Multiple sequence alignment - TraesCS7A01G568600

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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 TraesCS7A01G568600 chr7A 100.000 2291 0 0 1 2291 736419257 736416967 0.000000e+00 4231.0
1 TraesCS7A01G568600 chr7A 89.574 681 53 10 1613 2291 520599082 520598418 0.000000e+00 848.0
2 TraesCS7A01G568600 chr7A 88.841 690 60 13 1614 2291 607076583 607075899 0.000000e+00 832.0
3 TraesCS7A01G568600 chr7A 99.265 136 1 0 1403 1538 736417723 736417588 1.760000e-61 246.0
4 TraesCS7A01G568600 chr7A 99.265 136 1 0 1535 1670 736417855 736417720 1.760000e-61 246.0
5 TraesCS7A01G568600 chr7A 93.548 62 3 1 1478 1538 552534249 552534310 8.720000e-15 91.6
6 TraesCS7A01G568600 chr4A 91.304 782 29 18 1 746 534834175 534833397 0.000000e+00 1031.0
7 TraesCS7A01G568600 chr4A 91.176 136 11 1 777 912 534832455 534832321 1.400000e-42 183.0
8 TraesCS7A01G568600 chr4A 96.552 58 2 0 1479 1536 11290717 11290774 1.870000e-16 97.1
9 TraesCS7A01G568600 chr4A 94.828 58 3 0 1479 1536 628841389 628841446 8.720000e-15 91.6
10 TraesCS7A01G568600 chr4A 97.222 36 1 0 744 779 534832524 534832489 6.830000e-06 62.1
11 TraesCS7A01G568600 chr2B 91.154 780 32 6 1 746 90291054 90290278 0.000000e+00 1024.0
12 TraesCS7A01G568600 chr2B 87.593 403 11 13 363 746 446124423 446124041 4.520000e-117 431.0
13 TraesCS7A01G568600 chr2B 89.625 347 8 13 1 329 446124763 446124427 1.270000e-112 416.0
14 TraesCS7A01G568600 chr2B 82.474 388 39 16 367 737 6127805 6128180 1.710000e-81 313.0
15 TraesCS7A01G568600 chr2B 89.781 137 14 0 776 912 90289348 90289212 2.340000e-40 176.0
16 TraesCS7A01G568600 chr3A 90.793 782 33 18 1 746 80099189 80098411 0.000000e+00 1009.0
17 TraesCS7A01G568600 chr3A 93.068 678 37 4 1614 2291 542624870 542625537 0.000000e+00 983.0
18 TraesCS7A01G568600 chr3A 90.065 775 34 19 1 735 5953911 5954682 0.000000e+00 965.0
19 TraesCS7A01G568600 chr3A 89.548 775 35 19 1 735 5916553 5917321 0.000000e+00 941.0
20 TraesCS7A01G568600 chr3A 90.351 684 58 6 1611 2291 5687854 5688532 0.000000e+00 891.0
21 TraesCS7A01G568600 chr3A 90.337 683 54 9 1614 2291 15079440 15080115 0.000000e+00 885.0
22 TraesCS7A01G568600 chr3A 88.797 607 25 18 1 567 5885812 5886415 0.000000e+00 704.0
23 TraesCS7A01G568600 chr3A 93.382 136 8 1 777 912 80097465 80097331 1.390000e-47 200.0
24 TraesCS7A01G568600 chr3A 96.000 75 3 0 2217 2291 466783538 466783464 3.090000e-24 122.0
25 TraesCS7A01G568600 chr3A 96.429 56 2 0 1481 1536 70111268 70111213 2.420000e-15 93.5
26 TraesCS7A01G568600 chr3A 97.222 36 1 0 744 779 80097531 80097496 6.830000e-06 62.1
27 TraesCS7A01G568600 chr3D 91.084 729 16 9 1 694 500198211 500198925 0.000000e+00 941.0
28 TraesCS7A01G568600 chr3D 83.679 386 40 14 367 737 612707618 612707241 2.180000e-90 342.0
29 TraesCS7A01G568600 chr3D 91.489 141 12 0 776 916 500205149 500205289 6.460000e-46 195.0
30 TraesCS7A01G568600 chr3D 97.183 71 2 0 676 746 500204143 500204213 1.110000e-23 121.0
31 TraesCS7A01G568600 chr3D 97.222 36 1 0 744 779 500205084 500205119 6.830000e-06 62.1
32 TraesCS7A01G568600 chr7B 90.351 684 51 10 1614 2291 23311603 23312277 0.000000e+00 883.0
33 TraesCS7A01G568600 chr7B 88.614 404 7 13 362 746 616742131 616741748 2.680000e-124 455.0
34 TraesCS7A01G568600 chr7B 87.310 394 24 7 914 1292 727529563 727529945 5.850000e-116 427.0
35 TraesCS7A01G568600 chr7B 88.571 350 12 13 1 332 616742470 616742131 1.280000e-107 399.0
36 TraesCS7A01G568600 chr7B 89.873 79 1 3 1535 1613 727530126 727530197 6.740000e-16 95.3
37 TraesCS7A01G568600 chr2A 89.840 689 56 8 1606 2291 9964900 9964223 0.000000e+00 872.0
38 TraesCS7A01G568600 chr2A 89.644 618 28 14 151 735 733144873 733145487 0.000000e+00 754.0
39 TraesCS7A01G568600 chr2A 93.750 144 5 2 2152 2291 741795276 741795133 1.780000e-51 213.0
40 TraesCS7A01G568600 chr6A 92.763 608 33 8 1613 2216 571653870 571654470 0.000000e+00 869.0
41 TraesCS7A01G568600 chr6A 91.009 456 24 11 910 1356 540845500 540845053 1.170000e-167 599.0
42 TraesCS7A01G568600 chr6A 91.538 130 3 3 1357 1481 540845003 540844877 3.030000e-39 172.0
43 TraesCS7A01G568600 chr6A 92.857 70 2 2 1544 1613 540844943 540844877 5.210000e-17 99.0
44 TraesCS7A01G568600 chr6A 95.082 61 3 0 1478 1538 20518505 20518445 1.870000e-16 97.1
45 TraesCS7A01G568600 chr2D 88.921 686 61 8 1612 2291 17575155 17575831 0.000000e+00 832.0
46 TraesCS7A01G568600 chr7D 93.317 404 4 5 934 1324 632028058 632028451 1.970000e-160 575.0
47 TraesCS7A01G568600 chr7D 92.188 128 1 5 1357 1481 632028541 632028662 3.030000e-39 172.0
48 TraesCS7A01G568600 chr7D 92.683 82 0 3 1535 1613 632028584 632028662 1.860000e-21 113.0
49 TraesCS7A01G568600 chr5B 87.624 404 11 13 362 746 446444882 446444499 1.260000e-117 433.0
50 TraesCS7A01G568600 chr5B 88.571 350 12 13 1 332 446445221 446444882 1.280000e-107 399.0
51 TraesCS7A01G568600 chr5A 83.602 372 28 14 84 427 510256391 510256025 3.670000e-83 318.0
52 TraesCS7A01G568600 chr5A 88.839 224 20 3 527 746 510255863 510255641 1.040000e-68 270.0
53 TraesCS7A01G568600 chr3B 81.701 388 40 20 367 737 260144559 260144186 6.190000e-76 294.0
54 TraesCS7A01G568600 chr3B 94.828 58 3 0 1481 1538 753962321 753962264 8.720000e-15 91.6
55 TraesCS7A01G568600 chrUn 96.491 57 2 0 1480 1536 1156900 1156844 6.740000e-16 95.3
56 TraesCS7A01G568600 chr1A 94.915 59 3 0 1480 1538 583511079 583511021 2.420000e-15 93.5


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 TraesCS7A01G568600 chr7A 736416967 736419257 2290 True 1574.333333 4231 99.510000 1 2291 3 chr7A.!!$R3 2290
1 TraesCS7A01G568600 chr7A 520598418 520599082 664 True 848.000000 848 89.574000 1613 2291 1 chr7A.!!$R1 678
2 TraesCS7A01G568600 chr7A 607075899 607076583 684 True 832.000000 832 88.841000 1614 2291 1 chr7A.!!$R2 677
3 TraesCS7A01G568600 chr4A 534832321 534834175 1854 True 425.366667 1031 93.234000 1 912 3 chr4A.!!$R1 911
4 TraesCS7A01G568600 chr2B 90289212 90291054 1842 True 600.000000 1024 90.467500 1 912 2 chr2B.!!$R1 911
5 TraesCS7A01G568600 chr2B 446124041 446124763 722 True 423.500000 431 88.609000 1 746 2 chr2B.!!$R2 745
6 TraesCS7A01G568600 chr3A 542624870 542625537 667 False 983.000000 983 93.068000 1614 2291 1 chr3A.!!$F6 677
7 TraesCS7A01G568600 chr3A 5953911 5954682 771 False 965.000000 965 90.065000 1 735 1 chr3A.!!$F4 734
8 TraesCS7A01G568600 chr3A 5916553 5917321 768 False 941.000000 941 89.548000 1 735 1 chr3A.!!$F3 734
9 TraesCS7A01G568600 chr3A 5687854 5688532 678 False 891.000000 891 90.351000 1611 2291 1 chr3A.!!$F1 680
10 TraesCS7A01G568600 chr3A 15079440 15080115 675 False 885.000000 885 90.337000 1614 2291 1 chr3A.!!$F5 677
11 TraesCS7A01G568600 chr3A 5885812 5886415 603 False 704.000000 704 88.797000 1 567 1 chr3A.!!$F2 566
12 TraesCS7A01G568600 chr3A 80097331 80099189 1858 True 423.700000 1009 93.799000 1 912 3 chr3A.!!$R3 911
13 TraesCS7A01G568600 chr3D 500198211 500198925 714 False 941.000000 941 91.084000 1 694 1 chr3D.!!$F1 693
14 TraesCS7A01G568600 chr7B 23311603 23312277 674 False 883.000000 883 90.351000 1614 2291 1 chr7B.!!$F1 677
15 TraesCS7A01G568600 chr7B 616741748 616742470 722 True 427.000000 455 88.592500 1 746 2 chr7B.!!$R1 745
16 TraesCS7A01G568600 chr7B 727529563 727530197 634 False 261.150000 427 88.591500 914 1613 2 chr7B.!!$F2 699
17 TraesCS7A01G568600 chr2A 9964223 9964900 677 True 872.000000 872 89.840000 1606 2291 1 chr2A.!!$R1 685
18 TraesCS7A01G568600 chr2A 733144873 733145487 614 False 754.000000 754 89.644000 151 735 1 chr2A.!!$F1 584
19 TraesCS7A01G568600 chr6A 571653870 571654470 600 False 869.000000 869 92.763000 1613 2216 1 chr6A.!!$F1 603
20 TraesCS7A01G568600 chr6A 540844877 540845500 623 True 290.000000 599 91.801333 910 1613 3 chr6A.!!$R2 703
21 TraesCS7A01G568600 chr2D 17575155 17575831 676 False 832.000000 832 88.921000 1612 2291 1 chr2D.!!$F1 679
22 TraesCS7A01G568600 chr7D 632028058 632028662 604 False 286.666667 575 92.729333 934 1613 3 chr7D.!!$F1 679
23 TraesCS7A01G568600 chr5B 446444499 446445221 722 True 416.000000 433 88.097500 1 746 2 chr5B.!!$R1 745
24 TraesCS7A01G568600 chr5A 510255641 510256391 750 True 294.000000 318 86.220500 84 746 2 chr5A.!!$R1 662

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
546 648 2.034053 GGTGAACCGCAGTTTTGATTCA 59.966 45.455 0.0 0.0 35.94 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1512 2676 0.251073 GGCACTAAAGGCCCTTACGA 59.749 55.0 0.0 0.0 45.87 3.43 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
254 284 3.798650 CTTTGGCGCCGCGATGAA 61.799 61.111 23.90 6.19 0.00 2.57
397 427 7.435068 TTTGAGTTCTTTTACCAGCAGATAC 57.565 36.000 0.00 0.00 0.00 2.24
481 572 6.681729 ACCTTTGTGACCAGTAAAGATAGA 57.318 37.500 0.00 0.00 34.23 1.98
493 584 6.259608 CCAGTAAAGATAGACAGGAAGCAATG 59.740 42.308 0.00 0.00 0.00 2.82
546 648 2.034053 GGTGAACCGCAGTTTTGATTCA 59.966 45.455 0.00 0.00 35.94 2.57
618 720 3.793144 GAAACCTGCAGCTCGCGG 61.793 66.667 8.66 9.28 46.97 6.46
845 1878 3.198872 TCACACGTGTCATGCTAACAAA 58.801 40.909 20.49 0.00 0.00 2.83
886 1919 8.348285 TCCAGAAAAACCAGATAAATCGAATT 57.652 30.769 0.00 0.00 0.00 2.17
969 2006 2.584498 AGGAAGGAAGGAAGGAATGCAT 59.416 45.455 0.00 0.00 0.00 3.96
1025 2063 1.961180 CTCCCGGCTTCAAGGATCGT 61.961 60.000 0.00 0.00 0.00 3.73
1026 2064 1.521681 CCCGGCTTCAAGGATCGTC 60.522 63.158 0.00 0.00 0.00 4.20
1185 2250 2.150014 ATTACGGCTGCCCCTTTGGT 62.150 55.000 14.12 6.49 36.04 3.67
1324 2393 3.854669 CCTTCATCGCCCGCTCCT 61.855 66.667 0.00 0.00 0.00 3.69
1329 2398 1.524621 CATCGCCCGCTCCTTCAAT 60.525 57.895 0.00 0.00 0.00 2.57
1347 2459 0.468214 ATTGGAGCTCCTCGATCGGA 60.468 55.000 32.28 7.74 36.82 4.55
1348 2460 0.468214 TTGGAGCTCCTCGATCGGAT 60.468 55.000 32.28 0.00 36.82 4.18
1349 2461 0.891449 TGGAGCTCCTCGATCGGATC 60.891 60.000 32.28 7.95 36.82 3.36
1350 2462 0.891449 GGAGCTCCTCGATCGGATCA 60.891 60.000 26.25 4.71 31.43 2.92
1351 2463 0.521291 GAGCTCCTCGATCGGATCAG 59.479 60.000 16.41 12.80 31.43 2.90
1352 2464 1.080839 GCTCCTCGATCGGATCAGC 60.081 63.158 16.41 13.98 31.43 4.26
1353 2465 1.208870 CTCCTCGATCGGATCAGCG 59.791 63.158 16.41 5.13 31.43 5.18
1354 2466 1.511318 CTCCTCGATCGGATCAGCGT 61.511 60.000 16.41 0.00 31.43 5.07
1355 2467 1.081774 CCTCGATCGGATCAGCGTC 60.082 63.158 16.41 0.00 0.00 5.19
1397 2561 8.096414 TGCATGTATGTATGTGCTTATGTATCT 58.904 33.333 0.00 0.00 38.37 1.98
1398 2562 8.385858 GCATGTATGTATGTGCTTATGTATCTG 58.614 37.037 0.00 0.00 34.85 2.90
1399 2563 9.428097 CATGTATGTATGTGCTTATGTATCTGT 57.572 33.333 0.00 0.00 0.00 3.41
1432 2596 7.101652 AGCGTGAAGATGTTATATCGGATAT 57.898 36.000 14.50 14.50 0.00 1.63
1433 2597 8.221965 AGCGTGAAGATGTTATATCGGATATA 57.778 34.615 12.58 12.58 0.00 0.86
1434 2598 8.851145 AGCGTGAAGATGTTATATCGGATATAT 58.149 33.333 16.32 5.26 0.00 0.86
1495 2659 7.130917 ACGTATGCTATCACTAGTAGAAAACG 58.869 38.462 3.59 3.51 0.00 3.60
1496 2660 6.577800 CGTATGCTATCACTAGTAGAAAACGG 59.422 42.308 3.59 0.00 0.00 4.44
1497 2661 6.710597 ATGCTATCACTAGTAGAAAACGGA 57.289 37.500 3.59 0.00 0.00 4.69
1498 2662 6.132791 TGCTATCACTAGTAGAAAACGGAG 57.867 41.667 3.59 0.00 0.00 4.63
1514 2678 4.394099 ACGGAGTTTTAAAACCGATTCG 57.606 40.909 27.33 21.05 46.94 3.34
1515 2679 3.809279 ACGGAGTTTTAAAACCGATTCGT 59.191 39.130 27.33 21.57 46.94 3.85
1516 2680 4.987912 ACGGAGTTTTAAAACCGATTCGTA 59.012 37.500 27.33 0.00 46.94 3.43
1517 2681 5.465056 ACGGAGTTTTAAAACCGATTCGTAA 59.535 36.000 27.33 0.00 46.94 3.18
1518 2682 6.011277 CGGAGTTTTAAAACCGATTCGTAAG 58.989 40.000 24.06 7.07 46.94 2.34
1519 2683 6.309436 GGAGTTTTAAAACCGATTCGTAAGG 58.691 40.000 24.06 0.00 39.71 2.69
1520 2684 6.245115 AGTTTTAAAACCGATTCGTAAGGG 57.755 37.500 24.06 0.00 39.71 3.95
1521 2685 4.683501 TTTAAAACCGATTCGTAAGGGC 57.316 40.909 5.20 0.00 38.47 5.19
1522 2686 1.456296 AAAACCGATTCGTAAGGGCC 58.544 50.000 5.20 0.00 38.47 5.80
1523 2687 0.616891 AAACCGATTCGTAAGGGCCT 59.383 50.000 0.00 0.00 38.47 5.19
1524 2688 0.616891 AACCGATTCGTAAGGGCCTT 59.383 50.000 24.44 24.44 38.47 4.35
1525 2689 0.616891 ACCGATTCGTAAGGGCCTTT 59.383 50.000 26.29 5.43 38.47 3.11
1526 2690 1.832998 ACCGATTCGTAAGGGCCTTTA 59.167 47.619 26.29 2.60 38.47 1.85
1527 2691 2.159000 ACCGATTCGTAAGGGCCTTTAG 60.159 50.000 26.29 18.30 38.47 1.85
1528 2692 2.159000 CCGATTCGTAAGGGCCTTTAGT 60.159 50.000 26.29 7.38 38.47 2.24
1529 2693 2.864343 CGATTCGTAAGGGCCTTTAGTG 59.136 50.000 26.29 11.88 38.47 2.74
1530 2694 2.103537 TTCGTAAGGGCCTTTAGTGC 57.896 50.000 26.29 1.99 38.47 4.40
1700 2872 2.092323 CTAAAGGGTGGGCACTAAAGC 58.908 52.381 0.00 0.00 0.00 3.51
1728 2900 1.185315 CCCCTTTAGTACCGGTTCGA 58.815 55.000 15.04 0.00 0.00 3.71
1920 3115 2.999355 CCTCTCTTAACTGCTCAAGTGC 59.001 50.000 0.00 0.00 39.81 4.40
2001 3200 2.086869 GCCTGAGCATGCTTAACTTCA 58.913 47.619 23.61 13.12 39.53 3.02
2032 3231 1.916181 CCCCCTACATTCCAAGTCTGT 59.084 52.381 0.00 0.00 0.00 3.41
2082 3281 5.370880 AGCTGTCAATCCTATTAACCCTCAT 59.629 40.000 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
251 281 8.441312 AAAATCTTTACAAGGAAGTACGTTCA 57.559 30.769 0.00 0.00 36.82 3.18
254 284 7.387122 GGAGAAAATCTTTACAAGGAAGTACGT 59.613 37.037 0.00 0.00 0.00 3.57
256 286 7.664318 TGGGAGAAAATCTTTACAAGGAAGTAC 59.336 37.037 0.00 0.00 0.00 2.73
257 287 7.751646 TGGGAGAAAATCTTTACAAGGAAGTA 58.248 34.615 0.00 0.00 0.00 2.24
481 572 3.618351 CCTCTGATTCATTGCTTCCTGT 58.382 45.455 0.00 0.00 0.00 4.00
493 584 1.590259 GCGTCGAGCCCTCTGATTC 60.590 63.158 0.00 0.00 40.81 2.52
546 648 5.485353 TCCACTTGATTTATGTCAGGAGTCT 59.515 40.000 0.00 0.00 0.00 3.24
618 720 5.248640 TCCTCCAATTCTCAGATTTGTGTC 58.751 41.667 8.20 0.00 0.00 3.67
886 1919 5.778542 ACTAAGAAGACTAGGCCCATAAGA 58.221 41.667 0.00 0.00 0.00 2.10
891 1924 8.621073 TCATATATACTAAGAAGACTAGGCCCA 58.379 37.037 0.00 0.00 0.00 5.36
1025 2063 4.419957 CGCTCACGACGACGACGA 62.420 66.667 25.15 8.94 43.93 4.20
1236 2301 3.118775 TGAGGACATGGACGGTATTCTTG 60.119 47.826 0.00 0.00 0.00 3.02
1324 2393 2.481969 CGATCGAGGAGCTCCAATTGAA 60.482 50.000 33.90 13.41 38.89 2.69
1329 2398 0.468214 ATCCGATCGAGGAGCTCCAA 60.468 55.000 33.90 19.17 44.55 3.53
1347 2459 1.613925 ACATAGCATACGGACGCTGAT 59.386 47.619 0.00 0.00 39.30 2.90
1348 2460 1.029681 ACATAGCATACGGACGCTGA 58.970 50.000 0.00 0.00 39.30 4.26
1349 2461 1.131771 CACATAGCATACGGACGCTG 58.868 55.000 0.00 0.00 39.30 5.18
1350 2462 0.744874 ACACATAGCATACGGACGCT 59.255 50.000 0.00 0.00 42.34 5.07
1351 2463 2.410785 TACACATAGCATACGGACGC 57.589 50.000 0.00 0.00 0.00 5.19
1352 2464 2.661675 GCATACACATAGCATACGGACG 59.338 50.000 0.00 0.00 0.00 4.79
1353 2465 3.649073 TGCATACACATAGCATACGGAC 58.351 45.455 0.00 0.00 32.55 4.79
1354 2466 4.244862 CATGCATACACATAGCATACGGA 58.755 43.478 0.00 0.00 46.39 4.69
1355 2467 3.996363 ACATGCATACACATAGCATACGG 59.004 43.478 0.00 0.00 46.39 4.02
1397 2561 7.609760 AACATCTTCACGCTTGATAAATACA 57.390 32.000 0.00 0.00 0.00 2.29
1469 2633 8.278408 CGTTTTCTACTAGTGATAGCATACGTA 58.722 37.037 5.39 0.00 0.00 3.57
1470 2634 7.130917 CGTTTTCTACTAGTGATAGCATACGT 58.869 38.462 5.39 0.00 0.00 3.57
1471 2635 6.577800 CCGTTTTCTACTAGTGATAGCATACG 59.422 42.308 5.39 3.07 0.00 3.06
1472 2636 7.646314 TCCGTTTTCTACTAGTGATAGCATAC 58.354 38.462 5.39 0.00 0.00 2.39
1473 2637 7.501559 ACTCCGTTTTCTACTAGTGATAGCATA 59.498 37.037 5.39 0.00 0.00 3.14
1474 2638 6.321690 ACTCCGTTTTCTACTAGTGATAGCAT 59.678 38.462 5.39 0.00 0.00 3.79
1475 2639 5.651139 ACTCCGTTTTCTACTAGTGATAGCA 59.349 40.000 5.39 0.00 0.00 3.49
1476 2640 6.134040 ACTCCGTTTTCTACTAGTGATAGC 57.866 41.667 5.39 0.00 0.00 2.97
1477 2641 8.983307 AAAACTCCGTTTTCTACTAGTGATAG 57.017 34.615 5.39 0.00 41.11 2.08
1479 2643 9.768662 TTTAAAACTCCGTTTTCTACTAGTGAT 57.231 29.630 5.39 0.00 43.43 3.06
1480 2644 9.598517 TTTTAAAACTCCGTTTTCTACTAGTGA 57.401 29.630 5.39 0.00 43.43 3.41
1481 2645 9.642312 GTTTTAAAACTCCGTTTTCTACTAGTG 57.358 33.333 21.27 0.00 43.43 2.74
1482 2646 8.830580 GGTTTTAAAACTCCGTTTTCTACTAGT 58.169 33.333 25.89 0.00 43.43 2.57
1483 2647 8.006027 CGGTTTTAAAACTCCGTTTTCTACTAG 58.994 37.037 25.89 0.00 43.43 2.57
1484 2648 7.708752 TCGGTTTTAAAACTCCGTTTTCTACTA 59.291 33.333 25.89 5.02 43.43 1.82
1485 2649 6.538381 TCGGTTTTAAAACTCCGTTTTCTACT 59.462 34.615 25.89 0.00 43.43 2.57
1486 2650 6.714492 TCGGTTTTAAAACTCCGTTTTCTAC 58.286 36.000 25.89 7.91 43.43 2.59
1487 2651 6.917217 TCGGTTTTAAAACTCCGTTTTCTA 57.083 33.333 25.89 6.82 43.43 2.10
1488 2652 5.816449 TCGGTTTTAAAACTCCGTTTTCT 57.184 34.783 25.89 0.00 43.43 2.52
1489 2653 6.129639 CGAATCGGTTTTAAAACTCCGTTTTC 60.130 38.462 25.89 23.23 43.43 2.29
1490 2654 5.682422 CGAATCGGTTTTAAAACTCCGTTTT 59.318 36.000 25.89 19.26 45.80 2.43
1491 2655 5.207033 CGAATCGGTTTTAAAACTCCGTTT 58.793 37.500 25.89 21.87 42.95 3.60
1492 2656 4.273235 ACGAATCGGTTTTAAAACTCCGTT 59.727 37.500 25.89 18.35 42.95 4.44
1493 2657 3.809279 ACGAATCGGTTTTAAAACTCCGT 59.191 39.130 25.89 22.24 42.95 4.69
1494 2658 4.394099 ACGAATCGGTTTTAAAACTCCG 57.606 40.909 25.89 22.27 43.65 4.63
1495 2659 6.309436 CCTTACGAATCGGTTTTAAAACTCC 58.691 40.000 25.89 12.95 38.89 3.85
1496 2660 6.309436 CCCTTACGAATCGGTTTTAAAACTC 58.691 40.000 25.89 16.37 38.89 3.01
1497 2661 5.335113 GCCCTTACGAATCGGTTTTAAAACT 60.335 40.000 25.89 10.12 38.89 2.66
1498 2662 4.853196 GCCCTTACGAATCGGTTTTAAAAC 59.147 41.667 20.58 20.58 38.17 2.43
1499 2663 4.082841 GGCCCTTACGAATCGGTTTTAAAA 60.083 41.667 7.80 0.00 0.00 1.52
1500 2664 3.439825 GGCCCTTACGAATCGGTTTTAAA 59.560 43.478 7.80 0.00 0.00 1.52
1501 2665 3.009026 GGCCCTTACGAATCGGTTTTAA 58.991 45.455 7.80 0.00 0.00 1.52
1502 2666 2.236893 AGGCCCTTACGAATCGGTTTTA 59.763 45.455 7.80 0.00 0.00 1.52
1503 2667 1.003928 AGGCCCTTACGAATCGGTTTT 59.996 47.619 7.80 0.00 0.00 2.43
1504 2668 0.616891 AGGCCCTTACGAATCGGTTT 59.383 50.000 7.80 0.00 0.00 3.27
1505 2669 0.616891 AAGGCCCTTACGAATCGGTT 59.383 50.000 7.80 0.00 0.00 4.44
1506 2670 0.616891 AAAGGCCCTTACGAATCGGT 59.383 50.000 7.80 0.00 0.00 4.69
1507 2671 2.159000 ACTAAAGGCCCTTACGAATCGG 60.159 50.000 7.80 0.00 0.00 4.18
1508 2672 2.864343 CACTAAAGGCCCTTACGAATCG 59.136 50.000 0.00 0.00 0.00 3.34
1509 2673 2.612672 GCACTAAAGGCCCTTACGAATC 59.387 50.000 0.00 0.00 0.00 2.52
1510 2674 2.640184 GCACTAAAGGCCCTTACGAAT 58.360 47.619 0.00 0.00 0.00 3.34
1511 2675 1.339342 GGCACTAAAGGCCCTTACGAA 60.339 52.381 0.00 0.00 45.87 3.85
1512 2676 0.251073 GGCACTAAAGGCCCTTACGA 59.749 55.000 0.00 0.00 45.87 3.43
1513 2677 2.776659 GGCACTAAAGGCCCTTACG 58.223 57.895 0.00 0.00 45.87 3.18
1520 2684 3.181496 GCTTGATAACAGGCACTAAAGGC 60.181 47.826 2.04 0.00 46.17 4.35
1521 2685 4.622701 GCTTGATAACAGGCACTAAAGG 57.377 45.455 2.04 0.00 46.17 3.11
1529 2693 2.346803 TCTTCACGCTTGATAACAGGC 58.653 47.619 0.00 0.00 44.01 4.85
1530 2694 3.935203 ACATCTTCACGCTTGATAACAGG 59.065 43.478 0.00 0.00 0.00 4.00
1531 2695 5.536554 AACATCTTCACGCTTGATAACAG 57.463 39.130 0.00 0.00 0.00 3.16
1532 2696 8.887036 ATATAACATCTTCACGCTTGATAACA 57.113 30.769 0.00 0.00 0.00 2.41
1533 2697 8.156553 CGATATAACATCTTCACGCTTGATAAC 58.843 37.037 0.00 0.00 0.00 1.89
1631 2803 4.082841 GGCCCTTACGAATCGGTTTTAAAA 60.083 41.667 7.80 0.00 0.00 1.52
1728 2900 3.927163 CTTTAGCGCCGGTCCGTGT 62.927 63.158 11.06 0.00 0.00 4.49
1920 3115 2.032549 GCGATTTGGAATGAGTGATCCG 60.033 50.000 0.00 0.00 38.63 4.18
2001 3200 4.908481 GGAATGTAGGGGGAATAGAACTCT 59.092 45.833 0.00 0.00 0.00 3.24
2032 3231 5.359576 ACATTTGTCAGGAAAGCAACAAGTA 59.640 36.000 0.00 0.00 33.54 2.24
2041 3240 5.239306 TGACAGCTTACATTTGTCAGGAAAG 59.761 40.000 2.68 0.00 44.39 2.62
2082 3281 5.165961 ACCTAATGCTCAAGCTAAACTGA 57.834 39.130 3.32 0.00 42.66 3.41


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

AutoCloner maintained by Alex Coulton.