Multiple sequence alignment - TraesCS4A01G037800

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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 TraesCS4A01G037800 chr4A 100.000 5053 0 0 1 5053 29806442 29801390 0.000000e+00 9332.0
1 TraesCS4A01G037800 chr4A 95.423 1857 69 8 3204 5051 677889651 677887802 0.000000e+00 2944.0
2 TraesCS4A01G037800 chr4A 92.767 318 16 3 1 312 396744139 396744455 2.140000e-123 453.0
3 TraesCS4A01G037800 chr2A 97.775 4764 93 6 301 5053 132616596 132611835 0.000000e+00 8198.0
4 TraesCS4A01G037800 chr2A 97.594 4738 103 4 326 5053 180203877 180199141 0.000000e+00 8107.0
5 TraesCS4A01G037800 chr2A 88.319 565 48 12 3754 4312 705824933 705824381 0.000000e+00 662.0
6 TraesCS4A01G037800 chr6A 97.558 4299 93 5 766 5053 68546211 68550508 0.000000e+00 7347.0
7 TraesCS4A01G037800 chr6A 95.248 484 17 6 301 778 68533279 68533762 0.000000e+00 761.0
8 TraesCS4A01G037800 chr1D 96.709 4193 103 17 880 5053 468413311 468417487 0.000000e+00 6946.0
9 TraesCS4A01G037800 chr1D 94.630 540 24 4 326 861 468412783 468413321 0.000000e+00 832.0
10 TraesCS4A01G037800 chr1D 85.777 682 70 15 1502 2167 475823647 475822977 0.000000e+00 697.0
11 TraesCS4A01G037800 chr1D 82.938 633 66 26 1502 2117 475822089 475821482 2.680000e-147 532.0
12 TraesCS4A01G037800 chr2D 94.644 3566 156 17 1503 5053 390622137 390625682 0.000000e+00 5494.0
13 TraesCS4A01G037800 chr2D 97.021 940 28 0 2903 3842 81593689 81592750 0.000000e+00 1581.0
14 TraesCS4A01G037800 chr2D 93.530 1051 49 9 4011 5051 81574413 81573372 0.000000e+00 1546.0
15 TraesCS4A01G037800 chr2D 94.992 599 29 1 2903 3501 81598992 81598395 0.000000e+00 939.0
16 TraesCS4A01G037800 chr2D 92.255 581 30 6 1503 2078 81631622 81631052 0.000000e+00 809.0
17 TraesCS4A01G037800 chr2D 92.982 114 8 0 2797 2910 81630754 81630641 3.130000e-37 167.0
18 TraesCS4A01G037800 chr2D 91.597 119 10 0 2792 2910 81597596 81597478 1.130000e-36 165.0
19 TraesCS4A01G037800 chr6D 94.084 2586 108 16 2482 5051 393958284 393960840 0.000000e+00 3886.0
20 TraesCS4A01G037800 chr6D 85.505 1090 111 34 1633 2709 14581006 14582061 0.000000e+00 1094.0
21 TraesCS4A01G037800 chr6D 92.514 708 32 9 1503 2205 393957591 393958282 0.000000e+00 994.0
22 TraesCS4A01G037800 chr6D 86.825 463 56 3 1908 2368 14580429 14580888 3.490000e-141 512.0
23 TraesCS4A01G037800 chr5A 93.955 1158 57 6 3906 5051 219234270 219235426 0.000000e+00 1738.0
24 TraesCS4A01G037800 chr5A 93.792 886 52 3 623 1506 219232183 219233067 0.000000e+00 1328.0
25 TraesCS4A01G037800 chr5A 92.767 318 16 2 1 312 202891835 202892151 2.140000e-123 453.0
26 TraesCS4A01G037800 chr5A 89.965 289 11 2 1218 1506 648914064 648914334 1.730000e-94 357.0
27 TraesCS4A01G037800 chr5A 93.182 220 14 1 3517 3735 401725734 401725953 6.310000e-84 322.0
28 TraesCS4A01G037800 chr5A 100.000 52 0 0 1503 1554 648915467 648915518 4.160000e-16 97.1
29 TraesCS4A01G037800 chr7B 93.610 1158 48 13 3906 5051 301889963 301891106 0.000000e+00 1705.0
30 TraesCS4A01G037800 chr7B 94.018 886 50 3 623 1506 301887876 301888760 0.000000e+00 1339.0
31 TraesCS4A01G037800 chr7B 85.197 304 26 11 301 595 301887599 301887892 1.380000e-75 294.0
32 TraesCS4A01G037800 chr7B 100.000 46 0 0 1502 1547 301889906 301889951 9.010000e-13 86.1
33 TraesCS4A01G037800 chr7A 86.637 1347 144 21 3732 5050 95973933 95975271 0.000000e+00 1458.0
34 TraesCS4A01G037800 chr7A 86.801 1341 135 23 3732 5050 104997932 104996612 0.000000e+00 1458.0
35 TraesCS4A01G037800 chr7A 93.396 318 14 2 1 312 18386397 18386713 9.910000e-127 464.0
36 TraesCS4A01G037800 chr7A 92.767 318 16 3 1 312 368481694 368481378 2.140000e-123 453.0
37 TraesCS4A01G037800 chr7A 92.453 318 17 3 1 312 233165401 233165085 9.980000e-122 448.0
38 TraesCS4A01G037800 chr7A 92.698 315 16 4 1 308 342770216 342769902 9.980000e-122 448.0
39 TraesCS4A01G037800 chr7A 89.342 319 23 7 411 724 33757655 33757343 1.710000e-104 390.0
40 TraesCS4A01G037800 chrUn 93.672 885 51 5 623 1506 195343467 195344347 0.000000e+00 1319.0
41 TraesCS4A01G037800 chrUn 94.244 747 40 3 623 1367 350819238 350818493 0.000000e+00 1138.0
42 TraesCS4A01G037800 chrUn 94.244 747 40 3 623 1367 350841958 350841213 0.000000e+00 1138.0
43 TraesCS4A01G037800 chrUn 86.047 301 26 10 301 595 195343193 195343483 4.910000e-80 309.0
44 TraesCS4A01G037800 chrUn 85.382 301 28 10 301 595 350819512 350819222 1.060000e-76 298.0
45 TraesCS4A01G037800 chrUn 85.382 301 28 10 301 595 350842232 350841942 1.060000e-76 298.0
46 TraesCS4A01G037800 chrUn 85.382 301 28 10 301 595 404006308 404006598 1.060000e-76 298.0
47 TraesCS4A01G037800 chrUn 100.000 46 0 0 1502 1547 195345493 195345538 9.010000e-13 86.1
48 TraesCS4A01G037800 chrUn 100.000 46 0 0 1502 1547 389615720 389615675 9.010000e-13 86.1
49 TraesCS4A01G037800 chr1B 84.710 569 61 12 1507 2060 661900086 661899529 3.440000e-151 545.0
50 TraesCS4A01G037800 chr3A 93.082 318 15 2 1 312 409740625 409740309 4.610000e-125 459.0
51 TraesCS4A01G037800 chr1A 93.082 318 15 2 1 312 100101050 100101366 4.610000e-125 459.0
52 TraesCS4A01G037800 chr1A 100.000 52 0 0 1503 1554 96748151 96748100 4.160000e-16 97.1
53 TraesCS4A01G037800 chr1A 97.674 43 1 0 1504 1546 101097027 101097069 1.950000e-09 75.0
54 TraesCS4A01G037800 chr2B 89.796 343 27 4 1 336 793713030 793713371 2.790000e-117 433.0


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 TraesCS4A01G037800 chr4A 29801390 29806442 5052 True 9332.000000 9332 100.000000 1 5053 1 chr4A.!!$R1 5052
1 TraesCS4A01G037800 chr4A 677887802 677889651 1849 True 2944.000000 2944 95.423000 3204 5051 1 chr4A.!!$R2 1847
2 TraesCS4A01G037800 chr2A 132611835 132616596 4761 True 8198.000000 8198 97.775000 301 5053 1 chr2A.!!$R1 4752
3 TraesCS4A01G037800 chr2A 180199141 180203877 4736 True 8107.000000 8107 97.594000 326 5053 1 chr2A.!!$R2 4727
4 TraesCS4A01G037800 chr2A 705824381 705824933 552 True 662.000000 662 88.319000 3754 4312 1 chr2A.!!$R3 558
5 TraesCS4A01G037800 chr6A 68546211 68550508 4297 False 7347.000000 7347 97.558000 766 5053 1 chr6A.!!$F2 4287
6 TraesCS4A01G037800 chr1D 468412783 468417487 4704 False 3889.000000 6946 95.669500 326 5053 2 chr1D.!!$F1 4727
7 TraesCS4A01G037800 chr1D 475821482 475823647 2165 True 614.500000 697 84.357500 1502 2167 2 chr1D.!!$R1 665
8 TraesCS4A01G037800 chr2D 390622137 390625682 3545 False 5494.000000 5494 94.644000 1503 5053 1 chr2D.!!$F1 3550
9 TraesCS4A01G037800 chr2D 81573372 81574413 1041 True 1546.000000 1546 93.530000 4011 5051 1 chr2D.!!$R1 1040
10 TraesCS4A01G037800 chr2D 81592750 81598992 6242 True 895.000000 1581 94.536667 2792 3842 3 chr2D.!!$R2 1050
11 TraesCS4A01G037800 chr2D 81630641 81631622 981 True 488.000000 809 92.618500 1503 2910 2 chr2D.!!$R3 1407
12 TraesCS4A01G037800 chr6D 393957591 393960840 3249 False 2440.000000 3886 93.299000 1503 5051 2 chr6D.!!$F2 3548
13 TraesCS4A01G037800 chr6D 14580429 14582061 1632 False 803.000000 1094 86.165000 1633 2709 2 chr6D.!!$F1 1076
14 TraesCS4A01G037800 chr5A 219232183 219235426 3243 False 1533.000000 1738 93.873500 623 5051 2 chr5A.!!$F3 4428
15 TraesCS4A01G037800 chr5A 648914064 648915518 1454 False 227.050000 357 94.982500 1218 1554 2 chr5A.!!$F4 336
16 TraesCS4A01G037800 chr7B 301887599 301891106 3507 False 856.025000 1705 93.206250 301 5051 4 chr7B.!!$F1 4750
17 TraesCS4A01G037800 chr7A 95973933 95975271 1338 False 1458.000000 1458 86.637000 3732 5050 1 chr7A.!!$F2 1318
18 TraesCS4A01G037800 chr7A 104996612 104997932 1320 True 1458.000000 1458 86.801000 3732 5050 1 chr7A.!!$R2 1318
19 TraesCS4A01G037800 chrUn 350818493 350819512 1019 True 718.000000 1138 89.813000 301 1367 2 chrUn.!!$R2 1066
20 TraesCS4A01G037800 chrUn 350841213 350842232 1019 True 718.000000 1138 89.813000 301 1367 2 chrUn.!!$R3 1066
21 TraesCS4A01G037800 chrUn 195343193 195345538 2345 False 571.366667 1319 93.239667 301 1547 3 chrUn.!!$F2 1246
22 TraesCS4A01G037800 chr1B 661899529 661900086 557 True 545.000000 545 84.710000 1507 2060 1 chr1B.!!$R1 553

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
45 46 0.105224 TGTCTCGACGCAAAAAGGGA 59.895 50.000 0.00 0.0 0.00 4.20 F
46 47 0.511653 GTCTCGACGCAAAAAGGGAC 59.488 55.000 0.00 0.0 0.00 4.46 F
1431 1492 0.487325 AGTTTTGGAAGGGGAAGGGG 59.513 55.000 0.00 0.0 0.00 4.79 F
2070 3309 2.432628 CTCCACACTTCGCCGGAC 60.433 66.667 5.05 0.0 0.00 4.79 F
3211 8305 3.323979 TCTGGTCTGGTCTGAAAGTTACC 59.676 47.826 0.00 0.0 31.76 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1428 1489 0.394565 AATCTCTGCGCATACTCCCC 59.605 55.000 12.24 0.0 0.0 4.81 R
1599 2823 2.880443 ACATGCATTTGAAGGGACACT 58.120 42.857 0.00 0.0 0.0 3.55 R
2983 8073 0.534877 TGCAACTGACTCCAACGCAT 60.535 50.000 0.00 0.0 0.0 4.73 R
4008 9248 4.142271 CCTCTCTGACTCTCCAACATACAC 60.142 50.000 0.00 0.0 0.0 2.90 R
4906 10561 5.761234 GCATTGCAATGGGATAAAATGATGT 59.239 36.000 34.23 0.0 36.9 3.06 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
28 29 9.424659 CGTAAATTTACGTTCAGTAAGTTTTGT 57.575 29.630 32.62 0.00 46.31 2.83
33 34 4.675510 ACGTTCAGTAAGTTTTGTCTCGA 58.324 39.130 0.00 0.00 0.00 4.04
34 35 4.501921 ACGTTCAGTAAGTTTTGTCTCGAC 59.498 41.667 0.00 0.00 0.00 4.20
36 37 3.047796 TCAGTAAGTTTTGTCTCGACGC 58.952 45.455 0.00 0.00 0.00 5.19
38 39 3.244345 CAGTAAGTTTTGTCTCGACGCAA 59.756 43.478 0.00 0.00 0.00 4.85
41 42 3.750639 AGTTTTGTCTCGACGCAAAAA 57.249 38.095 18.23 5.56 43.37 1.94
42 43 3.680789 AGTTTTGTCTCGACGCAAAAAG 58.319 40.909 18.23 0.00 43.37 2.27
43 44 2.748461 TTTGTCTCGACGCAAAAAGG 57.252 45.000 7.05 0.00 32.46 3.11
45 46 0.105224 TGTCTCGACGCAAAAAGGGA 59.895 50.000 0.00 0.00 0.00 4.20
46 47 0.511653 GTCTCGACGCAAAAAGGGAC 59.488 55.000 0.00 0.00 0.00 4.46
47 48 0.601841 TCTCGACGCAAAAAGGGACC 60.602 55.000 0.00 0.00 0.00 4.46
49 50 2.248835 CGACGCAAAAAGGGACCGT 61.249 57.895 0.00 0.00 34.52 4.83
53 54 1.202675 ACGCAAAAAGGGACCGTAAGA 60.203 47.619 0.00 0.00 43.02 2.10
54 55 1.874872 CGCAAAAAGGGACCGTAAGAA 59.125 47.619 0.00 0.00 43.02 2.52
56 57 3.243134 CGCAAAAAGGGACCGTAAGAAAA 60.243 43.478 0.00 0.00 43.02 2.29
57 58 4.557895 CGCAAAAAGGGACCGTAAGAAAAT 60.558 41.667 0.00 0.00 43.02 1.82
58 59 5.335035 CGCAAAAAGGGACCGTAAGAAAATA 60.335 40.000 0.00 0.00 43.02 1.40
60 61 7.414319 CGCAAAAAGGGACCGTAAGAAAATATA 60.414 37.037 0.00 0.00 43.02 0.86
67 68 7.763071 AGGGACCGTAAGAAAATATATAATCGC 59.237 37.037 0.00 0.00 43.02 4.58
68 69 7.010830 GGGACCGTAAGAAAATATATAATCGCC 59.989 40.741 0.00 0.00 43.02 5.54
69 70 7.253883 GGACCGTAAGAAAATATATAATCGCCG 60.254 40.741 0.00 0.00 43.02 6.46
70 71 7.092716 ACCGTAAGAAAATATATAATCGCCGT 58.907 34.615 0.00 0.00 43.02 5.68
72 73 9.075519 CCGTAAGAAAATATATAATCGCCGTAA 57.924 33.333 0.00 0.00 43.02 3.18
154 155 7.473027 AAACTGCAAATTTTCTTGTCTCATG 57.527 32.000 0.00 0.00 0.00 3.07
158 159 5.302568 TGCAAATTTTCTTGTCTCATGACCT 59.697 36.000 0.00 0.00 42.28 3.85
160 161 7.177216 TGCAAATTTTCTTGTCTCATGACCTAT 59.823 33.333 0.00 0.00 42.28 2.57
268 269 5.468540 TGATCATAAGATTACCTCGGGTG 57.531 43.478 5.90 0.00 33.92 4.61
269 270 5.144832 TGATCATAAGATTACCTCGGGTGA 58.855 41.667 5.90 0.00 33.92 4.02
272 273 6.302535 TCATAAGATTACCTCGGGTGAAAA 57.697 37.500 5.90 0.00 36.19 2.29
274 275 7.343357 TCATAAGATTACCTCGGGTGAAAAAT 58.657 34.615 5.90 0.00 36.19 1.82
276 277 9.116067 CATAAGATTACCTCGGGTGAAAAATAA 57.884 33.333 5.90 0.00 36.19 1.40
277 278 6.997239 AGATTACCTCGGGTGAAAAATAAC 57.003 37.500 5.90 0.00 36.19 1.89
279 280 7.173032 AGATTACCTCGGGTGAAAAATAACTT 58.827 34.615 5.90 0.00 36.19 2.66
281 282 9.117183 GATTACCTCGGGTGAAAAATAACTTAT 57.883 33.333 5.90 0.00 36.19 1.73
282 283 8.866970 TTACCTCGGGTGAAAAATAACTTATT 57.133 30.769 5.90 0.00 36.19 1.40
283 284 7.387119 ACCTCGGGTGAAAAATAACTTATTC 57.613 36.000 0.00 0.00 32.98 1.75
285 286 7.120726 ACCTCGGGTGAAAAATAACTTATTCTG 59.879 37.037 0.00 0.00 32.98 3.02
289 290 6.811665 GGGTGAAAAATAACTTATTCTGCACC 59.188 38.462 13.76 13.76 39.23 5.01
293 294 6.530019 AAAATAACTTATTCTGCACCCTGG 57.470 37.500 0.00 0.00 0.00 4.45
294 295 2.514458 AACTTATTCTGCACCCTGGG 57.486 50.000 12.28 12.28 0.00 4.45
295 296 1.372501 ACTTATTCTGCACCCTGGGT 58.627 50.000 14.05 14.05 35.62 4.51
434 442 5.326200 TCGTTTAGGCTGTTTTCCAAAAA 57.674 34.783 0.00 0.00 0.00 1.94
1428 1489 3.839778 TGGTTAGTTTTGGAAGGGGAAG 58.160 45.455 0.00 0.00 0.00 3.46
1431 1492 0.487325 AGTTTTGGAAGGGGAAGGGG 59.513 55.000 0.00 0.00 0.00 4.79
1599 2823 6.349944 GGTGAAAATTCTAGAGGACACGAGTA 60.350 42.308 0.00 0.00 0.00 2.59
1721 2946 7.670605 AAGTGCATAGGTAGGTCTGTTTATA 57.329 36.000 0.00 0.00 0.00 0.98
2070 3309 2.432628 CTCCACACTTCGCCGGAC 60.433 66.667 5.05 0.00 0.00 4.79
2983 8073 4.207165 GCTGGGGCAATGAATTCTACTTA 58.793 43.478 7.05 0.00 38.54 2.24
3211 8305 3.323979 TCTGGTCTGGTCTGAAAGTTACC 59.676 47.826 0.00 0.00 31.76 2.85
3444 8565 8.063770 AGGATAATCATGAATTCTCTTGGGTTT 58.936 33.333 7.05 0.00 0.00 3.27
4008 9248 2.240493 AGGTCCAGAACTGACAAACG 57.760 50.000 3.19 0.00 0.00 3.60
4497 9845 5.738619 TGTGATTGTGTAGTATCCACACT 57.261 39.130 7.10 0.00 45.26 3.55
4705 10061 6.892658 ATGTATTTGGTGTGCTTTCAACTA 57.107 33.333 0.00 0.00 0.00 2.24
4896 10551 4.586421 CACTCAACCCTATGATAGAGCTGA 59.414 45.833 0.00 0.00 0.00 4.26
4905 10560 5.813157 CCTATGATAGAGCTGATTCTGCATG 59.187 44.000 16.56 0.00 30.93 4.06
4906 10561 4.950205 TGATAGAGCTGATTCTGCATGA 57.050 40.909 16.56 2.77 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 9.712359 GAGACAAAACTTACTGAACGTAAATTT 57.288 29.630 0.00 0.00 38.68 1.82
9 10 6.197096 GTCGAGACAAAACTTACTGAACGTAA 59.803 38.462 0.00 0.00 36.67 3.18
10 11 5.682862 GTCGAGACAAAACTTACTGAACGTA 59.317 40.000 0.00 0.00 0.00 3.57
12 13 4.373717 CGTCGAGACAAAACTTACTGAACG 60.374 45.833 4.02 0.00 0.00 3.95
14 15 3.488310 GCGTCGAGACAAAACTTACTGAA 59.512 43.478 0.00 0.00 0.00 3.02
15 16 3.047796 GCGTCGAGACAAAACTTACTGA 58.952 45.455 0.00 0.00 0.00 3.41
16 17 2.792674 TGCGTCGAGACAAAACTTACTG 59.207 45.455 0.00 0.00 0.00 2.74
17 18 3.088194 TGCGTCGAGACAAAACTTACT 57.912 42.857 0.00 0.00 0.00 2.24
19 20 4.861389 TTTTGCGTCGAGACAAAACTTA 57.139 36.364 17.25 1.27 39.99 2.24
21 22 3.486875 CCTTTTTGCGTCGAGACAAAACT 60.487 43.478 19.70 0.00 43.40 2.66
24 25 1.332375 CCCTTTTTGCGTCGAGACAAA 59.668 47.619 8.34 8.34 34.11 2.83
25 26 0.941542 CCCTTTTTGCGTCGAGACAA 59.058 50.000 0.00 0.00 0.00 3.18
28 29 0.601841 GGTCCCTTTTTGCGTCGAGA 60.602 55.000 0.00 0.00 0.00 4.04
33 34 1.202675 TCTTACGGTCCCTTTTTGCGT 60.203 47.619 0.00 0.00 0.00 5.24
34 35 1.515081 TCTTACGGTCCCTTTTTGCG 58.485 50.000 0.00 0.00 0.00 4.85
41 42 7.763071 GCGATTATATATTTTCTTACGGTCCCT 59.237 37.037 0.00 0.00 0.00 4.20
42 43 7.010830 GGCGATTATATATTTTCTTACGGTCCC 59.989 40.741 0.00 0.00 0.00 4.46
43 44 7.253883 CGGCGATTATATATTTTCTTACGGTCC 60.254 40.741 0.00 0.00 0.00 4.46
45 46 7.092716 ACGGCGATTATATATTTTCTTACGGT 58.907 34.615 16.62 0.00 0.00 4.83
46 47 7.515957 ACGGCGATTATATATTTTCTTACGG 57.484 36.000 16.62 0.00 0.00 4.02
128 129 9.199982 CATGAGACAAGAAAATTTGCAGTTTAT 57.800 29.630 0.00 0.00 0.00 1.40
129 130 8.412456 TCATGAGACAAGAAAATTTGCAGTTTA 58.588 29.630 0.00 0.00 0.00 2.01
130 131 7.223387 GTCATGAGACAAGAAAATTTGCAGTTT 59.777 33.333 0.00 0.00 44.34 2.66
132 133 6.211515 GTCATGAGACAAGAAAATTTGCAGT 58.788 36.000 0.00 0.00 44.34 4.40
133 134 5.632347 GGTCATGAGACAAGAAAATTTGCAG 59.368 40.000 0.00 0.00 46.80 4.41
134 135 5.302568 AGGTCATGAGACAAGAAAATTTGCA 59.697 36.000 0.00 0.00 46.80 4.08
135 136 5.776744 AGGTCATGAGACAAGAAAATTTGC 58.223 37.500 0.00 0.00 46.80 3.68
239 240 9.875691 CCGAGGTAATCTTATGATCATTTCATA 57.124 33.333 14.65 0.00 43.43 2.15
240 241 7.826252 CCCGAGGTAATCTTATGATCATTTCAT 59.174 37.037 14.65 0.41 46.86 2.57
241 242 7.161404 CCCGAGGTAATCTTATGATCATTTCA 58.839 38.462 14.65 0.00 39.12 2.69
242 243 7.118390 CACCCGAGGTAATCTTATGATCATTTC 59.882 40.741 14.65 0.00 32.11 2.17
244 245 6.270000 TCACCCGAGGTAATCTTATGATCATT 59.730 38.462 14.65 0.00 32.11 2.57
247 248 5.723672 TCACCCGAGGTAATCTTATGATC 57.276 43.478 0.00 0.00 32.11 2.92
252 253 8.323567 AGTTATTTTTCACCCGAGGTAATCTTA 58.676 33.333 0.00 0.00 32.11 2.10
253 254 7.173032 AGTTATTTTTCACCCGAGGTAATCTT 58.827 34.615 0.00 0.00 32.11 2.40
255 256 6.997239 AGTTATTTTTCACCCGAGGTAATC 57.003 37.500 0.00 0.00 32.11 1.75
259 260 7.120726 CAGAATAAGTTATTTTTCACCCGAGGT 59.879 37.037 9.47 0.00 35.62 3.85
261 262 6.967199 GCAGAATAAGTTATTTTTCACCCGAG 59.033 38.462 9.47 0.00 31.12 4.63
263 264 6.526674 GTGCAGAATAAGTTATTTTTCACCCG 59.473 38.462 14.15 0.00 31.12 5.28
264 265 6.811665 GGTGCAGAATAAGTTATTTTTCACCC 59.188 38.462 24.96 14.17 36.26 4.61
265 266 6.811665 GGGTGCAGAATAAGTTATTTTTCACC 59.188 38.462 26.26 26.26 38.56 4.02
268 269 7.035612 CCAGGGTGCAGAATAAGTTATTTTTC 58.964 38.462 9.47 0.00 0.00 2.29
269 270 6.070824 CCCAGGGTGCAGAATAAGTTATTTTT 60.071 38.462 9.47 0.00 0.00 1.94
272 273 4.017499 ACCCAGGGTGCAGAATAAGTTATT 60.017 41.667 11.70 7.87 32.98 1.40
274 275 2.916934 ACCCAGGGTGCAGAATAAGTTA 59.083 45.455 11.70 0.00 32.98 2.24
276 277 1.372501 ACCCAGGGTGCAGAATAAGT 58.627 50.000 11.70 0.00 32.98 2.24
289 290 4.130118 GTGCTTACTATTCATCACCCAGG 58.870 47.826 0.00 0.00 0.00 4.45
293 294 4.054780 TCCGTGCTTACTATTCATCACC 57.945 45.455 0.00 0.00 0.00 4.02
294 295 5.753438 TCAATCCGTGCTTACTATTCATCAC 59.247 40.000 0.00 0.00 0.00 3.06
295 296 5.912892 TCAATCCGTGCTTACTATTCATCA 58.087 37.500 0.00 0.00 0.00 3.07
298 299 5.339008 ACTCAATCCGTGCTTACTATTCA 57.661 39.130 0.00 0.00 0.00 2.57
299 300 5.234543 GGAACTCAATCCGTGCTTACTATTC 59.765 44.000 0.00 0.00 0.00 1.75
302 303 4.119442 GGAACTCAATCCGTGCTTACTA 57.881 45.455 0.00 0.00 0.00 1.82
434 442 4.410883 TGAATATTGGATACGACAGGGGTT 59.589 41.667 0.00 0.00 42.51 4.11
517 526 3.607661 GGGATCGGTCGCCTCCTC 61.608 72.222 0.26 0.00 0.00 3.71
682 743 0.456142 CGAGCGAATTGAGACGGACA 60.456 55.000 0.00 0.00 0.00 4.02
1428 1489 0.394565 AATCTCTGCGCATACTCCCC 59.605 55.000 12.24 0.00 0.00 4.81
1431 1492 4.093408 TGTTTTCAATCTCTGCGCATACTC 59.907 41.667 12.24 0.00 0.00 2.59
1599 2823 2.880443 ACATGCATTTGAAGGGACACT 58.120 42.857 0.00 0.00 0.00 3.55
1721 2946 4.922206 TCAGTTGCTAAATTGTCCCATCT 58.078 39.130 0.00 0.00 0.00 2.90
1775 3007 6.018016 ACAAAAAGTTCAATGCATTAACAGCC 60.018 34.615 22.46 7.92 0.00 4.85
2609 3903 9.981114 CTTTATTCCTTTGGTTAAGTTTGACAT 57.019 29.630 0.00 0.00 31.56 3.06
2673 3967 1.547372 GGCATCAGCAAAATGTCCAGT 59.453 47.619 0.00 0.00 44.61 4.00
2958 8048 1.669999 GAATTCATTGCCCCAGCGCT 61.670 55.000 2.64 2.64 44.31 5.92
2983 8073 0.534877 TGCAACTGACTCCAACGCAT 60.535 50.000 0.00 0.00 0.00 4.73
3211 8305 5.128827 TCACTGAACCTAGCTACCCAAATAG 59.871 44.000 0.00 0.00 0.00 1.73
3444 8565 4.406456 ACAACTGCCAAATATCAGGACAA 58.594 39.130 0.00 0.00 34.76 3.18
4008 9248 4.142271 CCTCTCTGACTCTCCAACATACAC 60.142 50.000 0.00 0.00 0.00 2.90
4497 9845 6.038356 GCAACGGACTTAAGCATTAGTAGTA 58.962 40.000 1.29 0.00 0.00 1.82
4896 10551 6.551975 TGGGATAAAATGATGTCATGCAGAAT 59.448 34.615 0.00 0.00 36.56 2.40
4905 10560 6.073440 GCATTGCAATGGGATAAAATGATGTC 60.073 38.462 34.23 12.77 36.90 3.06
4906 10561 5.761234 GCATTGCAATGGGATAAAATGATGT 59.239 36.000 34.23 0.00 36.90 3.06


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

AutoCloner maintained by Alex Coulton.