Multiple sequence alignment - TraesCS2B01G480900

Loading Multiple Alignment...

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 TraesCS2B01G480900 chr2B 100.000 2962 0 0 1 2962 679072601 679069640 0.000000e+00 5470.0
1 TraesCS2B01G480900 chr2B 88.521 1028 76 16 1006 2013 679696567 679697572 0.000000e+00 1206.0
2 TraesCS2B01G480900 chr2B 81.652 1041 131 37 1006 2014 679031287 679030275 0.000000e+00 809.0
3 TraesCS2B01G480900 chr2B 91.581 582 41 5 1440 2013 679743784 679744365 0.000000e+00 797.0
4 TraesCS2B01G480900 chr2B 87.419 461 29 11 570 1010 679031773 679031322 1.230000e-138 503.0
5 TraesCS2B01G480900 chr2B 84.787 447 43 8 1006 1449 679730096 679730520 2.730000e-115 425.0
6 TraesCS2B01G480900 chr2B 90.244 287 23 2 268 551 679032041 679031757 1.300000e-98 370.0
7 TraesCS2B01G480900 chr2B 81.793 357 48 10 1 342 679032495 679032141 1.740000e-72 283.0
8 TraesCS2B01G480900 chr2B 82.034 295 38 11 259 552 679694196 679694476 1.370000e-58 237.0
9 TraesCS2B01G480900 chr2B 95.763 118 2 2 2848 2962 321288909 321289026 1.400000e-43 187.0
10 TraesCS2B01G480900 chr2D 94.842 1299 52 9 1401 2690 566302461 566301169 0.000000e+00 2013.0
11 TraesCS2B01G480900 chr2D 90.347 1181 44 27 262 1417 566303653 566302518 0.000000e+00 1485.0
12 TraesCS2B01G480900 chr2D 87.694 1032 79 19 1006 2012 566656621 566655613 0.000000e+00 1158.0
13 TraesCS2B01G480900 chr2D 79.220 1256 194 42 787 2015 566481027 566479812 0.000000e+00 811.0
14 TraesCS2B01G480900 chr2D 80.795 1057 139 38 1006 2013 566262819 566261778 0.000000e+00 769.0
15 TraesCS2B01G480900 chr2D 78.497 1251 209 40 787 2015 566454706 566453494 0.000000e+00 765.0
16 TraesCS2B01G480900 chr2D 85.110 638 77 9 1385 2013 558376153 558376781 1.160000e-178 636.0
17 TraesCS2B01G480900 chr2D 87.446 462 28 13 570 1010 566263306 566262854 3.410000e-139 505.0
18 TraesCS2B01G480900 chr2D 87.744 359 26 6 1 342 566304126 566303769 1.280000e-108 403.0
19 TraesCS2B01G480900 chr2D 84.691 405 47 9 2026 2417 606603327 606602925 9.950000e-105 390.0
20 TraesCS2B01G480900 chr2D 83.726 424 45 14 2017 2419 580134638 580135058 2.150000e-101 379.0
21 TraesCS2B01G480900 chr2D 89.547 287 24 3 268 551 566263573 566263290 2.810000e-95 359.0
22 TraesCS2B01G480900 chr2D 76.667 570 92 30 801 1352 558374935 558375481 8.090000e-71 278.0
23 TraesCS2B01G480900 chr2D 85.425 247 32 4 1 245 566264012 566263768 1.360000e-63 254.0
24 TraesCS2B01G480900 chr2D 92.500 120 8 1 2734 2852 566300930 566300811 1.410000e-38 171.0
25 TraesCS2B01G480900 chr2D 95.161 62 2 1 281 342 566263758 566263698 2.430000e-16 97.1
26 TraesCS2B01G480900 chr2A 90.656 1006 70 11 976 1972 706511002 706510012 0.000000e+00 1315.0
27 TraesCS2B01G480900 chr2A 86.758 1027 85 23 1006 2013 706530463 706529469 0.000000e+00 1096.0
28 TraesCS2B01G480900 chr2A 81.485 1010 128 31 1006 1976 706489335 706488346 0.000000e+00 774.0
29 TraesCS2B01G480900 chr2A 87.500 456 33 10 570 1010 706489816 706489370 3.410000e-139 505.0
30 TraesCS2B01G480900 chr2A 83.002 453 49 19 2422 2856 706509504 706509062 4.630000e-103 385.0
31 TraesCS2B01G480900 chr2A 85.079 382 26 11 262 636 706511646 706511289 7.800000e-96 361.0
32 TraesCS2B01G480900 chr2A 87.708 301 24 8 261 551 706490097 706489800 3.660000e-89 339.0
33 TraesCS2B01G480900 chr2A 84.078 358 40 7 1 342 706490567 706490211 2.200000e-86 329.0
34 TraesCS2B01G480900 chr2A 86.254 291 21 10 672 944 706511289 706511000 6.210000e-77 298.0
35 TraesCS2B01G480900 chr2A 81.389 360 47 6 2 342 706512206 706511848 2.910000e-70 276.0
36 TraesCS2B01G480900 chr2A 98.198 111 2 0 2852 2962 529636990 529637100 8.380000e-46 195.0
37 TraesCS2B01G480900 chr2A 92.857 84 4 2 259 342 706511732 706511651 1.440000e-23 121.0
38 TraesCS2B01G480900 chr5B 85.504 407 40 12 2026 2417 573141308 573140906 9.880000e-110 407.0
39 TraesCS2B01G480900 chr5B 84.878 410 42 9 2026 2419 488859300 488858895 2.140000e-106 396.0
40 TraesCS2B01G480900 chr5B 97.479 119 2 1 2844 2962 322875359 322875476 5.010000e-48 202.0
41 TraesCS2B01G480900 chr5B 98.230 113 2 0 2850 2962 622321953 622322065 6.480000e-47 198.0
42 TraesCS2B01G480900 chr5B 97.368 114 2 1 2850 2962 347989864 347989977 3.010000e-45 193.0
43 TraesCS2B01G480900 chr1A 85.037 401 39 14 2021 2408 296938253 296938645 3.580000e-104 388.0
44 TraesCS2B01G480900 chr5D 82.938 422 53 12 2015 2419 32691518 32691937 2.170000e-96 363.0
45 TraesCS2B01G480900 chr6D 84.309 376 48 10 2050 2416 20802509 20802136 1.010000e-94 357.0
46 TraesCS2B01G480900 chr7A 82.512 406 61 7 2026 2422 725157856 725157452 6.080000e-92 348.0
47 TraesCS2B01G480900 chrUn 99.115 113 1 0 2850 2962 441948414 441948526 1.390000e-48 204.0
48 TraesCS2B01G480900 chrUn 97.345 113 2 1 2850 2962 38547391 38547502 1.080000e-44 191.0
49 TraesCS2B01G480900 chrUn 97.345 113 2 1 2850 2962 367518403 367518514 1.080000e-44 191.0
50 TraesCS2B01G480900 chr4B 98.230 113 2 0 2850 2962 581908411 581908523 6.480000e-47 198.0


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 TraesCS2B01G480900 chr2B 679069640 679072601 2961 True 5470.000000 5470 100.00000 1 2962 1 chr2B.!!$R1 2961
1 TraesCS2B01G480900 chr2B 679743784 679744365 581 False 797.000000 797 91.58100 1440 2013 1 chr2B.!!$F3 573
2 TraesCS2B01G480900 chr2B 679694196 679697572 3376 False 721.500000 1206 85.27750 259 2013 2 chr2B.!!$F4 1754
3 TraesCS2B01G480900 chr2B 679030275 679032495 2220 True 491.250000 809 85.27700 1 2014 4 chr2B.!!$R2 2013
4 TraesCS2B01G480900 chr2D 566655613 566656621 1008 True 1158.000000 1158 87.69400 1006 2012 1 chr2D.!!$R3 1006
5 TraesCS2B01G480900 chr2D 566300811 566304126 3315 True 1018.000000 2013 91.35825 1 2852 4 chr2D.!!$R6 2851
6 TraesCS2B01G480900 chr2D 566479812 566481027 1215 True 811.000000 811 79.22000 787 2015 1 chr2D.!!$R2 1228
7 TraesCS2B01G480900 chr2D 566453494 566454706 1212 True 765.000000 765 78.49700 787 2015 1 chr2D.!!$R1 1228
8 TraesCS2B01G480900 chr2D 558374935 558376781 1846 False 457.000000 636 80.88850 801 2013 2 chr2D.!!$F2 1212
9 TraesCS2B01G480900 chr2D 566261778 566264012 2234 True 396.820000 769 87.67480 1 2013 5 chr2D.!!$R5 2012
10 TraesCS2B01G480900 chr2A 706529469 706530463 994 True 1096.000000 1096 86.75800 1006 2013 1 chr2A.!!$R1 1007
11 TraesCS2B01G480900 chr2A 706488346 706490567 2221 True 486.750000 774 85.19275 1 1976 4 chr2A.!!$R2 1975
12 TraesCS2B01G480900 chr2A 706509062 706512206 3144 True 459.333333 1315 86.53950 2 2856 6 chr2A.!!$R3 2854

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
948 2948 0.387929 TCTCGGCAGAACGACAAACT 59.612 50.0 0.0 0.0 38.06 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2920 6506 0.252197 GGCCGACAGGGTCATAGTTT 59.748 55.0 0.0 0.0 41.38 2.66 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
34 35 3.504863 CATGAGCAAAGGAATTTCCACG 58.495 45.455 17.57 6.34 39.61 4.94
35 36 1.269448 TGAGCAAAGGAATTTCCACGC 59.731 47.619 17.57 15.02 39.61 5.34
48 49 4.988598 CACGCCCGTGCCAAGACT 62.989 66.667 7.95 0.00 39.39 3.24
188 191 0.757188 AGCATGTCTACGCCTAGCCT 60.757 55.000 0.00 0.00 0.00 4.58
245 249 9.042008 GGCTATCAATTCTTTAAATGTCGACTA 57.958 33.333 17.92 3.52 0.00 2.59
436 761 8.163408 TGAACTAAAATATGGATGGGTGGATAG 58.837 37.037 0.00 0.00 0.00 2.08
559 886 7.925043 AATCCAGCATGATATTTTGCAAAAA 57.075 28.000 27.10 16.71 41.35 1.94
618 948 2.228822 CCAAGGGTTCTTCCACGATTTG 59.771 50.000 0.00 0.00 38.11 2.32
627 957 3.125146 TCTTCCACGATTTGAATTCAGCG 59.875 43.478 19.29 19.29 0.00 5.18
723 1313 2.093783 CGAGTGGATTAAAACGTCAGCC 59.906 50.000 0.00 0.00 0.00 4.85
732 2663 0.684805 AAACGTCAGCCACCCCAAAA 60.685 50.000 0.00 0.00 0.00 2.44
733 2664 0.684805 AACGTCAGCCACCCCAAAAA 60.685 50.000 0.00 0.00 0.00 1.94
764 2696 8.703743 TCCAGCAGTTAATTGGCATTAATAATT 58.296 29.630 0.00 0.00 37.23 1.40
774 2706 8.907222 ATTGGCATTAATAATTTCCCAATGAC 57.093 30.769 15.59 0.00 39.40 3.06
775 2707 6.511416 TGGCATTAATAATTTCCCAATGACG 58.489 36.000 0.00 0.00 37.42 4.35
873 2843 1.336148 CGGCGGCTTCACGGTATATAA 60.336 52.381 7.61 0.00 0.00 0.98
948 2948 0.387929 TCTCGGCAGAACGACAAACT 59.612 50.000 0.00 0.00 38.06 2.66
949 2949 1.610038 TCTCGGCAGAACGACAAACTA 59.390 47.619 0.00 0.00 38.06 2.24
950 2950 2.034939 TCTCGGCAGAACGACAAACTAA 59.965 45.455 0.00 0.00 38.06 2.24
1425 4279 1.110442 TTGTTTCTGTTGCACTGGGG 58.890 50.000 0.00 0.00 0.00 4.96
1791 4682 4.776322 CTGCGAACCCGGCCATGA 62.776 66.667 2.24 0.00 36.06 3.07
2031 5405 1.352083 TCAGGGGAAGACTTGTGAGG 58.648 55.000 0.00 0.00 0.00 3.86
2058 5432 8.194104 TCTCACTTTAGCTAAGATCAATGAGAC 58.806 37.037 19.00 0.00 37.30 3.36
2166 5541 7.272244 TCAGCTCATAATTCGACTTCCATTAA 58.728 34.615 0.00 0.00 0.00 1.40
2282 5660 5.586339 TCAAAATGCACATCGAGTTTTGAA 58.414 33.333 15.96 4.50 42.44 2.69
2323 5701 6.544928 TGTAGACATACCTCACATGAATGT 57.455 37.500 0.00 0.00 42.84 2.71
2428 5806 6.231211 TCATACAAGTCTCCCTCAAGTTTTC 58.769 40.000 0.00 0.00 0.00 2.29
2509 5887 4.176752 GGCCTCATGTCCCGGGAC 62.177 72.222 41.45 41.45 44.77 4.46
2538 5916 1.074471 GGCCTGGGTCCTAGATCCA 60.074 63.158 3.28 0.00 40.99 3.41
2555 5933 3.322466 ACCACTGGGAAGGAGCCG 61.322 66.667 0.00 0.00 38.05 5.52
2556 5934 4.101448 CCACTGGGAAGGAGCCGG 62.101 72.222 0.00 0.00 35.59 6.13
2557 5935 4.785453 CACTGGGAAGGAGCCGGC 62.785 72.222 21.89 21.89 0.00 6.13
2601 5989 1.964552 CCATGGCAGAGATCCAAGTC 58.035 55.000 0.00 0.00 37.13 3.01
2625 6013 2.673200 GGCCATGAGCTCCCTGTCA 61.673 63.158 12.15 0.00 43.05 3.58
2630 6018 0.622136 ATGAGCTCCCTGTCATTGCA 59.378 50.000 12.15 0.00 28.56 4.08
2687 6077 0.322098 CCACCTTCATAACACCGGCA 60.322 55.000 0.00 0.00 0.00 5.69
2741 6326 1.674057 CTCCCTCGTGCTCCTTTGT 59.326 57.895 0.00 0.00 0.00 2.83
2747 6332 1.893808 CGTGCTCCTTTGTGGCTGT 60.894 57.895 0.00 0.00 35.26 4.40
2753 6338 2.851195 CTCCTTTGTGGCTGTAAGTGT 58.149 47.619 0.00 0.00 35.30 3.55
2755 6340 1.531149 CCTTTGTGGCTGTAAGTGTCG 59.469 52.381 0.00 0.00 35.30 4.35
2792 6378 1.697432 TCGACACACCTGGGAATCTTT 59.303 47.619 0.00 0.00 0.00 2.52
2872 6458 9.883142 TTTGATTTTGTTTCAAAACTATCACCT 57.117 25.926 9.33 0.00 39.46 4.00
2873 6459 9.883142 TTGATTTTGTTTCAAAACTATCACCTT 57.117 25.926 9.33 0.00 39.59 3.50
2874 6460 9.883142 TGATTTTGTTTCAAAACTATCACCTTT 57.117 25.926 9.33 0.00 39.59 3.11
2899 6485 9.921637 TTTTTGAAGCAAATTCGGAAACTATAT 57.078 25.926 0.00 0.00 41.14 0.86
2900 6486 9.567848 TTTTGAAGCAAATTCGGAAACTATATC 57.432 29.630 0.00 0.00 41.14 1.63
2901 6487 7.857734 TGAAGCAAATTCGGAAACTATATCA 57.142 32.000 0.00 0.00 41.14 2.15
2902 6488 7.693952 TGAAGCAAATTCGGAAACTATATCAC 58.306 34.615 0.00 0.00 41.14 3.06
2903 6489 7.335673 TGAAGCAAATTCGGAAACTATATCACA 59.664 33.333 0.00 0.00 41.14 3.58
2904 6490 7.251704 AGCAAATTCGGAAACTATATCACAG 57.748 36.000 0.00 0.00 0.00 3.66
2905 6491 7.047891 AGCAAATTCGGAAACTATATCACAGA 58.952 34.615 0.00 0.00 0.00 3.41
2906 6492 7.552687 AGCAAATTCGGAAACTATATCACAGAA 59.447 33.333 0.00 0.00 0.00 3.02
2907 6493 8.345565 GCAAATTCGGAAACTATATCACAGAAT 58.654 33.333 0.00 0.00 0.00 2.40
2908 6494 9.655769 CAAATTCGGAAACTATATCACAGAATG 57.344 33.333 0.00 0.00 46.00 2.67
2909 6495 9.613428 AAATTCGGAAACTATATCACAGAATGA 57.387 29.630 0.00 0.00 43.13 2.57
2910 6496 9.613428 AATTCGGAAACTATATCACAGAATGAA 57.387 29.630 0.00 0.00 41.93 2.57
2911 6497 9.613428 ATTCGGAAACTATATCACAGAATGAAA 57.387 29.630 0.00 0.00 41.93 2.69
2912 6498 9.443323 TTCGGAAACTATATCACAGAATGAAAA 57.557 29.630 0.00 0.00 41.93 2.29
2913 6499 9.443323 TCGGAAACTATATCACAGAATGAAAAA 57.557 29.630 0.00 0.00 41.93 1.94
2934 6520 5.806654 AAAATGCAAAACTATGACCCTGT 57.193 34.783 0.00 0.00 0.00 4.00
2935 6521 5.391312 AAATGCAAAACTATGACCCTGTC 57.609 39.130 0.00 0.00 0.00 3.51
2936 6522 2.422597 TGCAAAACTATGACCCTGTCG 58.577 47.619 0.00 0.00 34.95 4.35
2937 6523 1.737793 GCAAAACTATGACCCTGTCGG 59.262 52.381 0.00 0.00 34.95 4.79
2938 6524 1.737793 CAAAACTATGACCCTGTCGGC 59.262 52.381 0.00 0.00 34.95 5.54
2939 6525 0.252197 AAACTATGACCCTGTCGGCC 59.748 55.000 0.00 0.00 34.95 6.13
2940 6526 0.617820 AACTATGACCCTGTCGGCCT 60.618 55.000 0.00 0.00 34.95 5.19
2941 6527 1.043673 ACTATGACCCTGTCGGCCTC 61.044 60.000 0.00 0.00 34.95 4.70
2942 6528 2.076622 CTATGACCCTGTCGGCCTCG 62.077 65.000 0.00 0.00 34.95 4.63
2955 6541 2.671619 CCTCGCTTGGGCCGAAAA 60.672 61.111 0.54 0.00 34.44 2.29
2956 6542 2.690778 CCTCGCTTGGGCCGAAAAG 61.691 63.158 0.54 4.39 34.44 2.27
2957 6543 2.671619 TCGCTTGGGCCGAAAAGG 60.672 61.111 0.54 0.00 44.97 3.11
2958 6544 3.747976 CGCTTGGGCCGAAAAGGG 61.748 66.667 0.54 7.78 41.48 3.95
2959 6545 2.282887 GCTTGGGCCGAAAAGGGA 60.283 61.111 0.54 0.00 41.48 4.20
2960 6546 2.636412 GCTTGGGCCGAAAAGGGAC 61.636 63.158 0.54 0.00 41.48 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 2.419159 GGAAATTCCTTTGCTCATGGGC 60.419 50.000 11.75 11.75 32.53 5.36
11 12 2.833338 TGGAAATTCCTTTGCTCATGGG 59.167 45.455 13.78 0.00 37.46 4.00
34 35 1.819632 CCATAGTCTTGGCACGGGC 60.820 63.158 0.00 0.00 40.13 6.13
35 36 4.540153 CCATAGTCTTGGCACGGG 57.460 61.111 0.00 0.00 0.00 5.28
108 110 7.750458 GTGATGCAAAATATCGAGAGTTTTTGA 59.250 33.333 18.29 7.71 38.02 2.69
172 175 1.742768 GCAGGCTAGGCGTAGACAT 59.257 57.895 20.91 5.74 39.87 3.06
188 191 0.321346 TCATGCTTCGAACTCAGGCA 59.679 50.000 10.90 10.90 37.32 4.75
223 226 7.012421 GCCCTAGTCGACATTTAAAGAATTGAT 59.988 37.037 19.50 0.00 0.00 2.57
392 713 0.388778 CACAATTGAGCATTGCCGCA 60.389 50.000 13.59 1.08 45.74 5.69
465 792 8.565896 TGTTCATATAGAAAACAGATGCAACT 57.434 30.769 0.00 0.00 38.13 3.16
618 948 4.542662 AGTACATGAATGCGCTGAATTC 57.457 40.909 9.73 10.53 35.10 2.17
682 1271 0.676736 AATCGAAGAGCCGGGATCTC 59.323 55.000 16.28 8.31 43.63 2.75
684 1273 0.664767 CGAATCGAAGAGCCGGGATC 60.665 60.000 3.56 3.56 43.63 3.36
732 2663 5.619220 TGCCAATTAACTGCTGGAATTTTT 58.381 33.333 0.00 0.00 31.38 1.94
733 2664 5.226194 TGCCAATTAACTGCTGGAATTTT 57.774 34.783 0.00 0.00 31.38 1.82
734 2665 4.888326 TGCCAATTAACTGCTGGAATTT 57.112 36.364 0.00 0.00 31.38 1.82
735 2666 5.425196 AATGCCAATTAACTGCTGGAATT 57.575 34.783 0.00 0.00 34.17 2.17
736 2667 6.543430 TTAATGCCAATTAACTGCTGGAAT 57.457 33.333 0.00 0.00 34.10 3.01
948 2948 6.601613 TCTGCTTCCTCTTTTCTGTGTTTTTA 59.398 34.615 0.00 0.00 0.00 1.52
949 2949 5.418840 TCTGCTTCCTCTTTTCTGTGTTTTT 59.581 36.000 0.00 0.00 0.00 1.94
950 2950 4.949856 TCTGCTTCCTCTTTTCTGTGTTTT 59.050 37.500 0.00 0.00 0.00 2.43
1351 3494 3.379372 AGAACATGAATTTGATCTGCCGG 59.621 43.478 0.00 0.00 28.73 6.13
1425 4279 8.988934 TGTATGATGAACAAAGAACTCTGTAAC 58.011 33.333 0.00 0.00 0.00 2.50
1551 4432 1.774217 TGGGAGGCAGGTTGAGGTT 60.774 57.895 0.00 0.00 0.00 3.50
2003 5377 6.096282 CACAAGTCTTCCCCTGAAAAACTTTA 59.904 38.462 0.00 0.00 35.76 1.85
2031 5405 8.194104 TCTCATTGATCTTAGCTAAAGTGAGAC 58.806 37.037 19.34 9.17 37.39 3.36
2184 5561 7.896811 AGTACTTTGACACTATTCACATGAGA 58.103 34.615 0.00 0.00 0.00 3.27
2267 5645 7.684062 AAAAATCAGTTCAAAACTCGATGTG 57.316 32.000 0.00 0.00 40.46 3.21
2400 5778 5.362430 ACTTGAGGGAGACTTGTATGAGATC 59.638 44.000 0.00 0.00 0.00 2.75
2428 5806 1.269448 CCCAACCAATTGACGACTTGG 59.731 52.381 7.12 8.94 46.03 3.61
2538 5916 3.322466 CGGCTCCTTCCCAGTGGT 61.322 66.667 8.74 0.00 0.00 4.16
2625 6013 7.071069 TGATTCATCAGAGTAGGTATGCAAT 57.929 36.000 0.00 0.00 32.11 3.56
2630 6018 9.334947 CAACAAATGATTCATCAGAGTAGGTAT 57.665 33.333 0.00 0.00 40.64 2.73
2697 6087 2.761213 GGGGCAGCCTGATTTGGG 60.761 66.667 12.43 0.00 0.00 4.12
2719 6114 3.151022 GGAGCACGAGGGAGGAGG 61.151 72.222 0.00 0.00 0.00 4.30
2724 6119 1.371183 CACAAAGGAGCACGAGGGA 59.629 57.895 0.00 0.00 0.00 4.20
2725 6120 1.672356 CCACAAAGGAGCACGAGGG 60.672 63.158 0.00 0.00 41.22 4.30
2726 6121 2.328099 GCCACAAAGGAGCACGAGG 61.328 63.158 0.00 0.00 41.22 4.63
2727 6122 1.302033 AGCCACAAAGGAGCACGAG 60.302 57.895 0.00 0.00 41.22 4.18
2728 6123 1.597854 CAGCCACAAAGGAGCACGA 60.598 57.895 0.00 0.00 41.22 4.35
2741 6326 1.134640 ACAACACGACACTTACAGCCA 60.135 47.619 0.00 0.00 0.00 4.75
2747 6332 7.599630 AGTTTCTTAAACAACACGACACTTA 57.400 32.000 5.42 0.00 43.79 2.24
2753 6338 5.348179 TGTCGAAGTTTCTTAAACAACACGA 59.652 36.000 5.42 11.18 43.79 4.35
2755 6340 6.247791 GTGTGTCGAAGTTTCTTAAACAACAC 59.752 38.462 15.66 15.66 43.79 3.32
2873 6459 9.921637 ATATAGTTTCCGAATTTGCTTCAAAAA 57.078 25.926 0.00 0.00 36.90 1.94
2874 6460 9.567848 GATATAGTTTCCGAATTTGCTTCAAAA 57.432 29.630 0.00 0.00 36.90 2.44
2875 6461 8.735315 TGATATAGTTTCCGAATTTGCTTCAAA 58.265 29.630 0.00 0.00 37.75 2.69
2876 6462 8.181573 GTGATATAGTTTCCGAATTTGCTTCAA 58.818 33.333 0.00 0.00 33.10 2.69
2877 6463 7.335673 TGTGATATAGTTTCCGAATTTGCTTCA 59.664 33.333 0.00 0.00 33.10 3.02
2878 6464 7.693952 TGTGATATAGTTTCCGAATTTGCTTC 58.306 34.615 0.00 0.00 0.00 3.86
2879 6465 7.552687 TCTGTGATATAGTTTCCGAATTTGCTT 59.447 33.333 0.00 0.00 0.00 3.91
2880 6466 7.047891 TCTGTGATATAGTTTCCGAATTTGCT 58.952 34.615 0.00 0.00 0.00 3.91
2881 6467 7.246674 TCTGTGATATAGTTTCCGAATTTGC 57.753 36.000 0.00 0.00 0.00 3.68
2882 6468 9.655769 CATTCTGTGATATAGTTTCCGAATTTG 57.344 33.333 0.00 0.00 0.00 2.32
2883 6469 9.613428 TCATTCTGTGATATAGTTTCCGAATTT 57.387 29.630 0.00 0.00 0.00 1.82
2884 6470 9.613428 TTCATTCTGTGATATAGTTTCCGAATT 57.387 29.630 0.00 0.00 36.54 2.17
2885 6471 9.613428 TTTCATTCTGTGATATAGTTTCCGAAT 57.387 29.630 0.00 0.00 36.54 3.34
2886 6472 9.443323 TTTTCATTCTGTGATATAGTTTCCGAA 57.557 29.630 0.00 0.00 36.54 4.30
2887 6473 9.443323 TTTTTCATTCTGTGATATAGTTTCCGA 57.557 29.630 0.00 0.00 36.54 4.55
2911 6497 6.173427 ACAGGGTCATAGTTTTGCATTTTT 57.827 33.333 0.00 0.00 0.00 1.94
2912 6498 5.564651 CGACAGGGTCATAGTTTTGCATTTT 60.565 40.000 0.00 0.00 32.09 1.82
2913 6499 4.082787 CGACAGGGTCATAGTTTTGCATTT 60.083 41.667 0.00 0.00 32.09 2.32
2914 6500 3.440173 CGACAGGGTCATAGTTTTGCATT 59.560 43.478 0.00 0.00 32.09 3.56
2915 6501 3.009723 CGACAGGGTCATAGTTTTGCAT 58.990 45.455 0.00 0.00 32.09 3.96
2916 6502 2.422597 CGACAGGGTCATAGTTTTGCA 58.577 47.619 0.00 0.00 32.09 4.08
2917 6503 1.737793 CCGACAGGGTCATAGTTTTGC 59.262 52.381 0.00 0.00 32.09 3.68
2918 6504 1.737793 GCCGACAGGGTCATAGTTTTG 59.262 52.381 0.00 0.00 38.44 2.44
2919 6505 1.339727 GGCCGACAGGGTCATAGTTTT 60.340 52.381 0.00 0.00 41.38 2.43
2920 6506 0.252197 GGCCGACAGGGTCATAGTTT 59.748 55.000 0.00 0.00 41.38 2.66
2921 6507 0.617820 AGGCCGACAGGGTCATAGTT 60.618 55.000 0.00 0.00 45.54 2.24
2922 6508 1.001760 AGGCCGACAGGGTCATAGT 59.998 57.895 0.00 0.00 45.54 2.12
2923 6509 1.742768 GAGGCCGACAGGGTCATAG 59.257 63.158 0.00 0.00 45.54 2.23
2924 6510 2.125326 CGAGGCCGACAGGGTCATA 61.125 63.158 0.00 0.00 45.54 2.15
2925 6511 3.461773 CGAGGCCGACAGGGTCAT 61.462 66.667 0.00 0.00 45.54 3.06
2938 6524 2.671619 TTTTCGGCCCAAGCGAGG 60.672 61.111 0.00 0.00 41.24 4.63
2939 6525 2.690778 CCTTTTCGGCCCAAGCGAG 61.691 63.158 0.00 0.00 41.24 5.03
2940 6526 2.671619 CCTTTTCGGCCCAAGCGA 60.672 61.111 0.00 0.00 41.24 4.93
2941 6527 3.747976 CCCTTTTCGGCCCAAGCG 61.748 66.667 0.00 0.00 41.24 4.68
2942 6528 2.282887 TCCCTTTTCGGCCCAAGC 60.283 61.111 0.00 0.00 38.76 4.01
2943 6529 1.074951 AGTCCCTTTTCGGCCCAAG 59.925 57.895 0.00 0.00 0.00 3.61
2944 6530 3.257133 AGTCCCTTTTCGGCCCAA 58.743 55.556 0.00 0.00 0.00 4.12


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

AutoCloner maintained by Alex Coulton.