Multiple sequence alignment - TraesCS3B01G141800

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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 TraesCS3B01G141800 chr3B 100.000 3501 0 0 1 3501 128947333 128950833 0.000000e+00 6466.0
1 TraesCS3B01G141800 chr3B 82.979 141 14 9 268 400 63115161 63115299 6.140000e-23 119.0
2 TraesCS3B01G141800 chr3B 97.674 43 1 0 409 451 526495848 526495806 1.350000e-09 75.0
3 TraesCS3B01G141800 chr3D 94.408 2611 83 21 1 2554 82410874 82413478 0.000000e+00 3954.0
4 TraesCS3B01G141800 chr3D 94.128 562 17 4 2949 3501 82413898 82414452 0.000000e+00 841.0
5 TraesCS3B01G141800 chr3D 85.302 381 16 18 2606 2954 82413485 82413857 1.200000e-94 357.0
6 TraesCS3B01G141800 chr3D 93.548 62 1 3 2550 2611 550993756 550993814 4.810000e-14 89.8
7 TraesCS3B01G141800 chr3D 89.394 66 3 4 2546 2611 26166774 26166835 2.900000e-11 80.5
8 TraesCS3B01G141800 chr3A 95.303 2129 73 16 435 2538 97972429 97974555 0.000000e+00 3352.0
9 TraesCS3B01G141800 chr3A 83.991 887 50 38 2645 3501 97974554 97975378 0.000000e+00 767.0
10 TraesCS3B01G141800 chr3A 86.364 242 11 10 1 220 97971879 97972120 9.710000e-61 244.0
11 TraesCS3B01G141800 chr3A 83.704 135 14 5 273 400 51283405 51283272 1.710000e-23 121.0
12 TraesCS3B01G141800 chr2B 82.579 442 63 10 2027 2464 761328317 761327886 9.170000e-101 377.0
13 TraesCS3B01G141800 chr2B 81.463 410 67 7 2027 2428 761323208 761322800 9.370000e-86 327.0
14 TraesCS3B01G141800 chr2B 100.000 42 0 0 409 450 46881583 46881624 1.040000e-10 78.7
15 TraesCS3B01G141800 chr2A 81.585 429 69 7 2027 2453 752336944 752336524 2.590000e-91 346.0
16 TraesCS3B01G141800 chr2A 92.308 65 2 3 2550 2614 30874763 30874702 4.810000e-14 89.8
17 TraesCS3B01G141800 chr2A 95.652 46 2 0 409 454 572056117 572056072 1.350000e-09 75.0
18 TraesCS3B01G141800 chr2D 81.955 266 42 2 2191 2453 620684952 620684690 1.640000e-53 220.0
19 TraesCS3B01G141800 chr2D 97.959 49 1 0 411 459 649068654 649068606 6.230000e-13 86.1
20 TraesCS3B01G141800 chr2D 100.000 40 0 0 409 448 574101077 574101116 1.350000e-09 75.0
21 TraesCS3B01G141800 chr5A 83.951 162 23 2 241 399 299766466 299766627 6.050000e-33 152.0
22 TraesCS3B01G141800 chr5B 81.176 170 22 9 236 400 700669462 700669298 1.020000e-25 128.0
23 TraesCS3B01G141800 chr5B 90.625 64 4 2 2547 2610 659412129 659412190 2.240000e-12 84.2
24 TraesCS3B01G141800 chr5B 89.552 67 4 3 2545 2611 289565422 289565485 8.050000e-12 82.4
25 TraesCS3B01G141800 chr1B 79.730 148 26 4 236 380 240503438 240503584 1.720000e-18 104.0
26 TraesCS3B01G141800 chr6D 90.909 66 4 2 2545 2610 16703147 16703084 1.730000e-13 87.9
27 TraesCS3B01G141800 chr6D 90.625 64 4 2 2547 2610 65497176 65497115 2.240000e-12 84.2
28 TraesCS3B01G141800 chr6A 91.045 67 2 4 2546 2611 103761892 103761955 1.730000e-13 87.9
29 TraesCS3B01G141800 chr7A 89.394 66 5 2 2545 2610 669341172 669341109 8.050000e-12 82.4
30 TraesCS3B01G141800 chr4D 100.000 40 0 0 409 448 325104969 325105008 1.350000e-09 75.0
31 TraesCS3B01G141800 chr4B 91.071 56 4 1 395 449 387501031 387500976 1.350000e-09 75.0
32 TraesCS3B01G141800 chr1D 95.745 47 1 1 409 455 458575637 458575682 1.350000e-09 75.0


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 TraesCS3B01G141800 chr3B 128947333 128950833 3500 False 6466.000000 6466 100.000000 1 3501 1 chr3B.!!$F2 3500
1 TraesCS3B01G141800 chr3D 82410874 82414452 3578 False 1717.333333 3954 91.279333 1 3501 3 chr3D.!!$F3 3500
2 TraesCS3B01G141800 chr3A 97971879 97975378 3499 False 1454.333333 3352 88.552667 1 3501 3 chr3A.!!$F1 3500

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
963 1091 0.608035 TCACCCGGGAGTTGATTTGC 60.608 55.0 32.02 0.0 0.0 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2625 2774 1.202533 TCAGCTAATCTAACAGCCCGC 60.203 52.381 0.0 0.0 38.61 6.13 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
202 225 2.480224 CACAGTTGCAAGTTGAGGTG 57.520 50.000 15.67 11.68 0.00 4.00
211 234 3.445450 TGCAAGTTGAGGTGTGCTTTTTA 59.555 39.130 7.16 0.00 37.87 1.52
271 322 7.923878 TCAAAACCTTACTTGCATTTTTCTACC 59.076 33.333 0.00 0.00 0.00 3.18
282 333 6.919721 TGCATTTTTCTACCCATACTCAAAC 58.080 36.000 0.00 0.00 0.00 2.93
359 410 5.072055 ACATGATTGATGTTGAACCACTGA 58.928 37.500 0.00 0.00 43.20 3.41
370 421 6.237901 TGTTGAACCACTGAAATATGTAGCT 58.762 36.000 0.00 0.00 0.00 3.32
404 458 5.105310 CCACACACAATTAGCTAGTACTCCT 60.105 44.000 0.00 0.00 0.00 3.69
405 459 6.037098 CACACACAATTAGCTAGTACTCCTC 58.963 44.000 0.00 0.00 0.00 3.71
406 460 5.127356 ACACACAATTAGCTAGTACTCCTCC 59.873 44.000 0.00 0.00 0.00 4.30
407 461 4.338682 ACACAATTAGCTAGTACTCCTCCG 59.661 45.833 0.00 0.00 0.00 4.63
408 462 4.579340 CACAATTAGCTAGTACTCCTCCGA 59.421 45.833 0.00 0.00 0.00 4.55
409 463 4.822896 ACAATTAGCTAGTACTCCTCCGAG 59.177 45.833 0.00 0.00 42.32 4.63
420 474 1.792949 CTCCTCCGAGTGTCAAAAACG 59.207 52.381 0.00 0.00 0.00 3.60
460 579 6.710278 ACGGAGGGAGTAGTAGATATAGAAC 58.290 44.000 0.00 0.00 0.00 3.01
466 585 8.384718 AGGGAGTAGTAGATATAGAACGAACAT 58.615 37.037 0.00 0.00 0.00 2.71
479 598 4.885907 AGAACGAACATATCTTCTACCCGA 59.114 41.667 0.00 0.00 0.00 5.14
636 756 2.349886 CGAGGCAGCTAGATTTGTGTTC 59.650 50.000 0.00 0.00 0.00 3.18
678 798 2.555227 GCTCCACATCCCTCCAAAAGAA 60.555 50.000 0.00 0.00 0.00 2.52
796 923 0.836400 GATGGATTCCCCTCCGGCTA 60.836 60.000 0.00 0.00 38.21 3.93
963 1091 0.608035 TCACCCGGGAGTTGATTTGC 60.608 55.000 32.02 0.00 0.00 3.68
1233 1365 2.204291 TTCCTCCTGGTGGGCCAT 60.204 61.111 10.70 0.00 45.05 4.40
1792 1929 2.178856 GCTGCTGGAGCTTTTCCTC 58.821 57.895 14.33 0.00 46.92 3.71
1938 2083 8.677300 CAAGTACAATAGAATACAAATGGCAGT 58.323 33.333 0.00 0.00 0.00 4.40
2122 2268 4.340246 CTGCAGAGCCTGGTGCCA 62.340 66.667 8.42 0.00 42.71 4.92
2425 2571 3.920093 GAAGGCCTTCACCACCGGG 62.920 68.421 35.71 0.00 39.31 5.73
2461 2607 2.797278 GGTCGCCATCTCCACCGAT 61.797 63.158 0.00 0.00 31.96 4.18
2479 2628 3.047280 GATGCCGCCAACGACACA 61.047 61.111 0.00 0.00 43.93 3.72
2493 2642 1.200252 CGACACAGACGACCTGATCTT 59.800 52.381 14.50 0.00 45.78 2.40
2560 2709 9.745880 TCGATCTATACAAACAATTACTTCCTC 57.254 33.333 0.00 0.00 0.00 3.71
2561 2710 8.979574 CGATCTATACAAACAATTACTTCCTCC 58.020 37.037 0.00 0.00 0.00 4.30
2562 2711 8.888579 ATCTATACAAACAATTACTTCCTCCG 57.111 34.615 0.00 0.00 0.00 4.63
2563 2712 7.844009 TCTATACAAACAATTACTTCCTCCGT 58.156 34.615 0.00 0.00 0.00 4.69
2564 2713 6.980051 ATACAAACAATTACTTCCTCCGTC 57.020 37.500 0.00 0.00 0.00 4.79
2565 2714 3.744426 ACAAACAATTACTTCCTCCGTCG 59.256 43.478 0.00 0.00 0.00 5.12
2566 2715 2.005971 ACAATTACTTCCTCCGTCGC 57.994 50.000 0.00 0.00 0.00 5.19
2567 2716 1.274167 ACAATTACTTCCTCCGTCGCA 59.726 47.619 0.00 0.00 0.00 5.10
2568 2717 2.093658 ACAATTACTTCCTCCGTCGCAT 60.094 45.455 0.00 0.00 0.00 4.73
2569 2718 3.131577 ACAATTACTTCCTCCGTCGCATA 59.868 43.478 0.00 0.00 0.00 3.14
2570 2719 4.116961 CAATTACTTCCTCCGTCGCATAA 58.883 43.478 0.00 0.00 0.00 1.90
2571 2720 4.602340 ATTACTTCCTCCGTCGCATAAT 57.398 40.909 0.00 0.00 0.00 1.28
2572 2721 5.717078 ATTACTTCCTCCGTCGCATAATA 57.283 39.130 0.00 0.00 0.00 0.98
2573 2722 5.717078 TTACTTCCTCCGTCGCATAATAT 57.283 39.130 0.00 0.00 0.00 1.28
2574 2723 6.822667 TTACTTCCTCCGTCGCATAATATA 57.177 37.500 0.00 0.00 0.00 0.86
2575 2724 5.717078 ACTTCCTCCGTCGCATAATATAA 57.283 39.130 0.00 0.00 0.00 0.98
2576 2725 5.710984 ACTTCCTCCGTCGCATAATATAAG 58.289 41.667 0.00 0.00 0.00 1.73
2577 2726 5.475909 ACTTCCTCCGTCGCATAATATAAGA 59.524 40.000 0.00 0.00 0.00 2.10
2578 2727 5.970317 TCCTCCGTCGCATAATATAAGAA 57.030 39.130 0.00 0.00 0.00 2.52
2579 2728 5.706916 TCCTCCGTCGCATAATATAAGAAC 58.293 41.667 0.00 0.00 0.00 3.01
2580 2729 4.557690 CCTCCGTCGCATAATATAAGAACG 59.442 45.833 0.00 0.00 0.00 3.95
2581 2730 5.112220 TCCGTCGCATAATATAAGAACGT 57.888 39.130 0.00 0.00 0.00 3.99
2582 2731 5.522456 TCCGTCGCATAATATAAGAACGTT 58.478 37.500 0.00 0.00 0.00 3.99
2583 2732 5.978919 TCCGTCGCATAATATAAGAACGTTT 59.021 36.000 0.46 0.00 0.00 3.60
2584 2733 6.476380 TCCGTCGCATAATATAAGAACGTTTT 59.524 34.615 0.46 0.00 0.00 2.43
2585 2734 7.010367 TCCGTCGCATAATATAAGAACGTTTTT 59.990 33.333 9.22 9.22 0.00 1.94
2586 2735 7.109668 CCGTCGCATAATATAAGAACGTTTTTG 59.890 37.037 13.87 0.00 0.00 2.44
2587 2736 7.842239 CGTCGCATAATATAAGAACGTTTTTGA 59.158 33.333 13.87 2.81 0.00 2.69
2588 2737 8.930982 GTCGCATAATATAAGAACGTTTTTGAC 58.069 33.333 13.87 5.89 0.00 3.18
2589 2738 8.657729 TCGCATAATATAAGAACGTTTTTGACA 58.342 29.630 13.87 0.01 0.00 3.58
2590 2739 8.721476 CGCATAATATAAGAACGTTTTTGACAC 58.279 33.333 13.87 0.00 0.00 3.67
2591 2740 9.769093 GCATAATATAAGAACGTTTTTGACACT 57.231 29.630 13.87 0.00 0.00 3.55
2596 2745 7.781548 ATAAGAACGTTTTTGACACTACACT 57.218 32.000 13.87 0.00 0.00 3.55
2597 2746 5.464965 AGAACGTTTTTGACACTACACTG 57.535 39.130 0.46 0.00 0.00 3.66
2598 2747 5.172934 AGAACGTTTTTGACACTACACTGA 58.827 37.500 0.46 0.00 0.00 3.41
2599 2748 5.291128 AGAACGTTTTTGACACTACACTGAG 59.709 40.000 0.46 0.00 0.00 3.35
2600 2749 4.501071 ACGTTTTTGACACTACACTGAGT 58.499 39.130 0.00 0.00 0.00 3.41
2601 2750 5.653507 ACGTTTTTGACACTACACTGAGTA 58.346 37.500 0.00 0.00 0.00 2.59
2633 2786 4.101448 GAGATGGTGGCGGGCTGT 62.101 66.667 2.38 0.00 0.00 4.40
2637 2790 2.252072 GATGGTGGCGGGCTGTTAGA 62.252 60.000 2.38 0.00 0.00 2.10
2683 2840 4.986531 CGCGTGCGGTTGTCGTTG 62.987 66.667 6.30 0.00 41.72 4.10
2695 2871 3.242837 GGTTGTCGTTGGTGTTTAAGGTC 60.243 47.826 0.00 0.00 0.00 3.85
2713 2889 5.876691 AGGTCTCCTCCATATATGTCTCT 57.123 43.478 11.73 0.00 0.00 3.10
2721 2897 7.360643 TCCTCCATATATGTCTCTATGCAGAT 58.639 38.462 11.73 0.00 0.00 2.90
2783 2970 8.748380 ACTAATTGTAAGAAAATCAAGCAAGC 57.252 30.769 0.00 0.00 0.00 4.01
2784 2971 8.579863 ACTAATTGTAAGAAAATCAAGCAAGCT 58.420 29.630 0.00 0.00 0.00 3.74
2785 2972 9.415544 CTAATTGTAAGAAAATCAAGCAAGCTT 57.584 29.630 0.59 0.59 36.60 3.74
2787 2974 9.762933 AATTGTAAGAAAATCAAGCAAGCTTAA 57.237 25.926 7.03 0.00 34.50 1.85
2944 3137 6.073657 CCAAATGCTTGTTTTGTTATCACTGG 60.074 38.462 0.00 0.00 33.23 4.00
2949 3142 5.762045 CTTGTTTTGTTATCACTGGTCAGG 58.238 41.667 2.87 0.00 0.00 3.86
2954 3147 5.661056 TTGTTATCACTGGTCAGGACTAG 57.339 43.478 10.77 10.77 44.31 2.57
2955 3148 4.930696 TGTTATCACTGGTCAGGACTAGA 58.069 43.478 18.09 0.00 41.75 2.43
2956 3149 5.519808 TGTTATCACTGGTCAGGACTAGAT 58.480 41.667 18.09 6.35 41.75 1.98
2958 3151 3.739401 TCACTGGTCAGGACTAGATCA 57.261 47.619 18.09 0.00 41.75 2.92
2959 3152 4.256983 TCACTGGTCAGGACTAGATCAT 57.743 45.455 18.09 0.00 41.75 2.45
2960 3153 4.614475 TCACTGGTCAGGACTAGATCATT 58.386 43.478 18.09 0.00 41.75 2.57
2961 3154 4.646945 TCACTGGTCAGGACTAGATCATTC 59.353 45.833 18.09 0.00 41.75 2.67
2963 3156 5.830457 CACTGGTCAGGACTAGATCATTCTA 59.170 44.000 18.09 0.00 41.75 2.10
2964 3157 6.322456 CACTGGTCAGGACTAGATCATTCTAA 59.678 42.308 18.09 0.00 41.75 2.10
2965 3158 6.549364 ACTGGTCAGGACTAGATCATTCTAAG 59.451 42.308 18.09 0.00 41.75 2.18
3124 3363 3.002102 GCAAAAATGGCATTGTACTGGG 58.998 45.455 14.47 1.19 0.00 4.45
3189 3433 2.712057 AAGCAAAATGGAGAAGCACG 57.288 45.000 0.00 0.00 0.00 5.34
3338 3582 1.603678 CCATGCAGCAAGGAACACAAC 60.604 52.381 11.50 0.00 0.00 3.32
3351 3595 3.453424 GAACACAACCAACCAAATGGAC 58.547 45.455 6.42 0.00 43.54 4.02
3476 3729 1.562942 TGCAAGGAGAAGAGGATGCAT 59.437 47.619 0.00 0.00 38.73 3.96
3479 3732 3.882444 CAAGGAGAAGAGGATGCATTGA 58.118 45.455 0.00 0.00 0.00 2.57
3486 3739 1.562942 AGAGGATGCATTGAGCCAAGA 59.437 47.619 0.00 0.00 44.83 3.02
3488 3741 1.284198 AGGATGCATTGAGCCAAGAGT 59.716 47.619 0.00 0.00 44.83 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 88 7.058023 TCACCTATTATTATGCCACGTACTT 57.942 36.000 0.00 0.00 0.00 2.24
159 182 8.025445 GTGCATGACAAAAGTCTATTCATTCTT 58.975 33.333 0.00 0.00 0.00 2.52
202 225 7.225931 TCTCCACGGATACATAATAAAAAGCAC 59.774 37.037 0.00 0.00 0.00 4.40
211 234 5.087323 AGGTGATCTCCACGGATACATAAT 58.913 41.667 15.93 0.00 46.62 1.28
244 295 9.308318 GTAGAAAAATGCAAGTAAGGTTTTGAA 57.692 29.630 0.00 0.00 0.00 2.69
370 421 0.323816 TTGTGTGTGGGTTGCAAGGA 60.324 50.000 0.00 0.00 0.00 3.36
404 458 1.202486 AGAGCGTTTTTGACACTCGGA 60.202 47.619 0.00 0.00 41.32 4.55
405 459 1.217882 AGAGCGTTTTTGACACTCGG 58.782 50.000 0.00 0.00 41.32 4.63
406 460 4.647291 ATAAGAGCGTTTTTGACACTCG 57.353 40.909 0.00 0.00 41.32 4.18
407 461 7.290857 TGATATAAGAGCGTTTTTGACACTC 57.709 36.000 0.00 0.00 37.64 3.51
408 462 7.201644 CCATGATATAAGAGCGTTTTTGACACT 60.202 37.037 0.00 0.00 0.00 3.55
409 463 6.907212 CCATGATATAAGAGCGTTTTTGACAC 59.093 38.462 0.00 0.00 0.00 3.67
410 464 6.038161 CCCATGATATAAGAGCGTTTTTGACA 59.962 38.462 0.00 0.00 0.00 3.58
411 465 6.260050 TCCCATGATATAAGAGCGTTTTTGAC 59.740 38.462 0.00 0.00 0.00 3.18
412 466 6.260050 GTCCCATGATATAAGAGCGTTTTTGA 59.740 38.462 0.00 0.00 0.00 2.69
420 474 3.118956 CCTCCGTCCCATGATATAAGAGC 60.119 52.174 0.00 0.00 0.00 4.09
426 480 1.150135 ACTCCCTCCGTCCCATGATAT 59.850 52.381 0.00 0.00 0.00 1.63
460 579 4.217767 TCCATCGGGTAGAAGATATGTTCG 59.782 45.833 6.93 0.00 34.93 3.95
466 585 3.605726 TGGTCCATCGGGTAGAAGATA 57.394 47.619 0.00 0.00 34.93 1.98
479 598 9.312904 CCCAAATTAATTAGTGATATGGTCCAT 57.687 33.333 9.88 9.88 0.00 3.41
616 736 2.680339 GGAACACAAATCTAGCTGCCTC 59.320 50.000 0.00 0.00 0.00 4.70
678 798 4.594920 TGAAAATGTGAAGAGAGAGGAGGT 59.405 41.667 0.00 0.00 0.00 3.85
931 1058 1.542547 CCGGGTGACTTTGCAGTACTT 60.543 52.381 0.00 0.00 31.22 2.24
947 1074 1.032114 GGAGCAAATCAACTCCCGGG 61.032 60.000 16.85 16.85 45.71 5.73
963 1091 0.321671 TCGGTCAAGCCAAGAAGGAG 59.678 55.000 0.00 0.00 41.22 3.69
1034 1166 1.888736 GCCCGGAAGTCGAAGTAGT 59.111 57.895 0.73 0.00 42.43 2.73
1539 1672 2.208619 TACGGACGGTTGGCCAGAA 61.209 57.895 5.11 0.00 34.09 3.02
1786 1923 3.702048 CCGAGGGCCACGAGGAAA 61.702 66.667 25.15 0.00 36.89 3.13
1938 2083 2.051076 GTACGTGTCGTCGTGGCA 60.051 61.111 0.00 0.00 43.93 4.92
2122 2268 4.711949 CGGAACAGCTGCAGCCCT 62.712 66.667 34.39 19.37 43.38 5.19
2293 2439 4.525949 GGCGGGCCGAGGAAGTAC 62.526 72.222 33.44 8.98 0.00 2.73
2398 2544 2.203337 AAGGCCTTCTTGCGCACA 60.203 55.556 13.78 0.00 33.76 4.57
2425 2571 4.537433 ATCTTGAGCGCGGAGGCC 62.537 66.667 8.83 0.00 35.02 5.19
2493 2642 4.246206 CGGCGCCGATCTACGACA 62.246 66.667 44.86 0.00 45.77 4.35
2542 2691 4.925054 CGACGGAGGAAGTAATTGTTTGTA 59.075 41.667 0.00 0.00 0.00 2.41
2546 2695 2.289195 TGCGACGGAGGAAGTAATTGTT 60.289 45.455 0.00 0.00 0.00 2.83
2554 2703 5.950883 TCTTATATTATGCGACGGAGGAAG 58.049 41.667 0.00 0.00 0.00 3.46
2556 2705 5.618418 CGTTCTTATATTATGCGACGGAGGA 60.618 44.000 0.00 0.00 0.00 3.71
2557 2706 4.557690 CGTTCTTATATTATGCGACGGAGG 59.442 45.833 0.00 0.00 0.00 4.30
2558 2707 5.152097 ACGTTCTTATATTATGCGACGGAG 58.848 41.667 0.00 0.00 33.95 4.63
2559 2708 5.112220 ACGTTCTTATATTATGCGACGGA 57.888 39.130 0.00 0.00 33.95 4.69
2560 2709 5.817616 AACGTTCTTATATTATGCGACGG 57.182 39.130 0.00 0.00 33.95 4.79
2561 2710 7.842239 TCAAAAACGTTCTTATATTATGCGACG 59.158 33.333 0.00 0.00 35.59 5.12
2562 2711 8.930982 GTCAAAAACGTTCTTATATTATGCGAC 58.069 33.333 0.00 0.00 0.00 5.19
2563 2712 8.657729 TGTCAAAAACGTTCTTATATTATGCGA 58.342 29.630 0.00 0.00 0.00 5.10
2564 2713 8.721476 GTGTCAAAAACGTTCTTATATTATGCG 58.279 33.333 0.00 0.00 0.00 4.73
2565 2714 9.769093 AGTGTCAAAAACGTTCTTATATTATGC 57.231 29.630 0.00 0.00 0.00 3.14
2570 2719 9.485206 AGTGTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 0.00 0.00 0.00 0.86
2571 2720 8.757789 CAGTGTAGTGTCAAAAACGTTCTTATA 58.242 33.333 0.00 0.00 0.00 0.98
2572 2721 7.493320 TCAGTGTAGTGTCAAAAACGTTCTTAT 59.507 33.333 0.00 0.00 0.00 1.73
2573 2722 6.812656 TCAGTGTAGTGTCAAAAACGTTCTTA 59.187 34.615 0.00 0.00 0.00 2.10
2574 2723 5.640357 TCAGTGTAGTGTCAAAAACGTTCTT 59.360 36.000 0.00 0.00 0.00 2.52
2575 2724 5.172934 TCAGTGTAGTGTCAAAAACGTTCT 58.827 37.500 0.00 0.00 0.00 3.01
2576 2725 5.063060 ACTCAGTGTAGTGTCAAAAACGTTC 59.937 40.000 0.00 0.00 0.00 3.95
2577 2726 4.933400 ACTCAGTGTAGTGTCAAAAACGTT 59.067 37.500 0.00 0.00 0.00 3.99
2578 2727 4.501071 ACTCAGTGTAGTGTCAAAAACGT 58.499 39.130 0.00 0.00 0.00 3.99
2579 2728 6.199043 CTACTCAGTGTAGTGTCAAAAACG 57.801 41.667 1.97 0.00 42.68 3.60
2625 2774 1.202533 TCAGCTAATCTAACAGCCCGC 60.203 52.381 0.00 0.00 38.61 6.13
2626 2775 2.546795 CCTCAGCTAATCTAACAGCCCG 60.547 54.545 0.00 0.00 38.61 6.13
2670 2823 1.306642 AAACACCAACGACAACCGCA 61.307 50.000 0.00 0.00 43.32 5.69
2674 2827 3.624410 AGACCTTAAACACCAACGACAAC 59.376 43.478 0.00 0.00 0.00 3.32
2675 2828 3.872771 GAGACCTTAAACACCAACGACAA 59.127 43.478 0.00 0.00 0.00 3.18
2683 2840 5.632034 ATATGGAGGAGACCTTAAACACC 57.368 43.478 0.00 0.00 31.76 4.16
2695 2871 6.832900 TCTGCATAGAGACATATATGGAGGAG 59.167 42.308 16.96 8.46 44.59 3.69
2713 2889 1.270465 CCACCAGCATCGATCTGCATA 60.270 52.381 13.17 0.00 44.77 3.14
2721 2897 2.202919 CGCATCCACCAGCATCGA 60.203 61.111 0.00 0.00 0.00 3.59
2815 3002 3.316071 TTAAACCAAGTGGCATGCATG 57.684 42.857 22.70 22.70 39.32 4.06
2816 3003 4.020396 TGAATTAAACCAAGTGGCATGCAT 60.020 37.500 21.36 1.15 39.32 3.96
2817 3004 3.323115 TGAATTAAACCAAGTGGCATGCA 59.677 39.130 21.36 2.54 39.32 3.96
2862 3053 3.641434 ACATGTCTTCCTCTTCCCATG 57.359 47.619 0.00 0.00 36.60 3.66
2872 3064 3.243737 GGAACAAACCCAACATGTCTTCC 60.244 47.826 0.00 0.00 0.00 3.46
2944 3137 8.514594 CATCTCTTAGAATGATCTAGTCCTGAC 58.485 40.741 0.00 0.00 39.29 3.51
2985 3224 6.661777 ACAAATTGCTGGGCCAATTAATTAT 58.338 32.000 8.04 4.56 42.78 1.28
3181 3425 2.667536 CCACTGCTGCGTGCTTCT 60.668 61.111 15.71 0.00 43.37 2.85
3189 3433 1.091771 ATATGCGTGTCCACTGCTGC 61.092 55.000 12.78 0.00 33.98 5.25
3251 3495 0.905337 AGCCAGGTGTGTCCTACTCC 60.905 60.000 0.00 0.00 46.24 3.85
3252 3496 0.977395 AAGCCAGGTGTGTCCTACTC 59.023 55.000 0.00 0.00 46.24 2.59
3338 3582 1.256812 GGTCTGGTCCATTTGGTTGG 58.743 55.000 0.00 0.00 38.18 3.77
3351 3595 0.253894 TGATCCTGTGCATGGTCTGG 59.746 55.000 8.29 0.81 0.00 3.86


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

AutoCloner maintained by Alex Coulton.