Multiple sequence alignment - TraesCS7B01G018200

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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 TraesCS7B01G018200 chr7B 100.000 3523 0 0 1 3523 15302223 15298701 0.000000e+00 6506.0
1 TraesCS7B01G018200 chr7B 89.077 1831 108 42 817 2613 15072795 15071023 0.000000e+00 2189.0
2 TraesCS7B01G018200 chr7B 90.416 1106 75 13 1492 2577 15269910 15268816 0.000000e+00 1426.0
3 TraesCS7B01G018200 chr7B 88.100 1000 78 21 1222 2195 15020843 15019859 0.000000e+00 1149.0
4 TraesCS7B01G018200 chr7B 93.674 743 27 10 2794 3522 15019251 15018515 0.000000e+00 1094.0
5 TraesCS7B01G018200 chr7B 87.469 806 47 22 1 772 15021670 15020885 0.000000e+00 880.0
6 TraesCS7B01G018200 chr7B 85.631 856 52 29 5 820 15079754 15078930 0.000000e+00 833.0
7 TraesCS7B01G018200 chr7B 88.770 561 45 10 2235 2786 15019854 15019303 0.000000e+00 671.0
8 TraesCS7B01G018200 chr7B 87.333 600 45 10 910 1505 15289379 15288807 0.000000e+00 658.0
9 TraesCS7B01G018200 chr7B 79.373 766 94 41 2794 3523 14865377 14866114 6.840000e-132 481.0
10 TraesCS7B01G018200 chr7B 81.399 586 55 19 230 777 15292479 15291910 2.510000e-116 429.0
11 TraesCS7B01G018200 chr7B 87.126 334 31 7 2602 2923 286566414 286566747 5.560000e-98 368.0
12 TraesCS7B01G018200 chr7B 86.598 194 11 10 3331 3522 14787989 14788169 2.140000e-47 200.0
13 TraesCS7B01G018200 chr7B 87.500 152 17 2 2338 2489 14778490 14778639 1.300000e-39 174.0
14 TraesCS7B01G018200 chr7B 83.854 192 13 5 2611 2786 15070978 15070789 2.180000e-37 167.0
15 TraesCS7B01G018200 chr7B 84.177 158 19 3 2130 2282 286566255 286566411 7.880000e-32 148.0
16 TraesCS7B01G018200 chr7B 85.321 109 13 2 2194 2300 14864399 14864506 3.720000e-20 110.0
17 TraesCS7B01G018200 chr7D 86.599 694 63 12 1275 1955 73115351 73116027 0.000000e+00 739.0
18 TraesCS7B01G018200 chr7D 91.156 441 27 6 757 1195 73114869 73115299 3.920000e-164 588.0
19 TraesCS7B01G018200 chr7D 82.024 751 66 26 2798 3522 72217400 72216693 3.050000e-160 575.0
20 TraesCS7B01G018200 chr7D 82.143 672 73 26 1495 2160 72218736 72218106 1.860000e-147 532.0
21 TraesCS7B01G018200 chr7D 80.966 704 87 33 2828 3522 73116136 73116801 6.740000e-142 514.0
22 TraesCS7B01G018200 chr7D 91.786 280 13 5 164 433 73114224 73114503 7.140000e-102 381.0
23 TraesCS7B01G018200 chr7D 84.426 366 29 16 3170 3522 71863829 71864179 5.640000e-88 335.0
24 TraesCS7B01G018200 chr7D 90.968 155 11 2 1 152 73114011 73114165 4.610000e-49 206.0
25 TraesCS7B01G018200 chr7D 80.632 253 31 11 2799 3041 71863557 71863801 2.790000e-41 180.0
26 TraesCS7B01G018200 chr7A 88.362 464 31 10 2325 2786 77197167 77196725 1.440000e-148 536.0
27 TraesCS7B01G018200 chr7A 84.436 559 43 22 164 703 77198062 77197529 8.720000e-141 510.0
28 TraesCS7B01G018200 chr7A 80.028 721 86 29 2828 3522 77195926 77195238 6.840000e-132 481.0
29 TraesCS7B01G018200 chr7A 93.625 251 16 0 2794 3044 77196673 77196423 3.320000e-100 375.0
30 TraesCS7B01G018200 chr7A 79.252 535 64 32 3008 3522 77150940 77150433 2.620000e-86 329.0
31 TraesCS7B01G018200 chr7A 83.333 288 39 6 2798 3079 77196306 77196022 1.250000e-64 257.0
32 TraesCS7B01G018200 chrUn 78.609 762 94 46 2794 3522 84316737 84317462 1.160000e-119 440.0
33 TraesCS7B01G018200 chrUn 88.136 236 19 4 3288 3522 82566501 82566274 4.480000e-69 272.0
34 TraesCS7B01G018200 chrUn 80.690 290 39 13 2797 3076 84330095 84330377 3.560000e-50 209.0
35 TraesCS7B01G018200 chr2D 75.993 554 90 23 1982 2513 477391016 477390484 2.720000e-61 246.0
36 TraesCS7B01G018200 chr1B 85.802 162 22 1 2794 2954 10931649 10931488 1.680000e-38 171.0
37 TraesCS7B01G018200 chr1B 100.000 39 0 0 1106 1144 54136164 54136126 4.880000e-09 73.1
38 TraesCS7B01G018200 chr2B 81.977 172 23 7 1097 1263 198760063 198759895 4.740000e-29 139.0
39 TraesCS7B01G018200 chr1D 77.852 149 28 3 1099 1243 342873068 342873215 1.740000e-13 87.9
40 TraesCS7B01G018200 chr1D 100.000 39 0 0 1106 1144 35654227 35654189 4.880000e-09 73.1
41 TraesCS7B01G018200 chr1D 90.741 54 5 0 2715 2768 442117393 442117446 4.880000e-09 73.1
42 TraesCS7B01G018200 chr1A 77.852 149 28 3 1099 1243 442606677 442606824 1.740000e-13 87.9
43 TraesCS7B01G018200 chr1A 100.000 39 0 0 1106 1144 34409785 34409747 4.880000e-09 73.1
44 TraesCS7B01G018200 chr3D 94.000 50 3 0 2719 2768 189780252 189780203 3.770000e-10 76.8


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 TraesCS7B01G018200 chr7B 15298701 15302223 3522 True 6506.0 6506 100.00000 1 3523 1 chr7B.!!$R3 3522
1 TraesCS7B01G018200 chr7B 15268816 15269910 1094 True 1426.0 1426 90.41600 1492 2577 1 chr7B.!!$R2 1085
2 TraesCS7B01G018200 chr7B 15070789 15072795 2006 True 1178.0 2189 86.46550 817 2786 2 chr7B.!!$R5 1969
3 TraesCS7B01G018200 chr7B 15018515 15021670 3155 True 948.5 1149 89.50325 1 3522 4 chr7B.!!$R4 3521
4 TraesCS7B01G018200 chr7B 15078930 15079754 824 True 833.0 833 85.63100 5 820 1 chr7B.!!$R1 815
5 TraesCS7B01G018200 chr7B 15288807 15292479 3672 True 543.5 658 84.36600 230 1505 2 chr7B.!!$R6 1275
6 TraesCS7B01G018200 chr7B 14864399 14866114 1715 False 295.5 481 82.34700 2194 3523 2 chr7B.!!$F3 1329
7 TraesCS7B01G018200 chr7D 72216693 72218736 2043 True 553.5 575 82.08350 1495 3522 2 chr7D.!!$R1 2027
8 TraesCS7B01G018200 chr7D 73114011 73116801 2790 False 485.6 739 88.29500 1 3522 5 chr7D.!!$F2 3521
9 TraesCS7B01G018200 chr7D 71863557 71864179 622 False 257.5 335 82.52900 2799 3522 2 chr7D.!!$F1 723
10 TraesCS7B01G018200 chr7A 77195238 77198062 2824 True 431.8 536 85.95680 164 3522 5 chr7A.!!$R2 3358
11 TraesCS7B01G018200 chr7A 77150433 77150940 507 True 329.0 329 79.25200 3008 3522 1 chr7A.!!$R1 514
12 TraesCS7B01G018200 chrUn 84316737 84317462 725 False 440.0 440 78.60900 2794 3522 1 chrUn.!!$F1 728
13 TraesCS7B01G018200 chr2D 477390484 477391016 532 True 246.0 246 75.99300 1982 2513 1 chr2D.!!$R1 531

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
370 424 0.174389 CCTGCTCAGCACGACATAGT 59.826 55.0 0.00 0.00 33.79 2.12 F
987 3648 0.304705 CACTCACTTGCACGTGGTTC 59.695 55.0 21.71 0.59 35.63 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1998 4716 0.725117 ACCGCGCTATTGTAACTTGC 59.275 50.0 5.56 0.0 0.00 4.01 R
2590 5385 0.824109 CCCTGTTATCTGACAGCGGA 59.176 55.0 0.00 0.0 44.45 5.54 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
78 80 5.355071 TCTGGCTAAAGCTGTAAATCACATG 59.645 40.000 1.39 0.00 41.70 3.21
333 387 1.715585 GATGCACGACAATGACCCG 59.284 57.895 0.00 0.00 0.00 5.28
370 424 0.174389 CCTGCTCAGCACGACATAGT 59.826 55.000 0.00 0.00 33.79 2.12
371 425 1.554392 CTGCTCAGCACGACATAGTC 58.446 55.000 0.00 0.00 33.79 2.59
388 451 3.594603 AGTCGACGAATTCTCCACATT 57.405 42.857 10.46 0.00 0.00 2.71
400 463 4.271696 TCTCCACATTTGTACAGTGAGG 57.728 45.455 13.68 14.85 35.33 3.86
420 488 2.060980 AGGTCCCGCTTCTAGCCAG 61.061 63.158 0.00 0.00 38.18 4.85
469 581 1.847328 TGTAATGGAGTCTGGAGCGA 58.153 50.000 0.00 0.00 0.00 4.93
487 599 2.864097 GCGATTCAGTGTGTCTGTCAGT 60.864 50.000 0.00 0.00 43.97 3.41
554 684 5.855395 AGTCTTTCGACACAGTACGTTATTC 59.145 40.000 0.00 0.00 42.73 1.75
555 685 4.847757 TCTTTCGACACAGTACGTTATTCG 59.152 41.667 0.00 0.00 46.00 3.34
557 687 2.095819 TCGACACAGTACGTTATTCGCA 60.096 45.455 0.00 0.00 44.19 5.10
559 689 4.030366 CGACACAGTACGTTATTCGCATA 58.970 43.478 0.00 0.00 44.19 3.14
560 690 4.673761 CGACACAGTACGTTATTCGCATAT 59.326 41.667 0.00 0.00 44.19 1.78
561 691 5.386019 CGACACAGTACGTTATTCGCATATG 60.386 44.000 0.00 0.00 44.19 1.78
562 692 5.345702 ACACAGTACGTTATTCGCATATGT 58.654 37.500 4.29 0.00 44.19 2.29
563 693 5.231357 ACACAGTACGTTATTCGCATATGTG 59.769 40.000 10.11 10.11 42.70 3.21
564 694 5.231357 CACAGTACGTTATTCGCATATGTGT 59.769 40.000 15.62 0.55 44.19 3.72
565 695 5.231357 ACAGTACGTTATTCGCATATGTGTG 59.769 40.000 15.62 5.57 44.19 3.82
566 696 5.231357 CAGTACGTTATTCGCATATGTGTGT 59.769 40.000 15.62 8.42 44.19 3.72
567 697 4.514545 ACGTTATTCGCATATGTGTGTG 57.485 40.909 15.62 4.63 44.19 3.82
568 698 3.930229 ACGTTATTCGCATATGTGTGTGT 59.070 39.130 15.62 5.18 44.19 3.72
569 699 4.201676 ACGTTATTCGCATATGTGTGTGTG 60.202 41.667 15.62 6.03 44.19 3.82
570 700 4.201676 CGTTATTCGCATATGTGTGTGTGT 60.202 41.667 15.62 0.90 37.16 3.72
571 701 3.745332 ATTCGCATATGTGTGTGTGTG 57.255 42.857 15.62 0.00 37.16 3.82
572 702 2.162319 TCGCATATGTGTGTGTGTGT 57.838 45.000 15.62 0.00 37.16 3.72
573 703 1.797635 TCGCATATGTGTGTGTGTGTG 59.202 47.619 15.62 0.00 37.16 3.82
583 713 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
598 728 3.882288 TGTGTGTGTGTATTGCTGTGAAT 59.118 39.130 0.00 0.00 0.00 2.57
680 810 1.508088 CCAGCGCCAAGGAAATGTC 59.492 57.895 2.29 0.00 0.00 3.06
691 821 0.681243 GGAAATGTCAGGACCCAGGC 60.681 60.000 0.00 0.00 0.00 4.85
804 3455 6.812656 GTCTCTGGAGATATGCATACATCTTG 59.187 42.308 8.99 5.41 39.97 3.02
805 3456 5.485620 TCTGGAGATATGCATACATCTTGC 58.514 41.667 8.99 0.00 37.74 4.01
809 3460 3.434641 AGATATGCATACATCTTGCGTGC 59.565 43.478 8.99 0.00 43.10 5.34
815 3466 1.847818 TACATCTTGCGTGCCGATAC 58.152 50.000 0.00 0.00 0.00 2.24
850 3501 2.470781 CGAAACGCAGATTGAACTCGAC 60.471 50.000 0.00 0.00 0.00 4.20
853 3504 0.716108 CGCAGATTGAACTCGACCAC 59.284 55.000 0.00 0.00 0.00 4.16
854 3505 1.079503 GCAGATTGAACTCGACCACC 58.920 55.000 0.00 0.00 0.00 4.61
909 3560 2.553602 CCGCTGATATAAGCATGGCAAA 59.446 45.455 12.74 0.00 43.73 3.68
910 3561 3.365666 CCGCTGATATAAGCATGGCAAAG 60.366 47.826 12.74 0.00 43.73 2.77
911 3562 3.572584 GCTGATATAAGCATGGCAAAGC 58.427 45.455 7.24 7.15 43.01 3.51
956 3607 3.533105 ACGACACCGCCACTGTGA 61.533 61.111 9.86 0.00 39.95 3.58
957 3608 2.734723 CGACACCGCCACTGTGAG 60.735 66.667 9.86 2.83 37.18 3.51
987 3648 0.304705 CACTCACTTGCACGTGGTTC 59.695 55.000 21.71 0.59 35.63 3.62
1055 3716 4.039357 GGTGCTGTGCTGCTGCTG 62.039 66.667 17.00 0.77 41.79 4.41
1056 3717 4.702081 GTGCTGTGCTGCTGCTGC 62.702 66.667 22.51 22.51 41.79 5.25
1057 3718 4.949098 TGCTGTGCTGCTGCTGCT 62.949 61.111 27.67 0.00 41.79 4.24
1058 3719 4.406173 GCTGTGCTGCTGCTGCTG 62.406 66.667 27.67 16.73 40.48 4.41
1283 3970 1.154225 GCTCGCCGTTGGTTTGATG 60.154 57.895 0.00 0.00 0.00 3.07
1988 4706 3.119291 CAGCAACGATCTGGATGAGTAC 58.881 50.000 0.00 0.00 0.00 2.73
1998 4716 0.882042 GGATGAGTACGGCTGCATGG 60.882 60.000 0.50 0.00 0.00 3.66
2182 4907 2.559698 TCTTTTTCTGCCATCCGACA 57.440 45.000 0.00 0.00 0.00 4.35
2196 4961 4.359706 CATCCGACAAGTACATGAATCGA 58.640 43.478 11.33 0.00 0.00 3.59
2226 4993 8.535335 GGTTCATAGCCATATCTGATTAGAAGA 58.465 37.037 0.00 0.00 36.32 2.87
2229 4996 9.319060 TCATAGCCATATCTGATTAGAAGAGTT 57.681 33.333 0.00 0.00 36.32 3.01
2230 4998 9.585099 CATAGCCATATCTGATTAGAAGAGTTC 57.415 37.037 0.00 0.00 36.32 3.01
2233 5007 6.368516 GCCATATCTGATTAGAAGAGTTCAGC 59.631 42.308 0.00 0.00 36.32 4.26
2357 5150 0.242017 GTGGCACCAGCAAGATTGTC 59.758 55.000 6.29 0.00 44.61 3.18
2438 5232 0.743097 GAATCCATGCCACAGAAGCC 59.257 55.000 0.00 0.00 0.00 4.35
2463 5257 5.628193 GCAAACAATATCATAGCATCTGCAC 59.372 40.000 4.79 0.00 45.16 4.57
2515 5309 2.979813 CCGATCTTTCAAAACTTTGCCG 59.020 45.455 0.00 0.00 38.05 5.69
2538 5332 1.983691 CATGACCCCATAGCCTGATCT 59.016 52.381 0.00 0.00 0.00 2.75
2540 5334 1.221523 TGACCCCATAGCCTGATCTCT 59.778 52.381 0.00 0.00 0.00 3.10
2541 5335 1.622811 GACCCCATAGCCTGATCTCTG 59.377 57.143 0.00 0.00 0.00 3.35
2542 5336 1.221523 ACCCCATAGCCTGATCTCTGA 59.778 52.381 0.00 0.00 0.00 3.27
2543 5337 2.158035 ACCCCATAGCCTGATCTCTGAT 60.158 50.000 0.00 0.00 0.00 2.90
2544 5338 2.500910 CCCCATAGCCTGATCTCTGATC 59.499 54.545 0.00 0.98 0.00 2.92
2545 5339 3.171528 CCCATAGCCTGATCTCTGATCA 58.828 50.000 9.50 9.50 0.00 2.92
2546 5340 3.581770 CCCATAGCCTGATCTCTGATCAA 59.418 47.826 10.83 0.00 0.00 2.57
2569 5363 7.600375 TCAAAGCACAAGTTTACTCAGAGATAG 59.400 37.037 3.79 0.00 0.00 2.08
2582 5377 5.213891 TCAGAGATAGTGTTGCTCAAACA 57.786 39.130 0.00 0.00 46.66 2.83
2656 5528 5.422012 TGCTGACACCAGATTACTCATTCTA 59.578 40.000 0.00 0.00 43.02 2.10
2722 5606 9.701098 CTTTGTAGTAAGTGTGTCCTGTTATAA 57.299 33.333 0.00 0.00 0.00 0.98
2732 5616 8.833493 AGTGTGTCCTGTTATAAACTTGTTTAC 58.167 33.333 7.95 0.48 0.00 2.01
2879 6367 5.243507 TCACCAAACATAACATCAAGCACAT 59.756 36.000 0.00 0.00 0.00 3.21
2916 6404 7.498570 ACAAGATCTGAGAAATGGAGATAAAGC 59.501 37.037 0.00 0.00 0.00 3.51
2970 6466 3.804325 AGACGGCACATAATTCAGAATCG 59.196 43.478 0.00 0.00 0.00 3.34
2974 6470 4.224433 GGCACATAATTCAGAATCGCATG 58.776 43.478 0.00 3.88 0.00 4.06
2975 6471 4.224433 GCACATAATTCAGAATCGCATGG 58.776 43.478 13.17 6.76 0.00 3.66
3079 6947 4.040217 CCAAAATGAGTTCACCAAATCCCA 59.960 41.667 0.00 0.00 0.00 4.37
3080 6948 5.280113 CCAAAATGAGTTCACCAAATCCCAT 60.280 40.000 0.00 0.00 0.00 4.00
3081 6949 5.410355 AAATGAGTTCACCAAATCCCATG 57.590 39.130 0.00 0.00 0.00 3.66
3082 6950 2.806434 TGAGTTCACCAAATCCCATGG 58.194 47.619 4.14 4.14 43.84 3.66
3084 6952 0.536724 GTTCACCAAATCCCATGGGC 59.463 55.000 27.41 3.73 42.48 5.36
3090 7313 2.648808 ACCAAATCCCATGGGCAAAAAT 59.351 40.909 27.41 11.23 42.48 1.82
3273 7522 6.899393 ACTGGAAGACAAAATTAGCATCAA 57.101 33.333 0.00 0.00 37.43 2.57
3338 7595 2.894765 TCCATAGGAACAGACGACACAA 59.105 45.455 0.00 0.00 0.00 3.33
3373 7638 1.711060 AAACACAAGCACCCGACACG 61.711 55.000 0.00 0.00 0.00 4.49
3421 7689 2.029623 ACTACGGTACCCAGCAGTATG 58.970 52.381 6.25 0.21 40.87 2.39
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 80 4.483476 AATGACTGTTGCTCGTTAAACC 57.517 40.909 0.00 0.00 0.00 3.27
327 381 1.979308 TGGATAACTTTGTCCGGGTCA 59.021 47.619 0.00 0.00 40.93 4.02
333 387 2.749621 CAGGTGCTGGATAACTTTGTCC 59.250 50.000 0.00 0.00 38.77 4.02
370 424 3.659786 ACAAATGTGGAGAATTCGTCGA 58.340 40.909 0.00 0.00 0.00 4.20
371 425 4.387559 TGTACAAATGTGGAGAATTCGTCG 59.612 41.667 0.00 0.00 0.00 5.12
372 426 5.408604 ACTGTACAAATGTGGAGAATTCGTC 59.591 40.000 0.00 0.00 0.00 4.20
373 427 5.179368 CACTGTACAAATGTGGAGAATTCGT 59.821 40.000 5.96 0.00 0.00 3.85
374 428 5.408299 TCACTGTACAAATGTGGAGAATTCG 59.592 40.000 12.31 0.00 33.04 3.34
375 429 6.128172 CCTCACTGTACAAATGTGGAGAATTC 60.128 42.308 17.27 0.00 33.04 2.17
376 430 5.707298 CCTCACTGTACAAATGTGGAGAATT 59.293 40.000 17.27 0.00 33.04 2.17
377 431 5.248640 CCTCACTGTACAAATGTGGAGAAT 58.751 41.667 17.27 0.00 33.04 2.40
388 451 0.685097 GGACCTGCCTCACTGTACAA 59.315 55.000 0.00 0.00 0.00 2.41
400 463 2.202946 GCTAGAAGCGGGACCTGC 60.203 66.667 18.27 18.27 0.00 4.85
420 488 4.516698 AGGCAGTACAATGTAGCATAATGC 59.483 41.667 6.91 2.58 45.46 3.56
433 545 5.703592 CCATTACAAGTTACAGGCAGTACAA 59.296 40.000 0.00 0.00 30.91 2.41
440 552 4.631813 CAGACTCCATTACAAGTTACAGGC 59.368 45.833 0.00 0.00 0.00 4.85
554 684 1.530720 ACACACACACACACATATGCG 59.469 47.619 1.58 0.00 0.00 4.73
555 685 2.290367 ACACACACACACACACATATGC 59.710 45.455 1.58 0.00 0.00 3.14
557 687 3.312146 CACACACACACACACACACATAT 59.688 43.478 0.00 0.00 0.00 1.78
559 689 1.468127 CACACACACACACACACACAT 59.532 47.619 0.00 0.00 0.00 3.21
560 690 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
561 691 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
562 692 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
563 693 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
564 694 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
565 695 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
566 696 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
567 697 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
568 698 2.457366 TACACACACACACACACACA 57.543 45.000 0.00 0.00 0.00 3.72
569 699 3.679725 CAATACACACACACACACACAC 58.320 45.455 0.00 0.00 0.00 3.82
570 700 2.096657 GCAATACACACACACACACACA 59.903 45.455 0.00 0.00 0.00 3.72
571 701 2.354510 AGCAATACACACACACACACAC 59.645 45.455 0.00 0.00 0.00 3.82
572 702 2.354199 CAGCAATACACACACACACACA 59.646 45.455 0.00 0.00 0.00 3.72
573 703 2.354510 ACAGCAATACACACACACACAC 59.645 45.455 0.00 0.00 0.00 3.82
583 713 5.520288 ACACGAGATATTCACAGCAATACAC 59.480 40.000 0.00 0.00 0.00 2.90
598 728 4.279922 TGACAAGAAGTTCCACACGAGATA 59.720 41.667 0.00 0.00 0.00 1.98
736 882 4.303853 CGATGGCTCGGTTCTACG 57.696 61.111 0.00 0.00 41.27 3.51
809 3460 4.546570 TCGAAACTGCAGATATGTATCGG 58.453 43.478 23.35 0.05 37.76 4.18
815 3466 3.181521 TGCGTTTCGAAACTGCAGATATG 60.182 43.478 34.78 21.44 40.58 1.78
850 3501 3.041940 GGTTGCGTCTCGTGGTGG 61.042 66.667 0.00 0.00 0.00 4.61
853 3504 0.165944 GATTTGGTTGCGTCTCGTGG 59.834 55.000 0.00 0.00 0.00 4.94
854 3505 1.126846 GAGATTTGGTTGCGTCTCGTG 59.873 52.381 0.00 0.00 0.00 4.35
894 3545 4.038402 GGACAAGCTTTGCCATGCTTATAT 59.962 41.667 10.13 0.89 46.29 0.86
909 3560 3.165160 AAGACGGCGTGGACAAGCT 62.165 57.895 21.19 2.60 36.09 3.74
910 3561 2.665185 AAGACGGCGTGGACAAGC 60.665 61.111 21.19 0.00 35.05 4.01
911 3562 2.954753 GCAAGACGGCGTGGACAAG 61.955 63.158 21.19 1.90 0.00 3.16
913 3564 4.228567 TGCAAGACGGCGTGGACA 62.229 61.111 21.19 7.47 36.28 4.02
976 3637 2.280797 GGAGCAGAACCACGTGCA 60.281 61.111 10.91 0.00 42.47 4.57
987 3648 2.506061 CCTCATCTCGGGGGAGCAG 61.506 68.421 0.00 0.00 0.00 4.24
1230 3891 3.890147 ACCTACCTATGAAGTCGATGACC 59.110 47.826 0.00 0.00 32.18 4.02
1260 3927 3.927163 AACCAACGGCGAGCGTAGG 62.927 63.158 16.62 8.16 0.00 3.18
1261 3928 2.025418 AAACCAACGGCGAGCGTAG 61.025 57.895 16.62 0.00 0.00 3.51
1264 3931 2.677003 ATCAAACCAACGGCGAGCG 61.677 57.895 16.62 1.56 0.00 5.03
1265 3932 1.154225 CATCAAACCAACGGCGAGC 60.154 57.895 16.62 0.00 0.00 5.03
1283 3970 3.489785 CGTCAAGCCGTCAGAATTATACC 59.510 47.826 0.00 0.00 0.00 2.73
1726 4419 2.062519 GAAGAGTTCGCTTGACACTCC 58.937 52.381 0.00 0.00 38.17 3.85
1943 4661 1.975327 TGGAAGCTCCACGAGGAAG 59.025 57.895 2.41 0.00 42.67 3.46
1988 4706 1.137404 GTAACTTGCCATGCAGCCG 59.863 57.895 0.00 0.00 40.61 5.52
1998 4716 0.725117 ACCGCGCTATTGTAACTTGC 59.275 50.000 5.56 0.00 0.00 4.01
2182 4907 7.630242 ATGAACCAAATCGATTCATGTACTT 57.370 32.000 11.83 0.00 40.65 2.24
2196 4961 9.458727 CTAATCAGATATGGCTATGAACCAAAT 57.541 33.333 0.00 0.00 41.49 2.32
2230 4998 2.549754 CAACCACCTTTCAGTAGTGCTG 59.450 50.000 1.12 1.12 46.34 4.41
2233 5007 2.158667 ACCCAACCACCTTTCAGTAGTG 60.159 50.000 0.00 0.00 0.00 2.74
2241 5015 2.999185 ATCATCACCCAACCACCTTT 57.001 45.000 0.00 0.00 0.00 3.11
2438 5232 4.849926 GCAGATGCTATGATATTGTTTGCG 59.150 41.667 0.00 0.00 38.21 4.85
2463 5257 2.946329 ACGAGTAGTAGCCACTCATCAG 59.054 50.000 0.00 0.00 42.12 2.90
2476 5270 2.092753 TCGGAAGGTGGATACGAGTAGT 60.093 50.000 0.00 0.00 42.51 2.73
2538 5332 6.054941 TGAGTAAACTTGTGCTTTGATCAGA 58.945 36.000 0.00 0.00 0.00 3.27
2540 5334 6.054941 TCTGAGTAAACTTGTGCTTTGATCA 58.945 36.000 0.00 0.00 0.00 2.92
2541 5335 6.425114 TCTCTGAGTAAACTTGTGCTTTGATC 59.575 38.462 4.32 0.00 0.00 2.92
2542 5336 6.291377 TCTCTGAGTAAACTTGTGCTTTGAT 58.709 36.000 4.32 0.00 0.00 2.57
2543 5337 5.670485 TCTCTGAGTAAACTTGTGCTTTGA 58.330 37.500 4.32 0.00 0.00 2.69
2544 5338 5.991328 TCTCTGAGTAAACTTGTGCTTTG 57.009 39.130 4.32 0.00 0.00 2.77
2545 5339 7.386299 CACTATCTCTGAGTAAACTTGTGCTTT 59.614 37.037 4.32 0.00 0.00 3.51
2546 5340 6.870965 CACTATCTCTGAGTAAACTTGTGCTT 59.129 38.462 4.32 0.00 0.00 3.91
2569 5363 5.173131 CGGAATAACTTTGTTTGAGCAACAC 59.827 40.000 0.00 0.00 45.54 3.32
2582 5377 6.170506 TGTTATCTGACAGCGGAATAACTTT 58.829 36.000 18.36 0.00 31.68 2.66
2590 5385 0.824109 CCCTGTTATCTGACAGCGGA 59.176 55.000 0.00 0.00 44.45 5.54
2722 5606 5.413213 TGGTGCATTATAGCGTAAACAAGTT 59.587 36.000 0.00 0.00 37.31 2.66
2732 5616 4.058124 ACATGTAGTGGTGCATTATAGCG 58.942 43.478 0.00 0.00 37.31 4.26
2916 6404 2.719739 ACTTGCAATGGATCTGGTCTG 58.280 47.619 0.00 0.00 0.00 3.51
2975 6471 1.026718 AAGGTGAAGCGGCTACATGC 61.027 55.000 1.35 0.00 41.94 4.06
3079 6947 7.675062 TGTGTTATTCTGTTATTTTTGCCCAT 58.325 30.769 0.00 0.00 0.00 4.00
3080 6948 7.055667 TGTGTTATTCTGTTATTTTTGCCCA 57.944 32.000 0.00 0.00 0.00 5.36
3081 6949 6.090763 GCTGTGTTATTCTGTTATTTTTGCCC 59.909 38.462 0.00 0.00 0.00 5.36
3082 6950 6.090763 GGCTGTGTTATTCTGTTATTTTTGCC 59.909 38.462 0.00 0.00 0.00 4.52
3084 6952 7.116233 GGTGGCTGTGTTATTCTGTTATTTTTG 59.884 37.037 0.00 0.00 0.00 2.44
3090 7313 4.069304 GTGGTGGCTGTGTTATTCTGTTA 58.931 43.478 0.00 0.00 0.00 2.41
3179 7406 1.317613 TGGTGTTGCAGTGATGGAAC 58.682 50.000 5.77 5.77 39.97 3.62
3273 7522 5.047164 TGGCAATGCAAGTTCAGTTATCATT 60.047 36.000 7.79 0.00 0.00 2.57
3289 7545 3.252400 TGTTCGAATGAAATGGCAATGC 58.748 40.909 0.00 0.00 35.46 3.56
3338 7595 5.843673 TGTGTTTGTTGGTGTTGATATGT 57.156 34.783 0.00 0.00 0.00 2.29
3373 7638 2.159184 TCTTGTCTCGTGATCTGGATGC 60.159 50.000 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.