Multiple sequence alignment - TraesCS4B01G092300

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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 TraesCS4B01G092300 chr4B 100.000 2362 0 0 1 2362 95208836 95206475 0.000000e+00 4362.0
1 TraesCS4B01G092300 chr4B 97.544 2362 57 1 1 2362 84533640 84531280 0.000000e+00 4039.0
2 TraesCS4B01G092300 chr4B 100.000 347 0 0 2528 2874 95206309 95205963 2.410000e-180 641.0
3 TraesCS4B01G092300 chr6B 98.010 2362 47 0 1 2362 153104493 153102132 0.000000e+00 4102.0
4 TraesCS4B01G092300 chr3B 98.172 2024 32 2 340 2362 754317350 754315331 0.000000e+00 3528.0
5 TraesCS4B01G092300 chr3B 97.355 1966 34 3 340 2304 805194262 805192314 0.000000e+00 3326.0
6 TraesCS4B01G092300 chr3B 96.994 1896 56 1 340 2235 215031654 215033548 0.000000e+00 3184.0
7 TraesCS4B01G092300 chr3B 95.698 1813 65 3 435 2235 33475127 33473316 0.000000e+00 2904.0
8 TraesCS4B01G092300 chr3B 99.424 347 2 0 2528 2874 777733255 777733601 5.230000e-177 630.0
9 TraesCS4B01G092300 chr3B 98.847 347 4 0 2528 2874 281521899 281522245 1.130000e-173 619.0
10 TraesCS4B01G092300 chr3B 98.847 347 3 1 2528 2874 632566794 632567139 4.070000e-173 617.0
11 TraesCS4B01G092300 chr3B 98.847 347 3 1 2528 2874 632567046 632567391 4.070000e-173 617.0
12 TraesCS4B01G092300 chr3B 98.847 347 3 1 2528 2874 632567298 632567643 4.070000e-173 617.0
13 TraesCS4B01G092300 chr3B 98.847 347 3 1 2528 2874 632567550 632567895 4.070000e-173 617.0
14 TraesCS4B01G092300 chr3B 98.847 347 3 1 2528 2874 632567802 632568147 4.070000e-173 617.0
15 TraesCS4B01G092300 chr3B 99.565 230 1 0 2133 2362 805191073 805190844 1.230000e-113 420.0
16 TraesCS4B01G092300 chr3B 98.276 232 3 1 2132 2362 777733689 777733920 3.450000e-109 405.0
17 TraesCS4B01G092300 chr3B 100.000 150 0 0 2213 2362 33473590 33473441 7.840000e-71 278.0
18 TraesCS4B01G092300 chr7B 97.099 1896 49 1 340 2235 707919796 707917907 0.000000e+00 3192.0
19 TraesCS4B01G092300 chr7B 94.795 730 23 3 1525 2254 417040700 417039986 0.000000e+00 1123.0
20 TraesCS4B01G092300 chr7B 98.667 150 2 0 2213 2362 707918181 707918032 1.700000e-67 267.0
21 TraesCS4B01G092300 chr7B 97.333 150 4 0 2213 2362 417040279 417040130 3.670000e-64 255.0
22 TraesCS4B01G092300 chr4A 97.287 1880 34 2 340 2219 714493929 714495791 0.000000e+00 3173.0
23 TraesCS4B01G092300 chr4A 99.135 347 3 0 2528 2874 659589977 659589631 2.430000e-175 625.0
24 TraesCS4B01G092300 chr4A 98.847 347 4 0 2528 2874 659589472 659589126 1.130000e-173 619.0
25 TraesCS4B01G092300 chr5B 95.852 1760 46 3 1 1739 599398363 599396610 0.000000e+00 2820.0
26 TraesCS4B01G092300 chr1B 97.343 1543 41 0 3 1545 197864463 197862921 0.000000e+00 2623.0
27 TraesCS4B01G092300 chr1B 98.200 1500 26 1 864 2362 345662879 345661380 0.000000e+00 2619.0
28 TraesCS4B01G092300 chr1B 93.179 1598 69 19 299 1892 229730364 229731925 0.000000e+00 2311.0
29 TraesCS4B01G092300 chr2B 94.834 542 24 1 395 936 14359387 14358850 0.000000e+00 843.0
30 TraesCS4B01G092300 chr2B 98.374 246 3 1 2118 2362 474131217 474130972 5.690000e-117 431.0
31 TraesCS4B01G092300 chr2B 98.000 150 3 0 2213 2362 474132798 474132649 7.900000e-66 261.0
32 TraesCS4B01G092300 chr2B 98.837 86 1 0 2277 2362 474132367 474132282 1.380000e-33 154.0
33 TraesCS4B01G092300 chr3A 96.321 299 11 0 3 301 329751913 329752211 2.570000e-135 492.0
34 TraesCS4B01G092300 chr2A 95.987 299 12 0 3 301 30304904 30304606 1.200000e-133 486.0
35 TraesCS4B01G092300 chr2A 98.148 108 2 0 3 110 505057342 505057449 3.780000e-44 189.0
36 TraesCS4B01G092300 chr2D 92.642 299 20 1 3 301 28077822 28077526 2.050000e-116 429.0
37 TraesCS4B01G092300 chr2D 93.846 260 16 0 42 301 28081157 28080898 2.680000e-105 392.0
38 TraesCS4B01G092300 chr5D 97.561 41 1 0 299 339 448285302 448285262 1.430000e-08 71.3
39 TraesCS4B01G092300 chr5A 97.561 41 1 0 299 339 689193475 689193515 1.430000e-08 71.3
40 TraesCS4B01G092300 chr4D 97.561 41 1 0 299 339 183237501 183237461 1.430000e-08 71.3
41 TraesCS4B01G092300 chr1D 97.561 41 1 0 299 339 90162917 90162877 1.430000e-08 71.3


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 TraesCS4B01G092300 chr4B 95205963 95208836 2873 True 2501.5 4362 100.000000 1 2874 2 chr4B.!!$R2 2873
1 TraesCS4B01G092300 chr4B 84531280 84533640 2360 True 4039.0 4039 97.544000 1 2362 1 chr4B.!!$R1 2361
2 TraesCS4B01G092300 chr6B 153102132 153104493 2361 True 4102.0 4102 98.010000 1 2362 1 chr6B.!!$R1 2361
3 TraesCS4B01G092300 chr3B 754315331 754317350 2019 True 3528.0 3528 98.172000 340 2362 1 chr3B.!!$R1 2022
4 TraesCS4B01G092300 chr3B 215031654 215033548 1894 False 3184.0 3184 96.994000 340 2235 1 chr3B.!!$F1 1895
5 TraesCS4B01G092300 chr3B 805190844 805194262 3418 True 1873.0 3326 98.460000 340 2362 2 chr3B.!!$R3 2022
6 TraesCS4B01G092300 chr3B 33473316 33475127 1811 True 1591.0 2904 97.849000 435 2362 2 chr3B.!!$R2 1927
7 TraesCS4B01G092300 chr3B 632566794 632568147 1353 False 617.0 617 98.847000 2528 2874 5 chr3B.!!$F3 346
8 TraesCS4B01G092300 chr3B 777733255 777733920 665 False 517.5 630 98.850000 2132 2874 2 chr3B.!!$F4 742
9 TraesCS4B01G092300 chr7B 707917907 707919796 1889 True 1729.5 3192 97.883000 340 2362 2 chr7B.!!$R2 2022
10 TraesCS4B01G092300 chr7B 417039986 417040700 714 True 689.0 1123 96.064000 1525 2362 2 chr7B.!!$R1 837
11 TraesCS4B01G092300 chr4A 714493929 714495791 1862 False 3173.0 3173 97.287000 340 2219 1 chr4A.!!$F1 1879
12 TraesCS4B01G092300 chr4A 659589126 659589977 851 True 622.0 625 98.991000 2528 2874 2 chr4A.!!$R1 346
13 TraesCS4B01G092300 chr5B 599396610 599398363 1753 True 2820.0 2820 95.852000 1 1739 1 chr5B.!!$R1 1738
14 TraesCS4B01G092300 chr1B 197862921 197864463 1542 True 2623.0 2623 97.343000 3 1545 1 chr1B.!!$R1 1542
15 TraesCS4B01G092300 chr1B 345661380 345662879 1499 True 2619.0 2619 98.200000 864 2362 1 chr1B.!!$R2 1498
16 TraesCS4B01G092300 chr1B 229730364 229731925 1561 False 2311.0 2311 93.179000 299 1892 1 chr1B.!!$F1 1593
17 TraesCS4B01G092300 chr2B 14358850 14359387 537 True 843.0 843 94.834000 395 936 1 chr2B.!!$R1 541
18 TraesCS4B01G092300 chr2B 474130972 474132798 1826 True 282.0 431 98.403667 2118 2362 3 chr2B.!!$R2 244
19 TraesCS4B01G092300 chr2D 28077526 28081157 3631 True 410.5 429 93.244000 3 301 2 chr2D.!!$R1 298

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
784 4119 0.746923 GGTGCGTCAATAAGGGGGAC 60.747 60.0 0.0 0.0 0.0 4.46 F
1104 4451 0.324943 ACAGAACAGCCACGCCTTAT 59.675 50.0 0.0 0.0 0.0 1.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1759 5139 1.247567 GCATAGCGGGCATACCATTT 58.752 50.000 0.00 0.0 40.22 2.32 R
2720 9358 3.815809 TGAAACGGTTCAAATGGTCTCT 58.184 40.909 14.82 0.0 40.87 3.10 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
110 3444 8.351495 TGAAATTTCTGAGCAACAATGTTTAC 57.649 30.769 18.64 0.00 0.00 2.01
220 3554 3.756933 AAATTGAGCAGTGGCAATTGT 57.243 38.095 7.40 0.00 42.17 2.71
352 3686 7.311297 GGGATGGAGCCATTGTCTCTATATTTA 60.311 40.741 3.11 0.00 36.70 1.40
663 3998 5.564848 CGTCTTGAGAAGGACAAGTACATGA 60.565 44.000 4.87 0.00 43.30 3.07
784 4119 0.746923 GGTGCGTCAATAAGGGGGAC 60.747 60.000 0.00 0.00 0.00 4.46
946 4293 7.931948 CGTTGGGTATATCTTATGGAGTTCTTT 59.068 37.037 0.00 0.00 0.00 2.52
1104 4451 0.324943 ACAGAACAGCCACGCCTTAT 59.675 50.000 0.00 0.00 0.00 1.73
1310 4657 0.343372 ATGTTCCCTAGCTCCTCCCA 59.657 55.000 0.00 0.00 0.00 4.37
1374 4721 9.594478 TCAAAATCTTCTACATATAAACGCTCA 57.406 29.630 0.00 0.00 0.00 4.26
1408 4755 4.529769 TGGCTGAGATGGAGGTATTCTATG 59.470 45.833 0.00 0.00 0.00 2.23
1759 5139 2.889170 TGCAGGCTTATTGTACCCAA 57.111 45.000 0.00 0.00 34.45 4.12
1892 5275 6.071560 TGTTTGAGATCGAGTATGGTTAGTGT 60.072 38.462 0.00 0.00 0.00 3.55
1910 5293 9.257651 GGTTAGTGTGTACATATCTCATTTACC 57.742 37.037 0.00 0.00 0.00 2.85
2623 9261 9.593134 AGAGACAAGTAGCTACTTATTTTCATG 57.407 33.333 33.06 22.84 44.19 3.07
2624 9262 9.587772 GAGACAAGTAGCTACTTATTTTCATGA 57.412 33.333 33.06 0.00 44.19 3.07
2643 9281 9.519191 TTTCATGATTTAGAGACCATTTGAAGA 57.481 29.630 0.00 0.00 0.00 2.87
2644 9282 9.690913 TTCATGATTTAGAGACCATTTGAAGAT 57.309 29.630 0.00 0.00 0.00 2.40
2645 9283 9.334947 TCATGATTTAGAGACCATTTGAAGATC 57.665 33.333 0.00 0.00 0.00 2.75
2646 9284 9.339850 CATGATTTAGAGACCATTTGAAGATCT 57.660 33.333 0.00 0.00 0.00 2.75
2647 9285 8.954950 TGATTTAGAGACCATTTGAAGATCTC 57.045 34.615 0.00 0.00 36.80 2.75
2648 9286 7.989741 TGATTTAGAGACCATTTGAAGATCTCC 59.010 37.037 0.00 0.00 37.16 3.71
2649 9287 6.874278 TTAGAGACCATTTGAAGATCTCCA 57.126 37.500 0.00 0.00 37.16 3.86
2650 9288 5.972327 AGAGACCATTTGAAGATCTCCAT 57.028 39.130 0.00 0.00 37.16 3.41
2651 9289 5.682659 AGAGACCATTTGAAGATCTCCATG 58.317 41.667 0.00 0.00 37.16 3.66
2652 9290 5.427806 AGAGACCATTTGAAGATCTCCATGA 59.572 40.000 0.00 0.00 37.16 3.07
2653 9291 6.101442 AGAGACCATTTGAAGATCTCCATGAT 59.899 38.462 0.00 0.00 37.16 2.45
2654 9292 6.670617 AGACCATTTGAAGATCTCCATGATT 58.329 36.000 0.00 0.00 35.14 2.57
2655 9293 7.124052 AGACCATTTGAAGATCTCCATGATTT 58.876 34.615 0.00 0.00 35.14 2.17
2656 9294 8.277197 AGACCATTTGAAGATCTCCATGATTTA 58.723 33.333 0.00 0.00 35.14 1.40
2657 9295 8.461249 ACCATTTGAAGATCTCCATGATTTAG 57.539 34.615 0.00 0.00 35.14 1.85
2658 9296 8.277197 ACCATTTGAAGATCTCCATGATTTAGA 58.723 33.333 0.00 0.00 35.14 2.10
2659 9297 9.128404 CCATTTGAAGATCTCCATGATTTAGAA 57.872 33.333 0.00 0.00 35.14 2.10
2662 9300 9.745018 TTTGAAGATCTCCATGATTTAGAAACT 57.255 29.630 0.00 0.00 35.14 2.66
2663 9301 9.745018 TTGAAGATCTCCATGATTTAGAAACTT 57.255 29.630 0.00 2.89 35.14 2.66
2664 9302 9.170734 TGAAGATCTCCATGATTTAGAAACTTG 57.829 33.333 0.00 0.00 35.14 3.16
2665 9303 9.171877 GAAGATCTCCATGATTTAGAAACTTGT 57.828 33.333 0.00 0.00 35.14 3.16
2678 9316 9.804758 ATTTAGAAACTTGTAAGATAGAGACCG 57.195 33.333 0.00 0.00 0.00 4.79
2679 9317 6.837471 AGAAACTTGTAAGATAGAGACCGT 57.163 37.500 0.00 0.00 0.00 4.83
2680 9318 7.229581 AGAAACTTGTAAGATAGAGACCGTT 57.770 36.000 0.00 0.00 0.00 4.44
2681 9319 7.668492 AGAAACTTGTAAGATAGAGACCGTTT 58.332 34.615 0.00 0.00 0.00 3.60
2682 9320 7.599245 AGAAACTTGTAAGATAGAGACCGTTTG 59.401 37.037 0.00 0.00 0.00 2.93
2683 9321 6.585695 ACTTGTAAGATAGAGACCGTTTGA 57.414 37.500 0.00 0.00 0.00 2.69
2684 9322 6.989659 ACTTGTAAGATAGAGACCGTTTGAA 58.010 36.000 0.00 0.00 0.00 2.69
2685 9323 6.867293 ACTTGTAAGATAGAGACCGTTTGAAC 59.133 38.462 0.00 0.00 0.00 3.18
2686 9324 5.717119 TGTAAGATAGAGACCGTTTGAACC 58.283 41.667 0.00 0.00 0.00 3.62
2687 9325 4.884668 AAGATAGAGACCGTTTGAACCA 57.115 40.909 0.00 0.00 0.00 3.67
2688 9326 5.422214 AAGATAGAGACCGTTTGAACCAT 57.578 39.130 0.00 0.00 0.00 3.55
2689 9327 5.422214 AGATAGAGACCGTTTGAACCATT 57.578 39.130 0.00 0.00 0.00 3.16
2690 9328 5.805728 AGATAGAGACCGTTTGAACCATTT 58.194 37.500 0.00 0.00 0.00 2.32
2691 9329 6.942976 AGATAGAGACCGTTTGAACCATTTA 58.057 36.000 0.00 0.00 0.00 1.40
2692 9330 7.391620 AGATAGAGACCGTTTGAACCATTTAA 58.608 34.615 0.00 0.00 0.00 1.52
2693 9331 7.881232 AGATAGAGACCGTTTGAACCATTTAAA 59.119 33.333 0.00 0.00 0.00 1.52
2694 9332 6.894339 AGAGACCGTTTGAACCATTTAAAT 57.106 33.333 0.00 0.00 0.00 1.40
2695 9333 7.989416 AGAGACCGTTTGAACCATTTAAATA 57.011 32.000 0.00 0.00 0.00 1.40
2696 9334 8.575649 AGAGACCGTTTGAACCATTTAAATAT 57.424 30.769 0.00 0.00 0.00 1.28
2697 9335 8.674607 AGAGACCGTTTGAACCATTTAAATATC 58.325 33.333 0.00 1.19 0.00 1.63
2698 9336 8.343168 AGACCGTTTGAACCATTTAAATATCA 57.657 30.769 0.00 3.73 0.00 2.15
2699 9337 8.798402 AGACCGTTTGAACCATTTAAATATCAA 58.202 29.630 14.44 14.44 0.00 2.57
2700 9338 9.413048 GACCGTTTGAACCATTTAAATATCAAA 57.587 29.630 20.70 20.70 35.20 2.69
2701 9339 9.198837 ACCGTTTGAACCATTTAAATATCAAAC 57.801 29.630 29.76 29.76 46.46 2.93
2732 9370 8.824756 AGTATAGACAAGTAGAGACCATTTGA 57.175 34.615 0.00 0.00 0.00 2.69
2733 9371 9.256228 AGTATAGACAAGTAGAGACCATTTGAA 57.744 33.333 0.00 0.00 0.00 2.69
2734 9372 9.303537 GTATAGACAAGTAGAGACCATTTGAAC 57.696 37.037 0.00 0.00 0.00 3.18
2735 9373 5.552178 AGACAAGTAGAGACCATTTGAACC 58.448 41.667 0.00 0.00 0.00 3.62
2736 9374 4.315803 ACAAGTAGAGACCATTTGAACCG 58.684 43.478 0.00 0.00 0.00 4.44
2737 9375 4.202326 ACAAGTAGAGACCATTTGAACCGT 60.202 41.667 0.00 0.00 0.00 4.83
2738 9376 4.618920 AGTAGAGACCATTTGAACCGTT 57.381 40.909 0.00 0.00 0.00 4.44
2739 9377 4.969484 AGTAGAGACCATTTGAACCGTTT 58.031 39.130 0.00 0.00 0.00 3.60
2740 9378 4.995487 AGTAGAGACCATTTGAACCGTTTC 59.005 41.667 0.00 0.00 0.00 2.78
2741 9379 3.815809 AGAGACCATTTGAACCGTTTCA 58.184 40.909 0.00 0.00 40.14 2.69
2753 9391 7.747155 TTGAACCGTTTCAAACTATAATCCA 57.253 32.000 5.57 0.00 46.59 3.41
2754 9392 7.931578 TGAACCGTTTCAAACTATAATCCAT 57.068 32.000 0.00 0.00 38.87 3.41
2755 9393 8.343168 TGAACCGTTTCAAACTATAATCCATT 57.657 30.769 0.00 0.00 38.87 3.16
2756 9394 8.798402 TGAACCGTTTCAAACTATAATCCATTT 58.202 29.630 0.00 0.00 38.87 2.32
2757 9395 8.980143 AACCGTTTCAAACTATAATCCATTTG 57.020 30.769 0.00 0.00 34.11 2.32
2758 9396 8.343168 ACCGTTTCAAACTATAATCCATTTGA 57.657 30.769 0.00 0.00 38.85 2.69
2759 9397 8.798402 ACCGTTTCAAACTATAATCCATTTGAA 58.202 29.630 6.85 6.85 44.91 2.69
2760 9398 9.072294 CCGTTTCAAACTATAATCCATTTGAAC 57.928 33.333 9.79 5.95 45.74 3.18
2761 9399 9.619316 CGTTTCAAACTATAATCCATTTGAACA 57.381 29.630 9.79 1.61 45.74 3.18
2837 9475 9.559732 TTTCATGATTTAGAGAACACTTGAAGA 57.440 29.630 0.00 0.00 0.00 2.87
2838 9476 9.730705 TTCATGATTTAGAGAACACTTGAAGAT 57.269 29.630 0.00 0.00 0.00 2.40
2848 9486 9.902684 AGAGAACACTTGAAGATATTCATGATT 57.097 29.630 19.39 13.50 32.44 2.57
2865 9503 9.757227 ATTCATGATTTAGAGACAAGTAGCTAC 57.243 33.333 16.43 16.43 0.00 3.58
2866 9504 8.526667 TCATGATTTAGAGACAAGTAGCTACT 57.473 34.615 20.95 20.95 38.39 2.57
2867 9505 8.972127 TCATGATTTAGAGACAAGTAGCTACTT 58.028 33.333 29.48 29.48 46.76 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
309 3643 5.951747 TCCATCCCAGAAATCAAAAGGTTAG 59.048 40.000 0.00 0.00 0.00 2.34
784 4119 1.811266 CACGATCCGCTCCCAACAG 60.811 63.158 0.00 0.00 0.00 3.16
1104 4451 2.749280 ACGCTGTGTCATTCTCATCA 57.251 45.000 0.00 0.00 0.00 3.07
1244 4591 0.987294 TTTCCTGCCTTCTCCAGAGG 59.013 55.000 0.00 0.00 32.03 3.69
1310 4657 5.221621 GCTTTGTATTCAGGGAGAGAGCTAT 60.222 44.000 0.00 0.00 0.00 2.97
1388 4735 5.735285 TGCATAGAATACCTCCATCTCAG 57.265 43.478 0.00 0.00 0.00 3.35
1408 4755 9.937175 GAAACAAACATATATAGAAGGACTTGC 57.063 33.333 0.00 0.00 0.00 4.01
1759 5139 1.247567 GCATAGCGGGCATACCATTT 58.752 50.000 0.00 0.00 40.22 2.32
1892 5275 9.298250 GAGACCTAGGTAAATGAGATATGTACA 57.702 37.037 16.29 0.00 0.00 2.90
1910 5293 5.924475 ACGTTGACAAATTTGAGACCTAG 57.076 39.130 24.64 11.09 0.00 3.02
2058 5441 8.619146 TGAAAATAAATAGCTTCAAGAATGCG 57.381 30.769 0.00 0.00 0.00 4.73
2621 9259 9.558396 GAGATCTTCAAATGGTCTCTAAATCAT 57.442 33.333 0.00 0.00 34.08 2.45
2622 9260 7.989741 GGAGATCTTCAAATGGTCTCTAAATCA 59.010 37.037 0.00 0.00 36.45 2.57
2623 9261 7.989741 TGGAGATCTTCAAATGGTCTCTAAATC 59.010 37.037 0.00 0.00 36.45 2.17
2624 9262 7.865820 TGGAGATCTTCAAATGGTCTCTAAAT 58.134 34.615 0.00 0.00 36.45 1.40
2625 9263 7.257790 TGGAGATCTTCAAATGGTCTCTAAA 57.742 36.000 0.00 0.00 36.45 1.85
2626 9264 6.874278 TGGAGATCTTCAAATGGTCTCTAA 57.126 37.500 0.00 0.00 36.45 2.10
2627 9265 6.612863 TCATGGAGATCTTCAAATGGTCTCTA 59.387 38.462 8.06 0.00 36.45 2.43
2628 9266 5.427806 TCATGGAGATCTTCAAATGGTCTCT 59.572 40.000 8.06 0.00 36.45 3.10
2629 9267 5.678583 TCATGGAGATCTTCAAATGGTCTC 58.321 41.667 8.06 0.00 35.68 3.36
2630 9268 5.705397 TCATGGAGATCTTCAAATGGTCT 57.295 39.130 8.06 0.00 0.00 3.85
2631 9269 6.956202 AATCATGGAGATCTTCAAATGGTC 57.044 37.500 8.06 0.00 35.39 4.02
2632 9270 8.277197 TCTAAATCATGGAGATCTTCAAATGGT 58.723 33.333 8.06 0.00 35.39 3.55
2633 9271 8.687292 TCTAAATCATGGAGATCTTCAAATGG 57.313 34.615 8.06 0.00 35.39 3.16
2636 9274 9.745018 AGTTTCTAAATCATGGAGATCTTCAAA 57.255 29.630 8.06 0.00 35.39 2.69
2637 9275 9.745018 AAGTTTCTAAATCATGGAGATCTTCAA 57.255 29.630 8.06 0.00 35.39 2.69
2638 9276 9.170734 CAAGTTTCTAAATCATGGAGATCTTCA 57.829 33.333 6.06 6.06 35.39 3.02
2639 9277 9.171877 ACAAGTTTCTAAATCATGGAGATCTTC 57.828 33.333 0.00 0.00 35.39 2.87
2652 9290 9.804758 CGGTCTCTATCTTACAAGTTTCTAAAT 57.195 33.333 0.00 0.00 0.00 1.40
2653 9291 8.800332 ACGGTCTCTATCTTACAAGTTTCTAAA 58.200 33.333 0.00 0.00 0.00 1.85
2654 9292 8.345724 ACGGTCTCTATCTTACAAGTTTCTAA 57.654 34.615 0.00 0.00 0.00 2.10
2655 9293 7.934855 ACGGTCTCTATCTTACAAGTTTCTA 57.065 36.000 0.00 0.00 0.00 2.10
2656 9294 6.837471 ACGGTCTCTATCTTACAAGTTTCT 57.163 37.500 0.00 0.00 0.00 2.52
2657 9295 7.597743 TCAAACGGTCTCTATCTTACAAGTTTC 59.402 37.037 0.00 0.00 0.00 2.78
2658 9296 7.439381 TCAAACGGTCTCTATCTTACAAGTTT 58.561 34.615 0.00 0.00 0.00 2.66
2659 9297 6.989659 TCAAACGGTCTCTATCTTACAAGTT 58.010 36.000 0.00 0.00 0.00 2.66
2660 9298 6.585695 TCAAACGGTCTCTATCTTACAAGT 57.414 37.500 0.00 0.00 0.00 3.16
2661 9299 6.310711 GGTTCAAACGGTCTCTATCTTACAAG 59.689 42.308 0.00 0.00 0.00 3.16
2662 9300 6.161381 GGTTCAAACGGTCTCTATCTTACAA 58.839 40.000 0.00 0.00 0.00 2.41
2663 9301 5.244402 TGGTTCAAACGGTCTCTATCTTACA 59.756 40.000 0.00 0.00 0.00 2.41
2664 9302 5.717119 TGGTTCAAACGGTCTCTATCTTAC 58.283 41.667 0.00 0.00 0.00 2.34
2665 9303 5.988310 TGGTTCAAACGGTCTCTATCTTA 57.012 39.130 0.00 0.00 0.00 2.10
2666 9304 4.884668 TGGTTCAAACGGTCTCTATCTT 57.115 40.909 0.00 0.00 0.00 2.40
2667 9305 5.422214 AATGGTTCAAACGGTCTCTATCT 57.578 39.130 0.00 0.00 0.00 1.98
2668 9306 7.605410 TTAAATGGTTCAAACGGTCTCTATC 57.395 36.000 0.00 0.00 0.00 2.08
2669 9307 7.989416 TTTAAATGGTTCAAACGGTCTCTAT 57.011 32.000 0.00 0.00 0.00 1.98
2670 9308 7.989416 ATTTAAATGGTTCAAACGGTCTCTA 57.011 32.000 0.00 0.00 0.00 2.43
2671 9309 6.894339 ATTTAAATGGTTCAAACGGTCTCT 57.106 33.333 0.00 0.00 0.00 3.10
2672 9310 8.455682 TGATATTTAAATGGTTCAAACGGTCTC 58.544 33.333 11.05 0.00 0.00 3.36
2673 9311 8.343168 TGATATTTAAATGGTTCAAACGGTCT 57.657 30.769 11.05 0.00 0.00 3.85
2674 9312 8.973835 TTGATATTTAAATGGTTCAAACGGTC 57.026 30.769 11.05 0.00 0.00 4.79
2675 9313 9.198837 GTTTGATATTTAAATGGTTCAAACGGT 57.801 29.630 27.74 3.66 37.19 4.83
2676 9314 9.418045 AGTTTGATATTTAAATGGTTCAAACGG 57.582 29.630 30.61 0.00 45.67 4.44
2706 9344 9.256228 TCAAATGGTCTCTACTTGTCTATACTT 57.744 33.333 0.00 0.00 0.00 2.24
2707 9345 8.824756 TCAAATGGTCTCTACTTGTCTATACT 57.175 34.615 0.00 0.00 0.00 2.12
2708 9346 9.303537 GTTCAAATGGTCTCTACTTGTCTATAC 57.696 37.037 0.00 0.00 0.00 1.47
2709 9347 8.475639 GGTTCAAATGGTCTCTACTTGTCTATA 58.524 37.037 0.00 0.00 0.00 1.31
2710 9348 7.331791 GGTTCAAATGGTCTCTACTTGTCTAT 58.668 38.462 0.00 0.00 0.00 1.98
2711 9349 6.571731 CGGTTCAAATGGTCTCTACTTGTCTA 60.572 42.308 0.00 0.00 0.00 2.59
2712 9350 5.552178 GGTTCAAATGGTCTCTACTTGTCT 58.448 41.667 0.00 0.00 0.00 3.41
2713 9351 4.389077 CGGTTCAAATGGTCTCTACTTGTC 59.611 45.833 0.00 0.00 0.00 3.18
2714 9352 4.202326 ACGGTTCAAATGGTCTCTACTTGT 60.202 41.667 0.00 0.00 0.00 3.16
2715 9353 4.315803 ACGGTTCAAATGGTCTCTACTTG 58.684 43.478 0.00 0.00 0.00 3.16
2716 9354 4.618920 ACGGTTCAAATGGTCTCTACTT 57.381 40.909 0.00 0.00 0.00 2.24
2717 9355 4.618920 AACGGTTCAAATGGTCTCTACT 57.381 40.909 0.00 0.00 0.00 2.57
2718 9356 4.753107 TGAAACGGTTCAAATGGTCTCTAC 59.247 41.667 14.82 0.00 40.87 2.59
2719 9357 4.963373 TGAAACGGTTCAAATGGTCTCTA 58.037 39.130 14.82 0.00 40.87 2.43
2720 9358 3.815809 TGAAACGGTTCAAATGGTCTCT 58.184 40.909 14.82 0.00 40.87 3.10
2730 9368 7.931578 ATGGATTATAGTTTGAAACGGTTCA 57.068 32.000 12.93 12.93 42.12 3.18
2731 9369 9.072294 CAAATGGATTATAGTTTGAAACGGTTC 57.928 33.333 6.16 6.16 34.38 3.62
2732 9370 8.798402 TCAAATGGATTATAGTTTGAAACGGTT 58.202 29.630 1.97 0.00 37.56 4.44
2733 9371 8.343168 TCAAATGGATTATAGTTTGAAACGGT 57.657 30.769 1.97 0.00 37.56 4.83
2734 9372 9.072294 GTTCAAATGGATTATAGTTTGAAACGG 57.928 33.333 12.09 0.00 46.13 4.44
2735 9373 9.619316 TGTTCAAATGGATTATAGTTTGAAACG 57.381 29.630 12.09 0.00 46.13 3.60
2811 9449 9.559732 TCTTCAAGTGTTCTCTAAATCATGAAA 57.440 29.630 0.00 0.00 0.00 2.69
2812 9450 9.730705 ATCTTCAAGTGTTCTCTAAATCATGAA 57.269 29.630 0.00 0.00 0.00 2.57
2822 9460 9.902684 AATCATGAATATCTTCAAGTGTTCTCT 57.097 29.630 0.00 0.00 44.29 3.10
2839 9477 9.757227 GTAGCTACTTGTCTCTAAATCATGAAT 57.243 33.333 16.88 0.00 0.00 2.57
2840 9478 8.972127 AGTAGCTACTTGTCTCTAAATCATGAA 58.028 33.333 20.95 0.00 31.13 2.57
2841 9479 8.526667 AGTAGCTACTTGTCTCTAAATCATGA 57.473 34.615 20.95 0.00 31.13 3.07


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

AutoCloner maintained by Alex Coulton.