Multiple sequence alignment - TraesCS3B01G534300

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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 TraesCS3B01G534300 chr3B 100.000 3911 0 0 1 3911 773897548 773901458 0.000000e+00 7223.0
1 TraesCS3B01G534300 chr3B 88.492 1790 146 18 549 2308 773761623 773759864 0.000000e+00 2109.0
2 TraesCS3B01G534300 chr3B 88.913 1389 123 14 2541 3911 773759554 773758179 0.000000e+00 1683.0
3 TraesCS3B01G534300 chr3B 95.612 547 24 0 2 548 773762277 773761731 0.000000e+00 878.0
4 TraesCS3B01G534300 chr3B 93.067 375 26 0 1 375 773745911 773745537 2.050000e-152 549.0
5 TraesCS3B01G534300 chr3B 90.830 229 18 2 3685 3911 773743745 773743518 1.770000e-78 303.0
6 TraesCS3B01G534300 chr3B 94.872 39 2 0 585 623 617265980 617266018 1.170000e-05 62.1
7 TraesCS3B01G534300 chr3A 93.507 1802 104 8 758 2550 714643357 714645154 0.000000e+00 2667.0
8 TraesCS3B01G534300 chr3A 92.696 1287 78 9 2635 3911 714645540 714646820 0.000000e+00 1842.0
9 TraesCS3B01G534300 chr3A 92.105 1292 85 11 2630 3911 714590057 714588773 0.000000e+00 1805.0
10 TraesCS3B01G534300 chr3A 91.040 1317 115 2 995 2308 714591755 714590439 0.000000e+00 1775.0
11 TraesCS3B01G534300 chr3A 94.370 373 21 0 1 373 714603423 714603051 1.220000e-159 573.0
12 TraesCS3B01G534300 chr3A 94.118 374 22 0 2 375 714625485 714625858 1.580000e-158 569.0
13 TraesCS3B01G534300 chr3A 89.135 451 49 0 1858 2308 714627775 714628225 2.640000e-156 562.0
14 TraesCS3B01G534300 chr3A 93.316 374 25 0 2 375 714594056 714593683 1.590000e-153 553.0
15 TraesCS3B01G534300 chr3A 91.379 290 22 3 675 962 714592046 714591758 1.020000e-105 394.0
16 TraesCS3B01G534300 chr3A 92.279 272 19 1 675 946 714627505 714627774 6.130000e-103 385.0
17 TraesCS3B01G534300 chr3A 93.878 196 12 0 3716 3911 714602902 714602707 2.950000e-76 296.0
18 TraesCS3B01G534300 chr3A 89.674 184 16 2 2326 2508 714628209 714628390 8.450000e-57 231.0
19 TraesCS3B01G534300 chr3A 90.341 176 15 2 2335 2508 714590446 714590271 3.040000e-56 230.0
20 TraesCS3B01G534300 chr3A 94.340 106 3 2 658 763 714643154 714643256 4.040000e-35 159.0
21 TraesCS3B01G534300 chr3A 92.982 57 4 0 402 458 714602967 714602911 2.500000e-12 84.2
22 TraesCS3B01G534300 chr3D 91.000 1800 97 29 546 2308 579584763 579586534 0.000000e+00 2366.0
23 TraesCS3B01G534300 chr3D 93.085 1287 73 8 2635 3911 579587107 579588387 0.000000e+00 1869.0
24 TraesCS3B01G534300 chr3D 91.875 1317 104 2 995 2308 579396258 579394942 0.000000e+00 1836.0
25 TraesCS3B01G534300 chr3D 90.101 1384 111 11 2541 3911 579422325 579420955 0.000000e+00 1773.0
26 TraesCS3B01G534300 chr3D 90.646 1315 121 2 995 2308 579423948 579422635 0.000000e+00 1746.0
27 TraesCS3B01G534300 chr3D 89.023 1075 85 14 2541 3608 579394662 579393614 0.000000e+00 1301.0
28 TraesCS3B01G534300 chr3D 95.281 551 26 0 1 551 579584121 579584671 0.000000e+00 874.0
29 TraesCS3B01G534300 chr3D 95.467 375 17 0 1 375 579425416 579425042 2.010000e-167 599.0
30 TraesCS3B01G534300 chr3D 93.506 308 19 1 3604 3911 579383798 579383492 1.280000e-124 457.0
31 TraesCS3B01G534300 chr3D 84.375 288 20 7 675 962 579396523 579396261 3.880000e-65 259.0
32 TraesCS3B01G534300 chr3D 91.803 183 15 0 2326 2508 579422651 579422469 5.010000e-64 255.0
33 TraesCS3B01G534300 chr3D 95.395 152 7 0 2335 2486 579586527 579586678 3.900000e-60 243.0
34 TraesCS3B01G534300 chr3D 92.523 107 7 1 2326 2432 579394958 579394853 6.770000e-33 152.0
35 TraesCS3B01G534300 chr3D 100.000 31 0 0 2521 2551 579586698 579586728 1.520000e-04 58.4
36 TraesCS3B01G534300 chr1D 91.358 81 7 0 544 624 394864461 394864541 1.150000e-20 111.0
37 TraesCS3B01G534300 chr1D 95.000 40 2 0 585 624 110779051 110779090 3.260000e-06 63.9
38 TraesCS3B01G534300 chr7B 90.741 54 5 0 564 617 368148165 368148218 5.420000e-09 73.1
39 TraesCS3B01G534300 chr6A 86.957 69 4 1 549 617 610899097 610899034 5.420000e-09 73.1
40 TraesCS3B01G534300 chr1A 88.000 50 5 1 585 633 116708230 116708279 1.520000e-04 58.4


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 TraesCS3B01G534300 chr3B 773897548 773901458 3910 False 7223.000000 7223 100.000000 1 3911 1 chr3B.!!$F2 3910
1 TraesCS3B01G534300 chr3B 773758179 773762277 4098 True 1556.666667 2109 91.005667 2 3911 3 chr3B.!!$R2 3909
2 TraesCS3B01G534300 chr3B 773743518 773745911 2393 True 426.000000 549 91.948500 1 3911 2 chr3B.!!$R1 3910
3 TraesCS3B01G534300 chr3A 714643154 714646820 3666 False 1556.000000 2667 93.514333 658 3911 3 chr3A.!!$F2 3253
4 TraesCS3B01G534300 chr3A 714588773 714594056 5283 True 951.400000 1805 91.636200 2 3911 5 chr3A.!!$R1 3909
5 TraesCS3B01G534300 chr3A 714625485 714628390 2905 False 436.750000 569 91.301500 2 2508 4 chr3A.!!$F1 2506
6 TraesCS3B01G534300 chr3A 714602707 714603423 716 True 317.733333 573 93.743333 1 3911 3 chr3A.!!$R2 3910
7 TraesCS3B01G534300 chr3D 579420955 579425416 4461 True 1093.250000 1773 92.004250 1 3911 4 chr3D.!!$R3 3910
8 TraesCS3B01G534300 chr3D 579584121 579588387 4266 False 1082.080000 2366 94.952200 1 3911 5 chr3D.!!$F1 3910
9 TraesCS3B01G534300 chr3D 579393614 579396523 2909 True 887.000000 1836 89.449000 675 3608 4 chr3D.!!$R2 2933

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
51 52 0.321996 AGTTTCTCCGCTTCCTGGTC 59.678 55.0 0.00 0.0 0.00 4.02 F
1489 3399 0.184451 CCTTCCTGGCATGCCTATGT 59.816 55.0 35.53 0.0 36.65 2.29 F
1513 3423 0.535102 GACCCACAAGACACACCCAG 60.535 60.0 0.00 0.0 0.00 4.45 F
2076 3989 0.674581 CAGCGATGAAGGCACCAGAA 60.675 55.0 0.00 0.0 0.00 3.02 F
2697 5036 0.251165 TTCAGGGAAAGGGCGAAAGG 60.251 55.0 0.00 0.0 0.00 3.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1605 3515 0.036732 GCACTGACCCATTCCAGACA 59.963 55.000 0.00 0.00 34.65 3.41 R
2462 4378 0.396139 CTGCATGTAATGGTGGGGCT 60.396 55.000 0.00 0.00 46.86 5.19 R
2465 4381 1.184431 TTGCTGCATGTAATGGTGGG 58.816 50.000 1.84 0.00 46.86 4.61 R
2904 5248 1.412343 GCGCAAATCCCCCATTAACAT 59.588 47.619 0.30 0.00 0.00 2.71 R
3806 6178 5.247337 TGCATATTCCGGAGACATATAACCA 59.753 40.000 3.34 1.71 0.00 3.67 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
51 52 0.321996 AGTTTCTCCGCTTCCTGGTC 59.678 55.000 0.00 0.00 0.00 4.02
65 66 1.434622 CTGGTCGATGATGGCACTGC 61.435 60.000 0.00 0.00 0.00 4.40
66 67 1.153289 GGTCGATGATGGCACTGCT 60.153 57.895 0.00 0.00 0.00 4.24
172 173 3.880047 TGAAAATGTCGGAGGTCGTAT 57.120 42.857 0.00 0.00 40.32 3.06
236 237 2.102252 ACCGTGGTGCAATTCAAATTGT 59.898 40.909 14.97 0.00 45.77 2.71
239 240 3.555139 CGTGGTGCAATTCAAATTGTTGT 59.445 39.130 14.97 0.00 45.77 3.32
261 262 3.436577 AGAGACGTGGTTCTAGAGGAA 57.563 47.619 0.00 0.00 0.00 3.36
353 354 1.321474 CCTTCTGCTTGAGGTTTGCA 58.679 50.000 0.00 0.00 35.30 4.08
388 452 3.609853 TGCTCTGTGTTTCTTTCTGTGT 58.390 40.909 0.00 0.00 0.00 3.72
551 650 4.166531 TGGGTGAAGTAACCAAGGTTTAGT 59.833 41.667 10.13 0.00 42.47 2.24
552 651 4.758674 GGGTGAAGTAACCAAGGTTTAGTC 59.241 45.833 10.13 5.80 42.47 2.59
553 652 5.370679 GGTGAAGTAACCAAGGTTTAGTCA 58.629 41.667 10.13 8.16 40.22 3.41
568 775 4.704833 TCAGCCCTGGAGTTGCGC 62.705 66.667 0.00 0.00 0.00 6.09
580 787 2.297597 GGAGTTGCGCCTCATAGACTAT 59.702 50.000 14.42 0.00 32.91 2.12
624 831 2.014857 CCTTCGACTCGTAGTCCATGA 58.985 52.381 0.00 0.46 42.12 3.07
644 851 3.263425 TGAAAGTAATGAGTGGGTCCCTC 59.737 47.826 10.00 5.53 0.00 4.30
645 852 1.486211 AGTAATGAGTGGGTCCCTCG 58.514 55.000 10.00 0.00 0.00 4.63
653 860 0.395312 GTGGGTCCCTCGTTCTGAAA 59.605 55.000 10.00 0.00 0.00 2.69
654 861 1.003233 GTGGGTCCCTCGTTCTGAAAT 59.997 52.381 10.00 0.00 0.00 2.17
903 2811 7.159322 TCAACTGCAAGGTTAGTTTTTGTAA 57.841 32.000 0.00 0.00 39.30 2.41
1070 2980 1.528129 CCCTTCAGTTCAGTGCTTCC 58.472 55.000 0.00 0.00 0.00 3.46
1220 3130 3.370978 GGCATATGGTTCAACGATATCCG 59.629 47.826 4.56 0.00 45.44 4.18
1230 3140 1.591594 CGATATCCGGTTGCGCACT 60.592 57.895 11.12 0.00 33.91 4.40
1355 3265 3.091545 ACCACATACTTTGGATGGCAAG 58.908 45.455 0.00 0.00 37.58 4.01
1415 3325 6.303054 TCAACAATGGAAATCTTGTAGTCCA 58.697 36.000 0.00 0.00 44.07 4.02
1428 3338 2.159099 TGTAGTCCAATCATCAGACGGC 60.159 50.000 0.00 0.00 35.65 5.68
1450 3360 2.646930 CCATGTTATGGCAGAGCTTCA 58.353 47.619 0.00 0.00 44.70 3.02
1489 3399 0.184451 CCTTCCTGGCATGCCTATGT 59.816 55.000 35.53 0.00 36.65 2.29
1513 3423 0.535102 GACCCACAAGACACACCCAG 60.535 60.000 0.00 0.00 0.00 4.45
1557 3467 0.955919 GCCCTGAAGACCCGTCAAAG 60.956 60.000 0.00 0.00 0.00 2.77
1586 3496 0.698238 TCTGGTGGGAATGACCTTGG 59.302 55.000 0.00 0.00 38.98 3.61
1605 3515 1.351350 GGCACTCCCCTACAGTTCTTT 59.649 52.381 0.00 0.00 0.00 2.52
1844 3754 1.067295 AGCTTGACAGATTGGACCCA 58.933 50.000 0.00 0.00 0.00 4.51
1851 3764 0.819582 CAGATTGGACCCACATTGCC 59.180 55.000 0.00 0.00 0.00 4.52
1922 3835 0.747852 TACTGCGACAACACACAGGA 59.252 50.000 0.00 0.00 34.40 3.86
2006 3919 3.401182 GCAATTTTTCTCATGGTTGCCA 58.599 40.909 0.00 0.00 36.78 4.92
2049 3962 1.982958 GGTGGGGAGGACAGTTTCTTA 59.017 52.381 0.00 0.00 0.00 2.10
2061 3974 1.880027 AGTTTCTTAACCTTGCCAGCG 59.120 47.619 0.00 0.00 34.71 5.18
2076 3989 0.674581 CAGCGATGAAGGCACCAGAA 60.675 55.000 0.00 0.00 0.00 3.02
2087 4000 5.127845 TGAAGGCACCAGAAAAATTTGTACA 59.872 36.000 0.00 0.00 0.00 2.90
2305 4218 3.840666 TGCCTTCTCAAGTATGTTCCTCT 59.159 43.478 0.00 0.00 0.00 3.69
2308 4221 5.707764 GCCTTCTCAAGTATGTTCCTCTTTT 59.292 40.000 0.00 0.00 0.00 2.27
2309 4222 6.128145 GCCTTCTCAAGTATGTTCCTCTTTTC 60.128 42.308 0.00 0.00 0.00 2.29
2312 4225 8.980481 TTCTCAAGTATGTTCCTCTTTTCTTT 57.020 30.769 0.00 0.00 0.00 2.52
2313 4226 8.608844 TCTCAAGTATGTTCCTCTTTTCTTTC 57.391 34.615 0.00 0.00 0.00 2.62
2434 4349 2.943033 ACAACTTGCTGCTTTAACTCGT 59.057 40.909 0.00 0.00 0.00 4.18
2462 4378 6.449635 AAATTGTGAGTTGCTGACACTTTA 57.550 33.333 3.25 0.00 31.53 1.85
2465 4381 2.224314 GTGAGTTGCTGACACTTTAGCC 59.776 50.000 0.00 0.00 39.15 3.93
2472 4388 1.004745 CTGACACTTTAGCCCCACCAT 59.995 52.381 0.00 0.00 0.00 3.55
2477 4393 3.011257 ACACTTTAGCCCCACCATTACAT 59.989 43.478 0.00 0.00 0.00 2.29
2517 4508 6.013293 AGAGGGTATTAGTTCTATTCCCATGC 60.013 42.308 0.00 0.00 35.62 4.06
2569 4622 1.236616 TTGAGCCCAAGTGCACATCG 61.237 55.000 21.04 6.40 31.92 3.84
2587 4640 4.400251 ACATCGAAAACATTCCTGATGCAT 59.600 37.500 0.00 0.00 39.47 3.96
2592 4645 7.374272 TCGAAAACATTCCTGATGCATTTAAA 58.626 30.769 0.00 0.00 39.47 1.52
2593 4646 8.034215 TCGAAAACATTCCTGATGCATTTAAAT 58.966 29.630 0.00 0.00 39.47 1.40
2594 4647 9.299963 CGAAAACATTCCTGATGCATTTAAATA 57.700 29.630 0.00 0.00 39.47 1.40
2638 4977 8.813643 ATACTCAGACAACACTGTTAAAGTAC 57.186 34.615 0.00 0.00 36.83 2.73
2697 5036 0.251165 TTCAGGGAAAGGGCGAAAGG 60.251 55.000 0.00 0.00 0.00 3.11
2736 5075 8.122472 AGTTATACCAGCAATTTTAGCAAGTT 57.878 30.769 0.00 0.00 0.00 2.66
2774 5113 2.816777 TGGCATGCCTTGTATGGTTA 57.183 45.000 35.53 10.21 36.94 2.85
2824 5168 3.691049 TTTGAAGCAGTTTGGAAGACG 57.309 42.857 0.00 0.00 0.00 4.18
2832 5176 3.429085 CAGTTTGGAAGACGCATATTGC 58.571 45.455 0.00 0.00 40.69 3.56
2888 5232 7.750229 TCTCTTAAGCAAACATGACAAGAAT 57.250 32.000 0.00 0.00 0.00 2.40
3030 5378 8.772250 TCTCTATGTCCAATTTGTTAGGAGAAT 58.228 33.333 0.00 0.00 30.78 2.40
3102 5452 8.416329 GTCCCTAATTGCACTGAAATATGAAAT 58.584 33.333 0.00 0.00 0.00 2.17
3138 5488 3.951306 TGCTGTGATTCAAAACTGAACG 58.049 40.909 0.00 0.00 0.00 3.95
3155 5505 7.925703 ACTGAACGATACTATTTTGTATCCG 57.074 36.000 8.49 6.89 43.36 4.18
3354 5707 8.342634 GGCGATGAAAAGCTACTTATTTATGAA 58.657 33.333 0.00 0.00 0.00 2.57
3401 5758 5.998363 ACACCTTCCTTTTCAGTATGTTCTC 59.002 40.000 0.00 0.00 37.40 2.87
3411 5768 9.338291 CTTTTCAGTATGTTCTCATCACAAATG 57.662 33.333 0.00 0.00 37.40 2.32
3415 5772 9.234827 TCAGTATGTTCTCATCACAAATGAATT 57.765 29.630 0.00 0.00 36.27 2.17
3725 6095 8.619546 GTCGGAACATAGTAAGTACTATCTTGT 58.380 37.037 7.84 3.46 45.16 3.16
3806 6178 8.380867 TCTTGCTGATGATATGATTTATCCAGT 58.619 33.333 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 0.098200 CACAAGCAGTGCCATCATCG 59.902 55.000 12.58 0.00 42.15 3.84
236 237 4.458295 CCTCTAGAACCACGTCTCTAACAA 59.542 45.833 0.00 0.00 0.00 2.83
239 240 4.564782 TCCTCTAGAACCACGTCTCTAA 57.435 45.455 0.00 0.00 0.00 2.10
353 354 4.411540 ACACAGAGCATAAGATCCTCCAAT 59.588 41.667 0.00 0.00 0.00 3.16
388 452 3.880490 ACGATGTTTGGCTCAACAGTAAA 59.120 39.130 8.47 0.00 0.00 2.01
459 557 3.788227 AGTTGCAACTGACCCTAATGA 57.212 42.857 30.66 0.00 37.98 2.57
522 621 1.493022 TGGTTACTTCACCCAAGTGCT 59.507 47.619 0.00 0.00 45.60 4.40
540 639 1.614317 CCAGGGCTGACTAAACCTTGG 60.614 57.143 0.00 0.00 43.38 3.61
551 650 4.704833 GCGCAACTCCAGGGCTGA 62.705 66.667 0.30 0.00 41.20 4.26
624 831 2.236395 CGAGGGACCCACTCATTACTTT 59.764 50.000 14.60 0.00 34.66 2.66
644 851 6.771188 ACTTTCTCTGTACATTTCAGAACG 57.229 37.500 0.00 3.02 40.68 3.95
645 852 8.660373 CCATACTTTCTCTGTACATTTCAGAAC 58.340 37.037 0.00 0.00 40.68 3.01
653 860 7.616150 AGACTACACCATACTTTCTCTGTACAT 59.384 37.037 0.00 0.00 0.00 2.29
654 861 6.946583 AGACTACACCATACTTTCTCTGTACA 59.053 38.462 0.00 0.00 0.00 2.90
872 2780 3.942130 AACCTTGCAGTTGAAATAGGC 57.058 42.857 0.00 0.00 0.00 3.93
903 2811 9.225436 GAAGACAGAGGAAAATTTAGAGTGAAT 57.775 33.333 0.00 0.00 0.00 2.57
993 2903 5.749462 AGAAAAGGCAGATGCATACTTACT 58.251 37.500 0.00 3.59 44.36 2.24
999 2909 3.054139 AGTGGAGAAAAGGCAGATGCATA 60.054 43.478 0.00 0.00 44.36 3.14
1084 2994 2.985847 GCCAGGGACAAGCACACC 60.986 66.667 0.00 0.00 0.00 4.16
1220 3130 2.661866 AGACGACAGTGCGCAACC 60.662 61.111 14.00 0.00 33.86 3.77
1230 3140 1.525077 GTTGGCAACCCAGACGACA 60.525 57.895 19.57 0.00 43.37 4.35
1250 3160 2.671351 GCATCGGTGATCGGATTATCGT 60.671 50.000 14.02 1.08 39.77 3.73
1355 3265 0.387239 GTTGCCGCCAGTGATTGTTC 60.387 55.000 0.00 0.00 0.00 3.18
1415 3325 1.146930 ATGGCGCCGTCTGATGATT 59.853 52.632 23.90 0.00 0.00 2.57
1450 3360 1.033202 ACGGTGTCGCTTGGGTTTTT 61.033 50.000 0.00 0.00 40.63 1.94
1489 3399 1.331399 TGTGTCTTGTGGGTCGTCCA 61.331 55.000 0.04 0.00 44.79 4.02
1513 3423 0.873054 CAAGAGATGATCCGCCATGC 59.127 55.000 0.00 0.00 0.00 4.06
1557 3467 2.352805 CCACCAGAGAACCTGCCC 59.647 66.667 0.00 0.00 41.57 5.36
1586 3496 2.224548 ACAAAGAACTGTAGGGGAGTGC 60.225 50.000 0.00 0.00 0.00 4.40
1605 3515 0.036732 GCACTGACCCATTCCAGACA 59.963 55.000 0.00 0.00 34.65 3.41
1922 3835 1.134946 GGCGCTTGCATGTAGGAATTT 59.865 47.619 7.64 0.00 41.71 1.82
1939 3852 0.740737 GGGTCAAATCCATCAAGGCG 59.259 55.000 0.00 0.00 37.29 5.52
2006 3919 0.321122 CTGCAGTTCCTCCTTTCGCT 60.321 55.000 5.25 0.00 0.00 4.93
2034 3947 3.502595 GCAAGGTTAAGAAACTGTCCTCC 59.497 47.826 0.00 0.00 35.81 4.30
2049 3962 0.962356 CCTTCATCGCTGGCAAGGTT 60.962 55.000 0.00 0.00 32.17 3.50
2061 3974 5.299949 ACAAATTTTTCTGGTGCCTTCATC 58.700 37.500 0.00 0.00 0.00 2.92
2070 3983 5.163457 CCACAGGTGTACAAATTTTTCTGGT 60.163 40.000 0.00 0.00 0.00 4.00
2076 3989 5.923733 TGTTCCACAGGTGTACAAATTTT 57.076 34.783 0.00 0.00 0.00 1.82
2087 4000 4.098914 TCATAGCTTTTGTTCCACAGGT 57.901 40.909 0.00 0.00 0.00 4.00
2289 4202 8.614469 AGAAAGAAAAGAGGAACATACTTGAG 57.386 34.615 0.00 0.00 0.00 3.02
2329 4242 6.096282 ACAAGAGCTATAGAAAGAGGAGTGTC 59.904 42.308 3.21 0.00 0.00 3.67
2346 4259 5.470098 ACGTTGATGAACATAAACAAGAGCT 59.530 36.000 13.38 0.00 32.74 4.09
2434 4349 8.165239 AGTGTCAGCAACTCACAATTTATTAA 57.835 30.769 0.00 0.00 34.94 1.40
2462 4378 0.396139 CTGCATGTAATGGTGGGGCT 60.396 55.000 0.00 0.00 46.86 5.19
2465 4381 1.184431 TTGCTGCATGTAATGGTGGG 58.816 50.000 1.84 0.00 46.86 4.61
2472 4388 5.355071 CCTCTAGTGATTTTGCTGCATGTAA 59.645 40.000 1.84 0.00 0.00 2.41
2477 4393 2.040278 ACCCTCTAGTGATTTTGCTGCA 59.960 45.455 0.00 0.00 0.00 4.41
2508 4424 4.870069 TGGCAACAGCATGGGAAT 57.130 50.000 0.00 0.00 46.17 3.01
2587 4640 9.579768 TCACGCGTAACCTATAGTTTATTTAAA 57.420 29.630 13.44 0.00 40.05 1.52
2592 4645 8.103948 AGTATCACGCGTAACCTATAGTTTAT 57.896 34.615 13.44 0.00 40.05 1.40
2593 4646 7.226523 TGAGTATCACGCGTAACCTATAGTTTA 59.773 37.037 13.44 0.00 42.56 2.01
2594 4647 6.038603 TGAGTATCACGCGTAACCTATAGTTT 59.961 38.462 13.44 0.00 42.56 2.66
2595 4648 5.528690 TGAGTATCACGCGTAACCTATAGTT 59.471 40.000 13.44 0.00 42.56 2.24
2596 4649 5.059161 TGAGTATCACGCGTAACCTATAGT 58.941 41.667 13.44 7.99 42.56 2.12
2597 4650 5.407691 TCTGAGTATCACGCGTAACCTATAG 59.592 44.000 13.44 6.62 42.56 1.31
2598 4651 5.178252 GTCTGAGTATCACGCGTAACCTATA 59.822 44.000 13.44 2.36 42.56 1.31
2599 4652 4.024218 GTCTGAGTATCACGCGTAACCTAT 60.024 45.833 13.44 3.40 42.56 2.57
2608 4668 2.663602 CAGTGTTGTCTGAGTATCACGC 59.336 50.000 0.00 0.00 42.56 5.34
2697 5036 7.041644 TGCTGGTATAACTTTTATTACGATGCC 60.042 37.037 0.00 0.00 0.00 4.40
2736 5075 5.252547 TGCCAATAGAAGTATCAGCAACAA 58.747 37.500 0.00 0.00 0.00 2.83
2774 5113 7.448748 AATCAATCTACCTTTAAACTTGCGT 57.551 32.000 0.00 0.00 0.00 5.24
2871 5215 4.828939 TCTTCCATTCTTGTCATGTTTGCT 59.171 37.500 0.00 0.00 0.00 3.91
2888 5232 6.434028 CCATTAACATTCTCTTTGGTCTTCCA 59.566 38.462 0.00 0.00 42.66 3.53
2904 5248 1.412343 GCGCAAATCCCCCATTAACAT 59.588 47.619 0.30 0.00 0.00 2.71
2907 5251 1.786937 ATGCGCAAATCCCCCATTAA 58.213 45.000 17.11 0.00 0.00 1.40
3030 5378 2.950309 TGTAAACTTTACCAAAGCCGCA 59.050 40.909 8.85 0.00 42.27 5.69
3107 5457 6.662865 TTTGAATCACAGCAAAAAGGGATA 57.337 33.333 0.00 0.00 31.64 2.59
3108 5458 5.549742 TTTGAATCACAGCAAAAAGGGAT 57.450 34.783 0.00 0.00 31.64 3.85
3155 5505 8.068380 GCATTATACCAACGAGGAGAAAATTAC 58.932 37.037 5.70 0.00 41.22 1.89
3354 5707 4.721776 TCCAGGCTTCTGTTTGGTAGATAT 59.278 41.667 0.00 0.00 36.81 1.63
3401 5758 7.546316 TGATTGTTGGCTAATTCATTTGTGATG 59.454 33.333 0.00 0.00 0.00 3.07
3411 5768 6.311200 GGTGTCAAATGATTGTTGGCTAATTC 59.689 38.462 0.00 0.00 37.79 2.17
3415 5772 4.022416 GTGGTGTCAAATGATTGTTGGCTA 60.022 41.667 0.00 0.00 37.79 3.93
3580 5944 5.630121 TGTTGCTTCTTTTCAGATCCCTAA 58.370 37.500 0.00 0.00 0.00 2.69
3725 6095 7.880713 TGTATGCCTTTAATGAACAACTAGACA 59.119 33.333 0.00 0.00 0.00 3.41
3806 6178 5.247337 TGCATATTCCGGAGACATATAACCA 59.753 40.000 3.34 1.71 0.00 3.67


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

AutoCloner maintained by Alex Coulton.