Multiple sequence alignment - TraesCS6A01G330700

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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 TraesCS6A01G330700 chr6A 100.000 4438 0 0 1 4438 563133845 563129408 0.000000e+00 8196.0
1 TraesCS6A01G330700 chr6A 95.000 40 2 0 4179 4218 563129629 563129590 3.710000e-06 63.9
2 TraesCS6A01G330700 chr6A 95.000 40 2 0 4217 4256 563129667 563129628 3.710000e-06 63.9
3 TraesCS6A01G330700 chr6B 91.929 4386 204 71 3 4299 632969015 632964691 0.000000e+00 6000.0
4 TraesCS6A01G330700 chr6B 96.721 122 3 1 4297 4418 632964619 632964499 7.530000e-48 202.0
5 TraesCS6A01G330700 chr6B 80.309 259 20 11 470 700 633527845 633528100 2.750000e-37 167.0
6 TraesCS6A01G330700 chr6D 91.968 2241 92 31 750 2935 420016249 420014042 0.000000e+00 3061.0
7 TraesCS6A01G330700 chr6D 96.898 1386 25 11 2923 4299 420013949 420012573 0.000000e+00 2305.0
8 TraesCS6A01G330700 chr6D 99.296 142 1 0 4297 4438 420012501 420012360 1.580000e-64 257.0
9 TraesCS6A01G330700 chr6D 97.541 122 2 1 4297 4418 420012287 420012167 1.620000e-49 207.0
10 TraesCS6A01G330700 chr6D 90.076 131 10 2 470 598 420357079 420357208 2.750000e-37 167.0
11 TraesCS6A01G330700 chr6D 97.333 75 2 0 621 695 420016325 420016251 1.300000e-25 128.0
12 TraesCS6A01G330700 chr6D 97.500 40 1 0 4217 4256 420012693 420012654 7.970000e-08 69.4
13 TraesCS6A01G330700 chr6D 95.000 40 2 0 4179 4218 420012655 420012616 3.710000e-06 63.9
14 TraesCS6A01G330700 chr5D 95.041 121 6 0 1905 2025 482311427 482311547 1.630000e-44 191.0
15 TraesCS6A01G330700 chr5D 92.366 131 8 1 1905 2035 482312040 482311912 7.580000e-43 185.0
16 TraesCS6A01G330700 chr5D 90.840 131 10 1 1905 2035 307933935 307933807 1.640000e-39 174.0
17 TraesCS6A01G330700 chr2D 95.041 121 6 0 1905 2025 396726008 396726128 1.630000e-44 191.0
18 TraesCS6A01G330700 chr2B 95.575 113 5 0 1913 2025 726456165 726456053 9.810000e-42 182.0
19 TraesCS6A01G330700 chr2B 84.762 105 16 0 2956 3060 169856149 169856253 6.070000e-19 106.0
20 TraesCS6A01G330700 chr3D 93.388 121 8 0 1905 2025 424686969 424687089 3.530000e-41 180.0
21 TraesCS6A01G330700 chr1D 91.603 131 9 1 1905 2035 52103001 52102873 3.530000e-41 180.0
22 TraesCS6A01G330700 chr1D 83.898 118 17 2 2953 3068 106839505 106839622 1.300000e-20 111.0
23 TraesCS6A01G330700 chr4D 90.265 113 10 1 2961 3072 18693434 18693546 3.580000e-31 147.0
24 TraesCS6A01G330700 chr4B 90.909 110 9 1 2961 3069 30729180 30729289 3.580000e-31 147.0
25 TraesCS6A01G330700 chr7A 87.387 111 13 1 2961 3070 257125985 257126095 4.660000e-25 126.0
26 TraesCS6A01G330700 chr7B 90.426 94 9 0 2974 3067 513654218 513654311 1.680000e-24 124.0
27 TraesCS6A01G330700 chr1B 87.037 108 14 0 2961 3068 160325323 160325216 6.030000e-24 122.0


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 TraesCS6A01G330700 chr6A 563129408 563133845 4437 True 8196.000000 8196 100.000000 1 4438 1 chr6A.!!$R1 4437
1 TraesCS6A01G330700 chr6B 632964499 632969015 4516 True 3101.000000 6000 94.325000 3 4418 2 chr6B.!!$R1 4415
2 TraesCS6A01G330700 chr6D 420012167 420016325 4158 True 870.185714 3061 96.505143 621 4438 7 chr6D.!!$R1 3817

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
26 27 0.109319 GCAACGGGCAACAATGTAGG 60.109 55.0 0.0 0.0 43.97 3.18 F
821 836 0.249573 CACCACCAGCCAAAGCAAAG 60.250 55.0 0.0 0.0 43.56 2.77 F
823 838 0.249573 CCACCAGCCAAAGCAAAGTG 60.250 55.0 0.0 0.0 43.56 3.16 F
824 839 0.249573 CACCAGCCAAAGCAAAGTGG 60.250 55.0 0.0 0.0 43.56 4.00 F
2423 2527 0.393808 ACGGCAATGGTGGATGTACC 60.394 55.0 0.0 0.0 41.24 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1482 1553 2.607750 TGGGTCAGCTCCTCCACC 60.608 66.667 0.0 0.0 0.00 4.61 R
2305 2398 0.617413 AGGGGCAGTGTTCTGATGAG 59.383 55.000 0.0 0.0 43.76 2.90 R
2423 2527 1.013005 CAGTGTGCTCTGCTTCTCCG 61.013 60.000 0.0 0.0 0.00 4.63 R
2736 2842 2.094803 AGACAGTGAGCTGATTCAGTCG 60.095 50.000 14.9 1.2 45.28 4.18 R
4415 4922 2.159627 GGAGAAACGTAATGGTGCTGTG 59.840 50.000 0.0 0.0 0.00 3.66 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
26 27 0.109319 GCAACGGGCAACAATGTAGG 60.109 55.000 0.00 0.00 43.97 3.18
76 78 9.793252 AATACAATCTTCAAAACATAGACATGC 57.207 29.630 0.00 0.00 35.39 4.06
131 133 8.554835 TTGAACAGACGGTGAATAATTAATCA 57.445 30.769 0.00 0.00 0.00 2.57
203 205 9.077885 ACACAAGAAAGGTATCATACAACATTT 57.922 29.630 0.00 0.00 32.77 2.32
229 231 6.745907 GCGTTTAAGAAATTCCATAGACCAAC 59.254 38.462 0.00 0.00 0.00 3.77
237 239 8.960591 AGAAATTCCATAGACCAACAAATACAG 58.039 33.333 0.00 0.00 0.00 2.74
278 280 4.610605 TGGTTCAATTACTCTCCGTGAA 57.389 40.909 0.00 0.00 0.00 3.18
349 351 1.133761 TGGATCAACCGGTTTTGTCCA 60.134 47.619 28.38 28.38 42.61 4.02
364 366 7.096551 GGTTTTGTCCATATGTTTGCATAACT 58.903 34.615 1.24 2.95 40.55 2.24
366 368 6.832520 TTGTCCATATGTTTGCATAACTGT 57.167 33.333 1.24 5.14 40.55 3.55
466 468 8.671384 TTAAAACTATGATCCTTATCCGGTTG 57.329 34.615 0.00 0.00 0.00 3.77
742 749 3.910490 GCCGGCAAGCAACCACAA 61.910 61.111 24.80 0.00 0.00 3.33
744 751 2.027460 CGGCAAGCAACCACAACC 59.973 61.111 0.00 0.00 0.00 3.77
745 752 2.780094 CGGCAAGCAACCACAACCA 61.780 57.895 0.00 0.00 0.00 3.67
746 753 1.067916 GGCAAGCAACCACAACCAG 59.932 57.895 0.00 0.00 0.00 4.00
747 754 1.592400 GCAAGCAACCACAACCAGC 60.592 57.895 0.00 0.00 0.00 4.85
748 755 2.019897 GCAAGCAACCACAACCAGCT 62.020 55.000 0.00 0.00 37.08 4.24
810 825 2.591429 TCGCTTGCACACCACCAG 60.591 61.111 0.00 0.00 0.00 4.00
816 831 1.674764 TTGCACACCACCAGCCAAAG 61.675 55.000 0.00 0.00 0.00 2.77
821 836 0.249573 CACCACCAGCCAAAGCAAAG 60.250 55.000 0.00 0.00 43.56 2.77
822 837 0.687427 ACCACCAGCCAAAGCAAAGT 60.687 50.000 0.00 0.00 43.56 2.66
823 838 0.249573 CCACCAGCCAAAGCAAAGTG 60.250 55.000 0.00 0.00 43.56 3.16
824 839 0.249573 CACCAGCCAAAGCAAAGTGG 60.250 55.000 0.00 0.00 43.56 4.00
872 896 1.756538 CCCGCAAAGCCATCCTTTAAT 59.243 47.619 0.00 0.00 41.75 1.40
929 953 4.467438 CCTTTAAAACCATGCAATCCTCCT 59.533 41.667 0.00 0.00 0.00 3.69
960 992 4.379143 CGACGACGCGGTCTGTCA 62.379 66.667 12.47 0.00 36.60 3.58
975 1007 2.777692 TCTGTCAACTTCCCAAGACCTT 59.222 45.455 0.00 0.00 0.00 3.50
986 1018 0.535780 CAAGACCTTGCCAGCACTCA 60.536 55.000 0.00 0.00 33.45 3.41
995 1054 1.448540 CCAGCACTCAACCTAGCGG 60.449 63.158 0.00 0.00 0.00 5.52
1072 1131 1.145759 CCGCATGTACTGGTGCTACG 61.146 60.000 13.72 0.00 39.16 3.51
1509 1580 2.261671 CTGACCCAGAACGACCGG 59.738 66.667 0.00 0.00 32.44 5.28
2025 2114 3.194968 CCTTCTTCGCCTAACAAGACCTA 59.805 47.826 0.00 0.00 0.00 3.08
2026 2115 4.141914 CCTTCTTCGCCTAACAAGACCTAT 60.142 45.833 0.00 0.00 0.00 2.57
2027 2116 5.068723 CCTTCTTCGCCTAACAAGACCTATA 59.931 44.000 0.00 0.00 0.00 1.31
2060 2149 7.633193 ACTGACAACTCTAATGTACTCCTAG 57.367 40.000 0.00 0.00 0.00 3.02
2061 2150 7.176490 ACTGACAACTCTAATGTACTCCTAGT 58.824 38.462 0.00 0.00 0.00 2.57
2110 2199 8.895932 ATAACGAGTTTATTTGCATTCTTGAC 57.104 30.769 0.00 0.00 0.00 3.18
2113 2202 7.425606 ACGAGTTTATTTGCATTCTTGACTTT 58.574 30.769 0.00 0.00 0.00 2.66
2114 2203 7.591426 ACGAGTTTATTTGCATTCTTGACTTTC 59.409 33.333 0.00 0.00 0.00 2.62
2118 2207 9.853921 GTTTATTTGCATTCTTGACTTTCTTTG 57.146 29.630 0.00 0.00 0.00 2.77
2239 2332 4.864334 CAGCCGGGATGCCAGTCC 62.864 72.222 2.18 0.00 37.56 3.85
2305 2398 2.257286 ATCGATGCCGTGCTTGCAAC 62.257 55.000 0.00 0.00 42.92 4.17
2366 2462 5.348164 ACTTGACATTTTGTTGGCTGTTAC 58.652 37.500 0.00 0.00 0.00 2.50
2423 2527 0.393808 ACGGCAATGGTGGATGTACC 60.394 55.000 0.00 0.00 41.24 3.34
2500 2604 2.874849 CCAAAATGTAATCGTGCCACC 58.125 47.619 0.00 0.00 0.00 4.61
2601 2706 2.273370 CGCAGCAATCTCAAAGCAAT 57.727 45.000 0.00 0.00 0.00 3.56
2736 2842 2.618709 CTCCGAGGGGCATACAAAAATC 59.381 50.000 0.00 0.00 0.00 2.17
2834 2940 1.105457 GCATGGTATCAAAGCCAGCA 58.895 50.000 0.00 0.00 38.27 4.41
2908 3014 5.105957 ACATTTGCATTAGACATTTGCCGTA 60.106 36.000 0.00 0.00 35.51 4.02
2937 3137 7.959733 ACGTATACATTATGCACCAAATATCG 58.040 34.615 3.32 0.00 0.00 2.92
2938 3138 7.815549 ACGTATACATTATGCACCAAATATCGA 59.184 33.333 3.32 0.00 0.00 3.59
2940 3140 5.689383 ACATTATGCACCAAATATCGACC 57.311 39.130 0.00 0.00 0.00 4.79
2941 3141 5.376625 ACATTATGCACCAAATATCGACCT 58.623 37.500 0.00 0.00 0.00 3.85
2945 3154 1.814248 GCACCAAATATCGACCTCCCC 60.814 57.143 0.00 0.00 0.00 4.81
2959 3168 4.393990 CGACCTCCCCTGTTTATTTGTTAC 59.606 45.833 0.00 0.00 0.00 2.50
2969 3180 5.942961 TGTTTATTTGTTACACTCCCTCCA 58.057 37.500 0.00 0.00 0.00 3.86
3043 3254 1.028330 CACATCCAGTTGAGCGCCAT 61.028 55.000 2.29 0.00 0.00 4.40
3105 3317 5.378230 AGCATTCTGGATCAGGTTAATCA 57.622 39.130 0.00 0.00 31.51 2.57
3182 3394 4.944962 TTATCTTGCGACACCAAATGAG 57.055 40.909 0.00 0.00 0.00 2.90
3183 3395 0.874390 TCTTGCGACACCAAATGAGC 59.126 50.000 0.00 0.00 36.50 4.26
3184 3396 0.877071 CTTGCGACACCAAATGAGCT 59.123 50.000 0.00 0.00 36.76 4.09
3185 3397 2.076100 CTTGCGACACCAAATGAGCTA 58.924 47.619 0.00 0.00 36.76 3.32
3186 3398 2.177394 TGCGACACCAAATGAGCTAA 57.823 45.000 0.00 0.00 36.76 3.09
3199 3411 9.423061 ACCAAATGAGCTAATTTTCACAAATAC 57.577 29.630 6.28 0.00 31.89 1.89
3374 3586 5.839517 ACATTGGGATTTTTCCATGGAAA 57.160 34.783 31.75 31.75 41.69 3.13
3413 3625 9.927081 ATGTATTTCTACCAGGAGATTCAATTT 57.073 29.630 0.00 0.00 0.00 1.82
3635 3853 3.146066 GGGCAGGCATCATATACGAAAA 58.854 45.455 0.00 0.00 0.00 2.29
3655 3873 6.869913 CGAAAACTAACATGGTAAGGTCACTA 59.130 38.462 0.00 0.00 0.00 2.74
3770 3988 1.073923 TCTGAACTTTCTGCCCCCTTC 59.926 52.381 0.00 0.00 0.00 3.46
3905 4124 7.755373 GGATGTCTAAAAGCTTGGATAAACAAC 59.245 37.037 0.00 0.00 0.00 3.32
4405 4912 7.488150 TGAGTACAATGACGAAGATGTTACATC 59.512 37.037 16.80 16.80 0.00 3.06
4406 4913 7.320399 AGTACAATGACGAAGATGTTACATCA 58.680 34.615 24.79 7.28 0.00 3.07
4414 4921 8.463607 TGACGAAGATGTTACATCACAATACTA 58.536 33.333 24.79 4.14 0.00 1.82
4415 4922 8.630278 ACGAAGATGTTACATCACAATACTAC 57.370 34.615 24.79 6.43 0.00 2.73
4416 4923 8.248253 ACGAAGATGTTACATCACAATACTACA 58.752 33.333 24.79 0.00 0.00 2.74
4417 4924 8.532341 CGAAGATGTTACATCACAATACTACAC 58.468 37.037 24.79 0.00 0.00 2.90
4418 4925 9.366216 GAAGATGTTACATCACAATACTACACA 57.634 33.333 24.79 0.00 0.00 3.72
4419 4926 8.932945 AGATGTTACATCACAATACTACACAG 57.067 34.615 24.79 0.00 0.00 3.66
4420 4927 6.961359 TGTTACATCACAATACTACACAGC 57.039 37.500 0.00 0.00 0.00 4.40
4421 4928 6.459923 TGTTACATCACAATACTACACAGCA 58.540 36.000 0.00 0.00 0.00 4.41
4422 4929 6.367695 TGTTACATCACAATACTACACAGCAC 59.632 38.462 0.00 0.00 0.00 4.40
4423 4930 4.253685 ACATCACAATACTACACAGCACC 58.746 43.478 0.00 0.00 0.00 5.01
4424 4931 4.252878 CATCACAATACTACACAGCACCA 58.747 43.478 0.00 0.00 0.00 4.17
4425 4932 4.551702 TCACAATACTACACAGCACCAT 57.448 40.909 0.00 0.00 0.00 3.55
4426 4933 4.905429 TCACAATACTACACAGCACCATT 58.095 39.130 0.00 0.00 0.00 3.16
4427 4934 6.043854 TCACAATACTACACAGCACCATTA 57.956 37.500 0.00 0.00 0.00 1.90
4428 4935 5.872617 TCACAATACTACACAGCACCATTAC 59.127 40.000 0.00 0.00 0.00 1.89
4429 4936 4.868171 ACAATACTACACAGCACCATTACG 59.132 41.667 0.00 0.00 0.00 3.18
4430 4937 4.730949 ATACTACACAGCACCATTACGT 57.269 40.909 0.00 0.00 0.00 3.57
4431 4938 3.396260 ACTACACAGCACCATTACGTT 57.604 42.857 0.00 0.00 0.00 3.99
4432 4939 3.735591 ACTACACAGCACCATTACGTTT 58.264 40.909 0.00 0.00 0.00 3.60
4433 4940 3.744426 ACTACACAGCACCATTACGTTTC 59.256 43.478 0.00 0.00 0.00 2.78
4434 4941 2.846193 ACACAGCACCATTACGTTTCT 58.154 42.857 0.00 0.00 0.00 2.52
4435 4942 2.806244 ACACAGCACCATTACGTTTCTC 59.194 45.455 0.00 0.00 0.00 2.87
4436 4943 2.159627 CACAGCACCATTACGTTTCTCC 59.840 50.000 0.00 0.00 0.00 3.71
4437 4944 2.224426 ACAGCACCATTACGTTTCTCCA 60.224 45.455 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
128 130 7.969690 TGGTCCACAAAATTATGGTATTGAT 57.030 32.000 0.00 0.00 37.27 2.57
130 132 8.256605 TGATTGGTCCACAAAATTATGGTATTG 58.743 33.333 0.00 0.00 43.46 1.90
131 133 8.372877 TGATTGGTCCACAAAATTATGGTATT 57.627 30.769 0.00 0.00 43.46 1.89
203 205 5.941058 TGGTCTATGGAATTTCTTAAACGCA 59.059 36.000 0.00 0.00 0.00 5.24
325 327 1.068333 CAAAACCGGTTGATCCAGCTG 60.068 52.381 23.08 6.78 35.57 4.24
326 328 1.247567 CAAAACCGGTTGATCCAGCT 58.752 50.000 23.08 0.00 35.57 4.24
327 329 0.958822 ACAAAACCGGTTGATCCAGC 59.041 50.000 23.08 0.00 35.57 4.85
329 331 1.133761 TGGACAAAACCGGTTGATCCA 60.134 47.619 30.01 30.01 36.85 3.41
332 334 4.340617 ACATATGGACAAAACCGGTTGAT 58.659 39.130 23.08 10.60 32.59 2.57
335 337 4.797933 GCAAACATATGGACAAAACCGGTT 60.798 41.667 15.86 15.86 0.00 4.44
364 366 7.982919 TCAGCGGTTTTATAAGCTAATAAGACA 59.017 33.333 0.00 0.00 37.94 3.41
366 368 7.656137 CCTCAGCGGTTTTATAAGCTAATAAGA 59.344 37.037 0.00 0.00 37.94 2.10
446 448 5.148502 AGACAACCGGATAAGGATCATAGT 58.851 41.667 9.46 0.00 33.27 2.12
487 489 4.098349 ACGAATTACCGTATCAGGTTGCTA 59.902 41.667 0.00 0.00 43.00 3.49
493 495 2.132762 GCCACGAATTACCGTATCAGG 58.867 52.381 0.00 0.00 41.29 3.86
569 571 1.670406 CGCTCTGCTGAAACAGGCT 60.670 57.895 0.00 0.00 38.26 4.58
740 747 3.732849 GGGAGGGGGAGCTGGTTG 61.733 72.222 0.00 0.00 0.00 3.77
824 839 4.649954 CGATTCCGCGGCGATTGC 62.650 66.667 25.92 9.43 41.71 3.56
835 859 1.669604 GGGGAGAAGAAAGCGATTCC 58.330 55.000 0.00 0.00 38.94 3.01
890 914 1.188219 AAGGAAGGCACTGCGAGAGA 61.188 55.000 0.00 0.00 40.86 3.10
899 923 3.244044 TGCATGGTTTTAAAGGAAGGCAC 60.244 43.478 0.00 0.00 0.00 5.01
901 925 3.676291 TGCATGGTTTTAAAGGAAGGC 57.324 42.857 0.00 0.00 0.00 4.35
960 992 0.555769 TGGCAAGGTCTTGGGAAGTT 59.444 50.000 12.02 0.00 40.74 2.66
975 1007 1.003355 GCTAGGTTGAGTGCTGGCA 60.003 57.895 0.00 0.00 0.00 4.92
986 1018 0.389391 CATCATCGTCCCGCTAGGTT 59.611 55.000 0.00 0.00 36.75 3.50
995 1054 1.571919 GTACACAGGCATCATCGTCC 58.428 55.000 0.00 0.00 0.00 4.79
1482 1553 2.607750 TGGGTCAGCTCCTCCACC 60.608 66.667 0.00 0.00 0.00 4.61
1842 1919 2.677003 CGGCACCATCCACGACAAC 61.677 63.158 0.00 0.00 0.00 3.32
2025 2114 9.809096 CATTAGAGTTGTCAGTTATCACAGTAT 57.191 33.333 0.00 0.00 0.00 2.12
2026 2115 8.803235 ACATTAGAGTTGTCAGTTATCACAGTA 58.197 33.333 0.00 0.00 0.00 2.74
2027 2116 7.671302 ACATTAGAGTTGTCAGTTATCACAGT 58.329 34.615 0.00 0.00 0.00 3.55
2068 2157 7.106239 ACTCGTTATCTGTTCTTCCATTGATT 58.894 34.615 0.00 0.00 0.00 2.57
2069 2158 6.644347 ACTCGTTATCTGTTCTTCCATTGAT 58.356 36.000 0.00 0.00 0.00 2.57
2079 2168 8.895932 AATGCAAATAAACTCGTTATCTGTTC 57.104 30.769 0.00 0.00 30.74 3.18
2089 2178 7.805071 AGAAAGTCAAGAATGCAAATAAACTCG 59.195 33.333 0.00 0.00 0.00 4.18
2110 2199 8.946085 TGCTGTTATATAGTCCAACAAAGAAAG 58.054 33.333 0.00 0.00 32.16 2.62
2113 2202 7.012327 GCATGCTGTTATATAGTCCAACAAAGA 59.988 37.037 11.37 0.00 32.16 2.52
2114 2203 7.012704 AGCATGCTGTTATATAGTCCAACAAAG 59.987 37.037 21.98 0.00 32.16 2.77
2118 2207 6.260936 ACAAGCATGCTGTTATATAGTCCAAC 59.739 38.462 23.48 0.00 0.00 3.77
2239 2332 1.156736 CAGGTTGTCTTTGGCGTAGG 58.843 55.000 0.00 0.00 0.00 3.18
2305 2398 0.617413 AGGGGCAGTGTTCTGATGAG 59.383 55.000 0.00 0.00 43.76 2.90
2333 2426 3.813529 AAATGTCAAGTCAGTAAGCGC 57.186 42.857 0.00 0.00 0.00 5.92
2366 2462 1.741706 CTGTCATGCTTTACCTGCCAG 59.258 52.381 0.00 0.00 0.00 4.85
2423 2527 1.013005 CAGTGTGCTCTGCTTCTCCG 61.013 60.000 0.00 0.00 0.00 4.63
2474 2578 3.168193 CACGATTACATTTTGGCCGTTC 58.832 45.455 0.00 0.00 0.00 3.95
2500 2604 7.129109 ACTCTTTGTATCGTTTACATTGTGG 57.871 36.000 0.00 0.00 0.00 4.17
2587 2691 5.284660 GCTTTCACGTATTGCTTTGAGATTG 59.715 40.000 0.00 0.00 0.00 2.67
2601 2706 4.560136 TTTGCTCAATTGCTTTCACGTA 57.440 36.364 0.00 0.00 0.00 3.57
2694 2800 7.496591 TCGGAGTAAAATCAAACCATACCATAC 59.503 37.037 0.00 0.00 0.00 2.39
2716 2822 2.650322 GATTTTTGTATGCCCCTCGGA 58.350 47.619 0.00 0.00 0.00 4.55
2736 2842 2.094803 AGACAGTGAGCTGATTCAGTCG 60.095 50.000 14.90 1.20 45.28 4.18
2855 2961 4.864633 TGCAGAATATGTTCAAAAACGCA 58.135 34.783 4.92 1.18 38.28 5.24
2856 2962 6.393720 AATGCAGAATATGTTCAAAAACGC 57.606 33.333 4.92 0.00 38.28 4.84
2908 3014 4.447290 TGGTGCATAATGTATACGTTGCT 58.553 39.130 18.67 5.03 0.00 3.91
2914 3020 8.388103 GGTCGATATTTGGTGCATAATGTATAC 58.612 37.037 0.00 0.00 0.00 1.47
2937 3137 5.182570 GTGTAACAAATAAACAGGGGAGGTC 59.817 44.000 0.00 0.00 36.32 3.85
2938 3138 5.074804 GTGTAACAAATAAACAGGGGAGGT 58.925 41.667 0.00 0.00 36.32 3.85
2940 3140 5.414765 GGAGTGTAACAAATAAACAGGGGAG 59.585 44.000 0.00 0.00 41.43 4.30
2941 3141 5.318630 GGAGTGTAACAAATAAACAGGGGA 58.681 41.667 0.00 0.00 41.43 4.81
2945 3154 6.001460 TGGAGGGAGTGTAACAAATAAACAG 58.999 40.000 0.00 0.00 41.43 3.16
2969 3180 2.167693 TGAGCGTCAAGTAATTCCGGAT 59.832 45.455 4.15 0.00 0.00 4.18
3043 3254 1.832719 TTCCTCCGTCCGGAATTGCA 61.833 55.000 5.23 0.00 44.66 4.08
3185 3397 9.260002 GGTGTCTGAATTGTATTTGTGAAAATT 57.740 29.630 0.00 0.00 0.00 1.82
3186 3398 8.420222 TGGTGTCTGAATTGTATTTGTGAAAAT 58.580 29.630 0.00 0.00 0.00 1.82
3199 3411 2.867109 ACCTCCTGGTGTCTGAATTG 57.133 50.000 0.00 0.00 46.51 2.32
3374 3586 9.851686 TGGTAGAAATACATCTCATTATGCTTT 57.148 29.630 0.00 0.00 0.00 3.51
3413 3625 5.921962 TGAAGCAAGCATAGAGTAGAGAA 57.078 39.130 0.00 0.00 0.00 2.87
3429 3641 9.618890 AGCAATTCTTAGTAATATCTTGAAGCA 57.381 29.630 0.00 0.00 0.00 3.91
3635 3853 7.735326 AATCTAGTGACCTTACCATGTTAGT 57.265 36.000 0.00 0.00 0.00 2.24
3655 3873 5.338708 CCATTGTTCCTGTCTGAGGTAATCT 60.339 44.000 0.00 0.00 43.37 2.40
3770 3988 2.489722 GGCTAAGCCCAAAGTTCAGAAG 59.510 50.000 0.00 0.00 44.06 2.85
3905 4124 7.326063 GGAGTAAACATCATTTTTCGTTCCTTG 59.674 37.037 0.00 0.00 0.00 3.61
3976 4195 4.357918 AGAGACAAACCAACAGTAGCAT 57.642 40.909 0.00 0.00 0.00 3.79
4405 4912 5.220397 CGTAATGGTGCTGTGTAGTATTGTG 60.220 44.000 0.00 0.00 0.00 3.33
4406 4913 4.868171 CGTAATGGTGCTGTGTAGTATTGT 59.132 41.667 0.00 0.00 0.00 2.71
4414 4921 2.806244 GAGAAACGTAATGGTGCTGTGT 59.194 45.455 0.00 0.00 0.00 3.72
4415 4922 2.159627 GGAGAAACGTAATGGTGCTGTG 59.840 50.000 0.00 0.00 0.00 3.66
4416 4923 2.224426 TGGAGAAACGTAATGGTGCTGT 60.224 45.455 0.00 0.00 0.00 4.40
4417 4924 2.422597 TGGAGAAACGTAATGGTGCTG 58.577 47.619 0.00 0.00 0.00 4.41
4418 4925 2.851263 TGGAGAAACGTAATGGTGCT 57.149 45.000 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.