Multiple sequence alignment - TraesCS2B01G459500

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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 TraesCS2B01G459500 chr2B 100.000 2540 0 0 1 2540 653787418 653789957 0.000000e+00 4691.0
1 TraesCS2B01G459500 chr2B 91.381 1021 57 10 1440 2451 653772858 653773856 0.000000e+00 1369.0
2 TraesCS2B01G459500 chr2B 94.165 617 31 4 1 615 653762680 653763293 0.000000e+00 935.0
3 TraesCS2B01G459500 chr2B 83.314 851 117 11 844 1680 653796135 653796974 0.000000e+00 761.0
4 TraesCS2B01G459500 chr2B 83.131 824 99 18 897 1692 653808259 653809070 0.000000e+00 715.0
5 TraesCS2B01G459500 chr2B 84.810 237 26 6 1 233 212018927 212018697 1.970000e-56 230.0
6 TraesCS2B01G459500 chr2D 91.031 1639 90 23 850 2451 547286352 547287970 0.000000e+00 2159.0
7 TraesCS2B01G459500 chr2D 88.390 1180 74 21 844 2003 547427034 547428170 0.000000e+00 1362.0
8 TraesCS2B01G459500 chr2D 94.539 824 37 5 900 1717 547278265 547279086 0.000000e+00 1266.0
9 TraesCS2B01G459500 chr2D 82.969 1462 162 37 844 2278 547489113 547490514 0.000000e+00 1240.0
10 TraesCS2B01G459500 chr2D 81.710 1181 150 30 851 2013 547450669 547451801 0.000000e+00 924.0
11 TraesCS2B01G459500 chr2D 91.982 661 43 3 1791 2451 547279110 547279760 0.000000e+00 918.0
12 TraesCS2B01G459500 chr2D 91.475 610 39 6 1 600 547275581 547276187 0.000000e+00 826.0
13 TraesCS2B01G459500 chr2D 82.574 878 117 17 844 1692 547559343 547560213 0.000000e+00 741.0
14 TraesCS2B01G459500 chr2D 82.722 654 84 10 900 1544 547574530 547575163 2.860000e-154 555.0
15 TraesCS2B01G459500 chr2D 87.857 280 17 4 598 861 547277902 547278180 1.900000e-81 313.0
16 TraesCS2B01G459500 chr2D 96.154 156 6 0 2296 2451 547428189 547428344 3.240000e-64 255.0
17 TraesCS2B01G459500 chr2D 89.247 93 9 1 2448 2540 552079842 552079751 5.740000e-22 115.0
18 TraesCS2B01G459500 chr2D 84.946 93 10 4 608 697 547573852 547573943 9.680000e-15 91.6
19 TraesCS2B01G459500 chr2D 82.000 100 8 7 760 854 547286234 547286328 2.710000e-10 76.8
20 TraesCS2B01G459500 chr2D 93.617 47 3 0 808 854 547489048 547489094 1.260000e-08 71.3
21 TraesCS2B01G459500 chr2A 86.786 2013 147 55 1 1925 690746447 690748428 0.000000e+00 2134.0
22 TraesCS2B01G459500 chr2A 82.565 998 134 17 900 1880 690805346 690806320 0.000000e+00 843.0
23 TraesCS2B01G459500 chr2A 82.333 866 121 19 844 1692 691392135 691391285 0.000000e+00 723.0
24 TraesCS2B01G459500 chr2A 83.617 470 52 17 2005 2455 690807213 690807676 3.910000e-113 418.0
25 TraesCS2B01G459500 chr2A 93.571 280 16 2 2173 2451 690748432 690748710 1.410000e-112 416.0
26 TraesCS2B01G459500 chr2A 75.641 390 79 12 1132 1510 632390829 632391213 2.010000e-41 180.0
27 TraesCS2B01G459500 chr2A 90.426 94 8 1 844 936 690805122 690805215 3.430000e-24 122.0
28 TraesCS2B01G459500 chr5A 87.966 349 31 3 1419 1758 602413162 602413508 3.940000e-108 401.0
29 TraesCS2B01G459500 chr4B 82.804 378 46 13 231 594 184018545 184018917 1.130000e-83 320.0
30 TraesCS2B01G459500 chr1D 82.368 380 50 11 231 594 457095232 457095610 5.270000e-82 315.0
31 TraesCS2B01G459500 chr1D 90.909 88 7 1 2453 2540 460877578 460877492 1.600000e-22 117.0
32 TraesCS2B01G459500 chr7D 85.294 306 39 6 231 531 77961932 77961628 6.820000e-81 311.0
33 TraesCS2B01G459500 chr7D 84.810 237 29 6 1 233 295434484 295434251 5.460000e-57 231.0
34 TraesCS2B01G459500 chr6D 82.105 380 51 10 231 594 183841381 183841003 2.450000e-80 309.0
35 TraesCS2B01G459500 chr6D 92.045 88 6 1 2453 2540 24224312 24224226 3.430000e-24 122.0
36 TraesCS2B01G459500 chr6D 89.583 96 10 0 2445 2540 161108820 161108915 3.430000e-24 122.0
37 TraesCS2B01G459500 chr1B 82.086 374 49 11 236 594 166568748 166568378 1.140000e-78 303.0
38 TraesCS2B01G459500 chr1B 85.294 238 28 6 1 233 419065714 419065949 3.270000e-59 239.0
39 TraesCS2B01G459500 chr5B 84.790 309 36 10 230 531 339284673 339284369 1.480000e-77 300.0
40 TraesCS2B01G459500 chr6A 85.232 237 27 7 1 233 100413490 100413258 1.170000e-58 237.0
41 TraesCS2B01G459500 chr4D 84.388 237 31 5 1 233 17652479 17652713 7.070000e-56 228.0
42 TraesCS2B01G459500 chr4D 91.209 91 8 0 2450 2540 487348482 487348572 9.540000e-25 124.0
43 TraesCS2B01G459500 chr3B 84.454 238 29 8 1 233 468728822 468729056 7.070000e-56 228.0
44 TraesCS2B01G459500 chr3D 90.217 92 8 1 2449 2540 608913326 608913416 4.440000e-23 119.0
45 TraesCS2B01G459500 chr3D 90.217 92 8 1 2449 2540 608913522 608913612 4.440000e-23 119.0
46 TraesCS2B01G459500 chrUn 93.671 79 4 1 2462 2540 342087170 342087093 1.600000e-22 117.0
47 TraesCS2B01G459500 chrUn 90.909 88 7 1 2453 2540 348673653 348673739 1.600000e-22 117.0


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 TraesCS2B01G459500 chr2B 653787418 653789957 2539 False 4691.00 4691 100.00000 1 2540 1 chr2B.!!$F3 2539
1 TraesCS2B01G459500 chr2B 653772858 653773856 998 False 1369.00 1369 91.38100 1440 2451 1 chr2B.!!$F2 1011
2 TraesCS2B01G459500 chr2B 653762680 653763293 613 False 935.00 935 94.16500 1 615 1 chr2B.!!$F1 614
3 TraesCS2B01G459500 chr2B 653796135 653796974 839 False 761.00 761 83.31400 844 1680 1 chr2B.!!$F4 836
4 TraesCS2B01G459500 chr2B 653808259 653809070 811 False 715.00 715 83.13100 897 1692 1 chr2B.!!$F5 795
5 TraesCS2B01G459500 chr2D 547286234 547287970 1736 False 1117.90 2159 86.51550 760 2451 2 chr2D.!!$F4 1691
6 TraesCS2B01G459500 chr2D 547450669 547451801 1132 False 924.00 924 81.71000 851 2013 1 chr2D.!!$F1 1162
7 TraesCS2B01G459500 chr2D 547275581 547279760 4179 False 830.75 1266 91.46325 1 2451 4 chr2D.!!$F3 2450
8 TraesCS2B01G459500 chr2D 547427034 547428344 1310 False 808.50 1362 92.27200 844 2451 2 chr2D.!!$F5 1607
9 TraesCS2B01G459500 chr2D 547559343 547560213 870 False 741.00 741 82.57400 844 1692 1 chr2D.!!$F2 848
10 TraesCS2B01G459500 chr2D 547489048 547490514 1466 False 655.65 1240 88.29300 808 2278 2 chr2D.!!$F6 1470
11 TraesCS2B01G459500 chr2D 547573852 547575163 1311 False 323.30 555 83.83400 608 1544 2 chr2D.!!$F7 936
12 TraesCS2B01G459500 chr2A 690746447 690748710 2263 False 1275.00 2134 90.17850 1 2451 2 chr2A.!!$F2 2450
13 TraesCS2B01G459500 chr2A 691391285 691392135 850 True 723.00 723 82.33300 844 1692 1 chr2A.!!$R1 848
14 TraesCS2B01G459500 chr2A 690805122 690807676 2554 False 461.00 843 85.53600 844 2455 3 chr2A.!!$F3 1611

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
992 3316 1.33961 ACTGAGCTCACAGTCACAGAC 59.66 52.381 13.74 0.0 46.36 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2455 5687 0.906775 GGGGGTCTACCGAATCACAA 59.093 55.0 0.0 0.0 41.6 3.33 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
288 290 8.090831 AGAAAAAGGCAAATAAGAAATCAGGAC 58.909 33.333 0.00 0.00 0.00 3.85
318 320 6.714810 AGAAAACATCACCTACACTTGCAATA 59.285 34.615 0.00 0.00 0.00 1.90
557 570 3.408634 GGACAACCCGAGAGAAAAATCA 58.591 45.455 0.00 0.00 0.00 2.57
582 595 1.811359 GCAAAACTGAGCAGAGCAGAT 59.189 47.619 4.21 0.00 36.86 2.90
600 2330 5.129155 AGCAGATTAAGGGCAAAAATGCATA 59.871 36.000 0.00 0.00 36.33 3.14
602 2332 7.015487 AGCAGATTAAGGGCAAAAATGCATATA 59.985 33.333 0.00 0.00 36.33 0.86
692 2423 2.032965 TGCCCTTAGTTACCACTCCA 57.967 50.000 0.00 0.00 34.06 3.86
736 2603 8.947055 ATGTTCAACAGGCCAATAAATTTATC 57.053 30.769 11.08 0.00 0.00 1.75
803 2895 4.085357 AGAAGGTCAGTTGTGCAATACA 57.915 40.909 0.00 0.00 37.56 2.29
878 3007 7.383102 AGATGAACGCTTGATGTTAATTCTT 57.617 32.000 0.00 0.00 0.00 2.52
950 3274 6.811954 TGTCCTATATAAGCACGTCAATTCA 58.188 36.000 0.00 0.00 0.00 2.57
992 3316 1.339610 ACTGAGCTCACAGTCACAGAC 59.660 52.381 13.74 0.00 46.36 3.51
1026 3350 2.550277 TGTCTCCTTCCATCTGCCTA 57.450 50.000 0.00 0.00 0.00 3.93
1099 3426 1.966451 GGCACTAGCAACAACGGCT 60.966 57.895 0.00 0.00 44.61 5.52
1420 3753 4.096003 GCGGGGCCTACAAGCTGA 62.096 66.667 0.84 0.00 0.00 4.26
1547 3904 0.030369 CGGCCATACTGAGTACGGAC 59.970 60.000 9.19 4.39 0.00 4.79
1761 4147 4.837896 TCGTAGCTGAATCTGATAGTGG 57.162 45.455 0.00 0.00 0.00 4.00
1777 4166 1.349688 AGTGGTATCGCCTGAACCAAA 59.650 47.619 0.00 0.00 44.56 3.28
1778 4167 2.026262 AGTGGTATCGCCTGAACCAAAT 60.026 45.455 0.00 0.00 44.56 2.32
1789 4178 3.817647 CCTGAACCAAATATAGCAGAGGC 59.182 47.826 0.00 0.00 41.61 4.70
1820 4209 0.320374 TTTCGACTTCCCTCGCACAT 59.680 50.000 0.00 0.00 33.47 3.21
1880 4276 0.851495 GCAATCTGATCTGCTCGACG 59.149 55.000 13.78 0.00 35.62 5.12
1881 4277 1.800655 GCAATCTGATCTGCTCGACGT 60.801 52.381 13.78 0.00 35.62 4.34
1882 4278 2.541794 GCAATCTGATCTGCTCGACGTA 60.542 50.000 13.78 0.00 35.62 3.57
1883 4279 3.039405 CAATCTGATCTGCTCGACGTAC 58.961 50.000 0.00 0.00 0.00 3.67
1884 4280 1.015109 TCTGATCTGCTCGACGTACC 58.985 55.000 0.00 0.00 0.00 3.34
1885 4281 0.029567 CTGATCTGCTCGACGTACCC 59.970 60.000 0.00 0.00 0.00 3.69
1886 4282 1.009900 GATCTGCTCGACGTACCCG 60.010 63.158 0.00 0.00 40.83 5.28
1887 4283 1.434622 GATCTGCTCGACGTACCCGA 61.435 60.000 0.00 5.15 37.88 5.14
1888 4284 1.028330 ATCTGCTCGACGTACCCGAA 61.028 55.000 6.49 0.00 35.48 4.30
1929 4325 7.447545 GGTATACTGATTTCTATTTGTTCCCCC 59.552 40.741 2.25 0.00 0.00 5.40
1974 4370 7.049754 TGCATAGAAGCTCATTTTCACTGATA 58.950 34.615 0.00 0.00 34.99 2.15
2177 5374 5.461032 TGTCCAATGCGTCCTTTAAAAAT 57.539 34.783 0.00 0.00 0.00 1.82
2179 5376 7.164230 TGTCCAATGCGTCCTTTAAAAATAT 57.836 32.000 0.00 0.00 0.00 1.28
2290 5521 5.501156 GACATCAGAACCATAACCCTTCTT 58.499 41.667 0.00 0.00 0.00 2.52
2345 5577 5.971763 ACAAACAAAAAGTGGCAGTTCATA 58.028 33.333 8.24 0.00 0.00 2.15
2428 5660 7.160547 TGCATGAGACATAAACATCAATTGT 57.839 32.000 5.13 0.00 41.53 2.71
2440 5672 4.260985 ACATCAATTGTAGATCACCGCAA 58.739 39.130 5.13 0.00 36.57 4.85
2452 5684 0.512952 CACCGCAAGTGTAGTTCAGC 59.487 55.000 0.00 0.00 41.93 4.26
2453 5685 0.105964 ACCGCAAGTGTAGTTCAGCA 59.894 50.000 0.00 0.00 0.00 4.41
2454 5686 0.512952 CCGCAAGTGTAGTTCAGCAC 59.487 55.000 0.00 0.00 35.98 4.40
2455 5687 1.502231 CGCAAGTGTAGTTCAGCACT 58.498 50.000 0.00 0.00 46.61 4.40
2460 5692 3.819564 AGTGTAGTTCAGCACTTGTGA 57.180 42.857 4.79 0.00 42.61 3.58
2461 5693 4.342862 AGTGTAGTTCAGCACTTGTGAT 57.657 40.909 4.79 0.00 42.61 3.06
2462 5694 4.708177 AGTGTAGTTCAGCACTTGTGATT 58.292 39.130 4.79 0.00 42.61 2.57
2463 5695 4.752101 AGTGTAGTTCAGCACTTGTGATTC 59.248 41.667 4.79 0.00 42.61 2.52
2464 5696 3.740832 TGTAGTTCAGCACTTGTGATTCG 59.259 43.478 4.79 0.00 36.88 3.34
2465 5697 2.146342 AGTTCAGCACTTGTGATTCGG 58.854 47.619 4.79 0.00 27.32 4.30
2466 5698 1.873591 GTTCAGCACTTGTGATTCGGT 59.126 47.619 4.79 0.00 0.00 4.69
2467 5699 3.064207 GTTCAGCACTTGTGATTCGGTA 58.936 45.455 4.79 0.00 0.00 4.02
2468 5700 2.959516 TCAGCACTTGTGATTCGGTAG 58.040 47.619 4.79 0.00 0.00 3.18
2469 5701 2.560981 TCAGCACTTGTGATTCGGTAGA 59.439 45.455 4.79 0.00 0.00 2.59
2470 5702 2.668457 CAGCACTTGTGATTCGGTAGAC 59.332 50.000 4.79 0.00 0.00 2.59
2471 5703 2.000447 GCACTTGTGATTCGGTAGACC 59.000 52.381 4.79 0.00 0.00 3.85
2472 5704 2.618053 CACTTGTGATTCGGTAGACCC 58.382 52.381 0.00 0.00 0.00 4.46
2473 5705 1.553704 ACTTGTGATTCGGTAGACCCC 59.446 52.381 0.00 0.00 0.00 4.95
2474 5706 0.906775 TTGTGATTCGGTAGACCCCC 59.093 55.000 0.00 0.00 0.00 5.40
2492 5724 2.723273 CCCCCTAAACACAAGGATGAC 58.277 52.381 0.00 0.00 36.08 3.06
2493 5725 2.308866 CCCCCTAAACACAAGGATGACT 59.691 50.000 0.00 0.00 36.08 3.41
2494 5726 3.610911 CCCCTAAACACAAGGATGACTC 58.389 50.000 0.00 0.00 36.08 3.36
2495 5727 3.009033 CCCCTAAACACAAGGATGACTCA 59.991 47.826 0.00 0.00 36.08 3.41
2496 5728 4.256920 CCCTAAACACAAGGATGACTCAG 58.743 47.826 0.00 0.00 36.08 3.35
2497 5729 4.020218 CCCTAAACACAAGGATGACTCAGA 60.020 45.833 0.00 0.00 36.08 3.27
2498 5730 5.338708 CCCTAAACACAAGGATGACTCAGAT 60.339 44.000 0.00 0.00 36.08 2.90
2499 5731 6.176183 CCTAAACACAAGGATGACTCAGATT 58.824 40.000 0.00 0.00 36.08 2.40
2500 5732 7.331026 CCTAAACACAAGGATGACTCAGATTA 58.669 38.462 0.00 0.00 36.08 1.75
2501 5733 7.824289 CCTAAACACAAGGATGACTCAGATTAA 59.176 37.037 0.00 0.00 36.08 1.40
2502 5734 7.440523 AAACACAAGGATGACTCAGATTAAC 57.559 36.000 0.00 0.00 0.00 2.01
2503 5735 5.491982 ACACAAGGATGACTCAGATTAACC 58.508 41.667 0.00 0.00 0.00 2.85
2504 5736 4.878397 CACAAGGATGACTCAGATTAACCC 59.122 45.833 0.00 0.00 0.00 4.11
2505 5737 4.536090 ACAAGGATGACTCAGATTAACCCA 59.464 41.667 0.00 0.00 0.00 4.51
2506 5738 5.192522 ACAAGGATGACTCAGATTAACCCAT 59.807 40.000 0.00 0.00 0.00 4.00
2507 5739 6.386927 ACAAGGATGACTCAGATTAACCCATA 59.613 38.462 0.00 0.00 0.00 2.74
2508 5740 6.426646 AGGATGACTCAGATTAACCCATAC 57.573 41.667 0.00 0.00 0.00 2.39
2509 5741 5.308237 AGGATGACTCAGATTAACCCATACC 59.692 44.000 0.00 0.00 0.00 2.73
2510 5742 5.308237 GGATGACTCAGATTAACCCATACCT 59.692 44.000 0.00 0.00 0.00 3.08
2511 5743 5.871396 TGACTCAGATTAACCCATACCTC 57.129 43.478 0.00 0.00 0.00 3.85
2512 5744 5.529289 TGACTCAGATTAACCCATACCTCT 58.471 41.667 0.00 0.00 0.00 3.69
2513 5745 5.964477 TGACTCAGATTAACCCATACCTCTT 59.036 40.000 0.00 0.00 0.00 2.85
2514 5746 6.098409 TGACTCAGATTAACCCATACCTCTTC 59.902 42.308 0.00 0.00 0.00 2.87
2515 5747 5.964477 ACTCAGATTAACCCATACCTCTTCA 59.036 40.000 0.00 0.00 0.00 3.02
2516 5748 6.617371 ACTCAGATTAACCCATACCTCTTCAT 59.383 38.462 0.00 0.00 0.00 2.57
2517 5749 7.789831 ACTCAGATTAACCCATACCTCTTCATA 59.210 37.037 0.00 0.00 0.00 2.15
2518 5750 8.561536 TCAGATTAACCCATACCTCTTCATAA 57.438 34.615 0.00 0.00 0.00 1.90
2519 5751 9.170890 TCAGATTAACCCATACCTCTTCATAAT 57.829 33.333 0.00 0.00 0.00 1.28
2525 5757 7.947782 ACCCATACCTCTTCATAATAAAGGA 57.052 36.000 0.00 0.00 0.00 3.36
2526 5758 7.746703 ACCCATACCTCTTCATAATAAAGGAC 58.253 38.462 0.00 0.00 0.00 3.85
2527 5759 7.349859 ACCCATACCTCTTCATAATAAAGGACA 59.650 37.037 0.00 0.00 0.00 4.02
2528 5760 8.386264 CCCATACCTCTTCATAATAAAGGACAT 58.614 37.037 0.00 0.00 0.00 3.06
2529 5761 9.224267 CCATACCTCTTCATAATAAAGGACATG 57.776 37.037 0.00 0.00 0.00 3.21
2532 5764 8.915057 ACCTCTTCATAATAAAGGACATGATG 57.085 34.615 0.00 0.00 0.00 3.07
2533 5765 7.941238 ACCTCTTCATAATAAAGGACATGATGG 59.059 37.037 0.00 0.00 0.00 3.51
2534 5766 8.159447 CCTCTTCATAATAAAGGACATGATGGA 58.841 37.037 0.00 0.00 0.00 3.41
2535 5767 8.908786 TCTTCATAATAAAGGACATGATGGAC 57.091 34.615 0.00 0.00 0.00 4.02
2536 5768 8.493607 TCTTCATAATAAAGGACATGATGGACA 58.506 33.333 0.00 0.00 0.00 4.02
2537 5769 9.293404 CTTCATAATAAAGGACATGATGGACAT 57.707 33.333 0.00 0.00 40.17 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 9.687210 TTGCATTTTTATGAGCTCATATGAATC 57.313 29.630 31.73 23.61 38.49 2.52
80 81 3.181477 TGGCATGCACATAAAGGTAATGC 60.181 43.478 21.36 6.21 38.41 3.56
288 290 6.780706 AGTGTAGGTGATGTTTTCTAAACG 57.219 37.500 0.00 0.00 0.00 3.60
504 509 8.150296 CCCTTTGACCAATACTTTCAAAATTCT 58.850 33.333 0.00 0.00 38.45 2.40
557 570 0.767375 TCTGCTCAGTTTTGCCCTCT 59.233 50.000 0.00 0.00 0.00 3.69
582 595 6.786959 AGGGATATATGCATTTTTGCCCTTAA 59.213 34.615 16.54 0.00 40.34 1.85
803 2895 7.045416 TGCATGTACATACGACTTCCTTTATT 58.955 34.615 8.32 0.00 0.00 1.40
840 2936 4.259850 GCGTTCATCTCCGAGATTTAACAC 60.260 45.833 22.06 14.58 31.32 3.32
878 3007 0.103390 TGCGTCAGTTTGGACTTCGA 59.897 50.000 0.00 0.00 34.61 3.71
950 3274 8.328758 TCAGTTGATTTGGTGAGGTTTATAGAT 58.671 33.333 0.00 0.00 0.00 1.98
992 3316 0.461516 AGACATGGTCATCTGCTGCG 60.462 55.000 0.00 0.00 34.60 5.18
1110 3437 2.762875 GTGGGTACGCTAGGGGCT 60.763 66.667 11.95 0.00 39.13 5.19
1122 3449 3.222354 GAACTGAGTCGCCGTGGGT 62.222 63.158 0.00 0.00 0.00 4.51
1401 3734 4.101448 AGCTTGTAGGCCCCGCAG 62.101 66.667 0.00 0.00 0.00 5.18
1547 3904 5.122239 TGGACACATCTTTTCTGATTTAGCG 59.878 40.000 0.00 0.00 0.00 4.26
1718 4104 5.220586 CGAATTACATTGCAGTACCGTGATT 60.221 40.000 0.00 0.00 0.00 2.57
1719 4105 4.270084 CGAATTACATTGCAGTACCGTGAT 59.730 41.667 0.00 0.00 0.00 3.06
1761 4147 4.994852 TGCTATATTTGGTTCAGGCGATAC 59.005 41.667 0.00 0.00 0.00 2.24
1777 4166 2.311463 AGTCACACGCCTCTGCTATAT 58.689 47.619 0.00 0.00 34.43 0.86
1778 4167 1.763968 AGTCACACGCCTCTGCTATA 58.236 50.000 0.00 0.00 34.43 1.31
1789 4178 3.424529 GGAAGTCGAAAACTAGTCACACG 59.575 47.826 0.00 0.66 37.17 4.49
1820 4209 6.434028 CAGAGTTTCTGGTGGGAAAATAATCA 59.566 38.462 0.00 0.00 40.71 2.57
1852 4247 1.415659 AGATCAGATTGCGGGGAGAAG 59.584 52.381 0.00 0.00 0.00 2.85
1880 4276 3.228453 TGGATGGAGAGTATTCGGGTAC 58.772 50.000 0.00 0.00 0.00 3.34
1881 4277 3.605726 TGGATGGAGAGTATTCGGGTA 57.394 47.619 0.00 0.00 0.00 3.69
1882 4278 2.471815 TGGATGGAGAGTATTCGGGT 57.528 50.000 0.00 0.00 0.00 5.28
1883 4279 3.325293 CATGGATGGAGAGTATTCGGG 57.675 52.381 0.00 0.00 0.00 5.14
1904 4300 8.392372 GGGGGAACAAATAGAAATCAGTATAC 57.608 38.462 0.00 0.00 0.00 1.47
1939 4335 4.821260 TGAGCTTCTATGCAAACTGTTTGA 59.179 37.500 31.35 18.72 43.26 2.69
2179 5376 8.541899 TCTACTACACCACATTGGACATAATA 57.458 34.615 0.00 0.00 40.96 0.98
2345 5577 7.950512 TGATCATTGTCTTTTGTTATTGGTGT 58.049 30.769 0.00 0.00 0.00 4.16
2451 5683 2.000447 GGTCTACCGAATCACAAGTGC 59.000 52.381 0.00 0.00 0.00 4.40
2452 5684 2.618053 GGGTCTACCGAATCACAAGTG 58.382 52.381 0.00 0.00 36.71 3.16
2453 5685 1.553704 GGGGTCTACCGAATCACAAGT 59.446 52.381 0.00 0.00 41.60 3.16
2454 5686 1.134491 GGGGGTCTACCGAATCACAAG 60.134 57.143 0.00 0.00 41.60 3.16
2455 5687 0.906775 GGGGGTCTACCGAATCACAA 59.093 55.000 0.00 0.00 41.60 3.33
2456 5688 2.599216 GGGGGTCTACCGAATCACA 58.401 57.895 0.00 0.00 41.60 3.58
2472 5704 2.308866 AGTCATCCTTGTGTTTAGGGGG 59.691 50.000 0.00 0.00 33.41 5.40
2473 5705 3.009033 TGAGTCATCCTTGTGTTTAGGGG 59.991 47.826 0.00 0.00 33.41 4.79
2474 5706 4.020218 TCTGAGTCATCCTTGTGTTTAGGG 60.020 45.833 0.00 0.00 33.41 3.53
2475 5707 5.152623 TCTGAGTCATCCTTGTGTTTAGG 57.847 43.478 0.00 0.00 0.00 2.69
2476 5708 8.660373 GTTAATCTGAGTCATCCTTGTGTTTAG 58.340 37.037 0.00 0.00 0.00 1.85
2477 5709 7.606456 GGTTAATCTGAGTCATCCTTGTGTTTA 59.394 37.037 0.00 0.00 0.00 2.01
2478 5710 6.431234 GGTTAATCTGAGTCATCCTTGTGTTT 59.569 38.462 0.00 0.00 0.00 2.83
2479 5711 5.940470 GGTTAATCTGAGTCATCCTTGTGTT 59.060 40.000 0.00 0.00 0.00 3.32
2480 5712 5.491982 GGTTAATCTGAGTCATCCTTGTGT 58.508 41.667 0.00 0.00 0.00 3.72
2481 5713 4.878397 GGGTTAATCTGAGTCATCCTTGTG 59.122 45.833 0.00 0.00 0.00 3.33
2482 5714 4.536090 TGGGTTAATCTGAGTCATCCTTGT 59.464 41.667 0.00 0.00 0.00 3.16
2483 5715 5.102953 TGGGTTAATCTGAGTCATCCTTG 57.897 43.478 0.00 0.00 0.00 3.61
2484 5716 5.983333 ATGGGTTAATCTGAGTCATCCTT 57.017 39.130 0.00 0.00 0.00 3.36
2485 5717 5.308237 GGTATGGGTTAATCTGAGTCATCCT 59.692 44.000 0.00 0.00 0.00 3.24
2486 5718 5.308237 AGGTATGGGTTAATCTGAGTCATCC 59.692 44.000 0.00 0.00 0.00 3.51
2487 5719 6.268847 AGAGGTATGGGTTAATCTGAGTCATC 59.731 42.308 0.00 0.00 0.00 2.92
2488 5720 6.146760 AGAGGTATGGGTTAATCTGAGTCAT 58.853 40.000 0.00 0.00 0.00 3.06
2489 5721 5.529289 AGAGGTATGGGTTAATCTGAGTCA 58.471 41.667 0.00 0.00 0.00 3.41
2490 5722 6.098409 TGAAGAGGTATGGGTTAATCTGAGTC 59.902 42.308 0.00 0.00 0.00 3.36
2491 5723 5.964477 TGAAGAGGTATGGGTTAATCTGAGT 59.036 40.000 0.00 0.00 0.00 3.41
2492 5724 6.485830 TGAAGAGGTATGGGTTAATCTGAG 57.514 41.667 0.00 0.00 0.00 3.35
2493 5725 8.561536 TTATGAAGAGGTATGGGTTAATCTGA 57.438 34.615 0.00 0.00 0.00 3.27
2499 5731 9.455144 TCCTTTATTATGAAGAGGTATGGGTTA 57.545 33.333 0.00 0.00 0.00 2.85
2500 5732 8.218488 GTCCTTTATTATGAAGAGGTATGGGTT 58.782 37.037 0.00 0.00 0.00 4.11
2501 5733 7.349859 TGTCCTTTATTATGAAGAGGTATGGGT 59.650 37.037 0.00 0.00 0.00 4.51
2502 5734 7.745717 TGTCCTTTATTATGAAGAGGTATGGG 58.254 38.462 0.00 0.00 0.00 4.00
2503 5735 9.224267 CATGTCCTTTATTATGAAGAGGTATGG 57.776 37.037 0.00 0.00 0.00 2.74
2507 5739 7.941238 CCATCATGTCCTTTATTATGAAGAGGT 59.059 37.037 0.00 0.00 33.71 3.85
2508 5740 8.159447 TCCATCATGTCCTTTATTATGAAGAGG 58.841 37.037 0.00 0.00 33.71 3.69
2509 5741 8.997323 GTCCATCATGTCCTTTATTATGAAGAG 58.003 37.037 0.00 0.00 33.71 2.85
2510 5742 8.493607 TGTCCATCATGTCCTTTATTATGAAGA 58.506 33.333 0.00 0.00 33.71 2.87
2511 5743 8.681486 TGTCCATCATGTCCTTTATTATGAAG 57.319 34.615 0.00 0.00 33.71 3.02


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

AutoCloner maintained by Alex Coulton.