Multiple sequence alignment - TraesCS2D01G424700

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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 TraesCS2D01G424700 chr2D 100.000 4699 0 0 1 4699 537434895 537430197 0.000000e+00 8678.0
1 TraesCS2D01G424700 chr1D 95.435 2760 104 17 1 2750 454413678 454416425 0.000000e+00 4379.0
2 TraesCS2D01G424700 chr1D 96.759 2499 71 9 1 2496 478702792 478705283 0.000000e+00 4157.0
3 TraesCS2D01G424700 chr1D 94.043 1964 79 14 2763 4699 454416346 454418298 0.000000e+00 2944.0
4 TraesCS2D01G424700 chr1D 95.305 1427 61 6 2746 4171 478705259 478706680 0.000000e+00 2259.0
5 TraesCS2D01G424700 chr1D 96.085 613 20 3 4091 4699 478706645 478707257 0.000000e+00 996.0
6 TraesCS2D01G424700 chr1D 93.333 45 0 3 2685 2727 478705312 478705355 3.930000e-06 63.9
7 TraesCS2D01G424700 chr5A 94.583 2806 136 13 1 2796 702831248 702828449 0.000000e+00 4325.0
8 TraesCS2D01G424700 chr5A 94.798 865 43 2 2715 3579 702828576 702827714 0.000000e+00 1347.0
9 TraesCS2D01G424700 chr5A 90.193 673 38 12 3566 4238 702827693 702827049 0.000000e+00 852.0
10 TraesCS2D01G424700 chr5A 92.067 416 28 5 4288 4699 702827048 702826634 8.770000e-162 580.0
11 TraesCS2D01G424700 chr3B 91.396 2313 177 18 449 2750 42973782 42971481 0.000000e+00 3149.0
12 TraesCS2D01G424700 chr3B 87.802 1943 174 39 2763 4699 42971561 42969676 0.000000e+00 2217.0
13 TraesCS2D01G424700 chr3B 87.692 455 46 7 5 457 42974819 42974373 5.390000e-144 521.0
14 TraesCS2D01G424700 chr7D 90.822 2092 171 13 451 2529 572646890 572644807 0.000000e+00 2780.0
15 TraesCS2D01G424700 chr7D 89.793 676 59 9 2786 3459 572644730 572644063 0.000000e+00 857.0
16 TraesCS2D01G424700 chr7D 84.922 577 75 10 3450 4022 572636540 572635972 1.470000e-159 573.0
17 TraesCS2D01G424700 chr7D 85.909 440 57 5 2 440 572647941 572647506 9.210000e-127 464.0
18 TraesCS2D01G424700 chr3A 88.639 2086 212 16 451 2523 655204602 655206675 0.000000e+00 2516.0
19 TraesCS2D01G424700 chr3A 87.854 1095 119 11 2786 3876 655206760 655207844 0.000000e+00 1273.0
20 TraesCS2D01G424700 chr4B 80.267 1348 237 23 708 2042 672962039 672963370 0.000000e+00 989.0
21 TraesCS2D01G424700 chr4B 80.267 1348 237 23 708 2042 672966232 672967563 0.000000e+00 989.0
22 TraesCS2D01G424700 chr7B 78.547 1459 280 28 708 2150 583683792 583685233 0.000000e+00 929.0


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 TraesCS2D01G424700 chr2D 537430197 537434895 4698 True 8678.000000 8678 100.000000 1 4699 1 chr2D.!!$R1 4698
1 TraesCS2D01G424700 chr1D 454413678 454418298 4620 False 3661.500000 4379 94.739000 1 4699 2 chr1D.!!$F1 4698
2 TraesCS2D01G424700 chr1D 478702792 478707257 4465 False 1868.975000 4157 95.370500 1 4699 4 chr1D.!!$F2 4698
3 TraesCS2D01G424700 chr5A 702826634 702831248 4614 True 1776.000000 4325 92.910250 1 4699 4 chr5A.!!$R1 4698
4 TraesCS2D01G424700 chr3B 42969676 42974819 5143 True 1962.333333 3149 88.963333 5 4699 3 chr3B.!!$R1 4694
5 TraesCS2D01G424700 chr7D 572644063 572647941 3878 True 1367.000000 2780 88.841333 2 3459 3 chr7D.!!$R2 3457
6 TraesCS2D01G424700 chr7D 572635972 572636540 568 True 573.000000 573 84.922000 3450 4022 1 chr7D.!!$R1 572
7 TraesCS2D01G424700 chr3A 655204602 655207844 3242 False 1894.500000 2516 88.246500 451 3876 2 chr3A.!!$F1 3425
8 TraesCS2D01G424700 chr4B 672962039 672967563 5524 False 989.000000 989 80.267000 708 2042 2 chr4B.!!$F1 1334
9 TraesCS2D01G424700 chr7B 583683792 583685233 1441 False 929.000000 929 78.547000 708 2150 1 chr7B.!!$F1 1442

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
102 103 1.039856 GTTCCCAATGGCACTGTGTT 58.960 50.0 9.86 0.0 0.00 3.32 F
1533 2157 0.466543 ACAACCACAACCAGTCGCTA 59.533 50.0 0.00 0.0 0.00 4.26 F
1661 6478 0.107214 GACCAGGATTTCGGGATGCA 60.107 55.0 0.00 0.0 34.65 3.96 F
3272 8155 0.252375 AAGCACTTTGCCCCCATGAT 60.252 50.0 0.00 0.0 46.52 2.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1661 6478 0.107508 CACGTCCTCAATGCCTCCAT 60.108 55.0 0.00 0.0 0.00 3.41 R
3358 8241 0.038618 TGCGTCGTCTGCTATGTGTT 60.039 50.0 0.00 0.0 0.00 3.32 R
3521 8404 0.981183 AGTTATCTGTTGACGGCCCA 59.019 50.0 0.00 0.0 0.00 5.36 R
4095 9037 0.319297 GTTGACGCGAGGTGGTAACT 60.319 55.0 15.93 0.0 37.61 2.24 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
102 103 1.039856 GTTCCCAATGGCACTGTGTT 58.960 50.000 9.86 0.00 0.00 3.32
264 267 2.473816 CATCATCGTACGCAGGTGAAT 58.526 47.619 11.24 0.00 0.00 2.57
272 275 3.004002 CGTACGCAGGTGAATGGTCTATA 59.996 47.826 0.52 0.00 0.00 1.31
553 1171 4.055360 CACACGAACAACAGACCTATCAA 58.945 43.478 0.00 0.00 0.00 2.57
671 1289 7.186570 TCTGATGATGGAAACTCTGATACAA 57.813 36.000 0.00 0.00 0.00 2.41
673 1291 8.102676 TCTGATGATGGAAACTCTGATACAAAA 58.897 33.333 0.00 0.00 0.00 2.44
994 1618 4.764050 TTGGTGAGAACAAACTGTCCTA 57.236 40.909 0.00 0.00 0.00 2.94
1533 2157 0.466543 ACAACCACAACCAGTCGCTA 59.533 50.000 0.00 0.00 0.00 4.26
1661 6478 0.107214 GACCAGGATTTCGGGATGCA 60.107 55.000 0.00 0.00 34.65 3.96
1816 6636 1.072266 TGACCACAGCTTAACCCCAT 58.928 50.000 0.00 0.00 0.00 4.00
2044 6864 3.499537 CAGATTTGTCAAGCAGTACAGCA 59.500 43.478 13.16 0.00 36.85 4.41
2104 6924 0.317020 GGCGAACACAGCACTCAAAC 60.317 55.000 0.00 0.00 36.08 2.93
2333 7157 2.821969 AGTGCTTGGCCTTGTAAATGAG 59.178 45.455 3.32 0.00 0.00 2.90
2364 7192 4.198530 TCTGAGATGCAAAACAGTTGACA 58.801 39.130 13.97 0.00 0.00 3.58
2458 7291 2.863740 CCGATGTCGCAAAGTGCTAATA 59.136 45.455 0.00 0.00 42.25 0.98
2551 7386 6.147492 TGAAAATAATGAACTTGCCATTGTGC 59.853 34.615 0.00 0.00 35.94 4.57
2558 7393 1.300003 TTGCCATTGTGCGTGCAAG 60.300 52.632 0.00 0.00 38.68 4.01
2622 7458 6.480320 GCTATATTTCAGAGTTGGTGTGGTAG 59.520 42.308 0.00 0.00 0.00 3.18
2683 7519 2.523015 CGTGAGCCAGAATGAATTTGC 58.477 47.619 0.00 0.00 39.69 3.68
2684 7520 2.733227 CGTGAGCCAGAATGAATTTGCC 60.733 50.000 0.00 0.00 39.69 4.52
2685 7521 2.231964 GTGAGCCAGAATGAATTTGCCA 59.768 45.455 0.00 0.00 39.69 4.92
2686 7522 3.101437 TGAGCCAGAATGAATTTGCCAT 58.899 40.909 0.00 0.00 39.69 4.40
2720 7602 5.595542 ACTTGCCATGCATAGTACAATGAAT 59.404 36.000 0.00 0.00 38.76 2.57
2721 7603 6.097270 ACTTGCCATGCATAGTACAATGAATT 59.903 34.615 0.00 0.00 38.76 2.17
2722 7604 6.468333 TGCCATGCATAGTACAATGAATTT 57.532 33.333 0.00 0.00 31.71 1.82
2723 7605 6.274579 TGCCATGCATAGTACAATGAATTTG 58.725 36.000 0.00 0.00 35.97 2.32
2724 7606 5.176223 GCCATGCATAGTACAATGAATTTGC 59.824 40.000 0.00 0.00 39.03 3.68
2725 7607 5.693104 CCATGCATAGTACAATGAATTTGCC 59.307 40.000 0.00 0.00 39.03 4.52
2726 7608 5.911378 TGCATAGTACAATGAATTTGCCA 57.089 34.783 0.00 0.00 39.03 4.92
2727 7609 6.468333 TGCATAGTACAATGAATTTGCCAT 57.532 33.333 0.00 0.00 39.03 4.40
2728 7610 6.274579 TGCATAGTACAATGAATTTGCCATG 58.725 36.000 0.00 0.00 39.03 3.66
2729 7611 5.176223 GCATAGTACAATGAATTTGCCATGC 59.824 40.000 0.00 0.00 39.03 4.06
2730 7612 4.804868 AGTACAATGAATTTGCCATGCA 57.195 36.364 0.00 0.00 39.03 3.96
2731 7613 5.347620 AGTACAATGAATTTGCCATGCAT 57.652 34.783 0.00 0.00 38.76 3.96
2732 7614 6.468333 AGTACAATGAATTTGCCATGCATA 57.532 33.333 0.00 0.00 38.76 3.14
2733 7615 6.509656 AGTACAATGAATTTGCCATGCATAG 58.490 36.000 0.00 0.00 38.76 2.23
2734 7616 5.347620 ACAATGAATTTGCCATGCATAGT 57.652 34.783 0.00 0.00 38.76 2.12
2735 7617 6.468333 ACAATGAATTTGCCATGCATAGTA 57.532 33.333 0.00 0.00 38.76 1.82
2736 7618 6.275335 ACAATGAATTTGCCATGCATAGTAC 58.725 36.000 0.00 0.00 38.76 2.73
2737 7619 6.127394 ACAATGAATTTGCCATGCATAGTACA 60.127 34.615 0.00 0.00 38.76 2.90
2738 7620 5.911378 TGAATTTGCCATGCATAGTACAA 57.089 34.783 0.00 0.00 38.76 2.41
2739 7621 6.468333 TGAATTTGCCATGCATAGTACAAT 57.532 33.333 0.00 0.00 38.76 2.71
2740 7622 6.274579 TGAATTTGCCATGCATAGTACAATG 58.725 36.000 0.00 0.00 38.76 2.82
2741 7623 6.096564 TGAATTTGCCATGCATAGTACAATGA 59.903 34.615 0.00 0.00 38.76 2.57
2742 7624 5.911378 TTTGCCATGCATAGTACAATGAA 57.089 34.783 0.00 0.00 38.76 2.57
2743 7625 6.468333 TTTGCCATGCATAGTACAATGAAT 57.532 33.333 0.00 0.00 38.76 2.57
2744 7626 6.468333 TTGCCATGCATAGTACAATGAATT 57.532 33.333 0.00 0.00 38.76 2.17
2745 7627 6.468333 TGCCATGCATAGTACAATGAATTT 57.532 33.333 0.00 0.00 31.71 1.82
2746 7628 6.274579 TGCCATGCATAGTACAATGAATTTG 58.725 36.000 0.00 0.00 35.97 2.32
2747 7629 5.176223 GCCATGCATAGTACAATGAATTTGC 59.824 40.000 0.00 0.00 39.03 3.68
2748 7630 5.693104 CCATGCATAGTACAATGAATTTGCC 59.307 40.000 0.00 0.00 39.03 4.52
2749 7631 5.911378 TGCATAGTACAATGAATTTGCCA 57.089 34.783 0.00 0.00 39.03 4.92
2750 7632 6.468333 TGCATAGTACAATGAATTTGCCAT 57.532 33.333 0.00 0.00 39.03 4.40
2751 7633 6.274579 TGCATAGTACAATGAATTTGCCATG 58.725 36.000 0.00 0.00 39.03 3.66
2752 7634 5.176223 GCATAGTACAATGAATTTGCCATGC 59.824 40.000 0.00 0.00 39.03 4.06
2753 7635 4.804868 AGTACAATGAATTTGCCATGCA 57.195 36.364 0.00 0.00 39.03 3.96
2754 7636 5.347620 AGTACAATGAATTTGCCATGCAT 57.652 34.783 0.00 0.00 38.76 3.96
2755 7637 6.468333 AGTACAATGAATTTGCCATGCATA 57.532 33.333 0.00 0.00 38.76 3.14
2756 7638 6.509656 AGTACAATGAATTTGCCATGCATAG 58.490 36.000 0.00 0.00 38.76 2.23
2757 7639 5.347620 ACAATGAATTTGCCATGCATAGT 57.652 34.783 0.00 0.00 38.76 2.12
2758 7640 6.468333 ACAATGAATTTGCCATGCATAGTA 57.532 33.333 0.00 0.00 38.76 1.82
2759 7641 6.275335 ACAATGAATTTGCCATGCATAGTAC 58.725 36.000 0.00 0.00 38.76 2.73
2760 7642 6.127394 ACAATGAATTTGCCATGCATAGTACA 60.127 34.615 0.00 0.00 38.76 2.90
2761 7643 5.503662 TGAATTTGCCATGCATAGTACAG 57.496 39.130 0.00 0.00 38.76 2.74
2762 7644 4.949238 TGAATTTGCCATGCATAGTACAGT 59.051 37.500 0.00 0.00 38.76 3.55
2763 7645 4.906065 ATTTGCCATGCATAGTACAGTG 57.094 40.909 0.00 0.00 38.76 3.66
2764 7646 3.625649 TTGCCATGCATAGTACAGTGA 57.374 42.857 0.00 0.00 38.76 3.41
2765 7647 3.843893 TGCCATGCATAGTACAGTGAT 57.156 42.857 0.00 0.00 31.71 3.06
2766 7648 3.732212 TGCCATGCATAGTACAGTGATC 58.268 45.455 0.00 0.00 31.71 2.92
2767 7649 3.389002 TGCCATGCATAGTACAGTGATCT 59.611 43.478 0.00 0.00 31.71 2.75
2768 7650 4.141642 TGCCATGCATAGTACAGTGATCTT 60.142 41.667 0.00 0.00 31.71 2.40
2769 7651 4.212847 GCCATGCATAGTACAGTGATCTTG 59.787 45.833 0.00 0.00 0.00 3.02
2770 7652 4.212847 CCATGCATAGTACAGTGATCTTGC 59.787 45.833 0.00 7.95 0.00 4.01
2771 7653 3.797039 TGCATAGTACAGTGATCTTGCC 58.203 45.455 0.00 0.00 0.00 4.52
2772 7654 3.197549 TGCATAGTACAGTGATCTTGCCA 59.802 43.478 0.00 0.00 0.00 4.92
2773 7655 4.141642 TGCATAGTACAGTGATCTTGCCAT 60.142 41.667 0.00 0.00 0.00 4.40
2774 7656 4.212847 GCATAGTACAGTGATCTTGCCATG 59.787 45.833 0.00 0.00 0.00 3.66
2775 7657 2.636830 AGTACAGTGATCTTGCCATGC 58.363 47.619 0.00 0.00 0.00 4.06
2776 7658 2.026915 AGTACAGTGATCTTGCCATGCA 60.027 45.455 0.00 0.00 36.47 3.96
2777 7659 2.139323 ACAGTGATCTTGCCATGCAT 57.861 45.000 0.00 0.00 38.76 3.96
2778 7660 3.286329 ACAGTGATCTTGCCATGCATA 57.714 42.857 0.00 0.00 38.76 3.14
2779 7661 3.211865 ACAGTGATCTTGCCATGCATAG 58.788 45.455 0.00 0.00 38.76 2.23
2780 7662 3.211865 CAGTGATCTTGCCATGCATAGT 58.788 45.455 0.00 0.00 38.76 2.12
2781 7663 4.141642 ACAGTGATCTTGCCATGCATAGTA 60.142 41.667 0.00 0.00 38.76 1.82
2782 7664 4.212847 CAGTGATCTTGCCATGCATAGTAC 59.787 45.833 0.00 0.00 38.76 2.73
2783 7665 3.499918 GTGATCTTGCCATGCATAGTACC 59.500 47.826 0.00 0.00 38.76 3.34
2784 7666 2.238942 TCTTGCCATGCATAGTACCG 57.761 50.000 0.00 0.00 38.76 4.02
2785 7667 1.484653 TCTTGCCATGCATAGTACCGT 59.515 47.619 0.00 0.00 38.76 4.83
2786 7668 1.599071 CTTGCCATGCATAGTACCGTG 59.401 52.381 0.00 0.00 38.76 4.94
2825 7707 5.760253 AGTACAGTAATCTTGCCATGCATAC 59.240 40.000 0.00 0.00 38.76 2.39
3054 7937 3.343788 CTGCGAGACCTGTCCGACC 62.344 68.421 10.84 0.00 0.00 4.79
3198 8081 1.555075 GGGTCATGGACTTCAGTGCTA 59.445 52.381 0.00 0.00 37.28 3.49
3271 8154 0.899717 GAAGCACTTTGCCCCCATGA 60.900 55.000 0.00 0.00 46.52 3.07
3272 8155 0.252375 AAGCACTTTGCCCCCATGAT 60.252 50.000 0.00 0.00 46.52 2.45
3358 8241 8.623903 GCATATGGTAATGACAAGAAGATTTGA 58.376 33.333 4.56 0.00 0.00 2.69
3433 8316 2.610232 GGCACACGAAAGCATTGGAAAT 60.610 45.455 0.00 0.00 0.00 2.17
3521 8404 6.017109 CCAAAACTGCTACAACTACATCAACT 60.017 38.462 0.00 0.00 0.00 3.16
3668 8585 3.647590 AGATCCAGGCCAAACACAAAAAT 59.352 39.130 5.01 0.00 0.00 1.82
3925 8844 2.951642 CAATATTGGCCGTGGAATGACT 59.048 45.455 7.62 0.00 0.00 3.41
4098 9040 4.794278 AAAACGAACAGGGACAAAAGTT 57.206 36.364 0.00 0.00 0.00 2.66
4099 9041 5.900865 AAAACGAACAGGGACAAAAGTTA 57.099 34.783 0.00 0.00 0.00 2.24
4163 9128 0.373716 GCCACCTCGCGTCAAATAAG 59.626 55.000 5.77 0.00 0.00 1.73
4537 9506 5.933463 TGACCAATTCATCAAATTTGCTTCC 59.067 36.000 13.54 0.00 35.32 3.46
4538 9507 5.247862 ACCAATTCATCAAATTTGCTTCCC 58.752 37.500 13.54 0.00 35.32 3.97
4550 9523 6.530019 AATTTGCTTCCCGATTTAGATGTT 57.470 33.333 0.00 0.00 0.00 2.71
4570 9543 8.193438 AGATGTTGCTATCTTTTAGAAATTGCC 58.807 33.333 0.00 0.00 33.74 4.52
4581 9554 1.805428 GAAATTGCCGCACCTGTGGT 61.805 55.000 6.74 0.00 46.99 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
102 103 9.883142 ATTGTTCTTTAAAATTCCAAACTCACA 57.117 25.926 0.00 0.00 0.00 3.58
264 267 7.092802 TGGCAAGTTAGGTATGTTTATAGACCA 60.093 37.037 0.00 0.00 34.18 4.02
272 275 6.321821 TCCTATGGCAAGTTAGGTATGTTT 57.678 37.500 11.42 0.00 37.00 2.83
553 1171 0.598065 GCGGTCCTTGTTTGCTTGAT 59.402 50.000 0.00 0.00 0.00 2.57
671 1289 1.430992 TCAGGTTCGTCCCCTCTTTT 58.569 50.000 0.00 0.00 36.75 2.27
673 1291 0.905357 CATCAGGTTCGTCCCCTCTT 59.095 55.000 0.00 0.00 36.75 2.85
994 1618 0.034896 ACGTTCAGCTTCATTCGGGT 59.965 50.000 0.00 0.00 0.00 5.28
1533 2157 1.754226 ACAAAACCGCATCCAAACTGT 59.246 42.857 0.00 0.00 0.00 3.55
1661 6478 0.107508 CACGTCCTCAATGCCTCCAT 60.108 55.000 0.00 0.00 0.00 3.41
1816 6636 4.330944 TCCAGCTTGTTTCGAACTCTTA 57.669 40.909 0.00 0.00 0.00 2.10
2061 6881 2.782222 TTGTAGCTCCGCGCCTAGG 61.782 63.158 3.67 3.67 40.39 3.02
2364 7192 4.098349 CCATATGCATGGCAAGTTTAGTGT 59.902 41.667 10.16 0.00 45.29 3.55
2450 7283 7.709269 TGACATTTTCTCCGTATATTAGCAC 57.291 36.000 0.00 0.00 0.00 4.40
2458 7291 5.895636 TTTGCATGACATTTTCTCCGTAT 57.104 34.783 0.00 0.00 0.00 3.06
2584 7419 6.041979 TCTGAAATATAGCTGCCACATGACTA 59.958 38.462 0.00 0.00 0.00 2.59
2586 7421 5.059161 TCTGAAATATAGCTGCCACATGAC 58.941 41.667 0.00 0.00 0.00 3.06
2622 7458 2.084546 GCCTACATGTCACCACCTTTC 58.915 52.381 0.00 0.00 0.00 2.62
2673 7509 7.388437 AGTTCATTGTACATGGCAAATTCATT 58.612 30.769 0.00 0.00 0.00 2.57
2674 7510 6.938507 AGTTCATTGTACATGGCAAATTCAT 58.061 32.000 0.00 0.00 0.00 2.57
2675 7511 6.343716 AGTTCATTGTACATGGCAAATTCA 57.656 33.333 0.00 0.00 0.00 2.57
2676 7512 6.401367 GCAAGTTCATTGTACATGGCAAATTC 60.401 38.462 0.00 2.37 41.29 2.17
2677 7513 5.409214 GCAAGTTCATTGTACATGGCAAATT 59.591 36.000 0.00 0.00 41.29 1.82
2678 7514 4.931002 GCAAGTTCATTGTACATGGCAAAT 59.069 37.500 0.00 0.00 41.29 2.32
2679 7515 4.305769 GCAAGTTCATTGTACATGGCAAA 58.694 39.130 0.00 0.00 41.29 3.68
2680 7516 3.305950 GGCAAGTTCATTGTACATGGCAA 60.306 43.478 16.46 7.30 41.29 4.52
2681 7517 2.230992 GGCAAGTTCATTGTACATGGCA 59.769 45.455 16.46 0.00 41.29 4.92
2682 7518 2.230992 TGGCAAGTTCATTGTACATGGC 59.769 45.455 15.11 15.11 41.29 4.40
2683 7519 4.426416 CATGGCAAGTTCATTGTACATGG 58.574 43.478 0.00 0.00 44.16 3.66
2685 7521 3.510753 TGCATGGCAAGTTCATTGTACAT 59.489 39.130 0.00 0.00 41.29 2.29
2686 7522 2.889678 TGCATGGCAAGTTCATTGTACA 59.110 40.909 0.00 0.00 41.29 2.90
2720 7602 5.911378 TTCATTGTACTATGCATGGCAAA 57.089 34.783 10.16 2.25 43.62 3.68
2721 7603 6.468333 AATTCATTGTACTATGCATGGCAA 57.532 33.333 10.16 7.50 43.62 4.52
2722 7604 6.274579 CAAATTCATTGTACTATGCATGGCA 58.725 36.000 10.16 0.00 37.31 4.92
2723 7605 5.176223 GCAAATTCATTGTACTATGCATGGC 59.824 40.000 10.16 10.45 41.32 4.40
2724 7606 5.693104 GGCAAATTCATTGTACTATGCATGG 59.307 40.000 10.16 9.41 41.32 3.66
2725 7607 6.274579 TGGCAAATTCATTGTACTATGCATG 58.725 36.000 10.16 1.82 41.32 4.06
2726 7608 6.468333 TGGCAAATTCATTGTACTATGCAT 57.532 33.333 11.85 3.79 41.32 3.96
2727 7609 5.911378 TGGCAAATTCATTGTACTATGCA 57.089 34.783 11.85 2.39 41.32 3.96
2728 7610 5.176223 GCATGGCAAATTCATTGTACTATGC 59.824 40.000 11.85 1.63 41.32 3.14
2729 7611 6.274579 TGCATGGCAAATTCATTGTACTATG 58.725 36.000 10.61 10.61 41.32 2.23
2730 7612 6.468333 TGCATGGCAAATTCATTGTACTAT 57.532 33.333 0.00 0.00 41.32 2.12
2731 7613 5.911378 TGCATGGCAAATTCATTGTACTA 57.089 34.783 0.00 0.00 41.32 1.82
2732 7614 4.804868 TGCATGGCAAATTCATTGTACT 57.195 36.364 0.00 0.00 41.32 2.73
2733 7615 6.275335 ACTATGCATGGCAAATTCATTGTAC 58.725 36.000 10.16 0.00 43.62 2.90
2734 7616 6.468333 ACTATGCATGGCAAATTCATTGTA 57.532 33.333 10.16 0.00 43.62 2.41
2735 7617 5.347620 ACTATGCATGGCAAATTCATTGT 57.652 34.783 10.16 0.00 43.62 2.71
2736 7618 6.274579 TGTACTATGCATGGCAAATTCATTG 58.725 36.000 10.16 0.00 43.62 2.82
2737 7619 6.097270 ACTGTACTATGCATGGCAAATTCATT 59.903 34.615 10.16 0.00 43.62 2.57
2738 7620 5.595542 ACTGTACTATGCATGGCAAATTCAT 59.404 36.000 10.16 0.00 43.62 2.57
2739 7621 4.949238 ACTGTACTATGCATGGCAAATTCA 59.051 37.500 10.16 0.04 43.62 2.57
2740 7622 5.066375 TCACTGTACTATGCATGGCAAATTC 59.934 40.000 10.16 0.00 43.62 2.17
2741 7623 4.949238 TCACTGTACTATGCATGGCAAATT 59.051 37.500 10.16 0.00 43.62 1.82
2742 7624 4.525996 TCACTGTACTATGCATGGCAAAT 58.474 39.130 10.16 0.00 43.62 2.32
2743 7625 3.949132 TCACTGTACTATGCATGGCAAA 58.051 40.909 10.16 0.00 43.62 3.68
2744 7626 3.625649 TCACTGTACTATGCATGGCAA 57.374 42.857 10.16 0.00 43.62 4.52
2745 7627 3.389002 AGATCACTGTACTATGCATGGCA 59.611 43.478 10.16 0.00 44.86 4.92
2746 7628 4.000331 AGATCACTGTACTATGCATGGC 58.000 45.455 10.16 0.00 0.00 4.40
2747 7629 4.212847 GCAAGATCACTGTACTATGCATGG 59.787 45.833 10.16 9.41 33.00 3.66
2748 7630 4.212847 GGCAAGATCACTGTACTATGCATG 59.787 45.833 10.16 1.82 34.37 4.06
2749 7631 4.141642 TGGCAAGATCACTGTACTATGCAT 60.142 41.667 3.79 3.79 34.37 3.96
2750 7632 3.197549 TGGCAAGATCACTGTACTATGCA 59.802 43.478 0.00 0.00 34.37 3.96
2751 7633 3.797039 TGGCAAGATCACTGTACTATGC 58.203 45.455 0.00 0.00 0.00 3.14
2752 7634 4.212847 GCATGGCAAGATCACTGTACTATG 59.787 45.833 0.00 0.00 0.00 2.23
2753 7635 4.141642 TGCATGGCAAGATCACTGTACTAT 60.142 41.667 0.00 0.00 34.76 2.12
2754 7636 3.197549 TGCATGGCAAGATCACTGTACTA 59.802 43.478 0.00 0.00 34.76 1.82
2755 7637 2.026915 TGCATGGCAAGATCACTGTACT 60.027 45.455 0.00 0.00 34.76 2.73
2756 7638 2.358957 TGCATGGCAAGATCACTGTAC 58.641 47.619 0.00 0.00 34.76 2.90
2757 7639 2.785540 TGCATGGCAAGATCACTGTA 57.214 45.000 0.00 0.00 34.76 2.74
2758 7640 2.139323 ATGCATGGCAAGATCACTGT 57.861 45.000 0.00 0.00 43.62 3.55
2759 7641 3.211865 ACTATGCATGGCAAGATCACTG 58.788 45.455 10.16 0.00 43.62 3.66
2760 7642 3.572632 ACTATGCATGGCAAGATCACT 57.427 42.857 10.16 0.00 43.62 3.41
2761 7643 3.499918 GGTACTATGCATGGCAAGATCAC 59.500 47.826 10.16 0.46 43.62 3.06
2762 7644 3.743521 GGTACTATGCATGGCAAGATCA 58.256 45.455 10.16 0.00 43.62 2.92
2763 7645 2.738846 CGGTACTATGCATGGCAAGATC 59.261 50.000 10.16 0.00 43.62 2.75
2764 7646 2.104792 ACGGTACTATGCATGGCAAGAT 59.895 45.455 10.16 0.00 43.62 2.40
2765 7647 1.484653 ACGGTACTATGCATGGCAAGA 59.515 47.619 10.16 0.00 43.62 3.02
2766 7648 1.599071 CACGGTACTATGCATGGCAAG 59.401 52.381 10.16 0.32 43.62 4.01
2767 7649 1.208293 TCACGGTACTATGCATGGCAA 59.792 47.619 10.16 0.00 43.62 4.52
2768 7650 0.827368 TCACGGTACTATGCATGGCA 59.173 50.000 10.16 0.00 44.86 4.92
2769 7651 2.069273 GATCACGGTACTATGCATGGC 58.931 52.381 10.16 0.00 0.00 4.40
2770 7652 3.667497 AGATCACGGTACTATGCATGG 57.333 47.619 10.16 9.41 0.00 3.66
2771 7653 3.185188 GCAAGATCACGGTACTATGCATG 59.815 47.826 10.16 1.82 33.00 4.06
2772 7654 3.393800 GCAAGATCACGGTACTATGCAT 58.606 45.455 3.79 3.79 33.00 3.96
2773 7655 2.483013 GGCAAGATCACGGTACTATGCA 60.483 50.000 0.00 0.00 34.37 3.96
2774 7656 2.135933 GGCAAGATCACGGTACTATGC 58.864 52.381 0.00 0.00 0.00 3.14
2775 7657 3.452755 TGGCAAGATCACGGTACTATG 57.547 47.619 0.00 0.00 0.00 2.23
2776 7658 3.803715 GCATGGCAAGATCACGGTACTAT 60.804 47.826 0.00 0.00 0.00 2.12
2777 7659 2.483013 GCATGGCAAGATCACGGTACTA 60.483 50.000 0.00 0.00 0.00 1.82
2778 7660 1.743772 GCATGGCAAGATCACGGTACT 60.744 52.381 0.00 0.00 0.00 2.73
2779 7661 0.657840 GCATGGCAAGATCACGGTAC 59.342 55.000 0.00 0.00 0.00 3.34
2780 7662 0.251634 TGCATGGCAAGATCACGGTA 59.748 50.000 0.00 0.00 34.76 4.02
2781 7663 0.394762 ATGCATGGCAAGATCACGGT 60.395 50.000 0.00 0.00 43.62 4.83
2782 7664 1.534163 CTATGCATGGCAAGATCACGG 59.466 52.381 10.16 0.00 43.62 4.94
2783 7665 2.216046 ACTATGCATGGCAAGATCACG 58.784 47.619 10.16 0.00 43.62 4.35
2784 7666 4.129380 TGTACTATGCATGGCAAGATCAC 58.871 43.478 10.16 1.22 43.62 3.06
2785 7667 4.141642 ACTGTACTATGCATGGCAAGATCA 60.142 41.667 10.16 3.26 43.62 2.92
2786 7668 4.384056 ACTGTACTATGCATGGCAAGATC 58.616 43.478 10.16 0.00 43.62 2.75
2825 7707 4.460382 ACCTGACTGGCAAGATTATTGTTG 59.540 41.667 0.00 0.00 40.22 3.33
2862 7744 9.926158 TTAACTTTTCACAAATGCATGTCATAT 57.074 25.926 0.00 0.00 34.33 1.78
2863 7745 9.755804 TTTAACTTTTCACAAATGCATGTCATA 57.244 25.926 0.00 0.00 34.33 2.15
3054 7937 0.618458 TCCGGGTCCTCATTTTCTGG 59.382 55.000 0.00 0.00 0.00 3.86
3100 7983 4.643334 AGTACACACCATTCGCTATGTCTA 59.357 41.667 0.00 0.00 31.99 2.59
3358 8241 0.038618 TGCGTCGTCTGCTATGTGTT 60.039 50.000 0.00 0.00 0.00 3.32
3433 8316 7.674348 TCCTCTTCTTTATTGTCTCTAGTTCCA 59.326 37.037 0.00 0.00 0.00 3.53
3521 8404 0.981183 AGTTATCTGTTGACGGCCCA 59.019 50.000 0.00 0.00 0.00 5.36
3668 8585 5.364778 TCTGTAACTGCTTTCTTTGCACTA 58.635 37.500 0.00 0.00 36.37 2.74
3925 8844 9.817809 CTAAATCTATAGCAACACCTTCAACTA 57.182 33.333 0.00 0.00 0.00 2.24
4031 8950 4.218635 TGGCACGCTCAAATTTACCATTAA 59.781 37.500 0.00 0.00 0.00 1.40
4032 8951 3.759086 TGGCACGCTCAAATTTACCATTA 59.241 39.130 0.00 0.00 0.00 1.90
4095 9037 0.319297 GTTGACGCGAGGTGGTAACT 60.319 55.000 15.93 0.00 37.61 2.24
4096 9038 0.319297 AGTTGACGCGAGGTGGTAAC 60.319 55.000 15.93 6.90 0.00 2.50
4098 9040 1.174078 TCAGTTGACGCGAGGTGGTA 61.174 55.000 15.93 0.00 0.00 3.25
4099 9041 2.023414 TTCAGTTGACGCGAGGTGGT 62.023 55.000 15.93 0.00 0.00 4.16
4279 9244 7.118101 TGTGTTTGTCTTACGAAGTTTACTGTT 59.882 33.333 0.00 0.00 37.78 3.16
4437 9402 2.225491 AGCATTTTTCGTCGCTTTGCTA 59.775 40.909 0.00 0.00 37.21 3.49
4537 9506 9.261180 TCTAAAAGATAGCAACATCTAAATCGG 57.739 33.333 0.00 0.00 34.08 4.18
4550 9523 4.397730 TGCGGCAATTTCTAAAAGATAGCA 59.602 37.500 0.00 0.00 0.00 3.49


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

AutoCloner maintained by Alex Coulton.