCS5D01G286900 chr7A 86.192 898 85 17 2346 3216 488466348 488467233 0.000000e+00 935.0
43 TraesCS5D01G286900 chr7A 85.697 846 83 15 2346 3164 488086322 488087156 0.000000e+00 857.0
44 TraesCS5D01G286900 chr7A 82.565 889 99 21 700 1550 488029323 488030193 0.000000e+00 732.0
45 TraesCS5D01G286900 chr7A 82.340 889 99 21 700 1550 488415600 488416468 0.000000e+00 719.0
46 TraesCS5D01G286900 chr7A 83.791 401 38 17 1922 2303 488085826 488086218 4.080000e-94 355.0
47 TraesCS5D01G286900 chr7A 83.333 402 38 17 1922 2303 488465856 488466248 8.840000e-91 344.0
48 TraesCS5D01G286900 chr7A 95.000 120 6 0 3209 3328 488467255 488467374 4.380000e-44 189.0
49 TraesCS5D01G286900 chr7A 93.023 43 3 0 2305 2347 488086251 488086293 2.770000e-06 63.9


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 TraesCS5D01G286900 chr5D 386957414 386960741 3327 False 6146.000000 6146 100.000000 1 3328 1 chr5D.!!$F3 3327
1 TraesCS5D01G286900 chr5D 370777233 370778798 1565 False 1400.000000 1400 83.448000 705 2239 1 chr5D.!!$F1 1534
2 TraesCS5D01G286900 chr5D 388411529 388412886 1357 False 1345.000000 1345 85.252000 747 2075 1 chr5D.!!$F5 1328
3 TraesCS5D01G286900 chr5D 388380749 388381832 1083 False 1286.000000 1286 88.300000 1005 2080 1 chr5D.!!$F4 1075
4 TraesCS5D01G286900 chr5D 353953580 353955125 1545 False 725.500000 1317 86.648500 775 2332 2 chr5D.!!$F6 1557
5 TraesCS5D01G286900 chr5D 370784759 370785434 675 False 645.000000 645 84.985000 2224 2864 1 chr5D.!!$F2 640
6 TraesCS5D01G286900 chr5D 386951696 386952970 1274 False 253.700000 512 91.805333 2491 3328 3 chr5D.!!$F7 837
7 TraesCS5D01G286900 chr5A 491583807 491585046 1239 False 1214.000000 1214 85.083000 839 2047 1 chr5A.!!$F2 1208
8 TraesCS5D01G286900 chr5A 489658618 489665664 7046 False 770.000000 2189 87.447000 1 2824 4 chr5A.!!$F3 2823
9 TraesCS5D01G286900 chr5A 491569383 491569948 565 False 688.000000 688 88.967000 1519 2075 1 chr5A.!!$F1 556
10 TraesCS5D01G286900 chr5A 489677164 489683781 6617 False 548.533333 1711 87.765500 760 3328 6 chr5A.!!$F4 2568
11 TraesCS5D01G286900 chr5A 489763905 489768546 4641 False 435.550000 1096 91.625250 1278 3328 4 chr5A.!!$F5 2050
12 TraesCS5D01G286900 chr6D 60555048 60557265 2217 True 756.000000 1938 93.073000 695 3328 3 chr6D.!!$R1 2633
13 TraesCS5D01G286900 chr7D 437591884 437593514 1630 False 1727.000000 1727 86.317000 747 2347 1 chr7D.!!$F1 1600
14 TraesCS5D01G286900 chr7D 437631612 437632503 891 False 332.000000 479 88.846500 2389 3216 2 chr7D.!!$F2 827
15 TraesCS5D01G286900 chr7B 456497604 456503009 5405 True 712.333333 1698 87.094667 700 2941 3 chr7B.!!$R1 2241
16 TraesCS5D01G286900 chr5B 465051928 465055255 3327 False 711.000000 1581 89.356250 1 2447 4 chr5B.!!$F2 2446
17 TraesCS5D01G286900 chr5B 465045929 465047176 1247 False 241.700000 470 91.476667 2487 3328 3 chr5B.!!$F1 841
18 TraesCS5D01G286900 chr7A 488029323 488030193 870 False 732.000000 732 82.565000 700 1550 1 chr7A.!!$F1 850
19 TraesCS5D01G286900 chr7A 488415600 488416468 868 False 719.000000 719 82.340000 700 1550 1 chr7A.!!$F2 850
20 TraesCS5D01G286900 chr7A 488465856 488467374 1518 False 489.333333 935 88.175000 1922 3328 3 chr7A.!!$F4 1406
21 TraesCS5D01G286900 chr7A 488085826 488087156 1330 False 425.300000 857 87.503667 1922 3164 3 chr7A.!!$F3 1242

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
257 2085 0.324091 ACCCGAGGTACCGTCAGATT 60.324 55.0 6.18 0.0 32.11 2.40 F
419 2249 0.391661 GTCATCCGCAGAAAGCCAGA 60.392 55.0 0.00 0.0 41.38 3.86 F
1884 4830 0.450482 GACCGCAATGTTCAACGACG 60.450 55.0 0.00 0.0 0.00 5.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2115 5126 0.467804 TGTGTACAACCAGCAGCAGA 59.532 50.000 0.00 0.00 0.0 4.26 R
2123 5134 1.335182 CCGCAAACATGTGTACAACCA 59.665 47.619 0.00 0.00 0.0 3.67 R
2866 14648 1.961180 ATGTAGTCAGCGGTGGAGGC 61.961 60.000 15.67 4.16 0.0 4.70 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
26 28 2.494059 ACACCGGATGAACTTGACTTG 58.506 47.619 9.46 0.00 0.00 3.16
59 61 1.956477 CCAACTTGTAAGCAGCCTGTT 59.044 47.619 0.00 0.00 0.00 3.16
68 70 1.897560 AGCAGCCTGTTCCACTTTAC 58.102 50.000 0.00 0.00 0.00 2.01
83 85 4.647399 CCACTTTACCCAGAACCTTGAAAA 59.353 41.667 0.00 0.00 0.00 2.29
151 153 7.639113 TTTGTTAGGAACATCTGAAACAGTT 57.361 32.000 0.00 0.00 41.79 3.16
174 176 8.292448 AGTTATGTTTTAGTTTCATCTGCAGTG 58.708 33.333 14.67 11.47 0.00 3.66
230 240 9.981114 CCTTTATTGGAACAGAATTTAACACTT 57.019 29.630 0.00 0.00 42.39 3.16
241 2069 7.393515 ACAGAATTTAACACTTTCTCCATACCC 59.606 37.037 0.00 0.00 0.00 3.69
257 2085 0.324091 ACCCGAGGTACCGTCAGATT 60.324 55.000 6.18 0.00 32.11 2.40
272 2100 5.621228 CCGTCAGATTTGAAAAGTTTCTTCG 59.379 40.000 5.45 0.00 38.02 3.79
327 2156 6.374333 GCTACATTTTCTGTTAGTCCCATTGA 59.626 38.462 0.00 0.00 39.39 2.57
419 2249 0.391661 GTCATCCGCAGAAAGCCAGA 60.392 55.000 0.00 0.00 41.38 3.86
463 2293 9.726438 CGGTATAGAATTTCCTCCTTTTGATAT 57.274 33.333 0.00 0.00 0.00 1.63
676 2588 1.137513 CCGAACGAGTTGACTTCACC 58.862 55.000 0.00 0.00 0.00 4.02
693 2605 1.371183 CCAAACCAGGCGTCAGAGA 59.629 57.895 0.00 0.00 0.00 3.10
698 2610 1.680651 CCAGGCGTCAGAGAGACCT 60.681 63.158 0.00 0.00 44.66 3.85
1004 3855 3.387947 CGGACCTTACCCCAGCGT 61.388 66.667 0.00 0.00 0.00 5.07
1055 3907 4.029809 CGGAACCGGGAGCCCTTT 62.030 66.667 6.32 0.00 35.56 3.11
1251 4146 4.402528 CGTCCCATGCCGTTCCCA 62.403 66.667 0.00 0.00 0.00 4.37
1331 4226 4.515361 CCAAGCTCTCTGAATCTCATGTT 58.485 43.478 0.00 0.00 0.00 2.71
1425 4320 3.529341 ATGCACGCCGTCCAAGACA 62.529 57.895 0.00 0.00 32.09 3.41
1474 4369 1.268899 GGACAAGTTCGTCCGAGAGAA 59.731 52.381 8.21 0.00 45.77 2.87
1590 4497 2.432628 CGACACCCGTGAAGCTCC 60.433 66.667 0.96 0.00 0.00 4.70
1695 4629 0.721718 CAGCGGTTCGGTTTCTGATC 59.278 55.000 0.00 0.00 34.62 2.92
1823 4769 3.591254 AAAGCAGGAGACGTCCCGC 62.591 63.158 13.01 18.27 45.63 6.13
1851 4797 3.850098 AAGGCCCGTCAGCAAGTGG 62.850 63.158 0.00 0.00 0.00 4.00
1860 4806 1.170290 TCAGCAAGTGGTCGAGACGA 61.170 55.000 0.00 0.00 0.00 4.20
1868 4814 0.959372 TGGTCGAGACGAAGAGGACC 60.959 60.000 1.68 1.68 45.75 4.46
1884 4830 0.450482 GACCGCAATGTTCAACGACG 60.450 55.000 0.00 0.00 0.00 5.12
1919 4865 3.127533 AAGGCGCTCGGCATTGAC 61.128 61.111 17.74 0.00 45.25 3.18
1988 4938 3.257933 CGCAAGGACAAGGCTGAC 58.742 61.111 0.00 0.00 0.00 3.51
1989 4939 2.671177 CGCAAGGACAAGGCTGACG 61.671 63.158 0.00 0.00 0.00 4.35
1990 4940 1.301716 GCAAGGACAAGGCTGACGA 60.302 57.895 0.00 0.00 0.00 4.20
1991 4941 1.569479 GCAAGGACAAGGCTGACGAC 61.569 60.000 0.00 0.00 0.00 4.34
2075 5058 0.731514 TTCGGCTGTGATCGTCGTTC 60.732 55.000 0.00 0.00 0.00 3.95
2096 5104 2.950309 CTCATGGCTAGCATGAAAGCTT 59.050 45.455 18.24 0.00 43.70 3.74
2097 5105 2.686405 TCATGGCTAGCATGAAAGCTTG 59.314 45.455 18.24 14.26 43.70 4.01
2098 5106 2.205022 TGGCTAGCATGAAAGCTTGT 57.795 45.000 18.24 0.00 43.70 3.16
2099 5107 3.348647 TGGCTAGCATGAAAGCTTGTA 57.651 42.857 18.24 0.00 43.70 2.41
2100 5108 3.009723 TGGCTAGCATGAAAGCTTGTAC 58.990 45.455 18.24 0.00 43.70 2.90
2115 5126 6.658188 AGCTTGTACTGTAGTTCTCTTCTT 57.342 37.500 0.00 0.00 0.00 2.52
2122 5133 3.919216 TGTAGTTCTCTTCTTCTGCTGC 58.081 45.455 0.00 0.00 0.00 5.25
2123 5134 3.576118 TGTAGTTCTCTTCTTCTGCTGCT 59.424 43.478 0.00 0.00 0.00 4.24
2147 5202 2.835027 TGTACACATGTTTGCGGTGTA 58.165 42.857 0.00 0.00 43.43 2.90
2159 5214 1.739929 CGGTGTAACGATGGCAGCA 60.740 57.895 2.73 0.00 38.12 4.41
2180 5240 5.177326 GCAAATTGATTTGGTTGCCATCTA 58.823 37.500 15.89 0.00 45.44 1.98
2190 5250 3.263170 TGGTTGCCATCTAGTCTAGCAAA 59.737 43.478 11.72 0.00 44.32 3.68
2215 5279 4.035558 TGCTGACACTTGATGTTGTTCTTC 59.964 41.667 0.00 0.00 43.56 2.87
2309 5414 9.225682 ACCTCTTATCTAGACCATATTTGGAAA 57.774 33.333 9.40 0.00 46.92 3.13
2360 5497 0.608130 ATTAGTCTGTGGTGCTGCGA 59.392 50.000 0.00 0.00 0.00 5.10
2365 7932 3.318539 CTGTGGTGCTGCGATGTGC 62.319 63.158 0.00 0.00 46.70 4.57
2400 8002 1.144936 GTTGGCCCATCTCCGAGAG 59.855 63.158 0.00 0.00 0.00 3.20
2488 12741 1.795768 TGTTCTCCGCAATCACTGTC 58.204 50.000 0.00 0.00 0.00 3.51
2518 12888 5.885230 TTGATCCACATCAAAGTCATGTC 57.115 39.130 0.00 0.00 44.56 3.06
2530 12900 3.969287 AGTCATGTCTTGCTGCTCTTA 57.031 42.857 0.00 0.00 0.00 2.10
2536 12906 6.147821 GTCATGTCTTGCTGCTCTTAAACTTA 59.852 38.462 0.00 0.00 0.00 2.24
2537 12907 6.881065 TCATGTCTTGCTGCTCTTAAACTTAT 59.119 34.615 0.00 0.00 0.00 1.73
2540 12914 8.201554 TGTCTTGCTGCTCTTAAACTTATATG 57.798 34.615 0.00 0.00 0.00 1.78
2628 13009 5.046663 AGGTTCTTCACACAAATGTTTGGTT 60.047 36.000 9.98 0.00 42.34 3.67
2671 14425 4.219033 GCAAACGGTCAGAGTAACAATTG 58.781 43.478 3.24 3.24 0.00 2.32
2685 14444 7.831193 AGAGTAACAATTGATTGGCAATCTACT 59.169 33.333 33.21 28.83 46.25 2.57
2687 14446 8.893727 AGTAACAATTGATTGGCAATCTACTAC 58.106 33.333 33.21 23.82 46.25 2.73
2688 14447 7.701539 AACAATTGATTGGCAATCTACTACA 57.298 32.000 33.21 15.61 46.25 2.74
2689 14448 7.701539 ACAATTGATTGGCAATCTACTACAA 57.298 32.000 33.21 22.02 46.25 2.41
2690 14449 8.297470 ACAATTGATTGGCAATCTACTACAAT 57.703 30.769 33.21 23.02 46.25 2.71
2691 14450 8.192774 ACAATTGATTGGCAATCTACTACAATG 58.807 33.333 33.21 22.65 46.25 2.82
2692 14451 7.886629 ATTGATTGGCAATCTACTACAATGT 57.113 32.000 33.21 11.78 43.64 2.71
2693 14452 8.978874 ATTGATTGGCAATCTACTACAATGTA 57.021 30.769 33.21 11.97 43.64 2.29
2694 14453 8.437360 TTGATTGGCAATCTACTACAATGTAG 57.563 34.615 33.21 18.03 40.75 2.74
2712 14476 7.119262 ACAATGTAGTGTAGTTTATGTTCCTGC 59.881 37.037 0.00 0.00 0.00 4.85
2747 14513 4.759516 TTCGATAAACTGGTTTTGAGGC 57.240 40.909 4.01 0.00 34.23 4.70
2827 14597 7.918562 TGCTACTTTTGGTTTTACATCAAACTC 59.081 33.333 0.00 0.00 36.93 3.01
2851 14621 5.596836 TTTATGCTAAAAGATTGCCCTGG 57.403 39.130 0.00 0.00 0.00 4.45
2887 14669 0.532573 CTCCACCGCTGACTACATGT 59.467 55.000 2.69 2.69 0.00 3.21
2925 14707 4.734398 ATTTTGTTCTGTCAACAGGCAA 57.266 36.364 10.13 11.97 43.91 4.52
2978 14763 0.253044 GTGCCCAGGTGAGCATTCTA 59.747 55.000 0.00 0.00 41.86 2.10
3010 14796 7.729124 AAATAGCCTAAGAAGTGTACTGGTA 57.271 36.000 0.00 0.00 0.00 3.25
3029 14815 8.250143 ACTGGTATTCCAAAGTTTTTCAGAAT 57.750 30.769 0.00 0.00 43.81 2.40
3150 15015 7.172190 CGTCAATCTGCTCTGGTTGATATATTT 59.828 37.037 5.89 0.00 33.65 1.40
3304 15795 3.319972 GTGATGTGGCATTCCATATTGCT 59.680 43.478 0.00 0.00 43.22 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 28 7.027760 GCTTACAAGTTGGAATTACCTAAAGC 58.972 38.462 7.96 0.00 39.86 3.51
59 61 3.050089 TCAAGGTTCTGGGTAAAGTGGA 58.950 45.455 0.00 0.00 0.00 4.02
68 70 2.034179 GGTCGTTTTTCAAGGTTCTGGG 59.966 50.000 0.00 0.00 0.00 4.45
83 85 2.554032 CCTGCTCATTTCTTTGGTCGTT 59.446 45.455 0.00 0.00 0.00 3.85
117 119 4.469657 TGTTCCTAACAAAAGCACCTGAT 58.530 39.130 0.00 0.00 38.72 2.90
151 153 6.206438 TGCACTGCAGATGAAACTAAAACATA 59.794 34.615 23.35 0.00 33.32 2.29
230 240 1.751733 CGGTACCTCGGGTATGGAGAA 60.752 57.143 10.90 0.00 40.54 2.87
231 241 0.179009 CGGTACCTCGGGTATGGAGA 60.179 60.000 10.90 0.00 40.54 3.71
241 2069 2.933495 TCAAATCTGACGGTACCTCG 57.067 50.000 10.90 0.00 0.00 4.63
257 2085 8.980143 ATGAAGTTTTCGAAGAAACTTTTCAA 57.020 26.923 22.43 12.91 42.85 2.69
272 2100 7.206981 TGGAAGAGATGACAATGAAGTTTTC 57.793 36.000 0.00 0.00 0.00 2.29
279 2107 4.202192 CCGAGATGGAAGAGATGACAATGA 60.202 45.833 0.00 0.00 42.00 2.57
344 2174 4.664150 TGAGAAGGCGGAAAAACAAAAT 57.336 36.364 0.00 0.00 0.00 1.82
349 2179 4.034163 GCTAGTATGAGAAGGCGGAAAAAC 59.966 45.833 0.00 0.00 0.00 2.43
386 2216 9.990360 TTCTGCGGATGACAATAATACTAATTA 57.010 29.630 0.00 0.00 32.20 1.40
404 2234 0.036732 ATTGTCTGGCTTTCTGCGGA 59.963 50.000 0.00 0.00 44.05 5.54
419 2249 1.645034 CGTCAGCGATCAAGGATTGT 58.355 50.000 0.00 0.00 43.66 2.71
463 2293 5.308014 TGTGACCGTCTAGTTGAACTACTA 58.692 41.667 0.00 0.00 0.00 1.82
464 2294 4.139786 TGTGACCGTCTAGTTGAACTACT 58.860 43.478 0.00 0.00 0.00 2.57
465 2295 4.494350 TGTGACCGTCTAGTTGAACTAC 57.506 45.455 0.00 0.00 0.00 2.73
571 2470 6.071952 TGGAGGAAATTCTTTACAATGCTGTC 60.072 38.462 0.00 0.00 36.96 3.51
676 2588 0.318441 TCTCTCTGACGCCTGGTTTG 59.682 55.000 0.00 0.00 0.00 2.93
693 2605 2.618559 GGAACCGAGTACTCTCAGGTCT 60.619 54.545 20.34 10.76 42.23 3.85
698 2610 0.607217 TGCGGAACCGAGTACTCTCA 60.607 55.000 20.34 4.56 42.83 3.27
740 3451 2.032681 AGTTCGCCCTGCACCTTC 59.967 61.111 0.00 0.00 0.00 3.46
767 3481 0.394762 ACGGCCATGCATGTCTTCAT 60.395 50.000 24.58 3.00 34.21 2.57
768 3482 1.002257 ACGGCCATGCATGTCTTCA 60.002 52.632 24.58 0.00 0.00 3.02
769 3483 1.430632 CACGGCCATGCATGTCTTC 59.569 57.895 24.58 10.73 0.00 2.87
771 3485 2.438975 CCACGGCCATGCATGTCT 60.439 61.111 24.58 1.60 0.00 3.41
772 3486 2.751436 ACCACGGCCATGCATGTC 60.751 61.111 24.58 12.97 0.00 3.06
773 3487 3.063704 CACCACGGCCATGCATGT 61.064 61.111 24.58 3.69 0.00 3.21
1017 3868 0.259647 TGGGCAATCTCCATGGGAAG 59.740 55.000 13.02 2.53 0.00 3.46
1055 3907 4.201679 CGGCCGGACATGACGCTA 62.202 66.667 20.10 0.00 0.00 4.26
1251 4146 3.515502 TCCTTGGACGTCATCTTCTTCAT 59.484 43.478 18.91 0.00 0.00 2.57
1331 4226 1.505098 TCCAGGATATGAGCAGGGAGA 59.495 52.381 0.00 0.00 0.00 3.71
1425 4320 2.671070 CATCTCCACAAGGGCCGT 59.329 61.111 0.00 0.00 36.21 5.68
1590 4497 2.546368 CGTACTCCTCATCCTCTTCGAG 59.454 54.545 0.00 0.00 0.00 4.04
1695 4629 1.153939 CGACGCTCTGGTGAGAAGG 60.154 63.158 0.00 0.00 42.73 3.46
1766 4712 4.147449 CTGGCACGGGCGATGAGA 62.147 66.667 2.17 0.00 42.47 3.27
1851 4797 1.424635 CGGTCCTCTTCGTCTCGAC 59.575 63.158 0.00 0.00 34.89 4.20
1860 4806 1.880027 GTTGAACATTGCGGTCCTCTT 59.120 47.619 0.00 0.00 0.00 2.85
1868 4814 1.792057 GGCGTCGTTGAACATTGCG 60.792 57.895 0.00 0.00 0.00 4.85
1919 4865 1.671054 CCTGGCCGTGTTGTACTGG 60.671 63.158 0.00 0.00 0.00 4.00
1986 4936 2.566765 GTCGTCGTCGTCGTCGTC 60.567 66.667 18.44 11.28 45.27 4.20
1987 4937 4.064491 GGTCGTCGTCGTCGTCGT 62.064 66.667 18.44 0.00 45.27 4.34
1988 4938 3.771491 AGGTCGTCGTCGTCGTCG 61.771 66.667 14.18 14.18 46.06 5.12
1989 4939 2.162921 TTCAGGTCGTCGTCGTCGTC 62.163 60.000 11.41 6.21 38.33 4.20
1990 4940 2.167808 CTTCAGGTCGTCGTCGTCGT 62.168 60.000 11.41 0.00 38.33 4.34
1991 4941 1.509370 CTTCAGGTCGTCGTCGTCG 60.509 63.158 5.50 5.50 38.33 5.12
2096 5104 5.770663 AGCAGAAGAAGAGAACTACAGTACA 59.229 40.000 0.00 0.00 0.00 2.90
2097 5105 6.090129 CAGCAGAAGAAGAGAACTACAGTAC 58.910 44.000 0.00 0.00 0.00 2.73
2098 5106 5.336055 GCAGCAGAAGAAGAGAACTACAGTA 60.336 44.000 0.00 0.00 0.00 2.74
2099 5107 4.560513 GCAGCAGAAGAAGAGAACTACAGT 60.561 45.833 0.00 0.00 0.00 3.55
2100 5108 3.925913 GCAGCAGAAGAAGAGAACTACAG 59.074 47.826 0.00 0.00 0.00 2.74
2115 5126 0.467804 TGTGTACAACCAGCAGCAGA 59.532 50.000 0.00 0.00 0.00 4.26
2122 5133 2.604373 CCGCAAACATGTGTACAACCAG 60.604 50.000 0.00 0.00 0.00 4.00
2123 5134 1.335182 CCGCAAACATGTGTACAACCA 59.665 47.619 0.00 0.00 0.00 3.67
2147 5202 3.598019 AATCAATTTGCTGCCATCGTT 57.402 38.095 0.00 0.00 0.00 3.85
2159 5214 6.438425 AGACTAGATGGCAACCAAATCAATTT 59.562 34.615 0.00 0.00 36.95 1.82
2190 5250 4.581824 AGAACAACATCAAGTGTCAGCATT 59.418 37.500 0.00 0.00 41.14 3.56
2347 5484 2.865308 CACATCGCAGCACCACAG 59.135 61.111 0.00 0.00 0.00 3.66
2365 7932 4.807304 GGCCAACTTTATGATGAGCATTTG 59.193 41.667 0.00 0.00 38.44 2.32
2400 8002 6.201806 CGGAAATGGACATCTCAGTTAATCTC 59.798 42.308 0.00 0.00 0.00 2.75
2409 8011 4.222810 TCTTTCTCGGAAATGGACATCTCA 59.777 41.667 0.48 0.00 0.00 3.27
2457 8065 1.608590 CGGAGAACATGTGCAAACCTT 59.391 47.619 6.60 0.00 0.00 3.50
2488 12741 4.377370 TGTGGATCAACACAGGCG 57.623 55.556 0.00 0.00 45.70 5.52
2560 12934 4.835056 TCAGATCAACCTCAGACTCTCAAA 59.165 41.667 0.00 0.00 0.00 2.69
2564 12938 4.160065 CACATCAGATCAACCTCAGACTCT 59.840 45.833 0.00 0.00 0.00 3.24
2644 13029 0.468226 ACTCTGACCGTTTGCCAGAA 59.532 50.000 0.00 0.00 36.61 3.02
2646 13031 1.798813 GTTACTCTGACCGTTTGCCAG 59.201 52.381 0.00 0.00 0.00 4.85
2671 14425 7.495934 ACACTACATTGTAGTAGATTGCCAATC 59.504 37.037 25.06 9.45 43.24 2.67
2685 14444 9.647797 CAGGAACATAAACTACACTACATTGTA 57.352 33.333 0.00 0.00 0.00 2.41
2687 14446 7.334421 AGCAGGAACATAAACTACACTACATTG 59.666 37.037 0.00 0.00 0.00 2.82
2688 14447 7.334421 CAGCAGGAACATAAACTACACTACATT 59.666 37.037 0.00 0.00 0.00 2.71
2689 14448 6.818644 CAGCAGGAACATAAACTACACTACAT 59.181 38.462 0.00 0.00 0.00 2.29
2690 14449 6.163476 CAGCAGGAACATAAACTACACTACA 58.837 40.000 0.00 0.00 0.00 2.74
2691 14450 6.164176 ACAGCAGGAACATAAACTACACTAC 58.836 40.000 0.00 0.00 0.00 2.73
2692 14451 6.354794 ACAGCAGGAACATAAACTACACTA 57.645 37.500 0.00 0.00 0.00 2.74
2693 14452 5.228945 ACAGCAGGAACATAAACTACACT 57.771 39.130 0.00 0.00 0.00 3.55
2694 14453 7.429636 TTTACAGCAGGAACATAAACTACAC 57.570 36.000 0.00 0.00 0.00 2.90
2712 14476 7.641411 CCAGTTTATCGAATCTGCAATTTACAG 59.359 37.037 0.00 0.00 32.95 2.74
2728 14492 3.751175 TGAGCCTCAAAACCAGTTTATCG 59.249 43.478 0.00 0.00 31.63 2.92
2747 14513 9.674824 GTTTGATCCAAGCTTATTCATATTGAG 57.325 33.333 0.00 0.00 0.00 3.02
2794 14564 5.400066 AAAACCAAAAGTAGCACACACTT 57.600 34.783 0.00 0.00 37.85 3.16
2801 14571 7.777095 AGTTTGATGTAAAACCAAAAGTAGCA 58.223 30.769 0.00 0.00 40.26 3.49
2827 14597 6.044682 CCAGGGCAATCTTTTAGCATAAAAG 58.955 40.000 13.41 13.41 38.30 2.27
2866 14648 1.961180 ATGTAGTCAGCGGTGGAGGC 61.961 60.000 15.67 4.16 0.00 4.70
2872 14654 2.741878 GCCATTACATGTAGTCAGCGGT 60.742 50.000 5.56 0.00 0.00 5.68
2901 14683 6.214191 TGCCTGTTGACAGAACAAAATAAA 57.786 33.333 12.54 0.00 46.59 1.40
2925 14707 7.931407 TGACATATAAGTGCTTCCGTGATTAAT 59.069 33.333 0.00 0.00 0.00 1.40
2978 14763 8.870075 ACACTTCTTAGGCTATTTTCTTGATT 57.130 30.769 0.00 0.00 0.00 2.57
2992 14777 6.540438 TGGAATACCAGTACACTTCTTAGG 57.460 41.667 0.00 0.00 41.77 2.69
3092 14878 7.540474 TTAGTATCTTGAAAGGTGAGACAGT 57.460 36.000 0.00 0.00 0.00 3.55
3093 14879 8.253810 TGATTAGTATCTTGAAAGGTGAGACAG 58.746 37.037 0.00 0.00 0.00 3.51
3094 14880 8.035394 GTGATTAGTATCTTGAAAGGTGAGACA 58.965 37.037 0.00 0.00 0.00 3.41
3095 14881 7.221067 CGTGATTAGTATCTTGAAAGGTGAGAC 59.779 40.741 0.00 0.00 0.00 3.36
3096 14882 7.258441 CGTGATTAGTATCTTGAAAGGTGAGA 58.742 38.462 0.00 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.