Multiple sequence alignment - TraesCS2B01G126200

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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 TraesCS2B01G126200 chr2B 100.000 3149 0 0 1 3149 94225982 94222834 0.000000e+00 5816.0
1 TraesCS2B01G126200 chr2B 93.020 2235 91 24 1 2198 94035362 94033156 0.000000e+00 3203.0
2 TraesCS2B01G126200 chr2B 86.578 2034 168 54 237 2201 93111185 93113182 0.000000e+00 2146.0
3 TraesCS2B01G126200 chr2B 88.872 1285 108 20 943 2201 93440449 93441724 0.000000e+00 1548.0
4 TraesCS2B01G126200 chr2B 88.798 366 37 3 2401 2764 558262623 558262986 2.230000e-121 446.0
5 TraesCS2B01G126200 chr2B 81.342 477 69 15 1028 1497 93139344 93138881 1.380000e-98 370.0
6 TraesCS2B01G126200 chr2B 81.432 377 31 23 237 595 93426195 93426550 4.000000e-69 272.0
7 TraesCS2B01G126200 chr2B 80.184 217 40 3 1011 1225 93934592 93934377 3.250000e-35 159.0
8 TraesCS2B01G126200 chr2B 85.841 113 8 3 657 769 93438934 93439038 2.570000e-21 113.0
9 TraesCS2B01G126200 chr2B 79.720 143 19 6 41 173 93425917 93426059 9.300000e-16 95.3
10 TraesCS2B01G126200 chr2D 95.103 2226 63 8 1 2201 60139954 60137750 0.000000e+00 3465.0
11 TraesCS2B01G126200 chr2D 86.007 2051 161 68 237 2201 59726304 59728314 0.000000e+00 2082.0
12 TraesCS2B01G126200 chr2D 86.823 683 51 25 840 1506 59845410 59846069 0.000000e+00 726.0
13 TraesCS2B01G126200 chr2D 76.433 785 145 28 1381 2149 60166910 60166150 3.810000e-104 388.0
14 TraesCS2B01G126200 chr2D 84.890 364 27 11 237 581 59838204 59838558 3.010000e-90 342.0
15 TraesCS2B01G126200 chr2D 77.547 579 112 14 1577 2149 59724897 59725463 1.810000e-87 333.0
16 TraesCS2B01G126200 chr2D 76.140 570 97 25 1583 2125 60108139 60107582 2.410000e-66 263.0
17 TraesCS2B01G126200 chr2D 89.231 65 6 1 870 933 60108893 60108829 2.600000e-11 80.5
18 TraesCS2B01G126200 chr2A 90.111 1436 94 26 776 2201 60712018 60710621 0.000000e+00 1821.0
19 TraesCS2B01G126200 chr2A 86.833 881 62 23 709 1548 59723189 59724056 0.000000e+00 935.0
20 TraesCS2B01G126200 chr2A 91.982 661 47 3 1542 2201 59724410 59725065 0.000000e+00 922.0
21 TraesCS2B01G126200 chr2A 88.045 619 28 9 1 595 60712853 60712257 0.000000e+00 691.0
22 TraesCS2B01G126200 chr2A 91.892 481 31 3 1721 2201 60249051 60248579 0.000000e+00 665.0
23 TraesCS2B01G126200 chr2A 75.924 785 149 28 1381 2149 60760168 60759408 1.780000e-97 366.0
24 TraesCS2B01G126200 chr2A 78.783 575 95 18 1583 2136 60609197 60608629 8.300000e-96 361.0
25 TraesCS2B01G126200 chr2A 78.374 578 96 20 1583 2138 60195178 60194608 6.460000e-92 348.0
26 TraesCS2B01G126200 chr2A 76.937 568 108 14 1590 2138 60176970 60176407 5.100000e-78 302.0
27 TraesCS2B01G126200 chr2A 83.402 241 18 7 237 455 59721272 59721512 1.480000e-48 204.0
28 TraesCS2B01G126200 chr2A 82.629 213 31 5 1011 1220 60195804 60195595 1.930000e-42 183.0
29 TraesCS2B01G126200 chr2A 81.761 159 17 4 2258 2405 60710615 60710458 4.270000e-24 122.0
30 TraesCS2B01G126200 chr2A 81.132 159 18 4 2258 2405 60248573 60248416 1.980000e-22 117.0
31 TraesCS2B01G126200 chr2A 83.206 131 8 8 458 584 59721677 59721797 1.190000e-19 108.0
32 TraesCS2B01G126200 chr7B 83.248 782 79 16 2402 3146 508181710 508182476 0.000000e+00 671.0
33 TraesCS2B01G126200 chr7B 80.531 678 90 21 2402 3048 659712616 659713282 1.700000e-132 483.0
34 TraesCS2B01G126200 chr7B 84.739 249 28 8 2904 3148 113889028 113888786 1.130000e-59 241.0
35 TraesCS2B01G126200 chr7A 82.581 775 93 22 2402 3146 163361688 163362450 0.000000e+00 645.0
36 TraesCS2B01G126200 chr7A 80.315 381 58 10 2771 3146 86149613 86149981 4.000000e-69 272.0
37 TraesCS2B01G126200 chr7A 84.921 126 14 4 2772 2894 662745089 662744966 4.270000e-24 122.0
38 TraesCS2B01G126200 chr1D 81.303 706 83 24 2481 3149 212707428 212706735 7.740000e-146 527.0
39 TraesCS2B01G126200 chr1D 76.749 443 74 17 1705 2125 247859522 247859087 1.470000e-53 220.0
40 TraesCS2B01G126200 chr7D 79.416 753 103 27 2431 3147 333732962 333732226 4.720000e-133 484.0
41 TraesCS2B01G126200 chr3B 83.977 518 50 9 2398 2887 810525776 810526288 1.710000e-127 466.0
42 TraesCS2B01G126200 chr3B 87.887 388 39 8 2389 2770 687589565 687589180 1.720000e-122 449.0
43 TraesCS2B01G126200 chr3B 88.533 375 35 8 2402 2770 192027735 192027363 6.200000e-122 448.0
44 TraesCS2B01G126200 chr5B 89.617 366 32 5 2402 2764 307882727 307883089 7.960000e-126 460.0
45 TraesCS2B01G126200 chr1A 89.617 366 33 5 2402 2764 461786285 461786648 7.960000e-126 460.0
46 TraesCS2B01G126200 chr1A 76.014 567 101 20 1584 2125 299267823 299268379 8.660000e-66 261.0
47 TraesCS2B01G126200 chr1B 89.344 366 35 4 2407 2770 61260585 61260222 1.030000e-124 457.0
48 TraesCS2B01G126200 chr1B 73.555 571 120 27 1576 2125 329764633 329765193 4.150000e-44 189.0
49 TraesCS2B01G126200 chr4A 87.990 383 39 6 2384 2764 732389431 732389808 2.230000e-121 446.0
50 TraesCS2B01G126200 chr6A 76.614 697 111 31 2488 3146 23406807 23407489 1.400000e-88 337.0
51 TraesCS2B01G126200 chr4B 76.430 577 126 9 1569 2141 664052254 664052824 1.420000e-78 303.0
52 TraesCS2B01G126200 chr4B 86.250 240 27 6 2904 3141 434654039 434654274 4.030000e-64 255.0
53 TraesCS2B01G126200 chr4B 81.191 319 42 9 2835 3146 132204969 132205276 1.130000e-59 241.0
54 TraesCS2B01G126200 chr4B 80.938 320 41 13 2835 3146 132187614 132187921 5.250000e-58 235.0
55 TraesCS2B01G126200 chr6B 80.319 376 53 8 2771 3146 693041353 693041707 6.700000e-67 265.0
56 TraesCS2B01G126200 chr6B 84.375 256 28 10 2896 3147 251554551 251554798 1.130000e-59 241.0
57 TraesCS2B01G126200 chr6B 84.677 248 29 8 2904 3147 251553775 251554017 4.060000e-59 239.0
58 TraesCS2B01G126200 chr3A 82.792 308 29 8 2771 3076 638849638 638849353 1.450000e-63 254.0
59 TraesCS2B01G126200 chr3A 76.582 316 50 12 2772 3073 677835661 677835356 5.440000e-33 152.0
60 TraesCS2B01G126200 chrUn 83.254 209 32 2 1011 1216 109056655 109056863 4.150000e-44 189.0


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 TraesCS2B01G126200 chr2B 94222834 94225982 3148 True 5816.00 5816 100.00000 1 3149 1 chr2B.!!$R4 3148
1 TraesCS2B01G126200 chr2B 94033156 94035362 2206 True 3203.00 3203 93.02000 1 2198 1 chr2B.!!$R3 2197
2 TraesCS2B01G126200 chr2B 93111185 93113182 1997 False 2146.00 2146 86.57800 237 2201 1 chr2B.!!$F1 1964
3 TraesCS2B01G126200 chr2B 93438934 93441724 2790 False 830.50 1548 87.35650 657 2201 2 chr2B.!!$F4 1544
4 TraesCS2B01G126200 chr2D 60137750 60139954 2204 True 3465.00 3465 95.10300 1 2201 1 chr2D.!!$R1 2200
5 TraesCS2B01G126200 chr2D 59724897 59728314 3417 False 1207.50 2082 81.77700 237 2201 2 chr2D.!!$F3 1964
6 TraesCS2B01G126200 chr2D 59845410 59846069 659 False 726.00 726 86.82300 840 1506 1 chr2D.!!$F2 666
7 TraesCS2B01G126200 chr2D 60166150 60166910 760 True 388.00 388 76.43300 1381 2149 1 chr2D.!!$R2 768
8 TraesCS2B01G126200 chr2A 60710458 60712853 2395 True 878.00 1821 86.63900 1 2405 3 chr2A.!!$R6 2404
9 TraesCS2B01G126200 chr2A 59721272 59725065 3793 False 542.25 935 86.35575 237 2201 4 chr2A.!!$F1 1964
10 TraesCS2B01G126200 chr2A 60248416 60249051 635 True 391.00 665 86.51200 1721 2405 2 chr2A.!!$R5 684
11 TraesCS2B01G126200 chr2A 60759408 60760168 760 True 366.00 366 75.92400 1381 2149 1 chr2A.!!$R3 768
12 TraesCS2B01G126200 chr2A 60608629 60609197 568 True 361.00 361 78.78300 1583 2136 1 chr2A.!!$R2 553
13 TraesCS2B01G126200 chr2A 60176407 60176970 563 True 302.00 302 76.93700 1590 2138 1 chr2A.!!$R1 548
14 TraesCS2B01G126200 chr2A 60194608 60195804 1196 True 265.50 348 80.50150 1011 2138 2 chr2A.!!$R4 1127
15 TraesCS2B01G126200 chr7B 508181710 508182476 766 False 671.00 671 83.24800 2402 3146 1 chr7B.!!$F1 744
16 TraesCS2B01G126200 chr7B 659712616 659713282 666 False 483.00 483 80.53100 2402 3048 1 chr7B.!!$F2 646
17 TraesCS2B01G126200 chr7A 163361688 163362450 762 False 645.00 645 82.58100 2402 3146 1 chr7A.!!$F2 744
18 TraesCS2B01G126200 chr1D 212706735 212707428 693 True 527.00 527 81.30300 2481 3149 1 chr1D.!!$R1 668
19 TraesCS2B01G126200 chr7D 333732226 333732962 736 True 484.00 484 79.41600 2431 3147 1 chr7D.!!$R1 716
20 TraesCS2B01G126200 chr3B 810525776 810526288 512 False 466.00 466 83.97700 2398 2887 1 chr3B.!!$F1 489
21 TraesCS2B01G126200 chr1A 299267823 299268379 556 False 261.00 261 76.01400 1584 2125 1 chr1A.!!$F1 541
22 TraesCS2B01G126200 chr6A 23406807 23407489 682 False 337.00 337 76.61400 2488 3146 1 chr6A.!!$F1 658
23 TraesCS2B01G126200 chr4B 664052254 664052824 570 False 303.00 303 76.43000 1569 2141 1 chr4B.!!$F4 572
24 TraesCS2B01G126200 chr6B 251553775 251554798 1023 False 240.00 241 84.52600 2896 3147 2 chr6B.!!$F2 251

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
740 3421 0.601558 GTCGCCTGAATATCCCGCTA 59.398 55.0 0.0 0.0 0.0 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2251 6711 0.321298 GGTCCAAGAAAGCGTGCCTA 60.321 55.0 0.0 0.0 0.0 3.93 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
43 44 1.857217 CGACTAGACACATGCTGCATC 59.143 52.381 13.10 2.14 0.00 3.91
205 207 8.511321 TCGGTCCACATGCATTATTATTAATTC 58.489 33.333 0.00 0.00 0.00 2.17
327 1504 2.772930 ACCCCAACCCTCTTATCCTAC 58.227 52.381 0.00 0.00 0.00 3.18
383 1578 2.200170 GATTTGCACGACCAGCCACC 62.200 60.000 0.00 0.00 0.00 4.61
515 1878 2.030412 CCACGTAGGTGCACTGCA 59.970 61.111 17.98 0.00 43.00 4.41
644 2043 6.481954 CTCACCCATGAGTTAGTACAAAAC 57.518 41.667 0.00 0.00 46.39 2.43
740 3421 0.601558 GTCGCCTGAATATCCCGCTA 59.398 55.000 0.00 0.00 0.00 4.26
769 3520 9.884465 GATTGTGACTTTGCAGTATTATATTCC 57.116 33.333 0.00 0.00 31.22 3.01
770 3521 9.632638 ATTGTGACTTTGCAGTATTATATTCCT 57.367 29.630 0.00 0.00 31.22 3.36
771 3522 9.461312 TTGTGACTTTGCAGTATTATATTCCTT 57.539 29.630 0.00 0.00 31.22 3.36
772 3523 8.892723 TGTGACTTTGCAGTATTATATTCCTTG 58.107 33.333 0.00 0.00 31.22 3.61
819 3592 3.066380 GAGGAAAAATTTGCACGCCAAT 58.934 40.909 0.00 0.00 32.49 3.16
1451 5497 3.753434 CAGACCGTCTCCTGCGCT 61.753 66.667 9.73 0.00 0.00 5.92
1515 5561 0.401738 ACCTCCAACCTGTGTCATGG 59.598 55.000 0.00 0.00 0.00 3.66
1559 5970 2.446435 GCTAATTTGCTCACCCTGGAA 58.554 47.619 4.53 0.00 0.00 3.53
1698 6134 0.820482 TCGACCTCGTCAACCTCACA 60.820 55.000 0.00 0.00 40.80 3.58
1779 6215 3.640407 ATCGGGCAGGCACAGTGT 61.640 61.111 1.61 0.00 0.00 3.55
2150 6610 3.950395 AGCTGCTCCAAGGTGAATTAATC 59.050 43.478 0.00 0.00 0.00 1.75
2152 6612 4.191544 CTGCTCCAAGGTGAATTAATCGA 58.808 43.478 0.00 0.00 0.00 3.59
2154 6614 4.576053 TGCTCCAAGGTGAATTAATCGATG 59.424 41.667 0.00 0.00 0.00 3.84
2202 6662 4.800554 GGCTAGCAACGGCCATAT 57.199 55.556 18.24 0.00 46.84 1.78
2205 6665 2.711542 GGCTAGCAACGGCCATATTAT 58.288 47.619 18.24 0.00 46.84 1.28
2206 6666 3.869065 GGCTAGCAACGGCCATATTATA 58.131 45.455 18.24 0.00 46.84 0.98
2207 6667 4.451900 GGCTAGCAACGGCCATATTATAT 58.548 43.478 18.24 0.00 46.84 0.86
2208 6668 5.607477 GGCTAGCAACGGCCATATTATATA 58.393 41.667 18.24 0.00 46.84 0.86
2209 6669 6.231211 GGCTAGCAACGGCCATATTATATAT 58.769 40.000 18.24 0.00 46.84 0.86
2210 6670 7.383687 GGCTAGCAACGGCCATATTATATATA 58.616 38.462 18.24 0.00 46.84 0.86
2211 6671 7.876068 GGCTAGCAACGGCCATATTATATATAA 59.124 37.037 18.24 7.62 46.84 0.98
2212 6672 8.709646 GCTAGCAACGGCCATATTATATATAAC 58.290 37.037 10.63 0.00 42.56 1.89
2213 6673 9.758651 CTAGCAACGGCCATATTATATATAACA 57.241 33.333 7.34 0.00 42.56 2.41
2215 6675 9.273016 AGCAACGGCCATATTATATATAACATC 57.727 33.333 7.34 0.00 42.56 3.06
2216 6676 9.051679 GCAACGGCCATATTATATATAACATCA 57.948 33.333 7.34 0.00 0.00 3.07
2256 6716 5.372343 ACAATCCATGATGTACTTAGGCA 57.628 39.130 0.00 0.00 0.00 4.75
2286 6746 4.846779 TGGACCATAAGCTTGTGAAAAC 57.153 40.909 23.29 11.29 0.00 2.43
2288 6748 4.278170 TGGACCATAAGCTTGTGAAAACAG 59.722 41.667 23.29 8.75 0.00 3.16
2290 6750 3.005791 ACCATAAGCTTGTGAAAACAGGC 59.994 43.478 23.29 4.94 42.12 4.85
2297 6757 5.580911 GCTTGTGAAAACAGGCTTATTTG 57.419 39.130 5.79 0.00 39.27 2.32
2298 6758 5.049828 GCTTGTGAAAACAGGCTTATTTGT 58.950 37.500 5.79 0.00 39.27 2.83
2299 6759 5.523552 GCTTGTGAAAACAGGCTTATTTGTT 59.476 36.000 5.79 0.00 39.27 2.83
2300 6760 6.699642 GCTTGTGAAAACAGGCTTATTTGTTA 59.300 34.615 5.79 0.00 39.27 2.41
2301 6761 7.384932 GCTTGTGAAAACAGGCTTATTTGTTAT 59.615 33.333 5.79 0.00 39.27 1.89
2302 6762 9.906660 CTTGTGAAAACAGGCTTATTTGTTATA 57.093 29.630 0.00 0.00 36.56 0.98
2321 6781 9.733556 TTGTTATATATGTATGTCAATGGTCCC 57.266 33.333 0.00 0.00 0.00 4.46
2359 6825 3.244976 GCCATGTGTTGCAACTATCAAC 58.755 45.455 28.61 18.58 42.91 3.18
2365 6831 2.480037 TGTTGCAACTATCAACGAGCAG 59.520 45.455 28.61 0.00 44.88 4.24
2371 6842 4.398247 CAACTATCAACGAGCAGCTTTTC 58.602 43.478 0.00 0.00 0.00 2.29
2385 6856 5.586243 AGCAGCTTTTCGTGATGTATAACAT 59.414 36.000 0.00 0.00 42.43 2.71
2429 6900 1.020333 TATGCCCGTGCGTTACAACC 61.020 55.000 0.00 0.00 41.78 3.77
2445 6920 4.993029 ACAACCGGAGAAAAACAATCAA 57.007 36.364 9.46 0.00 0.00 2.57
2542 7022 8.147704 TGTCATTTCACAAACTATGTCTGAGTA 58.852 33.333 0.00 0.00 41.46 2.59
2620 7105 5.188434 GGTCTCATCATGACTTGATTTCCA 58.812 41.667 0.00 0.00 42.62 3.53
2624 7109 7.120285 GTCTCATCATGACTTGATTTCCAAAGA 59.880 37.037 0.00 0.00 42.62 2.52
2677 7162 1.492176 CTACATTGATGGACCCCTGCT 59.508 52.381 0.00 0.00 0.00 4.24
2746 7231 5.336134 GCGGTGTTTTCCATAACCAGTAAAT 60.336 40.000 0.00 0.00 32.69 1.40
2806 7330 5.977489 ACAAAAACTAACCCATAGGAAGC 57.023 39.130 0.00 0.00 35.81 3.86
2814 7338 2.200081 ACCCATAGGAAGCTGTGTCAT 58.800 47.619 0.00 0.00 36.73 3.06
2887 7414 8.402472 CCATATGCGTGAGGAACTAAATAAAAA 58.598 33.333 0.00 0.00 41.55 1.94
2919 7446 1.201424 ACGACCTCTACAAATCCCCC 58.799 55.000 0.00 0.00 0.00 5.40
2929 7456 4.951094 TCTACAAATCCCCCAATAAAACCG 59.049 41.667 0.00 0.00 0.00 4.44
2930 7457 3.512496 ACAAATCCCCCAATAAAACCGT 58.488 40.909 0.00 0.00 0.00 4.83
2965 7492 8.788806 TGATGGTTCGTTTTGTTCATTACTTAT 58.211 29.630 0.00 0.00 0.00 1.73
3052 7595 9.864034 CCGAATATGTTTTGAATACACTATCAC 57.136 33.333 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
205 207 4.151335 CGTGGACACATTCAGAAGAGAAAG 59.849 45.833 3.12 0.00 0.00 2.62
212 216 2.628178 AGAGACGTGGACACATTCAGAA 59.372 45.455 0.00 0.00 0.00 3.02
327 1504 6.426980 TCTCCATCGTCATTCAAATTTCAG 57.573 37.500 0.00 0.00 0.00 3.02
383 1578 5.694910 AGATTTTTGCTGATTGTTGAAGCAG 59.305 36.000 0.00 0.00 46.82 4.24
393 1588 3.167485 TGGGCTGAGATTTTTGCTGATT 58.833 40.909 0.00 0.00 0.00 2.57
644 2043 1.813896 CTTGACGTGTGTGCAGTTTG 58.186 50.000 0.00 0.00 0.00 2.93
684 2089 2.175878 ATGATAGGGCATTCGAGCAC 57.824 50.000 0.00 0.00 38.51 4.40
769 3520 0.526096 GCCGTTATGGTGCATGCAAG 60.526 55.000 24.58 7.74 41.21 4.01
770 3521 1.510383 GCCGTTATGGTGCATGCAA 59.490 52.632 24.58 8.53 41.21 4.08
771 3522 2.413963 GGCCGTTATGGTGCATGCA 61.414 57.895 18.46 18.46 41.21 3.96
772 3523 2.412937 GGCCGTTATGGTGCATGC 59.587 61.111 11.82 11.82 41.21 4.06
819 3592 4.720902 CAGTGCCCACATCCGCCA 62.721 66.667 0.82 0.00 0.00 5.69
1358 5389 1.752501 GCGACATCACGTTCGGGATG 61.753 60.000 28.17 28.17 44.97 3.51
1451 5497 2.571757 GCGACGGTGAGGATGTCA 59.428 61.111 0.00 0.00 32.91 3.58
1515 5561 1.067142 TCTACTTGGTGGTGATCACGC 60.067 52.381 19.33 14.02 46.96 5.34
1564 5975 1.078848 GCACGCACCAGAGGAGAAT 60.079 57.895 0.00 0.00 0.00 2.40
1779 6215 2.894126 GAGTCTGTCCCTGAAGTTCTGA 59.106 50.000 11.06 0.00 0.00 3.27
2175 6635 2.549754 CCGTTGCTAGCCTTATTGATGG 59.450 50.000 13.29 0.88 0.00 3.51
2176 6636 2.031682 GCCGTTGCTAGCCTTATTGATG 60.032 50.000 13.29 0.00 33.53 3.07
2179 6639 0.663153 GGCCGTTGCTAGCCTTATTG 59.337 55.000 13.29 0.00 46.14 1.90
2230 6690 8.825774 TGCCTAAGTACATCATGGATTGTATAT 58.174 33.333 0.00 0.00 0.00 0.86
2231 6691 8.094548 GTGCCTAAGTACATCATGGATTGTATA 58.905 37.037 0.00 0.00 0.00 1.47
2232 6692 6.936900 GTGCCTAAGTACATCATGGATTGTAT 59.063 38.462 0.00 0.00 0.00 2.29
2233 6693 6.288294 GTGCCTAAGTACATCATGGATTGTA 58.712 40.000 0.00 0.00 0.00 2.41
2234 6694 5.126067 GTGCCTAAGTACATCATGGATTGT 58.874 41.667 0.00 0.00 0.00 2.71
2235 6695 4.212004 CGTGCCTAAGTACATCATGGATTG 59.788 45.833 0.00 0.00 0.00 2.67
2236 6696 4.380531 CGTGCCTAAGTACATCATGGATT 58.619 43.478 0.00 0.00 0.00 3.01
2237 6697 3.803715 GCGTGCCTAAGTACATCATGGAT 60.804 47.826 0.00 0.00 0.00 3.41
2238 6698 2.483013 GCGTGCCTAAGTACATCATGGA 60.483 50.000 0.00 0.00 0.00 3.41
2239 6699 1.867233 GCGTGCCTAAGTACATCATGG 59.133 52.381 0.00 0.00 0.00 3.66
2240 6700 2.826428 AGCGTGCCTAAGTACATCATG 58.174 47.619 0.00 0.00 0.00 3.07
2241 6701 3.543680 AAGCGTGCCTAAGTACATCAT 57.456 42.857 0.00 0.00 0.00 2.45
2242 6702 3.056107 AGAAAGCGTGCCTAAGTACATCA 60.056 43.478 0.00 0.00 0.00 3.07
2243 6703 3.522553 AGAAAGCGTGCCTAAGTACATC 58.477 45.455 0.00 0.00 0.00 3.06
2244 6704 3.611766 AGAAAGCGTGCCTAAGTACAT 57.388 42.857 0.00 0.00 0.00 2.29
2245 6705 3.064207 CAAGAAAGCGTGCCTAAGTACA 58.936 45.455 0.00 0.00 0.00 2.90
2246 6706 2.415512 CCAAGAAAGCGTGCCTAAGTAC 59.584 50.000 0.00 0.00 0.00 2.73
2247 6707 2.300723 TCCAAGAAAGCGTGCCTAAGTA 59.699 45.455 0.00 0.00 0.00 2.24
2248 6708 1.071699 TCCAAGAAAGCGTGCCTAAGT 59.928 47.619 0.00 0.00 0.00 2.24
2249 6709 1.464997 GTCCAAGAAAGCGTGCCTAAG 59.535 52.381 0.00 0.00 0.00 2.18
2250 6710 1.519408 GTCCAAGAAAGCGTGCCTAA 58.481 50.000 0.00 0.00 0.00 2.69
2251 6711 0.321298 GGTCCAAGAAAGCGTGCCTA 60.321 55.000 0.00 0.00 0.00 3.93
2252 6712 1.600916 GGTCCAAGAAAGCGTGCCT 60.601 57.895 0.00 0.00 0.00 4.75
2253 6713 1.244019 ATGGTCCAAGAAAGCGTGCC 61.244 55.000 0.00 0.00 0.00 5.01
2254 6714 1.448985 TATGGTCCAAGAAAGCGTGC 58.551 50.000 0.00 0.00 0.00 5.34
2255 6715 2.159517 GCTTATGGTCCAAGAAAGCGTG 60.160 50.000 16.66 0.00 33.91 5.34
2256 6716 2.084546 GCTTATGGTCCAAGAAAGCGT 58.915 47.619 16.66 0.00 33.91 5.07
2296 6756 8.038351 CGGGACCATTGACATACATATATAACA 58.962 37.037 0.00 0.00 0.00 2.41
2297 6757 8.038944 ACGGGACCATTGACATACATATATAAC 58.961 37.037 0.00 0.00 0.00 1.89
2298 6758 8.038351 CACGGGACCATTGACATACATATATAA 58.962 37.037 0.00 0.00 0.00 0.98
2299 6759 7.552459 CACGGGACCATTGACATACATATATA 58.448 38.462 0.00 0.00 0.00 0.86
2300 6760 6.406370 CACGGGACCATTGACATACATATAT 58.594 40.000 0.00 0.00 0.00 0.86
2301 6761 5.789521 CACGGGACCATTGACATACATATA 58.210 41.667 0.00 0.00 0.00 0.86
2302 6762 4.641396 CACGGGACCATTGACATACATAT 58.359 43.478 0.00 0.00 0.00 1.78
2303 6763 3.742954 GCACGGGACCATTGACATACATA 60.743 47.826 0.00 0.00 0.00 2.29
2304 6764 2.917933 CACGGGACCATTGACATACAT 58.082 47.619 0.00 0.00 0.00 2.29
2305 6765 1.677518 GCACGGGACCATTGACATACA 60.678 52.381 0.00 0.00 0.00 2.29
2346 6806 1.464608 GCTGCTCGTTGATAGTTGCAA 59.535 47.619 0.00 0.00 0.00 4.08
2359 6825 0.792640 ACATCACGAAAAGCTGCTCG 59.207 50.000 14.38 14.38 40.87 5.03
2365 6831 8.818057 AGAAGTATGTTATACATCACGAAAAGC 58.182 33.333 6.88 0.00 39.88 3.51
2542 7022 5.447778 AAGTCCCTTCTCATCATGACATT 57.552 39.130 0.00 0.00 0.00 2.71
2620 7105 7.546778 AAAAATATTTTGTTGTGGCGTCTTT 57.453 28.000 14.04 0.00 0.00 2.52
2677 7162 4.141779 ACATCATGCATCAGTCTAGCTCAA 60.142 41.667 0.00 0.00 0.00 3.02
2746 7231 3.572682 CACCGCTATTCTGGTACCATAGA 59.427 47.826 20.56 11.64 36.50 1.98
2892 7419 6.766467 GGGATTTGTAGAGGTCGTTTTATGAT 59.234 38.462 0.00 0.00 0.00 2.45
2893 7420 6.110707 GGGATTTGTAGAGGTCGTTTTATGA 58.889 40.000 0.00 0.00 0.00 2.15
2894 7421 5.296035 GGGGATTTGTAGAGGTCGTTTTATG 59.704 44.000 0.00 0.00 0.00 1.90
2895 7422 5.434408 GGGGATTTGTAGAGGTCGTTTTAT 58.566 41.667 0.00 0.00 0.00 1.40
2896 7423 4.323715 GGGGGATTTGTAGAGGTCGTTTTA 60.324 45.833 0.00 0.00 0.00 1.52
2900 7427 1.201424 GGGGGATTTGTAGAGGTCGT 58.799 55.000 0.00 0.00 0.00 4.34
2919 7446 7.120138 ACCATCACTTAGGTAACGGTTTTATTG 59.880 37.037 0.00 0.00 46.39 1.90
2929 7456 6.017687 ACAAAACGAACCATCACTTAGGTAAC 60.018 38.462 0.00 0.00 37.07 2.50
2930 7457 6.056884 ACAAAACGAACCATCACTTAGGTAA 58.943 36.000 0.00 0.00 37.07 2.85
2965 7492 8.703604 TGTTCACAAAAATTAAAACCGATTCA 57.296 26.923 0.00 0.00 0.00 2.57
3004 7545 8.526667 TCGGGAATTTGAAAACAATATCCATA 57.473 30.769 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.