Multiple sequence alignment - TraesCS2B01G505500

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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 TraesCS2B01G505500 chr2B 100.000 3655 0 0 1321 4975 699830121 699826467 0.000000e+00 6750.0
1 TraesCS2B01G505500 chr2B 84.012 2408 302 46 1355 3698 702727607 702725219 0.000000e+00 2237.0
2 TraesCS2B01G505500 chr2B 100.000 1044 0 0 1 1044 699831441 699830398 0.000000e+00 1929.0
3 TraesCS2B01G505500 chr2B 77.972 2574 445 66 1466 3976 515912778 515915292 0.000000e+00 1500.0
4 TraesCS2B01G505500 chr2B 96.309 569 21 0 4407 4975 1892711 1893279 0.000000e+00 935.0
5 TraesCS2B01G505500 chr2B 84.991 573 75 6 4407 4975 465158648 465158083 5.590000e-159 571.0
6 TraesCS2B01G505500 chr2B 95.198 354 17 0 4407 4760 504551278 504550925 1.210000e-155 560.0
7 TraesCS2B01G505500 chr2B 81.299 508 76 11 348 836 37210157 37210664 1.300000e-105 394.0
8 TraesCS2B01G505500 chr2B 86.301 146 14 3 3945 4088 699827307 699827166 2.400000e-33 154.0
9 TraesCS2B01G505500 chr2B 86.301 146 14 3 4135 4276 699827497 699827354 2.400000e-33 154.0
10 TraesCS2B01G505500 chr2B 97.561 82 1 1 963 1044 702727640 702727560 6.720000e-29 139.0
11 TraesCS2B01G505500 chr2B 97.917 48 1 0 997 1044 699830087 699830040 3.190000e-12 84.2
12 TraesCS2B01G505500 chr2B 97.826 46 1 0 999 1044 699830121 699830076 4.130000e-11 80.5
13 TraesCS2B01G505500 chr2B 97.143 35 1 0 1321 1355 699830049 699830015 5.380000e-05 60.2
14 TraesCS2B01G505500 chr2D 98.643 3096 32 1 1321 4406 581523494 581526589 0.000000e+00 5476.0
15 TraesCS2B01G505500 chr2D 77.691 2564 439 69 1450 3956 438247661 438250148 0.000000e+00 1443.0
16 TraesCS2B01G505500 chr2D 87.173 1263 139 12 2731 3978 545500012 545501266 0.000000e+00 1413.0
17 TraesCS2B01G505500 chr2D 90.503 1074 67 22 1 1044 581522471 581523539 0.000000e+00 1386.0
18 TraesCS2B01G505500 chr2D 85.033 1363 161 17 2646 3975 583232690 583231338 0.000000e+00 1347.0
19 TraesCS2B01G505500 chr2D 83.761 1404 191 16 1321 2708 545498547 545499929 0.000000e+00 1295.0
20 TraesCS2B01G505500 chr2D 84.133 1229 164 19 1355 2566 583234010 583232796 0.000000e+00 1160.0
21 TraesCS2B01G505500 chr2D 92.553 282 15 6 2 278 627064690 627064970 2.790000e-107 399.0
22 TraesCS2B01G505500 chr2D 86.986 146 13 2 4135 4276 581526128 581526271 5.150000e-35 159.0
23 TraesCS2B01G505500 chr2D 86.207 145 14 3 3946 4088 581526319 581526459 8.630000e-33 152.0
24 TraesCS2B01G505500 chr2D 97.561 82 1 1 963 1044 583234043 583233963 6.720000e-29 139.0
25 TraesCS2B01G505500 chr2D 98.701 77 1 0 968 1044 545498516 545498592 2.420000e-28 137.0
26 TraesCS2B01G505500 chr2D 92.857 70 5 0 4023 4092 545501280 545501349 8.810000e-18 102.0
27 TraesCS2B01G505500 chr2D 86.598 97 7 3 4216 4306 545501380 545501476 8.810000e-18 102.0
28 TraesCS2B01G505500 chr2D 93.846 65 4 0 4028 4092 545501380 545501444 1.140000e-16 99.0
29 TraesCS2B01G505500 chr2D 93.846 65 4 0 4028 4092 545501475 545501539 1.140000e-16 99.0
30 TraesCS2B01G505500 chr2D 95.082 61 3 0 4216 4276 545501475 545501535 4.100000e-16 97.1
31 TraesCS2B01G505500 chr2D 93.443 61 3 1 4335 4395 583231147 583231088 6.860000e-14 89.8
32 TraesCS2B01G505500 chr2D 96.296 54 1 1 4336 4389 545501641 545501693 2.470000e-13 87.9
33 TraesCS2B01G505500 chr2D 90.769 65 5 1 4028 4092 583231219 583231156 8.870000e-13 86.1
34 TraesCS2B01G505500 chr2D 97.917 48 1 0 997 1044 545498581 545498628 3.190000e-12 84.2
35 TraesCS2B01G505500 chr2D 97.297 37 1 0 997 1033 581523564 581523600 4.160000e-06 63.9
36 TraesCS2B01G505500 chr2D 89.583 48 5 0 984 1031 438247565 438247612 1.500000e-05 62.1
37 TraesCS2B01G505500 chr2A 83.834 2728 342 44 1321 3978 687506744 687504046 0.000000e+00 2503.0
38 TraesCS2B01G505500 chr2A 86.890 1701 158 30 2076 3722 718379353 718377664 0.000000e+00 1845.0
39 TraesCS2B01G505500 chr2A 93.576 576 28 4 4405 4975 766356401 766355830 0.000000e+00 850.0
40 TraesCS2B01G505500 chr2A 97.561 82 1 1 963 1044 687506815 687506735 6.720000e-29 139.0
41 TraesCS2B01G505500 chr2A 92.647 68 5 0 4028 4095 687503837 687503770 1.140000e-16 99.0
42 TraesCS2B01G505500 chr2A 92.647 68 5 0 4028 4095 687503932 687503865 1.140000e-16 99.0
43 TraesCS2B01G505500 chr2A 95.082 61 3 0 4216 4276 687503837 687503777 4.100000e-16 97.1
44 TraesCS2B01G505500 chr2A 85.567 97 8 3 4216 4306 687503932 687503836 4.100000e-16 97.1
45 TraesCS2B01G505500 chr2A 95.082 61 2 1 4335 4395 687503672 687503613 1.470000e-15 95.3
46 TraesCS2B01G505500 chr2A 87.059 85 8 2 4013 4095 687504043 687503960 5.300000e-15 93.5
47 TraesCS2B01G505500 chr2A 93.617 47 3 0 997 1043 687506746 687506700 2.480000e-08 71.3
48 TraesCS2B01G505500 chr1A 79.117 2581 421 69 1453 3976 566587876 566585357 0.000000e+00 1672.0
49 TraesCS2B01G505500 chr1B 77.726 2155 383 54 1453 3559 657283928 657281823 0.000000e+00 1230.0
50 TraesCS2B01G505500 chr1B 81.165 515 77 8 342 836 637402491 637401977 3.610000e-106 396.0
51 TraesCS2B01G505500 chr3A 95.782 569 24 0 4407 4975 395992385 395991817 0.000000e+00 918.0
52 TraesCS2B01G505500 chr6B 97.313 521 13 1 4398 4917 245265345 245265865 0.000000e+00 883.0
53 TraesCS2B01G505500 chr7A 94.552 569 27 2 4407 4975 711982579 711982015 0.000000e+00 876.0
54 TraesCS2B01G505500 chr7A 85.114 571 66 8 4407 4975 727874712 727874159 2.600000e-157 566.0
55 TraesCS2B01G505500 chr5A 87.368 570 62 7 4407 4972 35198274 35198837 0.000000e+00 645.0
56 TraesCS2B01G505500 chr5A 93.525 278 11 7 2 275 438145080 438144806 1.670000e-109 407.0
57 TraesCS2B01G505500 chr5A 82.600 477 68 11 354 821 689946083 689945613 1.670000e-109 407.0
58 TraesCS2B01G505500 chr5A 89.831 59 4 2 4399 4457 293506597 293506653 1.920000e-09 75.0
59 TraesCS2B01G505500 chr5A 94.595 37 1 1 4404 4440 472248158 472248123 6.960000e-04 56.5
60 TraesCS2B01G505500 chr3B 85.814 571 69 7 4407 4972 49851051 49851614 3.320000e-166 595.0
61 TraesCS2B01G505500 chrUn 88.776 392 44 0 1504 1895 479739906 479739515 9.690000e-132 481.0
62 TraesCS2B01G505500 chr3D 82.283 508 71 8 348 836 152472614 152473121 5.950000e-114 422.0
63 TraesCS2B01G505500 chr3D 92.857 280 14 6 2 277 236667081 236667358 7.760000e-108 401.0
64 TraesCS2B01G505500 chr3D 81.325 498 78 10 348 836 454242210 454241719 1.680000e-104 390.0
65 TraesCS2B01G505500 chr7B 82.222 495 79 5 348 835 399778460 399778952 7.700000e-113 418.0
66 TraesCS2B01G505500 chr6A 82.294 497 74 10 348 836 617188084 617188574 7.700000e-113 418.0
67 TraesCS2B01G505500 chr6A 81.871 513 74 8 343 836 435599075 435599587 9.960000e-112 414.0
68 TraesCS2B01G505500 chr6A 92.500 280 12 6 2 277 599847761 599848035 4.670000e-105 392.0
69 TraesCS2B01G505500 chr4D 92.500 280 15 5 2 277 52009651 52009374 3.610000e-106 396.0
70 TraesCS2B01G505500 chr4D 92.171 281 17 4 2 278 364375371 364375092 4.670000e-105 392.0
71 TraesCS2B01G505500 chr6D 92.473 279 15 5 2 276 449665930 449665654 1.300000e-105 394.0
72 TraesCS2B01G505500 chr6D 92.171 281 16 6 2 278 75643958 75644236 4.670000e-105 392.0
73 TraesCS2B01G505500 chr1D 86.620 284 35 3 4432 4712 195990929 195990646 1.340000e-80 311.0
74 TraesCS2B01G505500 chr5B 75.518 531 101 19 1689 2194 710949097 710948571 2.990000e-57 233.0


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 TraesCS2B01G505500 chr2B 699826467 699831441 4974 True 1315.985714 6750 95.069714 1 4975 7 chr2B.!!$R3 4974
1 TraesCS2B01G505500 chr2B 515912778 515915292 2514 False 1500.000000 1500 77.972000 1466 3976 1 chr2B.!!$F3 2510
2 TraesCS2B01G505500 chr2B 702725219 702727640 2421 True 1188.000000 2237 90.786500 963 3698 2 chr2B.!!$R4 2735
3 TraesCS2B01G505500 chr2B 1892711 1893279 568 False 935.000000 935 96.309000 4407 4975 1 chr2B.!!$F1 568
4 TraesCS2B01G505500 chr2B 465158083 465158648 565 True 571.000000 571 84.991000 4407 4975 1 chr2B.!!$R1 568
5 TraesCS2B01G505500 chr2B 37210157 37210664 507 False 394.000000 394 81.299000 348 836 1 chr2B.!!$F2 488
6 TraesCS2B01G505500 chr2D 581522471 581526589 4118 False 1447.380000 5476 91.927200 1 4406 5 chr2D.!!$F4 4405
7 TraesCS2B01G505500 chr2D 438247565 438250148 2583 False 752.550000 1443 83.637000 984 3956 2 chr2D.!!$F2 2972
8 TraesCS2B01G505500 chr2D 583231088 583234043 2955 True 564.380000 1347 90.187800 963 4395 5 chr2D.!!$R1 3432
9 TraesCS2B01G505500 chr2D 545498516 545501693 3177 False 351.620000 1413 92.607700 968 4389 10 chr2D.!!$F3 3421
10 TraesCS2B01G505500 chr2A 718377664 718379353 1689 True 1845.000000 1845 86.890000 2076 3722 1 chr2A.!!$R1 1646
11 TraesCS2B01G505500 chr2A 766355830 766356401 571 True 850.000000 850 93.576000 4405 4975 1 chr2A.!!$R2 570
12 TraesCS2B01G505500 chr2A 687503613 687506815 3202 True 366.033333 2503 91.455111 963 4395 9 chr2A.!!$R3 3432
13 TraesCS2B01G505500 chr1A 566585357 566587876 2519 True 1672.000000 1672 79.117000 1453 3976 1 chr1A.!!$R1 2523
14 TraesCS2B01G505500 chr1B 657281823 657283928 2105 True 1230.000000 1230 77.726000 1453 3559 1 chr1B.!!$R2 2106
15 TraesCS2B01G505500 chr1B 637401977 637402491 514 True 396.000000 396 81.165000 342 836 1 chr1B.!!$R1 494
16 TraesCS2B01G505500 chr3A 395991817 395992385 568 True 918.000000 918 95.782000 4407 4975 1 chr3A.!!$R1 568
17 TraesCS2B01G505500 chr6B 245265345 245265865 520 False 883.000000 883 97.313000 4398 4917 1 chr6B.!!$F1 519
18 TraesCS2B01G505500 chr7A 711982015 711982579 564 True 876.000000 876 94.552000 4407 4975 1 chr7A.!!$R1 568
19 TraesCS2B01G505500 chr7A 727874159 727874712 553 True 566.000000 566 85.114000 4407 4975 1 chr7A.!!$R2 568
20 TraesCS2B01G505500 chr5A 35198274 35198837 563 False 645.000000 645 87.368000 4407 4972 1 chr5A.!!$F1 565
21 TraesCS2B01G505500 chr3B 49851051 49851614 563 False 595.000000 595 85.814000 4407 4972 1 chr3B.!!$F1 565
22 TraesCS2B01G505500 chr3D 152472614 152473121 507 False 422.000000 422 82.283000 348 836 1 chr3D.!!$F1 488
23 TraesCS2B01G505500 chr6A 435599075 435599587 512 False 414.000000 414 81.871000 343 836 1 chr6A.!!$F1 493
24 TraesCS2B01G505500 chr5B 710948571 710949097 526 True 233.000000 233 75.518000 1689 2194 1 chr5B.!!$R1 505

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
842 865 0.110644 CGAGCTTTTGGTCAACGAGC 60.111 55.000 9.07 9.07 46.47 5.03 F
1395 1482 1.078356 GGAAAGCGGAGGGGAAGAC 60.078 63.158 0.00 0.00 0.00 3.01 F
2286 2474 1.079503 GTCGGGCATGAAGAGACAAC 58.920 55.000 0.00 0.00 32.57 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2286 2474 0.693767 AGGGGGATCCAGCTTCAGAG 60.694 60.0 15.23 0.00 38.24 3.35 R
3086 3526 0.243907 AATCCTGACGTCTGGTGTCG 59.756 55.0 32.64 13.64 39.22 4.35 R
4134 4699 2.998670 CAGCACAACATCTCTGGTACTG 59.001 50.0 0.00 0.00 0.00 2.74 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
75 76 4.129737 GCATGGTGGCTGCTGCTG 62.130 66.667 15.64 6.48 39.59 4.41
99 100 3.170672 TCCATCCCCATGCCTCCG 61.171 66.667 0.00 0.00 0.00 4.63
103 104 4.804420 TCCCCATGCCTCCGCTCT 62.804 66.667 0.00 0.00 35.36 4.09
107 109 4.478371 CATGCCTCCGCTCTGCCA 62.478 66.667 0.00 0.00 35.36 4.92
141 144 2.284995 AGCCCCACTCCTCCTCAC 60.285 66.667 0.00 0.00 0.00 3.51
149 152 2.962421 CCACTCCTCCTCACCTTATCTC 59.038 54.545 0.00 0.00 0.00 2.75
211 214 1.355381 ACTCCTGCATGGGTCAATCAA 59.645 47.619 0.00 0.00 36.20 2.57
212 215 1.747355 CTCCTGCATGGGTCAATCAAC 59.253 52.381 0.00 0.00 36.20 3.18
214 217 2.104967 CCTGCATGGGTCAATCAACAT 58.895 47.619 0.00 0.00 0.00 2.71
215 218 2.159156 CCTGCATGGGTCAATCAACATG 60.159 50.000 0.00 0.00 42.61 3.21
216 219 2.494471 CTGCATGGGTCAATCAACATGT 59.506 45.455 0.00 0.00 41.94 3.21
219 222 3.306225 GCATGGGTCAATCAACATGTGTT 60.306 43.478 0.00 0.00 41.94 3.32
223 226 5.114780 TGGGTCAATCAACATGTGTTTTTG 58.885 37.500 0.00 2.01 35.83 2.44
224 227 5.115480 GGGTCAATCAACATGTGTTTTTGT 58.885 37.500 0.00 0.00 35.83 2.83
225 228 6.127338 TGGGTCAATCAACATGTGTTTTTGTA 60.127 34.615 0.00 0.00 35.83 2.41
346 350 0.798009 GCAAAATCGCCACGATGGTG 60.798 55.000 2.87 0.03 46.30 4.17
370 374 2.555199 GTGGATTAACGAGCTGCTCAT 58.445 47.619 27.46 18.15 0.00 2.90
387 391 3.790288 GCTCATCTCGTTAAACTCGTACC 59.210 47.826 0.00 0.00 0.00 3.34
450 466 6.827586 TGTTAATAAAATCCTGCTCGGTTT 57.172 33.333 0.00 0.00 0.00 3.27
517 534 8.633561 CAGATTCTGATGTGTTAGGTCTACATA 58.366 37.037 8.00 0.00 35.35 2.29
582 599 7.649057 ACTACAAAAGGAAATGCACTAGTTTC 58.351 34.615 0.00 0.00 34.42 2.78
594 611 5.560724 TGCACTAGTTTCTTGCTTCCTATT 58.439 37.500 0.00 0.00 37.16 1.73
627 645 8.629821 AATATATAGATGGGTTGAGGTGCTAT 57.370 34.615 0.00 0.00 0.00 2.97
630 648 6.959606 ATAGATGGGTTGAGGTGCTATAAT 57.040 37.500 0.00 0.00 0.00 1.28
631 649 5.653255 AGATGGGTTGAGGTGCTATAATT 57.347 39.130 0.00 0.00 0.00 1.40
703 721 4.521130 AATGAGCTACTCGTGAAACTCA 57.479 40.909 9.30 9.30 38.42 3.41
706 724 4.237724 TGAGCTACTCGTGAAACTCATTG 58.762 43.478 0.00 0.00 32.35 2.82
838 861 1.477105 GCAACGAGCTTTTGGTCAAC 58.523 50.000 10.18 0.00 46.47 3.18
839 862 1.741993 CAACGAGCTTTTGGTCAACG 58.258 50.000 0.00 0.00 46.47 4.10
840 863 1.329292 CAACGAGCTTTTGGTCAACGA 59.671 47.619 0.00 0.00 46.47 3.85
841 864 1.217882 ACGAGCTTTTGGTCAACGAG 58.782 50.000 0.00 0.00 46.47 4.18
842 865 0.110644 CGAGCTTTTGGTCAACGAGC 60.111 55.000 9.07 9.07 46.47 5.03
843 866 1.230324 GAGCTTTTGGTCAACGAGCT 58.770 50.000 15.92 15.92 45.53 4.09
844 867 1.604278 GAGCTTTTGGTCAACGAGCTT 59.396 47.619 16.63 6.27 45.53 3.74
845 868 2.024414 AGCTTTTGGTCAACGAGCTTT 58.976 42.857 12.26 0.00 36.98 3.51
846 869 2.427095 AGCTTTTGGTCAACGAGCTTTT 59.573 40.909 12.26 0.00 36.98 2.27
848 871 2.861462 TTTGGTCAACGAGCTTTTGG 57.139 45.000 8.67 0.00 0.00 3.28
849 872 1.757682 TTGGTCAACGAGCTTTTGGT 58.242 45.000 8.67 0.00 0.00 3.67
875 916 1.898574 CAGCCCGTTTGACCAGCTT 60.899 57.895 0.00 0.00 0.00 3.74
1356 1437 3.335729 GGGGAAAGCGGAGGGGAA 61.336 66.667 0.00 0.00 0.00 3.97
1395 1482 1.078356 GGAAAGCGGAGGGGAAGAC 60.078 63.158 0.00 0.00 0.00 3.01
2286 2474 1.079503 GTCGGGCATGAAGAGACAAC 58.920 55.000 0.00 0.00 32.57 3.32
3086 3526 1.202336 GGCATGCATGTGCTTAACCTC 60.202 52.381 26.79 6.80 44.45 3.85
3254 3703 6.821022 CCTACTGGATCGACCTCATGGGTA 62.821 54.167 5.92 0.00 41.77 3.69
3278 3727 1.583967 CGTCGCAGATCGGTCTCAC 60.584 63.158 0.00 0.00 40.67 3.51
4134 4699 1.444553 CTCTTGACTGCGACCGGAC 60.445 63.158 9.46 0.00 0.00 4.79
4396 5059 4.499696 CCTTGCTTGGAACTGTAAAGTTGG 60.500 45.833 2.08 0.00 31.35 3.77
4423 5086 2.367567 GGATACTAGACAATTCCCCGCA 59.632 50.000 0.00 0.00 0.00 5.69
4691 5373 5.160607 ACTCGAAGATGTATTTGGTGGAA 57.839 39.130 0.00 0.00 33.89 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 3.560882 CCAGATTGTTCCAGAGGCTTTCT 60.561 47.826 0.00 0.00 36.25 2.52
75 76 3.861797 ATGGGGATGGACGACGCC 61.862 66.667 0.00 0.00 39.15 5.68
99 100 0.895100 TGATTGGTGGTTGGCAGAGC 60.895 55.000 0.00 0.00 0.00 4.09
103 104 1.112315 GTGGTGATTGGTGGTTGGCA 61.112 55.000 0.00 0.00 0.00 4.92
107 109 0.827507 GCTGGTGGTGATTGGTGGTT 60.828 55.000 0.00 0.00 0.00 3.67
141 144 5.373222 TCTCGAGAAAGAGGAGAGATAAGG 58.627 45.833 14.01 0.00 38.71 2.69
149 152 8.335532 ACTAATGATATCTCGAGAAAGAGGAG 57.664 38.462 20.91 13.42 38.71 3.69
185 188 2.846206 TGACCCATGCAGGAGTAATTCT 59.154 45.455 0.00 0.00 41.22 2.40
342 346 0.841158 TCGTTAATCCACCCCCACCA 60.841 55.000 0.00 0.00 0.00 4.17
346 350 0.463833 CAGCTCGTTAATCCACCCCC 60.464 60.000 0.00 0.00 0.00 5.40
370 374 4.789012 AATGGGTACGAGTTTAACGAGA 57.211 40.909 0.00 0.00 34.70 4.04
387 391 0.719465 AACGAGCGCGAACTTAATGG 59.281 50.000 19.05 0.00 41.64 3.16
438 454 1.301401 CGAACCAAACCGAGCAGGA 60.301 57.895 5.19 0.00 45.00 3.86
450 466 5.356882 CTTAATGAGCTTGAAACGAACCA 57.643 39.130 0.00 0.00 0.00 3.67
703 721 3.146066 TGAGCTTAACAAACGAGCCAAT 58.854 40.909 0.00 0.00 0.00 3.16
706 724 3.831715 AATGAGCTTAACAAACGAGCC 57.168 42.857 0.00 0.00 0.00 4.70
758 776 4.667161 CGTGGCTCGCTTTTTAATAAACGA 60.667 41.667 4.50 4.50 0.00 3.85
759 777 3.536837 CGTGGCTCGCTTTTTAATAAACG 59.463 43.478 0.00 0.00 0.00 3.60
801 824 0.301987 GCTCGCGAGTTTAATGAGCC 59.698 55.000 34.46 12.23 44.76 4.70
859 900 1.007387 CAAAGCTGGTCAAACGGGC 60.007 57.895 0.00 0.00 0.00 6.13
875 916 4.329545 GTGCGACCCAGAGGCCAA 62.330 66.667 5.01 0.00 36.11 4.52
914 955 1.328279 GTAGTTGCCTGCTTGGGTTT 58.672 50.000 0.00 0.00 36.00 3.27
917 958 1.678970 GGGTAGTTGCCTGCTTGGG 60.679 63.158 0.00 0.00 36.00 4.12
935 977 0.808060 GTGTTGGGTTTGGCCGTTTG 60.808 55.000 0.00 0.00 38.44 2.93
1335 1416 4.162690 CCTCCGCTTTCCCCTCCG 62.163 72.222 0.00 0.00 0.00 4.63
1406 1493 4.840005 CTCCGCTTTCCCCTCCGC 62.840 72.222 0.00 0.00 0.00 5.54
1407 1494 4.162690 CCTCCGCTTTCCCCTCCG 62.163 72.222 0.00 0.00 0.00 4.63
1526 1619 2.277373 GACGCCGACGAGTAGCAG 60.277 66.667 0.00 0.00 43.93 4.24
2286 2474 0.693767 AGGGGGATCCAGCTTCAGAG 60.694 60.000 15.23 0.00 38.24 3.35
2879 3280 5.658190 ACCAGCTTGGCAGATAATAAACAAT 59.342 36.000 2.50 0.00 42.67 2.71
3086 3526 0.243907 AATCCTGACGTCTGGTGTCG 59.756 55.000 32.64 13.64 39.22 4.35
4062 4544 5.769662 ACTTGTCAATAGCTGGTCAAATGAA 59.230 36.000 0.00 0.00 0.00 2.57
4134 4699 2.998670 CAGCACAACATCTCTGGTACTG 59.001 50.000 0.00 0.00 0.00 2.74
4423 5086 2.625823 CCAATTCCCGCAGCAACGT 61.626 57.895 0.00 0.00 0.00 3.99
4537 5203 8.756864 GGACTTTGCAACAATAAACGAATAAAA 58.243 29.630 0.00 0.00 0.00 1.52
4691 5373 2.915604 ACTCCAGGAACATCCATTCAGT 59.084 45.455 0.00 0.00 39.61 3.41
4953 5644 4.853924 AACAAGGCAAAAGGTATGTCTG 57.146 40.909 0.00 0.00 31.99 3.51


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

AutoCloner maintained by Alex Coulton.