Multiple sequence alignment - TraesCS7D01G471100

Loading Multiple Alignment...

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 TraesCS7D01G471100 chr7D 100.000 4956 0 0 1 4956 584848410 584853365 0.000000e+00 9153.0
1 TraesCS7D01G471100 chr7B 94.875 3610 134 19 826 4390 653013153 653016756 0.000000e+00 5594.0
2 TraesCS7D01G471100 chr7B 89.158 701 75 1 6 706 653003660 653004359 0.000000e+00 872.0
3 TraesCS7D01G471100 chr7B 93.483 445 15 4 4498 4937 653016773 653017208 0.000000e+00 649.0
4 TraesCS7D01G471100 chr7A 95.664 3067 100 8 463 3504 675237000 675233942 0.000000e+00 4896.0
5 TraesCS7D01G471100 chr7A 93.872 1436 54 9 3536 4954 675233638 675232220 0.000000e+00 2134.0
6 TraesCS7D01G471100 chr7A 78.824 425 57 17 2893 3313 675319756 675319361 6.370000e-64 255.0
7 TraesCS7D01G471100 chr6D 85.011 447 62 4 325 768 57485608 57486052 2.720000e-122 449.0
8 TraesCS7D01G471100 chr6D 85.714 245 27 3 15 251 57485367 57485611 8.240000e-63 252.0
9 TraesCS7D01G471100 chr2D 78.308 650 89 31 2787 3404 120101268 120101897 6.060000e-99 372.0
10 TraesCS7D01G471100 chr5B 100.000 30 0 0 743 772 158910317 158910288 6.930000e-04 56.5
11 TraesCS7D01G471100 chr5B 94.444 36 2 0 737 772 458663485 458663520 6.930000e-04 56.5
12 TraesCS7D01G471100 chr3D 100.000 28 0 0 745 772 391258133 391258106 9.000000e-03 52.8


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 TraesCS7D01G471100 chr7D 584848410 584853365 4955 False 9153.0 9153 100.0000 1 4956 1 chr7D.!!$F1 4955
1 TraesCS7D01G471100 chr7B 653013153 653017208 4055 False 3121.5 5594 94.1790 826 4937 2 chr7B.!!$F2 4111
2 TraesCS7D01G471100 chr7B 653003660 653004359 699 False 872.0 872 89.1580 6 706 1 chr7B.!!$F1 700
3 TraesCS7D01G471100 chr7A 675232220 675237000 4780 True 3515.0 4896 94.7680 463 4954 2 chr7A.!!$R2 4491
4 TraesCS7D01G471100 chr6D 57485367 57486052 685 False 350.5 449 85.3625 15 768 2 chr6D.!!$F1 753
5 TraesCS7D01G471100 chr2D 120101268 120101897 629 False 372.0 372 78.3080 2787 3404 1 chr2D.!!$F1 617

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
739 752 0.043053 CGTCGATGCACCAAATAGCG 60.043 55.000 0.0 0.0 0.0 4.26 F
849 862 0.179145 AGTACGAAGATTGGACGGCG 60.179 55.000 4.8 4.8 0.0 6.46 F
866 879 0.373716 GCGAAAATACAGCCACCGAG 59.626 55.000 0.0 0.0 0.0 4.63 F
867 880 0.373716 CGAAAATACAGCCACCGAGC 59.626 55.000 0.0 0.0 0.0 5.03 F
2277 2313 1.000955 CGGAGTGTGCCAGAGTAAGTT 59.999 52.381 0.0 0.0 0.0 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1852 1888 1.206072 GCGCATCATCAATCGGCTC 59.794 57.895 0.30 0.0 0.00 4.70 R
1991 2027 2.490903 GGCTCAAACTCAATCTGCACAT 59.509 45.455 0.00 0.0 0.00 3.21 R
2152 2188 5.221601 ACAGATATGGCATGAGGACAGTTAG 60.222 44.000 10.98 0.0 38.50 2.34 R
2443 2479 5.528043 AGTTTGATTGCCAACATAACACA 57.472 34.783 0.00 0.0 33.85 3.72 R
4154 4505 0.165944 CAAATGGCGACGACACTTCC 59.834 55.000 4.98 0.0 0.00 3.46 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
59 60 0.830648 CGGATCTAAGGGAACTGCCA 59.169 55.000 0.00 0.00 42.68 4.92
89 90 1.671979 CCATCTAGGGACGTCGTGTA 58.328 55.000 9.92 0.00 0.00 2.90
91 92 2.286872 CATCTAGGGACGTCGTGTAGT 58.713 52.381 9.92 0.00 0.00 2.73
98 99 0.247223 GACGTCGTGTAGTCTCGAGC 60.247 60.000 7.81 2.90 39.60 5.03
190 199 3.067106 CTGCTCGTCACACCACTAAAAT 58.933 45.455 0.00 0.00 0.00 1.82
192 201 4.633175 TGCTCGTCACACCACTAAAATTA 58.367 39.130 0.00 0.00 0.00 1.40
211 220 2.965716 AAAAGAGCAGGCACCAGCGT 62.966 55.000 0.00 0.00 43.41 5.07
270 279 2.347490 CTCCACCCTTGGTCACCG 59.653 66.667 0.00 0.00 44.35 4.94
277 286 2.738521 CTTGGTCACCGCTCACCG 60.739 66.667 0.00 0.00 35.15 4.94
288 297 0.528684 CGCTCACCGGATTCTCCTTC 60.529 60.000 9.46 0.00 33.30 3.46
290 299 1.490574 CTCACCGGATTCTCCTTCCT 58.509 55.000 9.46 0.00 33.30 3.36
302 311 3.426615 TCTCCTTCCTCACTTCTCAGTC 58.573 50.000 0.00 0.00 0.00 3.51
327 336 2.667969 CGACATCATTTTCGAGTGCTCA 59.332 45.455 0.00 0.00 37.43 4.26
329 338 2.413112 ACATCATTTTCGAGTGCTCACG 59.587 45.455 0.00 0.00 36.20 4.35
360 369 2.345991 GGTTCACGCCACCTGCTA 59.654 61.111 0.00 0.00 38.05 3.49
378 387 1.284111 TACGCCTCCCTCTCCCACTA 61.284 60.000 0.00 0.00 0.00 2.74
389 398 3.107601 CTCTCCCACTAATCCACCTCAA 58.892 50.000 0.00 0.00 0.00 3.02
405 414 4.223923 CACCTCAACTATTCTTCCTCCACT 59.776 45.833 0.00 0.00 0.00 4.00
415 424 0.104144 TTCCTCCACTTTCCCCTCCA 60.104 55.000 0.00 0.00 0.00 3.86
426 435 2.201022 CCCCTCCATACGTCCCTCG 61.201 68.421 0.00 0.00 46.00 4.63
549 561 6.767456 AGATTAGATCGAGGCAATGAGAATT 58.233 36.000 0.00 0.00 0.00 2.17
614 627 2.609459 CGAGACAACATGGCACCTAATC 59.391 50.000 0.00 0.00 0.00 1.75
639 652 3.494398 GGAATGCCCATACATACGACACT 60.494 47.826 0.00 0.00 34.14 3.55
641 654 2.104170 TGCCCATACATACGACACTGA 58.896 47.619 0.00 0.00 0.00 3.41
671 684 0.464916 GGTGGACCAAACCGACTGTT 60.465 55.000 0.00 0.00 39.43 3.16
674 687 2.546789 GTGGACCAAACCGACTGTTAAG 59.453 50.000 0.00 0.00 35.67 1.85
707 720 0.979665 CTGACAGACTGGTCCCACAT 59.020 55.000 7.51 0.00 36.97 3.21
709 722 0.674895 GACAGACTGGTCCCACATGC 60.675 60.000 7.51 0.00 0.00 4.06
721 734 2.108514 CACATGCCTGCTACACCCG 61.109 63.158 0.00 0.00 0.00 5.28
726 739 3.077519 GCCTGCTACACCCGTCGAT 62.078 63.158 0.00 0.00 0.00 3.59
733 746 1.817911 TACACCCGTCGATGCACCAA 61.818 55.000 0.00 0.00 0.00 3.67
739 752 0.043053 CGTCGATGCACCAAATAGCG 60.043 55.000 0.00 0.00 0.00 4.26
764 777 4.553330 TTTCCTGGGAGCTTAGTAACTG 57.447 45.455 0.00 0.00 0.00 3.16
804 817 4.055360 CAAGTGACCATACGTGAAAGTGA 58.945 43.478 0.00 0.00 32.79 3.41
824 837 9.635520 AAAGTGAAATATTGCTCTCAAATCTTG 57.364 29.630 0.00 0.00 35.56 3.02
832 845 3.056536 TGCTCTCAAATCTTGTAGCGAGT 60.057 43.478 0.00 0.00 40.84 4.18
841 854 4.959596 TCTTGTAGCGAGTACGAAGATT 57.040 40.909 0.00 0.00 42.66 2.40
849 862 0.179145 AGTACGAAGATTGGACGGCG 60.179 55.000 4.80 4.80 0.00 6.46
858 871 2.936498 AGATTGGACGGCGAAAATACAG 59.064 45.455 16.62 0.00 0.00 2.74
866 879 0.373716 GCGAAAATACAGCCACCGAG 59.626 55.000 0.00 0.00 0.00 4.63
867 880 0.373716 CGAAAATACAGCCACCGAGC 59.626 55.000 0.00 0.00 0.00 5.03
884 897 1.141019 GCGAGATCTAACGGCCACA 59.859 57.895 2.24 0.00 0.00 4.17
1190 1220 1.605058 CCCGAGGACGACAATGGAGT 61.605 60.000 0.00 0.00 42.66 3.85
1774 1810 2.744202 GACAACGCTGATGGTGAGAAAT 59.256 45.455 0.00 0.00 0.00 2.17
1991 2027 8.251383 TGGGTTTTTATCTTTGGATGTTTGTA 57.749 30.769 0.00 0.00 33.71 2.41
2152 2188 3.696548 GGAAGAATGGGAGGTGATTTGTC 59.303 47.826 0.00 0.00 0.00 3.18
2207 2243 5.771469 TGGAAATGTTTGTGCAAGTAGATG 58.229 37.500 0.00 0.00 0.00 2.90
2277 2313 1.000955 CGGAGTGTGCCAGAGTAAGTT 59.999 52.381 0.00 0.00 0.00 2.66
2278 2314 2.417719 GGAGTGTGCCAGAGTAAGTTG 58.582 52.381 0.00 0.00 0.00 3.16
2282 2318 1.765904 TGTGCCAGAGTAAGTTGACCA 59.234 47.619 0.00 0.00 0.00 4.02
2443 2479 6.096846 AGCTTCCGTTTGCAATTTATATCCTT 59.903 34.615 0.00 0.00 0.00 3.36
2826 2873 9.538508 AATATGGTAAGACGGTTATACTTTCAC 57.461 33.333 0.00 0.00 0.00 3.18
3327 3400 7.039504 AGCAACATGATTCTTGTCTTATTTGGT 60.040 33.333 0.00 3.09 0.00 3.67
3660 4008 7.495934 AGCTAGCATCGTAAACTCAAAATATGT 59.504 33.333 18.83 0.00 0.00 2.29
4010 4358 5.968676 TTAGCCCCTAAGAAGATTTAGCA 57.031 39.130 0.00 0.00 30.84 3.49
4060 4411 5.387788 TGTTATATTCAATCCATGCAGCCT 58.612 37.500 0.00 0.00 0.00 4.58
4079 4430 2.758979 CCTGTCTTCTTTCTACGGGCTA 59.241 50.000 0.00 0.00 33.10 3.93
4086 4437 4.978083 TCTTTCTACGGGCTAGTAGTTG 57.022 45.455 16.09 10.07 43.31 3.16
4098 4449 6.149807 CGGGCTAGTAGTTGGACAAATAAAAA 59.850 38.462 0.00 0.00 0.00 1.94
4154 4505 9.443283 GATTTTCCTATCGTCATTTTGATTCTG 57.557 33.333 0.00 0.00 0.00 3.02
4178 4529 2.478894 AGTGTCGTCGCCATTTGTTTAG 59.521 45.455 0.00 0.00 0.00 1.85
4199 4550 2.230660 GACAACCCTGAAACTCCCTTG 58.769 52.381 0.00 0.00 0.00 3.61
4205 4556 1.339535 CCTGAAACTCCCTTGCCTCTC 60.340 57.143 0.00 0.00 0.00 3.20
4246 4597 3.905968 TGGATGCTTGAATGATCATGGT 58.094 40.909 9.46 0.00 34.96 3.55
4264 4615 2.368875 TGGTGTGGTCTCTTTCCTCTTC 59.631 50.000 0.00 0.00 0.00 2.87
4267 4618 4.468153 GGTGTGGTCTCTTTCCTCTTCTAT 59.532 45.833 0.00 0.00 0.00 1.98
4380 4738 4.079558 AGTCTTGTGCCCAAATAGGATCAT 60.080 41.667 0.00 0.00 41.22 2.45
4390 4748 5.709164 CCCAAATAGGATCATCAGAATCACC 59.291 44.000 0.00 0.00 41.22 4.02
4391 4749 5.709164 CCAAATAGGATCATCAGAATCACCC 59.291 44.000 0.00 0.00 41.22 4.61
4392 4750 4.815533 ATAGGATCATCAGAATCACCCG 57.184 45.455 0.00 0.00 0.00 5.28
4393 4751 2.402564 AGGATCATCAGAATCACCCGT 58.597 47.619 0.00 0.00 0.00 5.28
4440 4807 0.036732 GGTGATGCTCCACTGTCCAA 59.963 55.000 8.51 0.00 37.24 3.53
4458 4825 3.981071 CAAGGAATGGACTGTAGGACA 57.019 47.619 0.00 0.00 0.00 4.02
4469 4836 2.300723 ACTGTAGGACAACGCATGGTAA 59.699 45.455 0.00 0.00 0.00 2.85
4476 4843 0.179225 CAACGCATGGTAACTCACGC 60.179 55.000 0.00 0.00 37.61 5.34
4477 4844 0.601576 AACGCATGGTAACTCACGCA 60.602 50.000 0.00 0.00 37.61 5.24
4478 4845 1.014044 ACGCATGGTAACTCACGCAG 61.014 55.000 0.00 0.00 37.61 5.18
4479 4846 1.425428 GCATGGTAACTCACGCAGC 59.575 57.895 0.00 0.00 37.61 5.25
4480 4847 1.021390 GCATGGTAACTCACGCAGCT 61.021 55.000 0.00 0.00 37.61 4.24
4554 4921 4.295201 AGTTATCACCTGTATGCCTACCA 58.705 43.478 0.00 0.00 0.00 3.25
4555 4922 4.907875 AGTTATCACCTGTATGCCTACCAT 59.092 41.667 0.00 0.00 37.97 3.55
4556 4923 6.082031 AGTTATCACCTGTATGCCTACCATA 58.918 40.000 0.00 0.00 35.34 2.74
4557 4924 6.211584 AGTTATCACCTGTATGCCTACCATAG 59.788 42.308 0.00 0.00 37.10 2.23
4558 4925 3.923648 TCACCTGTATGCCTACCATAGT 58.076 45.455 0.00 0.00 37.10 2.12
4559 4926 5.069518 TCACCTGTATGCCTACCATAGTA 57.930 43.478 0.00 0.00 37.10 1.82
4560 4927 4.831155 TCACCTGTATGCCTACCATAGTAC 59.169 45.833 0.00 0.00 37.10 2.73
4561 4928 4.021368 CACCTGTATGCCTACCATAGTACC 60.021 50.000 0.00 0.00 37.10 3.34
4922 5294 4.711399 AGCATCATAGCAAAGTATCTGCA 58.289 39.130 0.00 0.00 42.48 4.41
4936 5311 2.787473 TCTGCAGGGTATGGTTGAAG 57.213 50.000 15.13 0.00 0.00 3.02
4950 5325 2.225255 GGTTGAAGACTCTGCAAGCTTC 59.775 50.000 18.36 16.48 42.39 3.86
4954 5329 3.261643 TGAAGACTCTGCAAGCTTCCATA 59.738 43.478 18.37 0.00 37.35 2.74
4955 5330 3.258971 AGACTCTGCAAGCTTCCATAC 57.741 47.619 0.00 0.00 0.00 2.39
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.077716 GGCCATGTAACGCCCTCTT 60.078 57.895 0.00 0.00 39.39 2.85
1 2 2.590092 GGCCATGTAACGCCCTCT 59.410 61.111 0.00 0.00 39.39 3.69
32 33 1.217183 TCCCTTAGATCCGCCACTAGT 59.783 52.381 0.00 0.00 0.00 2.57
59 60 1.053264 CCTAGATGGCCAGCTCCACT 61.053 60.000 30.13 5.72 39.25 4.00
89 90 1.979693 GTGGGGTGAGCTCGAGACT 60.980 63.158 18.75 12.98 0.00 3.24
91 92 1.679305 GAGTGGGGTGAGCTCGAGA 60.679 63.158 18.75 0.00 0.00 4.04
190 199 1.247567 GCTGGTGCCTGCTCTTTTAA 58.752 50.000 12.02 0.00 37.80 1.52
192 201 2.263741 CGCTGGTGCCTGCTCTTTT 61.264 57.895 16.12 0.00 38.49 2.27
211 220 1.066430 GTGGGCTTGTGGAATAGTCGA 60.066 52.381 0.00 0.00 0.00 4.20
278 287 4.466015 ACTGAGAAGTGAGGAAGGAGAATC 59.534 45.833 0.00 0.00 0.00 2.52
280 289 3.829601 GACTGAGAAGTGAGGAAGGAGAA 59.170 47.826 0.00 0.00 0.00 2.87
288 297 0.169230 CGTCGGACTGAGAAGTGAGG 59.831 60.000 6.57 0.00 0.00 3.86
290 299 0.873054 GTCGTCGGACTGAGAAGTGA 59.127 55.000 6.57 0.00 40.15 3.41
302 311 2.028045 CACTCGAAAATGATGTCGTCGG 59.972 50.000 0.00 0.00 38.41 4.79
327 336 0.763223 AACCAGGAAGGAGTGTCCGT 60.763 55.000 0.00 0.00 42.75 4.69
329 338 1.056660 TGAACCAGGAAGGAGTGTCC 58.943 55.000 0.00 0.00 41.22 4.02
360 369 2.164332 TTAGTGGGAGAGGGAGGCGT 62.164 60.000 0.00 0.00 0.00 5.68
378 387 5.104318 GGAGGAAGAATAGTTGAGGTGGATT 60.104 44.000 0.00 0.00 0.00 3.01
389 398 3.523972 GGGGAAAGTGGAGGAAGAATAGT 59.476 47.826 0.00 0.00 0.00 2.12
405 414 0.043637 AGGGACGTATGGAGGGGAAA 59.956 55.000 0.00 0.00 0.00 3.13
429 438 5.419788 AGAGCACATCATGATTTGGCTAAAA 59.580 36.000 20.54 0.00 0.00 1.52
431 440 4.529897 AGAGCACATCATGATTTGGCTAA 58.470 39.130 20.54 0.00 0.00 3.09
432 441 4.160642 AGAGCACATCATGATTTGGCTA 57.839 40.909 20.54 0.00 0.00 3.93
437 446 5.819379 ACGACATAAGAGCACATCATGATTT 59.181 36.000 5.16 0.00 0.00 2.17
549 561 1.343142 ACGCCAATGCCGTATCTATCA 59.657 47.619 0.00 0.00 37.12 2.15
614 627 2.038426 TCGTATGTATGGGCATTCCTGG 59.962 50.000 0.00 0.00 36.20 4.45
639 652 1.066430 GGTCCACCTCGCAGTTAATCA 60.066 52.381 0.00 0.00 0.00 2.57
641 654 0.981183 TGGTCCACCTCGCAGTTAAT 59.019 50.000 0.00 0.00 36.82 1.40
707 720 4.063967 CGACGGGTGTAGCAGGCA 62.064 66.667 0.00 0.00 0.00 4.75
709 722 1.226974 CATCGACGGGTGTAGCAGG 60.227 63.158 0.00 0.00 0.00 4.85
721 734 0.316196 GCGCTATTTGGTGCATCGAC 60.316 55.000 0.00 0.00 41.71 4.20
733 746 2.301346 CTCCCAGGAAATTGCGCTATT 58.699 47.619 11.38 11.38 0.00 1.73
739 752 2.728007 ACTAAGCTCCCAGGAAATTGC 58.272 47.619 0.00 0.00 0.00 3.56
764 777 7.307811 GGTCACTTGTCCTTGTAAAATCAGTAC 60.308 40.741 0.00 0.00 0.00 2.73
780 793 4.056050 ACTTTCACGTATGGTCACTTGTC 58.944 43.478 0.00 0.00 0.00 3.18
804 817 7.280876 TCGCTACAAGATTTGAGAGCAATATTT 59.719 33.333 15.37 0.00 40.61 1.40
824 837 3.361414 GTCCAATCTTCGTACTCGCTAC 58.639 50.000 0.00 0.00 36.96 3.58
832 845 0.527113 TTCGCCGTCCAATCTTCGTA 59.473 50.000 0.00 0.00 0.00 3.43
841 854 1.022451 GGCTGTATTTTCGCCGTCCA 61.022 55.000 0.00 0.00 33.64 4.02
849 862 0.373716 CGCTCGGTGGCTGTATTTTC 59.626 55.000 0.00 0.00 0.00 2.29
858 871 0.595310 GTTAGATCTCGCTCGGTGGC 60.595 60.000 0.00 0.00 0.00 5.01
862 875 1.370657 GCCGTTAGATCTCGCTCGG 60.371 63.158 17.48 17.48 40.72 4.63
866 879 0.459585 TTGTGGCCGTTAGATCTCGC 60.460 55.000 0.00 0.00 0.00 5.03
867 880 2.225068 ATTGTGGCCGTTAGATCTCG 57.775 50.000 0.00 0.00 0.00 4.04
884 897 3.302870 CGAATTTCGATCCGGCGTAAATT 60.303 43.478 13.45 16.41 43.74 1.82
1190 1220 1.068083 GATGCGGCGAAGAGATCCA 59.932 57.895 12.98 0.00 0.00 3.41
1852 1888 1.206072 GCGCATCATCAATCGGCTC 59.794 57.895 0.30 0.00 0.00 4.70
1991 2027 2.490903 GGCTCAAACTCAATCTGCACAT 59.509 45.455 0.00 0.00 0.00 3.21
2152 2188 5.221601 ACAGATATGGCATGAGGACAGTTAG 60.222 44.000 10.98 0.00 38.50 2.34
2443 2479 5.528043 AGTTTGATTGCCAACATAACACA 57.472 34.783 0.00 0.00 33.85 3.72
2826 2873 7.258441 TCTTTCTACAAATCTGGTCAGTATCG 58.742 38.462 0.00 0.00 0.00 2.92
2989 3038 9.149225 GCATCCTAAGAATGATACAGTAGATTG 57.851 37.037 0.00 0.00 0.00 2.67
3206 3279 8.997323 GCTGTCTAGAGCATCAATTGTAATAAT 58.003 33.333 5.13 0.00 38.95 1.28
3327 3400 9.841295 GACTATTAATGGTTATGTTAGAACCCA 57.159 33.333 5.87 0.00 44.95 4.51
3453 3527 3.766591 CAGACATACAGCTAGATAGGGGG 59.233 52.174 0.00 0.00 0.00 5.40
4010 4358 5.893824 ACACCTCTCAAAACAAGGAAAATCT 59.106 36.000 0.00 0.00 34.16 2.40
4060 4411 3.428532 ACTAGCCCGTAGAAAGAAGACA 58.571 45.455 0.00 0.00 32.41 3.41
4079 4430 7.201875 CCCAGTGTTTTTATTTGTCCAACTACT 60.202 37.037 0.00 0.00 0.00 2.57
4086 4437 6.578944 ACTTTCCCAGTGTTTTTATTTGTCC 58.421 36.000 0.00 0.00 32.83 4.02
4154 4505 0.165944 CAAATGGCGACGACACTTCC 59.834 55.000 4.98 0.00 0.00 3.46
4178 4529 0.771755 AGGGAGTTTCAGGGTTGTCC 59.228 55.000 0.00 0.00 0.00 4.02
4205 4556 8.834465 GCATCCATTATATCATTAGTGCCTTAG 58.166 37.037 0.00 0.00 0.00 2.18
4220 4571 7.891712 ACCATGATCATTCAAGCATCCATTATA 59.108 33.333 5.16 0.00 34.96 0.98
4246 4597 7.147655 CCATAATAGAAGAGGAAAGAGACCACA 60.148 40.741 0.00 0.00 0.00 4.17
4390 4748 0.665068 TTGTCCACGTCGATCAACGG 60.665 55.000 11.46 0.00 46.72 4.44
4392 4750 1.193874 GGTTTGTCCACGTCGATCAAC 59.806 52.381 0.00 0.00 35.97 3.18
4393 4751 1.069513 AGGTTTGTCCACGTCGATCAA 59.930 47.619 0.00 0.00 39.02 2.57
4440 4807 2.233922 CGTTGTCCTACAGTCCATTCCT 59.766 50.000 0.00 0.00 0.00 3.36
4449 4816 2.665649 TACCATGCGTTGTCCTACAG 57.334 50.000 0.00 0.00 0.00 2.74
4458 4825 2.159181 GCGTGAGTTACCATGCGTT 58.841 52.632 0.00 0.00 39.00 4.84
4469 4836 1.214062 GTAGCTGAGCTGCGTGAGT 59.786 57.895 18.79 0.00 40.10 3.41
4476 4843 4.979197 CCGACTTTATTAGTAGCTGAGCTG 59.021 45.833 18.79 0.00 40.10 4.24
4477 4844 4.038162 CCCGACTTTATTAGTAGCTGAGCT 59.962 45.833 13.25 13.25 43.41 4.09
4478 4845 4.202131 ACCCGACTTTATTAGTAGCTGAGC 60.202 45.833 0.00 0.00 37.17 4.26
4479 4846 5.517322 ACCCGACTTTATTAGTAGCTGAG 57.483 43.478 0.00 0.00 37.17 3.35
4480 4847 5.927281 AACCCGACTTTATTAGTAGCTGA 57.073 39.130 0.00 0.00 37.17 4.26
4554 4921 9.823647 CTACAGTTTCAGAATCAATGGTACTAT 57.176 33.333 0.00 0.00 0.00 2.12
4555 4922 7.764443 GCTACAGTTTCAGAATCAATGGTACTA 59.236 37.037 0.00 0.00 0.00 1.82
4556 4923 6.595716 GCTACAGTTTCAGAATCAATGGTACT 59.404 38.462 0.00 0.00 0.00 2.73
4557 4924 6.371548 TGCTACAGTTTCAGAATCAATGGTAC 59.628 38.462 0.00 0.00 0.00 3.34
4558 4925 6.371548 GTGCTACAGTTTCAGAATCAATGGTA 59.628 38.462 0.00 0.00 0.00 3.25
4559 4926 5.182001 GTGCTACAGTTTCAGAATCAATGGT 59.818 40.000 0.00 0.00 0.00 3.55
4560 4927 5.413833 AGTGCTACAGTTTCAGAATCAATGG 59.586 40.000 0.00 0.00 0.00 3.16
4561 4928 6.492007 AGTGCTACAGTTTCAGAATCAATG 57.508 37.500 0.00 0.00 0.00 2.82
4685 5056 6.767423 TGTGATGTACAATGGATGATAACCAG 59.233 38.462 0.00 0.00 36.17 4.00
4736 5107 4.002982 TGGATCACAACACATTAGACAGC 58.997 43.478 0.00 0.00 0.00 4.40
4819 5190 4.320608 ACCATGGTTTGTACAAAAGCAG 57.679 40.909 22.14 12.53 40.38 4.24
4823 5194 6.153680 ACAAGAGAACCATGGTTTGTACAAAA 59.846 34.615 30.33 8.83 38.60 2.44
4922 5294 2.237392 GCAGAGTCTTCAACCATACCCT 59.763 50.000 0.00 0.00 0.00 4.34


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

AutoCloner maintained by Alex Coulton.