Multiple sequence alignment - TraesCS7D01G447800

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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 TraesCS7D01G447800 chr7D 100.000 2124 0 0 504 2627 568032434 568030311 0.000000e+00 3923.0
1 TraesCS7D01G447800 chr7D 100.000 242 0 0 1 242 568032937 568032696 5.160000e-122 448.0
2 TraesCS7D01G447800 chr7D 96.460 113 3 1 751 862 568032082 568031970 4.460000e-43 185.0
3 TraesCS7D01G447800 chr7D 96.460 113 3 1 856 968 568032187 568032076 4.460000e-43 185.0
4 TraesCS7D01G447800 chr7D 83.333 144 23 1 2285 2428 96663820 96663962 5.900000e-27 132.0
5 TraesCS7D01G447800 chr7A 94.686 1148 35 13 751 1888 655419660 655418529 0.000000e+00 1759.0
6 TraesCS7D01G447800 chr7A 94.242 1042 32 9 1016 2048 655406161 655405139 0.000000e+00 1567.0
7 TraesCS7D01G447800 chr7A 96.781 466 13 2 504 968 655411145 655410681 0.000000e+00 776.0
8 TraesCS7D01G447800 chr7A 96.222 450 16 1 2059 2507 655412781 655412332 0.000000e+00 736.0
9 TraesCS7D01G447800 chr7A 98.195 277 5 0 692 968 655419824 655419548 3.930000e-133 484.0
10 TraesCS7D01G447800 chr7A 97.398 269 5 2 751 1018 655410793 655410526 8.570000e-125 457.0
11 TraesCS7D01G447800 chr7A 97.934 242 5 0 1 242 655411881 655411640 1.120000e-113 420.0
12 TraesCS7D01G447800 chr7A 95.736 258 10 1 2059 2315 655405159 655404902 5.230000e-112 414.0
13 TraesCS7D01G447800 chr7A 96.694 242 8 0 1 242 655442619 655442378 1.130000e-108 403.0
14 TraesCS7D01G447800 chr7A 97.340 188 5 0 506 693 655442344 655442157 1.170000e-83 320.0
15 TraesCS7D01G447800 chr7A 96.914 162 5 0 1887 2048 655412922 655412761 3.330000e-69 272.0
16 TraesCS7D01G447800 chr7A 97.345 113 2 1 856 968 655410898 655410787 9.600000e-45 191.0
17 TraesCS7D01G447800 chr7A 97.345 113 2 1 856 968 655419765 655419654 9.600000e-45 191.0
18 TraesCS7D01G447800 chr7A 86.420 81 2 3 2503 2574 655404744 655404664 2.170000e-11 80.5
19 TraesCS7D01G447800 chr7B 92.512 1202 52 19 856 2048 622687908 622686736 0.000000e+00 1687.0
20 TraesCS7D01G447800 chr7B 92.345 1032 43 17 1026 2048 622674980 622673976 0.000000e+00 1435.0
21 TraesCS7D01G447800 chr7B 92.733 688 20 11 1373 2048 622765467 622764798 0.000000e+00 966.0
22 TraesCS7D01G447800 chr7B 93.524 525 32 2 856 1380 622788143 622787621 0.000000e+00 780.0
23 TraesCS7D01G447800 chr7B 95.333 450 18 3 2059 2507 622764818 622764371 0.000000e+00 712.0
24 TraesCS7D01G447800 chr7B 95.278 360 16 1 504 862 622688156 622687797 1.060000e-158 569.0
25 TraesCS7D01G447800 chr7B 94.444 360 19 1 504 862 622788391 622788032 1.060000e-153 553.0
26 TraesCS7D01G447800 chr7B 95.385 325 14 1 504 827 622675319 622674995 1.390000e-142 516.0
27 TraesCS7D01G447800 chr7B 98.400 125 2 0 2503 2627 622764158 622764034 1.220000e-53 220.0
28 TraesCS7D01G447800 chr7B 85.256 156 22 1 1263 1417 623270640 623270485 2.710000e-35 159.0
29 TraesCS7D01G447800 chr7B 75.749 334 68 10 1095 1415 623522798 623522465 3.500000e-34 156.0
30 TraesCS7D01G447800 chr7B 75.749 334 68 10 1095 1415 623537251 623536918 3.500000e-34 156.0
31 TraesCS7D01G447800 chr7B 85.714 147 20 1 1272 1417 623372736 623372590 1.260000e-33 154.0
32 TraesCS7D01G447800 chr7B 82.857 105 1 5 138 242 622675438 622675351 7.800000e-11 78.7
33 TraesCS7D01G447800 chr7B 82.857 105 1 5 138 242 622688275 622688188 7.800000e-11 78.7
34 TraesCS7D01G447800 chr7B 82.857 105 1 4 138 242 622788509 622788422 7.800000e-11 78.7
35 TraesCS7D01G447800 chrUn 95.385 325 14 1 504 827 381284411 381284087 1.390000e-142 516.0
36 TraesCS7D01G447800 chrUn 89.683 126 12 1 2291 2415 184660088 184659963 2.710000e-35 159.0
37 TraesCS7D01G447800 chrUn 82.857 105 1 5 138 242 381284530 381284443 7.800000e-11 78.7
38 TraesCS7D01G447800 chr2B 81.250 160 18 5 2262 2417 689367368 689367519 4.590000e-23 119.0
39 TraesCS7D01G447800 chr5B 100.000 30 0 0 532 561 493088570 493088541 3.650000e-04 56.5


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 TraesCS7D01G447800 chr7D 568030311 568032937 2626 True 1185.250000 3923 98.230000 1 2627 4 chr7D.!!$R1 2626
1 TraesCS7D01G447800 chr7A 655418529 655419824 1295 True 811.333333 1759 96.742000 692 1888 3 chr7A.!!$R3 1196
2 TraesCS7D01G447800 chr7A 655404664 655406161 1497 True 687.166667 1567 92.132667 1016 2574 3 chr7A.!!$R1 1558
3 TraesCS7D01G447800 chr7A 655410526 655412922 2396 True 475.333333 776 97.099000 1 2507 6 chr7A.!!$R2 2506
4 TraesCS7D01G447800 chr7B 622686736 622688275 1539 True 778.233333 1687 90.215667 138 2048 3 chr7B.!!$R6 1910
5 TraesCS7D01G447800 chr7B 622673976 622675438 1462 True 676.566667 1435 90.195667 138 2048 3 chr7B.!!$R5 1910
6 TraesCS7D01G447800 chr7B 622764034 622765467 1433 True 632.666667 966 95.488667 1373 2627 3 chr7B.!!$R7 1254
7 TraesCS7D01G447800 chr7B 622787621 622788509 888 True 470.566667 780 90.275000 138 1380 3 chr7B.!!$R8 1242

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
879 2579 1.191535 TAGCTTGCACCCATCTACGT 58.808 50.0 0.0 0.0 0.0 3.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2192 3915 1.822114 TTTGACATCTCCACCCGCGA 61.822 55.0 8.23 0.0 0.0 5.87 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
73 1115 3.562973 AGATGACACAGAAAACAGCACAG 59.437 43.478 0.00 0.00 0.00 3.66
757 2033 9.539825 CAGAATCAGTCACTAGCATTTAATAGT 57.460 33.333 0.00 0.00 32.44 2.12
758 2034 9.539825 AGAATCAGTCACTAGCATTTAATAGTG 57.460 33.333 7.39 7.39 46.70 2.74
862 2562 9.892130 AGTTATCTTGAGGGTTCAGTTAATTAG 57.108 33.333 0.00 0.00 34.15 1.73
863 2563 8.613482 GTTATCTTGAGGGTTCAGTTAATTAGC 58.387 37.037 0.00 0.00 34.15 3.09
864 2564 6.374417 TCTTGAGGGTTCAGTTAATTAGCT 57.626 37.500 0.00 0.00 34.15 3.32
865 2565 6.779860 TCTTGAGGGTTCAGTTAATTAGCTT 58.220 36.000 0.00 0.00 34.15 3.74
866 2566 6.655003 TCTTGAGGGTTCAGTTAATTAGCTTG 59.345 38.462 0.00 0.00 34.15 4.01
867 2567 4.700213 TGAGGGTTCAGTTAATTAGCTTGC 59.300 41.667 0.00 0.00 0.00 4.01
868 2568 4.662278 AGGGTTCAGTTAATTAGCTTGCA 58.338 39.130 0.00 0.00 0.00 4.08
869 2569 4.459337 AGGGTTCAGTTAATTAGCTTGCAC 59.541 41.667 0.00 0.00 0.00 4.57
870 2570 4.380550 GGGTTCAGTTAATTAGCTTGCACC 60.381 45.833 0.00 6.06 0.00 5.01
871 2571 4.380550 GGTTCAGTTAATTAGCTTGCACCC 60.381 45.833 0.00 0.00 0.00 4.61
872 2572 4.027674 TCAGTTAATTAGCTTGCACCCA 57.972 40.909 0.00 0.00 0.00 4.51
873 2573 4.599041 TCAGTTAATTAGCTTGCACCCAT 58.401 39.130 0.00 0.00 0.00 4.00
874 2574 4.640201 TCAGTTAATTAGCTTGCACCCATC 59.360 41.667 0.00 0.00 0.00 3.51
875 2575 4.641989 CAGTTAATTAGCTTGCACCCATCT 59.358 41.667 0.00 0.00 0.00 2.90
876 2576 5.822519 CAGTTAATTAGCTTGCACCCATCTA 59.177 40.000 0.00 0.00 0.00 1.98
877 2577 5.823045 AGTTAATTAGCTTGCACCCATCTAC 59.177 40.000 0.00 0.00 0.00 2.59
878 2578 2.309528 TTAGCTTGCACCCATCTACG 57.690 50.000 0.00 0.00 0.00 3.51
879 2579 1.191535 TAGCTTGCACCCATCTACGT 58.808 50.000 0.00 0.00 0.00 3.57
880 2580 1.191535 AGCTTGCACCCATCTACGTA 58.808 50.000 0.00 0.00 0.00 3.57
881 2581 1.762957 AGCTTGCACCCATCTACGTAT 59.237 47.619 0.00 0.00 0.00 3.06
882 2582 2.963101 AGCTTGCACCCATCTACGTATA 59.037 45.455 0.00 0.00 0.00 1.47
883 2583 3.057734 GCTTGCACCCATCTACGTATAC 58.942 50.000 0.00 0.00 0.00 1.47
884 2584 3.243771 GCTTGCACCCATCTACGTATACT 60.244 47.826 0.00 0.00 0.00 2.12
885 2585 4.547532 CTTGCACCCATCTACGTATACTC 58.452 47.826 0.00 0.00 0.00 2.59
886 2586 3.828921 TGCACCCATCTACGTATACTCT 58.171 45.455 0.00 0.00 0.00 3.24
887 2587 4.976864 TGCACCCATCTACGTATACTCTA 58.023 43.478 0.00 0.00 0.00 2.43
888 2588 5.567430 TGCACCCATCTACGTATACTCTAT 58.433 41.667 0.00 0.00 0.00 1.98
889 2589 5.646793 TGCACCCATCTACGTATACTCTATC 59.353 44.000 0.00 0.00 0.00 2.08
890 2590 5.881443 GCACCCATCTACGTATACTCTATCT 59.119 44.000 0.00 0.00 0.00 1.98
891 2591 6.183360 GCACCCATCTACGTATACTCTATCTG 60.183 46.154 0.00 0.00 0.00 2.90
892 2592 5.881443 ACCCATCTACGTATACTCTATCTGC 59.119 44.000 0.00 0.00 0.00 4.26
893 2593 5.880887 CCCATCTACGTATACTCTATCTGCA 59.119 44.000 0.00 0.00 0.00 4.41
894 2594 6.037720 CCCATCTACGTATACTCTATCTGCAG 59.962 46.154 7.63 7.63 0.00 4.41
895 2595 6.596106 CCATCTACGTATACTCTATCTGCAGT 59.404 42.308 14.67 3.75 0.00 4.40
896 2596 7.119992 CCATCTACGTATACTCTATCTGCAGTT 59.880 40.741 14.67 8.22 0.00 3.16
897 2597 8.508062 CATCTACGTATACTCTATCTGCAGTTT 58.492 37.037 14.67 5.37 0.00 2.66
898 2598 7.862648 TCTACGTATACTCTATCTGCAGTTTG 58.137 38.462 14.67 6.75 0.00 2.93
899 2599 6.694877 ACGTATACTCTATCTGCAGTTTGA 57.305 37.500 14.67 10.96 0.00 2.69
900 2600 7.278461 ACGTATACTCTATCTGCAGTTTGAT 57.722 36.000 14.67 2.22 0.00 2.57
901 2601 8.392372 ACGTATACTCTATCTGCAGTTTGATA 57.608 34.615 14.67 3.40 0.00 2.15
902 2602 8.291032 ACGTATACTCTATCTGCAGTTTGATAC 58.709 37.037 14.67 10.12 0.00 2.24
903 2603 8.290325 CGTATACTCTATCTGCAGTTTGATACA 58.710 37.037 14.67 1.09 0.00 2.29
904 2604 9.967346 GTATACTCTATCTGCAGTTTGATACAA 57.033 33.333 14.67 0.00 0.00 2.41
906 2606 7.175347 ACTCTATCTGCAGTTTGATACAAGA 57.825 36.000 14.67 2.55 0.00 3.02
907 2607 7.615403 ACTCTATCTGCAGTTTGATACAAGAA 58.385 34.615 14.67 0.00 0.00 2.52
908 2608 7.547370 ACTCTATCTGCAGTTTGATACAAGAAC 59.453 37.037 14.67 0.00 0.00 3.01
909 2609 7.615403 TCTATCTGCAGTTTGATACAAGAACT 58.385 34.615 14.67 0.00 34.14 3.01
910 2610 8.749354 TCTATCTGCAGTTTGATACAAGAACTA 58.251 33.333 14.67 0.00 32.69 2.24
911 2611 7.840342 ATCTGCAGTTTGATACAAGAACTAG 57.160 36.000 14.67 0.00 32.69 2.57
912 2612 6.993079 TCTGCAGTTTGATACAAGAACTAGA 58.007 36.000 14.67 0.00 32.69 2.43
913 2613 7.615403 TCTGCAGTTTGATACAAGAACTAGAT 58.385 34.615 14.67 0.00 32.69 1.98
914 2614 7.547019 TCTGCAGTTTGATACAAGAACTAGATG 59.453 37.037 14.67 0.00 32.69 2.90
915 2615 7.161404 TGCAGTTTGATACAAGAACTAGATGT 58.839 34.615 0.00 0.00 32.69 3.06
916 2616 7.118245 TGCAGTTTGATACAAGAACTAGATGTG 59.882 37.037 0.00 0.00 32.69 3.21
917 2617 7.459486 CAGTTTGATACAAGAACTAGATGTGC 58.541 38.462 0.00 0.00 32.69 4.57
918 2618 6.595716 AGTTTGATACAAGAACTAGATGTGCC 59.404 38.462 0.00 0.00 32.22 5.01
919 2619 5.939764 TGATACAAGAACTAGATGTGCCT 57.060 39.130 0.00 0.00 0.00 4.75
920 2620 7.418337 TTGATACAAGAACTAGATGTGCCTA 57.582 36.000 0.00 0.00 0.00 3.93
921 2621 6.806751 TGATACAAGAACTAGATGTGCCTAC 58.193 40.000 0.00 0.00 0.00 3.18
922 2622 6.379988 TGATACAAGAACTAGATGTGCCTACA 59.620 38.462 0.00 0.00 41.89 2.74
935 2635 6.832520 ATGTGCCTACATTAAATGACAACA 57.167 33.333 0.00 0.00 45.01 3.33
936 2636 6.832520 TGTGCCTACATTAAATGACAACAT 57.167 33.333 0.00 0.00 38.50 2.71
937 2637 7.929941 TGTGCCTACATTAAATGACAACATA 57.070 32.000 0.00 0.00 35.50 2.29
938 2638 8.518430 TGTGCCTACATTAAATGACAACATAT 57.482 30.769 0.00 0.00 35.50 1.78
939 2639 8.620416 TGTGCCTACATTAAATGACAACATATC 58.380 33.333 0.00 0.00 35.50 1.63
940 2640 8.076178 GTGCCTACATTAAATGACAACATATCC 58.924 37.037 0.00 0.00 35.50 2.59
941 2641 7.777440 TGCCTACATTAAATGACAACATATCCA 59.223 33.333 0.00 0.00 35.50 3.41
942 2642 8.629158 GCCTACATTAAATGACAACATATCCAA 58.371 33.333 0.00 0.00 35.50 3.53
952 2652 9.685276 AATGACAACATATCCAAGTTATCTTGA 57.315 29.630 13.98 2.59 43.03 3.02
953 2653 9.334947 ATGACAACATATCCAAGTTATCTTGAG 57.665 33.333 13.98 5.66 42.57 3.02
998 2698 1.370051 GCGAACGAGTTTGCAACCC 60.370 57.895 19.96 0.00 46.55 4.11
1048 2748 9.716507 GTCGAATTATTGCATAAAACACATACT 57.283 29.630 0.00 0.00 0.00 2.12
1369 3069 1.268032 GCTACACATGTATGCGGCAAC 60.268 52.381 6.82 7.52 0.00 4.17
1577 3278 1.445716 CTCCGGGCAGTACCTAGACG 61.446 65.000 0.00 0.00 39.10 4.18
1578 3279 2.487532 CCGGGCAGTACCTAGACGG 61.488 68.421 0.00 0.00 39.10 4.79
1579 3280 2.813200 GGGCAGTACCTAGACGGC 59.187 66.667 0.00 0.00 39.48 5.68
1580 3281 1.757340 GGGCAGTACCTAGACGGCT 60.757 63.158 0.00 0.00 40.01 5.52
1581 3282 0.466922 GGGCAGTACCTAGACGGCTA 60.467 60.000 0.00 0.00 40.01 3.93
1582 3283 0.953003 GGCAGTACCTAGACGGCTAG 59.047 60.000 19.05 19.05 43.08 3.42
1583 3284 1.476471 GGCAGTACCTAGACGGCTAGA 60.476 57.143 27.39 4.51 45.71 2.43
1584 3285 1.603326 GCAGTACCTAGACGGCTAGAC 59.397 57.143 27.39 17.33 45.71 2.59
1598 3299 4.161565 ACGGCTAGACATTCATTGTAAGGA 59.838 41.667 0.00 0.00 39.18 3.36
1900 3614 4.202111 CCCCCATAATTTTTACCAAGAGCG 60.202 45.833 0.00 0.00 0.00 5.03
2045 3768 3.124636 CGAGAAACAGGGTTGGAAATACG 59.875 47.826 0.00 0.00 0.00 3.06
2046 3769 4.070009 GAGAAACAGGGTTGGAAATACGT 58.930 43.478 0.00 0.00 0.00 3.57
2047 3770 4.466827 AGAAACAGGGTTGGAAATACGTT 58.533 39.130 0.00 0.00 0.00 3.99
2048 3771 5.623169 AGAAACAGGGTTGGAAATACGTTA 58.377 37.500 0.00 0.00 0.00 3.18
2049 3772 5.471116 AGAAACAGGGTTGGAAATACGTTAC 59.529 40.000 0.00 0.00 0.00 2.50
2050 3773 3.678289 ACAGGGTTGGAAATACGTTACC 58.322 45.455 0.00 0.00 0.00 2.85
2051 3774 3.011818 CAGGGTTGGAAATACGTTACCC 58.988 50.000 0.00 0.00 44.45 3.69
2052 3775 2.025981 AGGGTTGGAAATACGTTACCCC 60.026 50.000 0.00 0.00 45.07 4.95
2053 3776 2.009051 GGTTGGAAATACGTTACCCCG 58.991 52.381 0.00 0.00 0.00 5.73
2054 3777 1.398041 GTTGGAAATACGTTACCCCGC 59.602 52.381 0.00 0.00 0.00 6.13
2055 3778 0.612229 TGGAAATACGTTACCCCGCA 59.388 50.000 0.00 0.00 0.00 5.69
2056 3779 1.002888 TGGAAATACGTTACCCCGCAA 59.997 47.619 0.00 0.00 0.00 4.85
2057 3780 2.083002 GGAAATACGTTACCCCGCAAA 58.917 47.619 0.00 0.00 0.00 3.68
2058 3781 2.487372 GGAAATACGTTACCCCGCAAAA 59.513 45.455 0.00 0.00 0.00 2.44
2059 3782 3.057666 GGAAATACGTTACCCCGCAAAAA 60.058 43.478 0.00 0.00 0.00 1.94
2138 3861 5.535783 TCAGAAAGTTGAGATTGCCAAATCA 59.464 36.000 1.64 0.00 44.05 2.57
2192 3915 2.119495 CAGTAGGGGCATGTTAGGAGT 58.881 52.381 0.00 0.00 0.00 3.85
2337 4061 2.063266 GATGTTTTGGCTGTGTGCATG 58.937 47.619 0.00 0.00 45.15 4.06
2338 4062 0.104487 TGTTTTGGCTGTGTGCATGG 59.896 50.000 0.00 0.00 45.15 3.66
2363 4087 2.649129 GCAGAGGCCGGGCATTTTT 61.649 57.895 31.59 8.95 0.00 1.94
2384 4108 6.371809 TTTTCAGTGTGGTTGTATCAACTC 57.628 37.500 11.48 6.88 0.00 3.01
2449 4173 3.718434 TCTAGGCATGGGAGATGTTTGAT 59.282 43.478 0.00 0.00 0.00 2.57
2496 4220 1.957877 AGCGAGGGATTAGTAGCAGAC 59.042 52.381 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.341899 GCTTTTAAAAGTCGACATCATATTTGT 57.658 29.630 24.95 0.00 38.28 2.83
3 4 9.559958 AGCTTTTAAAAGTCGACATCATATTTG 57.440 29.630 24.95 2.02 38.28 2.32
4 5 9.559958 CAGCTTTTAAAAGTCGACATCATATTT 57.440 29.630 24.95 5.34 38.28 1.40
73 1115 7.922837 TGTTAAAGTAGTGAAGTTAGTTTGGC 58.077 34.615 0.00 0.00 0.00 4.52
606 1881 2.928116 GCTGCAAATTGATTTCCTGAGC 59.072 45.455 0.00 0.00 0.00 4.26
657 1932 9.722056 AATTCTCGTAAAGCATGAATATCAAAC 57.278 29.630 0.00 0.00 0.00 2.93
757 2033 3.293337 AGTATACGTAGATGGGTGCACA 58.707 45.455 20.43 0.00 0.00 4.57
758 2034 3.568853 AGAGTATACGTAGATGGGTGCAC 59.431 47.826 8.80 8.80 0.00 4.57
853 2553 4.860022 AGATGGGTGCAAGCTAATTAACT 58.140 39.130 0.00 0.00 0.00 2.24
854 2554 5.277345 CGTAGATGGGTGCAAGCTAATTAAC 60.277 44.000 0.00 0.00 0.00 2.01
855 2555 4.814234 CGTAGATGGGTGCAAGCTAATTAA 59.186 41.667 0.00 0.00 0.00 1.40
856 2556 4.141801 ACGTAGATGGGTGCAAGCTAATTA 60.142 41.667 0.00 0.00 0.00 1.40
857 2557 3.206150 CGTAGATGGGTGCAAGCTAATT 58.794 45.455 0.00 0.00 0.00 1.40
858 2558 2.170607 ACGTAGATGGGTGCAAGCTAAT 59.829 45.455 0.00 0.00 0.00 1.73
859 2559 1.553248 ACGTAGATGGGTGCAAGCTAA 59.447 47.619 0.00 0.00 0.00 3.09
860 2560 1.191535 ACGTAGATGGGTGCAAGCTA 58.808 50.000 0.00 0.00 0.00 3.32
861 2561 1.191535 TACGTAGATGGGTGCAAGCT 58.808 50.000 0.00 0.00 0.00 3.74
862 2562 2.240493 ATACGTAGATGGGTGCAAGC 57.760 50.000 0.08 0.00 0.00 4.01
863 2563 4.278669 AGAGTATACGTAGATGGGTGCAAG 59.721 45.833 0.08 0.00 0.00 4.01
864 2564 4.212716 AGAGTATACGTAGATGGGTGCAA 58.787 43.478 0.08 0.00 0.00 4.08
865 2565 3.828921 AGAGTATACGTAGATGGGTGCA 58.171 45.455 0.08 0.00 0.00 4.57
866 2566 5.881443 AGATAGAGTATACGTAGATGGGTGC 59.119 44.000 0.08 0.00 0.00 5.01
867 2567 6.183360 GCAGATAGAGTATACGTAGATGGGTG 60.183 46.154 0.08 0.00 0.00 4.61
868 2568 5.881443 GCAGATAGAGTATACGTAGATGGGT 59.119 44.000 0.08 0.00 0.00 4.51
869 2569 5.880887 TGCAGATAGAGTATACGTAGATGGG 59.119 44.000 0.08 0.00 0.00 4.00
870 2570 6.596106 ACTGCAGATAGAGTATACGTAGATGG 59.404 42.308 23.35 0.00 0.00 3.51
871 2571 7.603963 ACTGCAGATAGAGTATACGTAGATG 57.396 40.000 23.35 0.00 0.00 2.90
872 2572 8.508062 CAAACTGCAGATAGAGTATACGTAGAT 58.492 37.037 23.35 0.00 0.00 1.98
873 2573 7.713942 TCAAACTGCAGATAGAGTATACGTAGA 59.286 37.037 23.35 0.00 0.00 2.59
874 2574 7.862648 TCAAACTGCAGATAGAGTATACGTAG 58.137 38.462 23.35 0.00 0.00 3.51
875 2575 7.797038 TCAAACTGCAGATAGAGTATACGTA 57.203 36.000 23.35 0.00 0.00 3.57
876 2576 6.694877 TCAAACTGCAGATAGAGTATACGT 57.305 37.500 23.35 0.00 0.00 3.57
877 2577 8.290325 TGTATCAAACTGCAGATAGAGTATACG 58.710 37.037 23.35 0.00 0.00 3.06
878 2578 9.967346 TTGTATCAAACTGCAGATAGAGTATAC 57.033 33.333 23.35 16.56 0.00 1.47
880 2580 8.918116 TCTTGTATCAAACTGCAGATAGAGTAT 58.082 33.333 23.35 6.78 0.00 2.12
881 2581 8.293699 TCTTGTATCAAACTGCAGATAGAGTA 57.706 34.615 23.35 3.15 0.00 2.59
882 2582 7.175347 TCTTGTATCAAACTGCAGATAGAGT 57.825 36.000 23.35 4.16 0.00 3.24
883 2583 7.763528 AGTTCTTGTATCAAACTGCAGATAGAG 59.236 37.037 23.35 8.77 32.22 2.43
884 2584 7.615403 AGTTCTTGTATCAAACTGCAGATAGA 58.385 34.615 23.35 14.51 32.22 1.98
885 2585 7.840342 AGTTCTTGTATCAAACTGCAGATAG 57.160 36.000 23.35 9.20 32.22 2.08
886 2586 8.749354 TCTAGTTCTTGTATCAAACTGCAGATA 58.251 33.333 23.35 4.88 35.08 1.98
887 2587 7.615403 TCTAGTTCTTGTATCAAACTGCAGAT 58.385 34.615 23.35 5.41 35.08 2.90
888 2588 6.993079 TCTAGTTCTTGTATCAAACTGCAGA 58.007 36.000 23.35 0.00 35.08 4.26
889 2589 7.332926 ACATCTAGTTCTTGTATCAAACTGCAG 59.667 37.037 13.48 13.48 35.08 4.41
890 2590 7.118245 CACATCTAGTTCTTGTATCAAACTGCA 59.882 37.037 0.00 0.00 35.08 4.41
891 2591 7.459486 CACATCTAGTTCTTGTATCAAACTGC 58.541 38.462 0.00 0.00 35.08 4.40
892 2592 7.413438 GGCACATCTAGTTCTTGTATCAAACTG 60.413 40.741 0.00 0.00 35.08 3.16
893 2593 6.595716 GGCACATCTAGTTCTTGTATCAAACT 59.404 38.462 0.00 0.00 37.10 2.66
894 2594 6.595716 AGGCACATCTAGTTCTTGTATCAAAC 59.404 38.462 0.00 0.00 0.00 2.93
895 2595 6.711277 AGGCACATCTAGTTCTTGTATCAAA 58.289 36.000 0.00 0.00 0.00 2.69
896 2596 6.299805 AGGCACATCTAGTTCTTGTATCAA 57.700 37.500 0.00 0.00 0.00 2.57
897 2597 5.939764 AGGCACATCTAGTTCTTGTATCA 57.060 39.130 0.00 0.00 0.00 2.15
898 2598 6.806751 TGTAGGCACATCTAGTTCTTGTATC 58.193 40.000 0.00 0.00 0.00 2.24
899 2599 6.791867 TGTAGGCACATCTAGTTCTTGTAT 57.208 37.500 0.00 0.00 0.00 2.29
900 2600 6.791867 ATGTAGGCACATCTAGTTCTTGTA 57.208 37.500 0.00 0.00 41.75 2.41
901 2601 5.683876 ATGTAGGCACATCTAGTTCTTGT 57.316 39.130 0.00 0.00 41.75 3.16
902 2602 8.492673 TTTAATGTAGGCACATCTAGTTCTTG 57.507 34.615 3.61 0.00 44.83 3.02
903 2603 9.113838 CATTTAATGTAGGCACATCTAGTTCTT 57.886 33.333 0.00 0.00 44.83 2.52
904 2604 8.486210 TCATTTAATGTAGGCACATCTAGTTCT 58.514 33.333 4.77 0.00 44.83 3.01
905 2605 8.552034 GTCATTTAATGTAGGCACATCTAGTTC 58.448 37.037 4.77 0.00 44.83 3.01
906 2606 8.046708 TGTCATTTAATGTAGGCACATCTAGTT 58.953 33.333 4.77 0.00 44.83 2.24
907 2607 7.564793 TGTCATTTAATGTAGGCACATCTAGT 58.435 34.615 4.77 0.00 44.83 2.57
908 2608 8.338259 GTTGTCATTTAATGTAGGCACATCTAG 58.662 37.037 4.77 0.00 44.83 2.43
909 2609 7.826744 TGTTGTCATTTAATGTAGGCACATCTA 59.173 33.333 4.77 0.00 44.83 1.98
910 2610 6.658816 TGTTGTCATTTAATGTAGGCACATCT 59.341 34.615 4.77 0.00 44.83 2.90
911 2611 6.851609 TGTTGTCATTTAATGTAGGCACATC 58.148 36.000 4.77 2.29 44.83 3.06
912 2612 8.518430 TATGTTGTCATTTAATGTAGGCACAT 57.482 30.769 4.77 9.45 39.86 3.21
913 2613 6.832520 ATGTTGTCATTTAATGTAGGCACA 57.167 33.333 4.77 0.00 39.52 4.57
914 2614 8.076178 GGATATGTTGTCATTTAATGTAGGCAC 58.924 37.037 4.77 0.00 35.70 5.01
915 2615 7.777440 TGGATATGTTGTCATTTAATGTAGGCA 59.223 33.333 4.77 2.04 35.70 4.75
916 2616 8.165239 TGGATATGTTGTCATTTAATGTAGGC 57.835 34.615 4.77 0.00 35.70 3.93
946 2646 9.753674 TCATTTAATTAACTCAACCCTCAAGAT 57.246 29.630 0.00 0.00 0.00 2.40
947 2647 9.010029 GTCATTTAATTAACTCAACCCTCAAGA 57.990 33.333 0.00 0.00 0.00 3.02
948 2648 8.244113 GGTCATTTAATTAACTCAACCCTCAAG 58.756 37.037 0.00 0.00 0.00 3.02
949 2649 7.726291 TGGTCATTTAATTAACTCAACCCTCAA 59.274 33.333 0.00 0.00 0.00 3.02
950 2650 7.235079 TGGTCATTTAATTAACTCAACCCTCA 58.765 34.615 0.00 0.00 0.00 3.86
951 2651 7.696992 TGGTCATTTAATTAACTCAACCCTC 57.303 36.000 0.00 0.00 0.00 4.30
952 2652 8.485578 TTTGGTCATTTAATTAACTCAACCCT 57.514 30.769 0.00 0.00 0.00 4.34
953 2653 7.817478 CCTTTGGTCATTTAATTAACTCAACCC 59.183 37.037 0.00 0.00 0.00 4.11
954 2654 7.817478 CCCTTTGGTCATTTAATTAACTCAACC 59.183 37.037 0.00 4.67 0.00 3.77
955 2655 7.330946 GCCCTTTGGTCATTTAATTAACTCAAC 59.669 37.037 0.00 0.00 0.00 3.18
956 2656 7.382898 GCCCTTTGGTCATTTAATTAACTCAA 58.617 34.615 0.00 0.00 0.00 3.02
957 2657 6.349777 CGCCCTTTGGTCATTTAATTAACTCA 60.350 38.462 0.00 0.00 0.00 3.41
958 2658 6.033966 CGCCCTTTGGTCATTTAATTAACTC 58.966 40.000 0.00 0.00 0.00 3.01
1023 2723 9.715123 CAGTATGTGTTTTATGCAATAATTCGA 57.285 29.630 0.00 0.00 38.83 3.71
1024 2724 9.715123 TCAGTATGTGTTTTATGCAATAATTCG 57.285 29.630 0.00 0.00 36.50 3.34
1369 3069 4.605967 GTGTGTGCACGCAACCCG 62.606 66.667 33.01 0.00 41.22 5.28
1439 3139 9.860898 ATAAGAAATAATGGCAAGAGAAAACAC 57.139 29.630 0.00 0.00 0.00 3.32
1577 3278 5.525378 CAGTCCTTACAATGAATGTCTAGCC 59.475 44.000 0.00 0.00 42.70 3.93
1578 3279 6.109359 ACAGTCCTTACAATGAATGTCTAGC 58.891 40.000 0.00 0.00 42.70 3.42
1583 3284 6.114187 TCAGACAGTCCTTACAATGAATGT 57.886 37.500 0.00 0.93 46.36 2.71
1584 3285 8.722480 TTATCAGACAGTCCTTACAATGAATG 57.278 34.615 0.00 0.00 33.12 2.67
1598 3299 8.543774 ACTTATTTCTCCACATTATCAGACAGT 58.456 33.333 0.00 0.00 0.00 3.55
1696 3398 2.641197 AACAACGAGTTCATGGCCC 58.359 52.632 0.00 0.00 34.74 5.80
1900 3614 2.821969 ACAAAGACATCCATTGAGCCAC 59.178 45.455 2.92 0.00 0.00 5.01
2058 3781 6.097129 TGAAGAACGTATTTCCAACCCTTTTT 59.903 34.615 8.85 0.00 34.32 1.94
2059 3782 5.595133 TGAAGAACGTATTTCCAACCCTTTT 59.405 36.000 8.85 0.00 34.32 2.27
2060 3783 5.134661 TGAAGAACGTATTTCCAACCCTTT 58.865 37.500 8.85 0.00 34.32 3.11
2061 3784 4.721132 TGAAGAACGTATTTCCAACCCTT 58.279 39.130 8.85 0.00 34.32 3.95
2062 3785 4.360951 TGAAGAACGTATTTCCAACCCT 57.639 40.909 8.85 0.00 34.32 4.34
2063 3786 5.638596 ATTGAAGAACGTATTTCCAACCC 57.361 39.130 8.85 0.00 34.32 4.11
2064 3787 7.586747 TGTTATTGAAGAACGTATTTCCAACC 58.413 34.615 8.85 0.00 34.32 3.77
2065 3788 9.113876 CTTGTTATTGAAGAACGTATTTCCAAC 57.886 33.333 8.85 9.96 34.32 3.77
2066 3789 8.293867 CCTTGTTATTGAAGAACGTATTTCCAA 58.706 33.333 8.85 2.22 34.32 3.53
2067 3790 7.446013 ACCTTGTTATTGAAGAACGTATTTCCA 59.554 33.333 8.85 0.25 34.32 3.53
2068 3791 7.813645 ACCTTGTTATTGAAGAACGTATTTCC 58.186 34.615 8.85 0.00 34.32 3.13
2069 3792 7.961283 GGACCTTGTTATTGAAGAACGTATTTC 59.039 37.037 0.00 0.00 33.95 2.17
2070 3793 7.664318 AGGACCTTGTTATTGAAGAACGTATTT 59.336 33.333 0.00 0.00 0.00 1.40
2071 3794 7.119262 CAGGACCTTGTTATTGAAGAACGTATT 59.881 37.037 0.00 0.00 0.00 1.89
2072 3795 6.594159 CAGGACCTTGTTATTGAAGAACGTAT 59.406 38.462 0.00 0.00 0.00 3.06
2073 3796 5.929992 CAGGACCTTGTTATTGAAGAACGTA 59.070 40.000 0.00 0.00 0.00 3.57
2074 3797 4.755123 CAGGACCTTGTTATTGAAGAACGT 59.245 41.667 0.00 0.00 0.00 3.99
2075 3798 4.994852 TCAGGACCTTGTTATTGAAGAACG 59.005 41.667 0.00 0.00 0.00 3.95
2138 3861 5.981088 TTCCAAATCAATATGCACAGTGT 57.019 34.783 1.61 0.00 0.00 3.55
2192 3915 1.822114 TTTGACATCTCCACCCGCGA 61.822 55.000 8.23 0.00 0.00 5.87
2337 4061 2.590007 CGGCCTCTGCATAGCACC 60.590 66.667 0.00 2.93 40.13 5.01
2338 4062 2.590007 CCGGCCTCTGCATAGCAC 60.590 66.667 0.00 0.00 40.13 4.40
2363 4087 4.055360 CGAGTTGATACAACCACACTGAA 58.945 43.478 10.38 0.00 0.00 3.02
2449 4173 4.596212 ACAGCATCAGGATAATCTCATGGA 59.404 41.667 0.00 0.00 36.32 3.41
2479 4203 2.034812 CCACGTCTGCTACTAATCCCTC 59.965 54.545 0.00 0.00 0.00 4.30
2496 4220 2.226330 TGGAATCAACTCCAAACCACG 58.774 47.619 0.00 0.00 42.69 4.94


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

AutoCloner maintained by Alex Coulton.