Multiple sequence alignment - TraesCS2D01G215800

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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 TraesCS2D01G215800 chr2D 100.000 2666 0 0 1 2666 178666407 178669072 0.000000e+00 4924.0
1 TraesCS2D01G215800 chr2D 91.748 1636 87 24 652 2261 178505337 178506950 0.000000e+00 2230.0
2 TraesCS2D01G215800 chr2D 92.337 1592 76 26 698 2261 178852899 178854472 0.000000e+00 2222.0
3 TraesCS2D01G215800 chr2D 87.136 583 46 18 1 572 178504650 178505214 3.740000e-178 634.0
4 TraesCS2D01G215800 chr2D 87.067 549 55 12 1 540 178852041 178852582 8.160000e-170 606.0
5 TraesCS2D01G215800 chr2D 96.818 220 7 0 2447 2666 178854588 178854807 4.190000e-98 368.0
6 TraesCS2D01G215800 chr2D 95.946 222 7 1 2447 2666 178507066 178507287 2.520000e-95 359.0
7 TraesCS2D01G215800 chr2D 89.809 157 2 2 2279 2435 178506940 178507082 3.500000e-44 189.0
8 TraesCS2D01G215800 chr2D 89.172 157 3 2 2279 2435 178854462 178854604 1.630000e-42 183.0
9 TraesCS2D01G215800 chr2D 94.872 39 2 0 1995 2033 76008524 76008486 7.970000e-06 62.1
10 TraesCS2D01G215800 chr2B 90.947 1447 84 21 837 2261 235050957 235052378 0.000000e+00 1903.0
11 TraesCS2D01G215800 chr2B 91.674 1153 58 17 837 1971 235585077 235586209 0.000000e+00 1563.0
12 TraesCS2D01G215800 chr2B 95.909 220 9 0 2447 2666 235052494 235052713 9.080000e-95 357.0
13 TraesCS2D01G215800 chr2B 95.909 220 9 0 2447 2666 235586718 235586937 9.080000e-95 357.0
14 TraesCS2D01G215800 chr2B 83.557 298 29 9 1968 2261 235586321 235586602 7.320000e-66 261.0
15 TraesCS2D01G215800 chr2B 90.446 157 1 3 2279 2435 235052368 235052510 7.530000e-46 195.0
16 TraesCS2D01G215800 chr2B 88.535 157 4 3 2279 2435 235586592 235586734 7.580000e-41 178.0
17 TraesCS2D01G215800 chr2B 89.623 106 8 3 676 780 235050684 235050787 5.990000e-27 132.0
18 TraesCS2D01G215800 chr2B 89.423 104 7 4 678 781 235584812 235584911 7.750000e-26 128.0
19 TraesCS2D01G215800 chr2A 92.857 1330 63 15 947 2261 193547242 193548554 0.000000e+00 1901.0
20 TraesCS2D01G215800 chr2A 95.000 220 8 2 2447 2666 193548681 193548897 2.540000e-90 342.0
21 TraesCS2D01G215800 chr2A 94.268 157 6 1 2279 2435 193548544 193548697 1.230000e-58 237.0
22 TraesCS2D01G215800 chr2A 88.636 132 8 3 652 783 193543816 193543940 1.280000e-33 154.0
23 TraesCS2D01G215800 chr3A 80.233 86 11 5 298 380 362818385 362818467 2.870000e-05 60.2


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 TraesCS2D01G215800 chr2D 178666407 178669072 2665 False 4924.00 4924 100.00000 1 2666 1 chr2D.!!$F1 2665
1 TraesCS2D01G215800 chr2D 178504650 178507287 2637 False 853.00 2230 91.15975 1 2666 4 chr2D.!!$F2 2665
2 TraesCS2D01G215800 chr2D 178852041 178854807 2766 False 844.75 2222 91.34850 1 2666 4 chr2D.!!$F3 2665
3 TraesCS2D01G215800 chr2B 235050684 235052713 2029 False 646.75 1903 91.73125 676 2666 4 chr2B.!!$F1 1990
4 TraesCS2D01G215800 chr2B 235584812 235586937 2125 False 497.40 1563 89.81960 678 2666 5 chr2B.!!$F2 1988
5 TraesCS2D01G215800 chr2A 193543816 193548897 5081 False 658.50 1901 92.69025 652 2666 4 chr2A.!!$F1 2014

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
49 51 0.39113 GAGATGTTACGGCTGCCACA 60.391 55.0 20.29 15.8 0.0 4.17 F
502 511 0.81361 TTGGCACGAACCTCACACAG 60.814 55.0 0.00 0.0 0.0 3.66 F
504 513 0.81401 GGCACGAACCTCACACAGTT 60.814 55.0 0.00 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1500 5050 0.034477 TGAAGAAGGGCCGGAATTCC 60.034 55.000 15.01 15.01 0.00 3.01 R
1565 5115 0.461163 GGCCTTCCTCTTCTTCGCTC 60.461 60.000 0.00 0.00 0.00 5.03 R
1813 5377 1.206849 GACTCCTTTCCTCTGCTGGAG 59.793 57.143 0.00 0.00 46.93 3.86 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
49 51 0.391130 GAGATGTTACGGCTGCCACA 60.391 55.000 20.29 15.80 0.00 4.17
64 66 4.677514 GCTGCCACAAACAACATATGCATA 60.678 41.667 9.27 9.27 0.00 3.14
70 72 4.097741 ACAAACAACATATGCATATGCGGT 59.902 37.500 35.84 30.63 42.98 5.68
76 78 2.516695 TGCATATGCGGTGCAGGG 60.517 61.111 22.21 0.00 46.76 4.45
93 95 1.327690 GGGGGTAGCGAGATGTGACA 61.328 60.000 0.00 0.00 0.00 3.58
174 176 5.044558 GGATCTTGTTGACCTAGATCGAAC 58.955 45.833 12.95 0.00 43.26 3.95
181 183 4.713824 TGACCTAGATCGAACGAAACAT 57.286 40.909 0.12 0.00 0.00 2.71
182 184 5.068234 TGACCTAGATCGAACGAAACATT 57.932 39.130 0.12 0.00 0.00 2.71
239 241 8.703743 TGAATATTTATTTATGCACCCAAGCTT 58.296 29.630 0.00 0.00 34.99 3.74
244 246 8.988546 TTTATTTATGCACCCAAGCTTATCTA 57.011 30.769 0.00 0.00 34.99 1.98
258 260 7.121168 CCAAGCTTATCTAATCTTGGTGAACAA 59.879 37.037 18.20 0.00 46.59 2.83
367 373 3.195610 AGTGCATTCGGACATCTGAGTAA 59.804 43.478 0.00 0.00 35.57 2.24
432 439 1.960417 TTTCGCACACACATCCTGAA 58.040 45.000 0.00 0.00 0.00 3.02
433 440 2.183478 TTCGCACACACATCCTGAAT 57.817 45.000 0.00 0.00 0.00 2.57
434 441 2.183478 TCGCACACACATCCTGAATT 57.817 45.000 0.00 0.00 0.00 2.17
436 443 2.226200 TCGCACACACATCCTGAATTTG 59.774 45.455 0.00 0.00 0.00 2.32
439 446 4.370917 GCACACACATCCTGAATTTGTTT 58.629 39.130 0.00 0.00 0.00 2.83
502 511 0.813610 TTGGCACGAACCTCACACAG 60.814 55.000 0.00 0.00 0.00 3.66
504 513 0.814010 GGCACGAACCTCACACAGTT 60.814 55.000 0.00 0.00 0.00 3.16
506 515 1.792949 GCACGAACCTCACACAGTTAG 59.207 52.381 0.00 0.00 0.00 2.34
522 531 5.239306 CACAGTTAGACATCTTCCTTGCAAA 59.761 40.000 0.00 0.00 0.00 3.68
609 724 3.573558 GGGAGCAATTTCGCGACA 58.426 55.556 9.15 1.21 36.85 4.35
614 729 2.604614 GGAGCAATTTCGCGACACTTTT 60.605 45.455 9.15 0.00 36.85 2.27
615 730 3.042887 GAGCAATTTCGCGACACTTTTT 58.957 40.909 9.15 0.00 36.85 1.94
693 809 4.690748 TCCGCTCTTTGTTATTGTTGAGAG 59.309 41.667 0.00 0.00 35.05 3.20
703 992 2.462456 TTGTTGAGAGCTACAGGCAG 57.538 50.000 0.00 0.00 44.79 4.85
716 1005 4.381825 GCTACAGGCAGATAGATGGATCAG 60.382 50.000 0.00 0.00 41.35 2.90
753 1042 2.404215 CAGCAGCCCATATACACGTAC 58.596 52.381 0.00 0.00 0.00 3.67
1365 4915 1.598130 GCTCGGTGCCAAGTTCAGT 60.598 57.895 0.00 0.00 35.15 3.41
1511 5061 2.585247 CGACGAGGAATTCCGGCC 60.585 66.667 18.82 11.01 42.08 6.13
1595 5145 2.042843 GAAGGCCGAGGAGGAGGA 60.043 66.667 0.00 0.00 45.00 3.71
1748 5303 0.032678 CAGTCAGGAACTCAGCACGT 59.967 55.000 0.00 0.00 34.60 4.49
1749 5304 0.315568 AGTCAGGAACTCAGCACGTC 59.684 55.000 0.00 0.00 34.60 4.34
1750 5305 0.667792 GTCAGGAACTCAGCACGTCC 60.668 60.000 0.00 0.00 34.60 4.79
1751 5306 1.734477 CAGGAACTCAGCACGTCCG 60.734 63.158 0.00 0.00 34.60 4.79
1813 5377 1.239347 GAGGTTGTTTCCAGTGGAGC 58.761 55.000 12.67 10.17 31.21 4.70
1894 5466 4.335082 TCAAATGTTCGCCTAAATGTCG 57.665 40.909 0.00 0.00 0.00 4.35
1921 5493 5.704053 TCTGTCAGATTGAGTACGACAAGTA 59.296 40.000 0.00 0.00 36.26 2.24
1992 5684 2.307929 CGTGTCACAGTCAGTTAGTCG 58.692 52.381 3.42 0.00 0.00 4.18
2000 5692 4.215827 CACAGTCAGTTAGTCGTTACTCCT 59.784 45.833 0.00 0.00 37.15 3.69
2004 5696 4.217118 GTCAGTTAGTCGTTACTCCTTCCA 59.783 45.833 0.00 0.00 37.15 3.53
2012 5704 3.521937 TCGTTACTCCTTCCATCCCAAAT 59.478 43.478 0.00 0.00 0.00 2.32
2071 5763 7.335627 AGATCCGTGACACTTAATTTGGAATA 58.664 34.615 3.68 0.00 0.00 1.75
2080 5772 7.339482 ACACTTAATTTGGAATAGAGGGAGAC 58.661 38.462 0.00 0.00 0.00 3.36
2133 5830 5.940192 AAGAGTATTCGATGTTTTGCACA 57.060 34.783 0.00 0.00 40.71 4.57
2137 5834 6.149308 AGAGTATTCGATGTTTTGCACAATGA 59.851 34.615 0.00 0.00 39.50 2.57
2145 5842 5.574891 TGTTTTGCACAATGACTTGTAGT 57.425 34.783 0.00 0.00 43.76 2.73
2165 5862 4.507710 AGTATCGTGCAATTCATGTGTCT 58.492 39.130 0.00 0.00 33.44 3.41
2223 5920 7.249186 TCTCTTCTAGCTATTCTGTTACGAC 57.751 40.000 0.00 0.00 0.00 4.34
2261 5958 8.140112 AGTACTGTAAGATCATCAAGGTTTCT 57.860 34.615 0.00 0.00 37.43 2.52
2262 5959 8.598041 AGTACTGTAAGATCATCAAGGTTTCTT 58.402 33.333 0.00 0.00 37.43 2.52
2263 5960 9.220767 GTACTGTAAGATCATCAAGGTTTCTTT 57.779 33.333 0.00 0.00 37.43 2.52
2264 5961 8.697507 ACTGTAAGATCATCAAGGTTTCTTTT 57.302 30.769 0.00 0.00 37.43 2.27
2265 5962 9.136323 ACTGTAAGATCATCAAGGTTTCTTTTT 57.864 29.630 0.00 0.00 37.43 1.94
2287 5984 4.674281 TTTTTGCGGGTAATCAAGGTTT 57.326 36.364 0.00 0.00 0.00 3.27
2288 5985 4.674281 TTTTGCGGGTAATCAAGGTTTT 57.326 36.364 0.00 0.00 0.00 2.43
2376 6073 2.165167 CACTGACCTGCATGGACAATT 58.835 47.619 8.91 0.00 39.78 2.32
2377 6074 2.559668 CACTGACCTGCATGGACAATTT 59.440 45.455 8.91 0.00 39.78 1.82
2378 6075 2.559668 ACTGACCTGCATGGACAATTTG 59.440 45.455 8.91 0.00 39.78 2.32
2379 6076 1.273048 TGACCTGCATGGACAATTTGC 59.727 47.619 8.91 0.00 37.54 3.68
2380 6077 0.244450 ACCTGCATGGACAATTTGCG 59.756 50.000 8.91 0.00 39.23 4.85
2381 6078 0.458889 CCTGCATGGACAATTTGCGG 60.459 55.000 0.00 1.56 41.40 5.69
2382 6079 1.079875 CTGCATGGACAATTTGCGGC 61.080 55.000 0.00 0.00 39.23 6.53
2383 6080 1.079956 GCATGGACAATTTGCGGCA 60.080 52.632 0.00 0.00 0.00 5.69
2384 6081 0.669932 GCATGGACAATTTGCGGCAA 60.670 50.000 12.11 12.11 0.00 4.52
2385 6082 2.008045 GCATGGACAATTTGCGGCAAT 61.008 47.619 17.19 0.50 0.00 3.56
2386 6083 2.738000 GCATGGACAATTTGCGGCAATA 60.738 45.455 17.19 8.05 0.00 1.90
2405 6113 6.546034 GGCAATATTACAGTATTTCCCTGTGT 59.454 38.462 3.44 0.00 42.85 3.72
2406 6114 7.068226 GGCAATATTACAGTATTTCCCTGTGTT 59.932 37.037 3.44 0.00 42.85 3.32
2407 6115 8.129211 GCAATATTACAGTATTTCCCTGTGTTC 58.871 37.037 3.44 0.00 42.85 3.18
2512 6220 0.252197 ATGTCTAGGGCCAAACGACC 59.748 55.000 6.18 0.00 0.00 4.79
2541 6249 5.470098 TGTTCTGAGCAGGAAACAAGAATAC 59.530 40.000 3.20 0.00 0.00 1.89
2581 6291 6.434018 TGCACAATCGATTCACAATAATGA 57.566 33.333 7.92 0.00 0.00 2.57
2655 6365 3.118920 GGCCACATAATTAACCCAACACC 60.119 47.826 0.00 0.00 0.00 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 51 4.609947 CACCGCATATGCATATGTTGTTT 58.390 39.130 35.50 19.61 41.63 2.83
64 66 3.797353 CTACCCCCTGCACCGCAT 61.797 66.667 0.00 0.00 38.13 4.73
70 72 2.041922 ATCTCGCTACCCCCTGCA 60.042 61.111 0.00 0.00 0.00 4.41
76 78 0.528684 GCTGTCACATCTCGCTACCC 60.529 60.000 0.00 0.00 0.00 3.69
122 124 4.520492 TCTTCTATATCGTGCTCATGCTCA 59.480 41.667 0.00 0.00 40.48 4.26
210 212 7.809546 TGGGTGCATAAATAAATATTCACGA 57.190 32.000 0.00 0.00 32.41 4.35
211 213 7.114811 GCTTGGGTGCATAAATAAATATTCACG 59.885 37.037 0.00 0.00 32.41 4.35
213 215 8.248904 AGCTTGGGTGCATAAATAAATATTCA 57.751 30.769 0.00 0.00 34.99 2.57
221 223 9.231297 GATTAGATAAGCTTGGGTGCATAAATA 57.769 33.333 9.86 0.00 34.99 1.40
308 314 6.042781 AGGACCTTACACACTCAAACATCTTA 59.957 38.462 0.00 0.00 0.00 2.10
367 373 3.632145 ACCGATTTTGTTTTGCTGAGAGT 59.368 39.130 0.00 0.00 0.00 3.24
416 423 2.030893 ACAAATTCAGGATGTGTGTGCG 60.031 45.455 0.00 0.00 34.82 5.34
417 424 3.648339 ACAAATTCAGGATGTGTGTGC 57.352 42.857 0.00 0.00 34.82 4.57
439 446 6.804677 TGAATAGCTCTCAGCAAAACAAAAA 58.195 32.000 0.00 0.00 45.56 1.94
442 449 5.474532 ACATGAATAGCTCTCAGCAAAACAA 59.525 36.000 0.00 0.00 45.56 2.83
444 451 5.448360 GGACATGAATAGCTCTCAGCAAAAC 60.448 44.000 0.00 0.00 45.56 2.43
644 759 8.990163 TCCTAAGAAAAACAATAACTTCCACT 57.010 30.769 0.00 0.00 0.00 4.00
645 760 9.841880 GATCCTAAGAAAAACAATAACTTCCAC 57.158 33.333 0.00 0.00 0.00 4.02
646 761 9.020731 GGATCCTAAGAAAAACAATAACTTCCA 57.979 33.333 3.84 0.00 0.00 3.53
647 762 8.182227 CGGATCCTAAGAAAAACAATAACTTCC 58.818 37.037 10.75 0.00 0.00 3.46
648 763 7.696872 GCGGATCCTAAGAAAAACAATAACTTC 59.303 37.037 10.75 0.00 0.00 3.01
649 764 7.393515 AGCGGATCCTAAGAAAAACAATAACTT 59.606 33.333 10.75 0.00 0.00 2.66
650 765 6.884836 AGCGGATCCTAAGAAAAACAATAACT 59.115 34.615 10.75 0.00 0.00 2.24
693 809 3.513119 TGATCCATCTATCTGCCTGTAGC 59.487 47.826 0.00 0.00 44.14 3.58
703 992 0.539051 CGGGCCCTGATCCATCTATC 59.461 60.000 22.43 0.00 0.00 2.08
716 1005 0.459899 CTGGAATTTTAAGCGGGCCC 59.540 55.000 13.57 13.57 0.00 5.80
753 1042 0.898320 TTCTTTCGAGAGGAGGCCAG 59.102 55.000 5.01 0.00 0.00 4.85
843 4086 0.457853 TAGAGGCAAAGCTACGCGTG 60.458 55.000 24.59 13.17 0.00 5.34
1365 4915 1.069823 CTCTCGTAGTACCTCGGGCTA 59.930 57.143 7.30 0.00 0.00 3.93
1500 5050 0.034477 TGAAGAAGGGCCGGAATTCC 60.034 55.000 15.01 15.01 0.00 3.01
1558 5108 1.148310 CTCTTCTTCGCTCCGCAAAA 58.852 50.000 0.00 0.00 0.00 2.44
1559 5109 0.670546 CCTCTTCTTCGCTCCGCAAA 60.671 55.000 0.00 0.00 0.00 3.68
1565 5115 0.461163 GGCCTTCCTCTTCTTCGCTC 60.461 60.000 0.00 0.00 0.00 5.03
1748 5303 3.091633 AGTAGTACCAAGTAAGCCGGA 57.908 47.619 5.05 0.00 0.00 5.14
1749 5304 3.881937 AAGTAGTACCAAGTAAGCCGG 57.118 47.619 0.00 0.00 0.00 6.13
1750 5305 5.105997 ACAGTAAGTAGTACCAAGTAAGCCG 60.106 44.000 0.00 0.00 32.58 5.52
1751 5306 6.278172 ACAGTAAGTAGTACCAAGTAAGCC 57.722 41.667 0.00 0.00 32.58 4.35
1813 5377 1.206849 GACTCCTTTCCTCTGCTGGAG 59.793 57.143 0.00 0.00 46.93 3.86
1894 5466 4.154375 TGTCGTACTCAATCTGACAGACTC 59.846 45.833 7.47 0.00 34.85 3.36
1921 5493 4.174009 CGACAACAATGGACTCGACTAAT 58.826 43.478 0.00 0.00 0.00 1.73
1977 5669 4.215827 AGGAGTAACGACTAACTGACTGTG 59.784 45.833 0.00 0.00 35.45 3.66
1992 5684 6.890268 ACTTAATTTGGGATGGAAGGAGTAAC 59.110 38.462 0.00 0.00 0.00 2.50
2000 5692 3.442273 GCGACACTTAATTTGGGATGGAA 59.558 43.478 0.00 0.00 0.00 3.53
2004 5696 2.014128 CGGCGACACTTAATTTGGGAT 58.986 47.619 0.00 0.00 0.00 3.85
2012 5704 5.314923 ACTACTAAATCGGCGACACTTAA 57.685 39.130 13.76 0.00 0.00 1.85
2047 5739 5.873179 TTCCAAATTAAGTGTCACGGATC 57.127 39.130 0.00 0.00 0.00 3.36
2051 5743 6.037172 CCCTCTATTCCAAATTAAGTGTCACG 59.963 42.308 0.00 0.00 0.00 4.35
2071 5763 5.735733 TTCTTACATAGGAGTCTCCCTCT 57.264 43.478 15.72 0.00 40.30 3.69
2133 5830 6.593770 TGAATTGCACGATACTACAAGTCATT 59.406 34.615 0.00 0.00 40.80 2.57
2137 5834 5.874810 ACATGAATTGCACGATACTACAAGT 59.125 36.000 0.00 0.00 0.00 3.16
2145 5842 5.901552 TCTAGACACATGAATTGCACGATA 58.098 37.500 0.00 0.00 0.00 2.92
2165 5862 9.920946 ACTCTGATTTGGGCTAAATAATTTCTA 57.079 29.630 8.93 0.00 39.06 2.10
2223 5920 9.632807 GATCTTACAGTACTAATGAATAGCTGG 57.367 37.037 0.00 0.00 34.78 4.85
2266 5963 4.674281 AAACCTTGATTACCCGCAAAAA 57.326 36.364 0.00 0.00 0.00 1.94
2267 5964 4.674281 AAAACCTTGATTACCCGCAAAA 57.326 36.364 0.00 0.00 0.00 2.44
2268 5965 5.786264 TTAAAACCTTGATTACCCGCAAA 57.214 34.783 0.00 0.00 0.00 3.68
2269 5966 5.986501 ATTAAAACCTTGATTACCCGCAA 57.013 34.783 0.00 0.00 0.00 4.85
2270 5967 5.986501 AATTAAAACCTTGATTACCCGCA 57.013 34.783 0.00 0.00 0.00 5.69
2271 5968 6.391537 TGAAATTAAAACCTTGATTACCCGC 58.608 36.000 0.00 0.00 0.00 6.13
2272 5969 8.819643 TTTGAAATTAAAACCTTGATTACCCG 57.180 30.769 0.00 0.00 0.00 5.28
2273 5970 9.990360 TCTTTGAAATTAAAACCTTGATTACCC 57.010 29.630 0.00 0.00 0.00 3.69
2376 6073 5.009210 GGGAAATACTGTAATATTGCCGCAA 59.991 40.000 8.55 8.55 40.17 4.85
2377 6074 4.517453 GGGAAATACTGTAATATTGCCGCA 59.483 41.667 0.00 0.00 40.17 5.69
2378 6075 4.760204 AGGGAAATACTGTAATATTGCCGC 59.240 41.667 12.65 0.00 40.17 6.53
2379 6076 5.763204 ACAGGGAAATACTGTAATATTGCCG 59.237 40.000 12.65 0.00 46.62 5.69
2380 6077 6.546034 ACACAGGGAAATACTGTAATATTGCC 59.454 38.462 11.37 11.37 46.76 4.52
2381 6078 7.568199 ACACAGGGAAATACTGTAATATTGC 57.432 36.000 0.00 0.00 46.76 3.56
2382 6079 9.396022 AGAACACAGGGAAATACTGTAATATTG 57.604 33.333 0.00 0.00 46.76 1.90
2383 6080 9.975218 AAGAACACAGGGAAATACTGTAATATT 57.025 29.630 0.00 0.00 46.76 1.28
2384 6081 9.614792 GAAGAACACAGGGAAATACTGTAATAT 57.385 33.333 0.00 0.00 46.76 1.28
2385 6082 8.822805 AGAAGAACACAGGGAAATACTGTAATA 58.177 33.333 0.00 0.00 46.76 0.98
2386 6083 7.690256 AGAAGAACACAGGGAAATACTGTAAT 58.310 34.615 0.00 0.00 46.76 1.89
2440 6148 9.667107 CTTCAAGACTTGTTATGTTATTCCCTA 57.333 33.333 14.75 0.00 0.00 3.53
2441 6149 7.611855 CCTTCAAGACTTGTTATGTTATTCCCT 59.388 37.037 14.75 0.00 0.00 4.20
2442 6150 7.610305 TCCTTCAAGACTTGTTATGTTATTCCC 59.390 37.037 14.75 0.00 0.00 3.97
2443 6151 8.561738 TCCTTCAAGACTTGTTATGTTATTCC 57.438 34.615 14.75 0.00 0.00 3.01
2446 6154 9.574516 AGTTTCCTTCAAGACTTGTTATGTTAT 57.425 29.630 14.75 0.00 0.00 1.89
2447 6155 8.974060 AGTTTCCTTCAAGACTTGTTATGTTA 57.026 30.769 14.75 0.00 0.00 2.41
2448 6156 7.881775 AGTTTCCTTCAAGACTTGTTATGTT 57.118 32.000 14.75 0.00 0.00 2.71
2449 6157 8.974060 TTAGTTTCCTTCAAGACTTGTTATGT 57.026 30.769 14.75 0.00 0.00 2.29
2450 6158 9.884465 CTTTAGTTTCCTTCAAGACTTGTTATG 57.116 33.333 14.75 3.35 0.00 1.90
2451 6159 9.067986 CCTTTAGTTTCCTTCAAGACTTGTTAT 57.932 33.333 14.75 0.00 0.00 1.89
2452 6160 8.269317 TCCTTTAGTTTCCTTCAAGACTTGTTA 58.731 33.333 14.75 4.19 0.00 2.41
2453 6161 7.116736 TCCTTTAGTTTCCTTCAAGACTTGTT 58.883 34.615 14.75 0.00 0.00 2.83
2454 6162 6.659824 TCCTTTAGTTTCCTTCAAGACTTGT 58.340 36.000 14.75 0.00 0.00 3.16
2455 6163 7.751768 ATCCTTTAGTTTCCTTCAAGACTTG 57.248 36.000 9.03 9.03 0.00 3.16
2456 6164 7.780271 ACAATCCTTTAGTTTCCTTCAAGACTT 59.220 33.333 0.00 0.00 0.00 3.01
2457 6165 7.290813 ACAATCCTTTAGTTTCCTTCAAGACT 58.709 34.615 0.00 0.00 0.00 3.24
2458 6166 7.511959 ACAATCCTTTAGTTTCCTTCAAGAC 57.488 36.000 0.00 0.00 0.00 3.01
2459 6167 7.998964 AGAACAATCCTTTAGTTTCCTTCAAGA 59.001 33.333 0.00 0.00 0.00 3.02
2460 6168 8.171164 AGAACAATCCTTTAGTTTCCTTCAAG 57.829 34.615 0.00 0.00 0.00 3.02
2461 6169 7.777910 TGAGAACAATCCTTTAGTTTCCTTCAA 59.222 33.333 0.00 0.00 0.00 2.69
2462 6170 7.287061 TGAGAACAATCCTTTAGTTTCCTTCA 58.713 34.615 0.00 0.00 0.00 3.02
2472 6180 7.009179 ACATGAGACTGAGAACAATCCTTTA 57.991 36.000 0.00 0.00 0.00 1.85
2512 6220 4.318332 TGTTTCCTGCTCAGAACATGTAG 58.682 43.478 0.00 0.00 0.00 2.74
2541 6249 7.360353 CGATTGTGCATCAGGGTTATAAGTATG 60.360 40.741 0.00 0.00 0.00 2.39
2581 6291 1.156736 GCAGGTGTGCGTGTAAGATT 58.843 50.000 0.00 0.00 40.71 2.40


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

AutoCloner maintained by Alex Coulton.