Multiple sequence alignment - TraesCS7A01G076500

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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 TraesCS7A01G076500 chr7A 100.000 2107 0 0 935 3041 41873113 41875219 0.000000e+00 3892
1 TraesCS7A01G076500 chr7A 100.000 622 0 0 1 622 41872179 41872800 0.000000e+00 1149
2 TraesCS7A01G076500 chr7A 80.077 261 44 8 1360 1616 195217981 195217725 1.440000e-43 187
3 TraesCS7A01G076500 chr7D 95.416 2138 53 24 935 3041 42545786 42547909 0.000000e+00 3363
4 TraesCS7A01G076500 chr7D 90.708 452 33 7 172 622 42545284 42545727 7.260000e-166 593
5 TraesCS7A01G076500 chr7D 74.732 467 90 14 1360 1800 188874373 188874837 1.860000e-42 183
6 TraesCS7A01G076500 chr4A 93.770 2167 62 33 935 3041 649428044 649430197 0.000000e+00 3186
7 TraesCS7A01G076500 chr4A 93.148 467 22 7 159 622 649427526 649427985 0.000000e+00 676
8 TraesCS7A01G076500 chr1D 78.647 473 82 14 1363 1821 22863629 22864096 2.290000e-76 296
9 TraesCS7A01G076500 chr1A 78.556 471 84 11 1363 1820 23857006 23857472 8.250000e-76 294
10 TraesCS7A01G076500 chr6D 78.444 450 81 10 1376 1814 26351136 26351580 2.310000e-71 279
11 TraesCS7A01G076500 chr6D 76.562 448 80 18 1376 1803 364227249 364227691 3.950000e-54 222
12 TraesCS7A01G076500 chr6B 77.802 464 83 16 1364 1814 48552037 48552493 5.000000e-68 268


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 TraesCS7A01G076500 chr7A 41872179 41875219 3040 False 2520.5 3892 100.000 1 3041 2 chr7A.!!$F1 3040
1 TraesCS7A01G076500 chr7D 42545284 42547909 2625 False 1978.0 3363 93.062 172 3041 2 chr7D.!!$F2 2869
2 TraesCS7A01G076500 chr4A 649427526 649430197 2671 False 1931.0 3186 93.459 159 3041 2 chr4A.!!$F1 2882

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
57 58 0.037605 ACATCGAAGACCCCGTCAAC 60.038 55.0 0.0 0.0 42.51 3.18 F
98 99 0.042581 TAGCACTCCCCTCATGTCCA 59.957 55.0 0.0 0.0 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1942 1964 0.698238 TTCATCAGGTTGTGGGGGAG 59.302 55.000 0.0 0.0 0.0 4.3 R
2161 2187 6.761714 AGTCTGTAACAAAGAGTAACAACAGG 59.238 38.462 0.0 0.0 0.0 4.0 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
24 25 6.091437 GGAATTATCGACCTCTTATGTACCG 58.909 44.000 0.00 0.00 0.00 4.02
25 26 4.494350 TTATCGACCTCTTATGTACCGC 57.506 45.455 0.00 0.00 0.00 5.68
26 27 1.753930 TCGACCTCTTATGTACCGCA 58.246 50.000 0.00 0.00 0.00 5.69
27 28 2.304092 TCGACCTCTTATGTACCGCAT 58.696 47.619 0.00 0.00 41.42 4.73
28 29 2.292569 TCGACCTCTTATGTACCGCATC 59.707 50.000 0.00 0.00 38.94 3.91
29 30 2.293677 CGACCTCTTATGTACCGCATCT 59.706 50.000 0.00 0.00 38.94 2.90
30 31 3.501062 CGACCTCTTATGTACCGCATCTA 59.499 47.826 0.00 0.00 38.94 1.98
31 32 4.023450 CGACCTCTTATGTACCGCATCTAA 60.023 45.833 0.00 0.00 38.94 2.10
32 33 5.506815 CGACCTCTTATGTACCGCATCTAAA 60.507 44.000 0.00 0.00 38.94 1.85
33 34 5.598769 ACCTCTTATGTACCGCATCTAAAC 58.401 41.667 0.00 0.00 38.94 2.01
34 35 4.680110 CCTCTTATGTACCGCATCTAAACG 59.320 45.833 0.00 0.00 38.94 3.60
35 36 5.503662 TCTTATGTACCGCATCTAAACGA 57.496 39.130 0.00 0.00 38.94 3.85
36 37 6.080648 TCTTATGTACCGCATCTAAACGAT 57.919 37.500 0.00 0.00 38.94 3.73
52 53 3.274393 GATGACATCGAAGACCCCG 57.726 57.895 0.00 0.00 42.51 5.73
53 54 0.460311 GATGACATCGAAGACCCCGT 59.540 55.000 0.00 0.00 42.51 5.28
54 55 0.460311 ATGACATCGAAGACCCCGTC 59.540 55.000 0.00 0.00 42.51 4.79
55 56 0.896479 TGACATCGAAGACCCCGTCA 60.896 55.000 0.00 0.00 42.51 4.35
56 57 0.245539 GACATCGAAGACCCCGTCAA 59.754 55.000 0.00 0.00 42.51 3.18
57 58 0.037605 ACATCGAAGACCCCGTCAAC 60.038 55.000 0.00 0.00 42.51 3.18
58 59 0.246635 CATCGAAGACCCCGTCAACT 59.753 55.000 0.00 0.00 42.51 3.16
59 60 0.974383 ATCGAAGACCCCGTCAACTT 59.026 50.000 0.00 0.00 42.51 2.66
60 61 1.619654 TCGAAGACCCCGTCAACTTA 58.380 50.000 0.00 0.00 34.60 2.24
61 62 2.173519 TCGAAGACCCCGTCAACTTAT 58.826 47.619 0.00 0.00 34.60 1.73
62 63 2.564062 TCGAAGACCCCGTCAACTTATT 59.436 45.455 0.00 0.00 34.60 1.40
63 64 3.007182 TCGAAGACCCCGTCAACTTATTT 59.993 43.478 0.00 0.00 34.60 1.40
64 65 3.370061 CGAAGACCCCGTCAACTTATTTC 59.630 47.826 0.00 0.00 34.60 2.17
65 66 4.576879 GAAGACCCCGTCAACTTATTTCT 58.423 43.478 0.00 0.00 34.60 2.52
66 67 4.635699 AGACCCCGTCAACTTATTTCTT 57.364 40.909 0.00 0.00 34.60 2.52
67 68 5.750352 AGACCCCGTCAACTTATTTCTTA 57.250 39.130 0.00 0.00 34.60 2.10
68 69 6.117975 AGACCCCGTCAACTTATTTCTTAA 57.882 37.500 0.00 0.00 34.60 1.85
69 70 6.536447 AGACCCCGTCAACTTATTTCTTAAA 58.464 36.000 0.00 0.00 34.60 1.52
70 71 6.999871 AGACCCCGTCAACTTATTTCTTAAAA 59.000 34.615 0.00 0.00 34.60 1.52
71 72 7.503230 AGACCCCGTCAACTTATTTCTTAAAAA 59.497 33.333 0.00 0.00 34.60 1.94
90 91 4.870021 AAAATGAATCTAGCACTCCCCT 57.130 40.909 0.00 0.00 0.00 4.79
91 92 4.429854 AAATGAATCTAGCACTCCCCTC 57.570 45.455 0.00 0.00 0.00 4.30
92 93 2.550277 TGAATCTAGCACTCCCCTCA 57.450 50.000 0.00 0.00 0.00 3.86
93 94 3.051940 TGAATCTAGCACTCCCCTCAT 57.948 47.619 0.00 0.00 0.00 2.90
94 95 2.702478 TGAATCTAGCACTCCCCTCATG 59.298 50.000 0.00 0.00 0.00 3.07
95 96 2.485966 ATCTAGCACTCCCCTCATGT 57.514 50.000 0.00 0.00 0.00 3.21
96 97 1.781786 TCTAGCACTCCCCTCATGTC 58.218 55.000 0.00 0.00 0.00 3.06
97 98 0.755686 CTAGCACTCCCCTCATGTCC 59.244 60.000 0.00 0.00 0.00 4.02
98 99 0.042581 TAGCACTCCCCTCATGTCCA 59.957 55.000 0.00 0.00 0.00 4.02
99 100 0.622738 AGCACTCCCCTCATGTCCAT 60.623 55.000 0.00 0.00 0.00 3.41
100 101 0.179034 GCACTCCCCTCATGTCCATC 60.179 60.000 0.00 0.00 0.00 3.51
101 102 1.504912 CACTCCCCTCATGTCCATCT 58.495 55.000 0.00 0.00 0.00 2.90
102 103 2.682594 CACTCCCCTCATGTCCATCTA 58.317 52.381 0.00 0.00 0.00 1.98
103 104 3.246301 CACTCCCCTCATGTCCATCTAT 58.754 50.000 0.00 0.00 0.00 1.98
104 105 3.649981 CACTCCCCTCATGTCCATCTATT 59.350 47.826 0.00 0.00 0.00 1.73
105 106 4.840680 CACTCCCCTCATGTCCATCTATTA 59.159 45.833 0.00 0.00 0.00 0.98
106 107 5.486775 CACTCCCCTCATGTCCATCTATTAT 59.513 44.000 0.00 0.00 0.00 1.28
107 108 6.013032 CACTCCCCTCATGTCCATCTATTATT 60.013 42.308 0.00 0.00 0.00 1.40
108 109 6.564152 ACTCCCCTCATGTCCATCTATTATTT 59.436 38.462 0.00 0.00 0.00 1.40
109 110 7.074237 ACTCCCCTCATGTCCATCTATTATTTT 59.926 37.037 0.00 0.00 0.00 1.82
110 111 7.233632 TCCCCTCATGTCCATCTATTATTTTG 58.766 38.462 0.00 0.00 0.00 2.44
111 112 6.071728 CCCCTCATGTCCATCTATTATTTTGC 60.072 42.308 0.00 0.00 0.00 3.68
112 113 6.718454 CCCTCATGTCCATCTATTATTTTGCT 59.282 38.462 0.00 0.00 0.00 3.91
113 114 7.232127 CCCTCATGTCCATCTATTATTTTGCTT 59.768 37.037 0.00 0.00 0.00 3.91
114 115 9.288576 CCTCATGTCCATCTATTATTTTGCTTA 57.711 33.333 0.00 0.00 0.00 3.09
125 126 8.453320 TCTATTATTTTGCTTATCATCATGGCG 58.547 33.333 0.00 0.00 0.00 5.69
126 127 2.780065 TTTGCTTATCATCATGGCGC 57.220 45.000 0.00 0.00 0.00 6.53
127 128 1.677942 TTGCTTATCATCATGGCGCA 58.322 45.000 10.83 0.00 0.00 6.09
128 129 1.900245 TGCTTATCATCATGGCGCAT 58.100 45.000 10.83 0.00 0.00 4.73
129 130 3.056588 TGCTTATCATCATGGCGCATA 57.943 42.857 10.83 0.00 0.00 3.14
130 131 3.613030 TGCTTATCATCATGGCGCATAT 58.387 40.909 10.83 0.00 0.00 1.78
131 132 3.624410 TGCTTATCATCATGGCGCATATC 59.376 43.478 10.83 0.00 0.00 1.63
132 133 3.302935 GCTTATCATCATGGCGCATATCG 60.303 47.826 10.83 0.00 42.12 2.92
133 134 2.391616 ATCATCATGGCGCATATCGT 57.608 45.000 10.83 0.00 41.07 3.73
134 135 2.168326 TCATCATGGCGCATATCGTT 57.832 45.000 10.83 0.00 41.07 3.85
135 136 2.493035 TCATCATGGCGCATATCGTTT 58.507 42.857 10.83 0.00 41.07 3.60
136 137 3.658709 TCATCATGGCGCATATCGTTTA 58.341 40.909 10.83 0.00 41.07 2.01
137 138 4.252878 TCATCATGGCGCATATCGTTTAT 58.747 39.130 10.83 0.00 41.07 1.40
138 139 4.694982 TCATCATGGCGCATATCGTTTATT 59.305 37.500 10.83 0.00 41.07 1.40
139 140 5.181056 TCATCATGGCGCATATCGTTTATTT 59.819 36.000 10.83 0.00 41.07 1.40
140 141 5.029650 TCATGGCGCATATCGTTTATTTC 57.970 39.130 10.83 0.00 41.07 2.17
141 142 4.754618 TCATGGCGCATATCGTTTATTTCT 59.245 37.500 10.83 0.00 41.07 2.52
142 143 5.238432 TCATGGCGCATATCGTTTATTTCTT 59.762 36.000 10.83 0.00 41.07 2.52
143 144 5.493133 TGGCGCATATCGTTTATTTCTTT 57.507 34.783 10.83 0.00 41.07 2.52
144 145 6.606234 TGGCGCATATCGTTTATTTCTTTA 57.394 33.333 10.83 0.00 41.07 1.85
145 146 7.017498 TGGCGCATATCGTTTATTTCTTTAA 57.983 32.000 10.83 0.00 41.07 1.52
146 147 7.473366 TGGCGCATATCGTTTATTTCTTTAAA 58.527 30.769 10.83 0.00 41.07 1.52
147 148 8.132362 TGGCGCATATCGTTTATTTCTTTAAAT 58.868 29.630 10.83 0.00 41.07 1.40
148 149 8.627428 GGCGCATATCGTTTATTTCTTTAAATC 58.373 33.333 10.83 0.00 41.07 2.17
149 150 8.627428 GCGCATATCGTTTATTTCTTTAAATCC 58.373 33.333 0.30 0.00 41.07 3.01
150 151 8.827599 CGCATATCGTTTATTTCTTTAAATCCG 58.172 33.333 0.00 0.00 36.67 4.18
151 152 9.659830 GCATATCGTTTATTTCTTTAAATCCGT 57.340 29.630 0.00 0.00 36.67 4.69
190 191 6.944862 AGGAGTATTTGCCATCTTGGAATATC 59.055 38.462 0.00 0.00 40.96 1.63
206 207 6.830912 TGGAATATCTTCGATGAAAGATGGT 58.169 36.000 4.98 0.00 43.95 3.55
207 208 7.282585 TGGAATATCTTCGATGAAAGATGGTT 58.717 34.615 4.98 1.91 43.95 3.67
208 209 7.775093 TGGAATATCTTCGATGAAAGATGGTTT 59.225 33.333 4.98 0.00 43.95 3.27
269 270 4.129380 TGATATCAGATTTTGGGTCGCAG 58.871 43.478 0.00 0.00 0.00 5.18
284 285 0.389391 CGCAGGTATCTCCACCGAAT 59.611 55.000 0.00 0.00 43.84 3.34
287 288 3.279434 GCAGGTATCTCCACCGAATTTT 58.721 45.455 0.00 0.00 43.84 1.82
291 292 2.899303 ATCTCCACCGAATTTTGGGT 57.101 45.000 7.60 0.00 40.10 4.51
614 618 4.188511 CCCCCTCCCTACCCTCCC 62.189 77.778 0.00 0.00 0.00 4.30
616 620 3.043404 CCCTCCCTACCCTCCCCT 61.043 72.222 0.00 0.00 0.00 4.79
617 621 2.615773 CCTCCCTACCCTCCCCTC 59.384 72.222 0.00 0.00 0.00 4.30
618 622 2.615773 CTCCCTACCCTCCCCTCC 59.384 72.222 0.00 0.00 0.00 4.30
620 624 3.436028 CCCTACCCTCCCCTCCGA 61.436 72.222 0.00 0.00 0.00 4.55
621 625 2.198980 CCTACCCTCCCCTCCGAG 59.801 72.222 0.00 0.00 0.00 4.63
996 1000 1.998438 TAGCCGGCAGGGATTTGGA 60.998 57.895 31.54 0.00 38.47 3.53
1776 1798 1.454479 CATCATGGCCGCCTCCTTT 60.454 57.895 11.61 0.00 0.00 3.11
2176 2202 5.723672 TCTCGATCCTGTTGTTACTCTTT 57.276 39.130 0.00 0.00 0.00 2.52
2334 2367 2.033801 GCATGCACCATGTAGGATCAAC 59.966 50.000 14.21 0.00 43.10 3.18
2525 2558 0.250234 CTCTTGGGCCAGTTCGATCA 59.750 55.000 6.23 0.00 0.00 2.92
2532 2574 3.882888 TGGGCCAGTTCGATCATATTTTC 59.117 43.478 0.00 0.00 0.00 2.29
2607 2653 2.555199 GGACACACAGATGGTATCAGC 58.445 52.381 0.00 0.00 0.00 4.26
2714 2761 3.045142 CAGCAAGCCCAACCACTG 58.955 61.111 0.00 0.00 0.00 3.66
2745 2803 0.610509 ACCACACACACAACCTTGCA 60.611 50.000 0.00 0.00 0.00 4.08
2865 2923 7.227873 TGAGAGATCTATACGGTCTCAGAATT 58.772 38.462 0.00 0.00 38.94 2.17
2887 2945 4.425577 ACTCAAAAATGGTGCTCGAATC 57.574 40.909 0.00 0.00 0.00 2.52
2898 2956 1.071542 TGCTCGAATCAGTGGTCCAAA 59.928 47.619 0.00 0.00 0.00 3.28
2903 2961 5.414789 TCGAATCAGTGGTCCAAATTCTA 57.585 39.130 15.61 6.98 0.00 2.10
2912 2971 5.068591 AGTGGTCCAAATTCTAAACGCTTTT 59.931 36.000 0.00 0.00 0.00 2.27
2914 2973 5.980715 TGGTCCAAATTCTAAACGCTTTTTC 59.019 36.000 0.00 0.00 0.00 2.29
3035 3099 5.898174 ACATGCACAATGGTATCTTGAATG 58.102 37.500 0.00 0.00 40.94 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.091437 CGGTACATAAGAGGTCGATAATTCC 58.909 44.000 0.00 0.00 0.00 3.01
1 2 5.572126 GCGGTACATAAGAGGTCGATAATTC 59.428 44.000 0.00 0.00 0.00 2.17
2 3 5.010314 TGCGGTACATAAGAGGTCGATAATT 59.990 40.000 0.00 0.00 0.00 1.40
3 4 4.521639 TGCGGTACATAAGAGGTCGATAAT 59.478 41.667 0.00 0.00 0.00 1.28
4 5 3.884693 TGCGGTACATAAGAGGTCGATAA 59.115 43.478 0.00 0.00 0.00 1.75
5 6 3.479489 TGCGGTACATAAGAGGTCGATA 58.521 45.455 0.00 0.00 0.00 2.92
6 7 2.304092 TGCGGTACATAAGAGGTCGAT 58.696 47.619 0.00 0.00 0.00 3.59
7 8 1.753930 TGCGGTACATAAGAGGTCGA 58.246 50.000 0.00 0.00 0.00 4.20
8 9 2.293677 AGATGCGGTACATAAGAGGTCG 59.706 50.000 0.00 0.00 39.84 4.79
9 10 5.449107 TTAGATGCGGTACATAAGAGGTC 57.551 43.478 0.00 0.00 39.84 3.85
10 11 5.598769 GTTTAGATGCGGTACATAAGAGGT 58.401 41.667 0.00 0.00 39.84 3.85
11 12 4.680110 CGTTTAGATGCGGTACATAAGAGG 59.320 45.833 0.00 0.00 39.84 3.69
12 13 5.516996 TCGTTTAGATGCGGTACATAAGAG 58.483 41.667 0.00 0.00 39.84 2.85
13 14 5.503662 TCGTTTAGATGCGGTACATAAGA 57.496 39.130 0.00 0.00 39.84 2.10
34 35 0.460311 ACGGGGTCTTCGATGTCATC 59.540 55.000 2.43 2.43 0.00 2.92
35 36 0.460311 GACGGGGTCTTCGATGTCAT 59.540 55.000 0.00 0.00 0.00 3.06
36 37 0.896479 TGACGGGGTCTTCGATGTCA 60.896 55.000 0.00 0.00 34.27 3.58
37 38 0.245539 TTGACGGGGTCTTCGATGTC 59.754 55.000 0.00 0.00 33.15 3.06
38 39 0.037605 GTTGACGGGGTCTTCGATGT 60.038 55.000 0.00 0.00 33.15 3.06
39 40 0.246635 AGTTGACGGGGTCTTCGATG 59.753 55.000 0.00 0.00 33.15 3.84
40 41 0.974383 AAGTTGACGGGGTCTTCGAT 59.026 50.000 0.00 0.00 33.15 3.59
41 42 1.619654 TAAGTTGACGGGGTCTTCGA 58.380 50.000 0.00 0.00 33.15 3.71
42 43 2.667473 ATAAGTTGACGGGGTCTTCG 57.333 50.000 0.00 0.00 33.15 3.79
43 44 4.576879 AGAAATAAGTTGACGGGGTCTTC 58.423 43.478 0.00 0.00 33.15 2.87
44 45 4.635699 AGAAATAAGTTGACGGGGTCTT 57.364 40.909 0.00 0.00 33.15 3.01
45 46 4.635699 AAGAAATAAGTTGACGGGGTCT 57.364 40.909 0.00 0.00 33.15 3.85
46 47 6.806388 TTTAAGAAATAAGTTGACGGGGTC 57.194 37.500 0.00 0.00 0.00 4.46
47 48 7.585579 TTTTTAAGAAATAAGTTGACGGGGT 57.414 32.000 0.00 0.00 0.00 4.95
68 69 5.196695 GAGGGGAGTGCTAGATTCATTTTT 58.803 41.667 0.00 0.00 0.00 1.94
69 70 4.228210 TGAGGGGAGTGCTAGATTCATTTT 59.772 41.667 0.00 0.00 0.00 1.82
70 71 3.782523 TGAGGGGAGTGCTAGATTCATTT 59.217 43.478 0.00 0.00 0.00 2.32
71 72 3.387962 TGAGGGGAGTGCTAGATTCATT 58.612 45.455 0.00 0.00 0.00 2.57
72 73 3.051940 TGAGGGGAGTGCTAGATTCAT 57.948 47.619 0.00 0.00 0.00 2.57
73 74 2.550277 TGAGGGGAGTGCTAGATTCA 57.450 50.000 0.00 0.00 0.00 2.57
74 75 2.703007 ACATGAGGGGAGTGCTAGATTC 59.297 50.000 0.00 0.00 0.00 2.52
75 76 2.703007 GACATGAGGGGAGTGCTAGATT 59.297 50.000 0.00 0.00 0.00 2.40
76 77 2.324541 GACATGAGGGGAGTGCTAGAT 58.675 52.381 0.00 0.00 0.00 1.98
77 78 1.689575 GGACATGAGGGGAGTGCTAGA 60.690 57.143 0.00 0.00 0.00 2.43
78 79 0.755686 GGACATGAGGGGAGTGCTAG 59.244 60.000 0.00 0.00 0.00 3.42
79 80 0.042581 TGGACATGAGGGGAGTGCTA 59.957 55.000 0.00 0.00 0.00 3.49
80 81 0.622738 ATGGACATGAGGGGAGTGCT 60.623 55.000 0.00 0.00 0.00 4.40
81 82 0.179034 GATGGACATGAGGGGAGTGC 60.179 60.000 0.00 0.00 0.00 4.40
82 83 1.504912 AGATGGACATGAGGGGAGTG 58.495 55.000 0.00 0.00 0.00 3.51
83 84 3.645053 ATAGATGGACATGAGGGGAGT 57.355 47.619 0.00 0.00 0.00 3.85
84 85 6.633325 AATAATAGATGGACATGAGGGGAG 57.367 41.667 0.00 0.00 0.00 4.30
85 86 7.233632 CAAAATAATAGATGGACATGAGGGGA 58.766 38.462 0.00 0.00 0.00 4.81
86 87 6.071728 GCAAAATAATAGATGGACATGAGGGG 60.072 42.308 0.00 0.00 0.00 4.79
87 88 6.718454 AGCAAAATAATAGATGGACATGAGGG 59.282 38.462 0.00 0.00 0.00 4.30
88 89 7.756395 AGCAAAATAATAGATGGACATGAGG 57.244 36.000 0.00 0.00 0.00 3.86
99 100 8.453320 CGCCATGATGATAAGCAAAATAATAGA 58.547 33.333 0.00 0.00 0.00 1.98
100 101 7.219535 GCGCCATGATGATAAGCAAAATAATAG 59.780 37.037 0.00 0.00 0.00 1.73
101 102 7.028962 GCGCCATGATGATAAGCAAAATAATA 58.971 34.615 0.00 0.00 0.00 0.98
102 103 5.865552 GCGCCATGATGATAAGCAAAATAAT 59.134 36.000 0.00 0.00 0.00 1.28
103 104 5.221204 TGCGCCATGATGATAAGCAAAATAA 60.221 36.000 4.18 0.00 0.00 1.40
104 105 4.277921 TGCGCCATGATGATAAGCAAAATA 59.722 37.500 4.18 0.00 0.00 1.40
105 106 3.068448 TGCGCCATGATGATAAGCAAAAT 59.932 39.130 4.18 0.00 0.00 1.82
106 107 2.426381 TGCGCCATGATGATAAGCAAAA 59.574 40.909 4.18 0.00 0.00 2.44
107 108 2.022934 TGCGCCATGATGATAAGCAAA 58.977 42.857 4.18 0.00 0.00 3.68
108 109 1.677942 TGCGCCATGATGATAAGCAA 58.322 45.000 4.18 0.00 0.00 3.91
109 110 1.900245 ATGCGCCATGATGATAAGCA 58.100 45.000 4.18 0.27 37.54 3.91
110 111 3.302935 CGATATGCGCCATGATGATAAGC 60.303 47.826 4.18 0.00 0.00 3.09
111 112 3.867493 ACGATATGCGCCATGATGATAAG 59.133 43.478 4.18 0.00 46.04 1.73
112 113 3.860641 ACGATATGCGCCATGATGATAA 58.139 40.909 4.18 0.00 46.04 1.75
113 114 3.525268 ACGATATGCGCCATGATGATA 57.475 42.857 4.18 0.00 46.04 2.15
114 115 2.391616 ACGATATGCGCCATGATGAT 57.608 45.000 4.18 0.00 46.04 2.45
115 116 2.168326 AACGATATGCGCCATGATGA 57.832 45.000 4.18 0.00 46.04 2.92
116 117 2.975410 AAACGATATGCGCCATGATG 57.025 45.000 4.18 0.00 46.04 3.07
117 118 5.412594 AGAAATAAACGATATGCGCCATGAT 59.587 36.000 4.18 0.00 46.04 2.45
118 119 4.754618 AGAAATAAACGATATGCGCCATGA 59.245 37.500 4.18 0.00 46.04 3.07
119 120 5.034554 AGAAATAAACGATATGCGCCATG 57.965 39.130 4.18 0.00 46.04 3.66
120 121 5.689383 AAGAAATAAACGATATGCGCCAT 57.311 34.783 4.18 0.00 46.04 4.40
121 122 5.493133 AAAGAAATAAACGATATGCGCCA 57.507 34.783 4.18 0.00 46.04 5.69
122 123 7.901874 TTTAAAGAAATAAACGATATGCGCC 57.098 32.000 4.18 0.00 46.04 6.53
123 124 8.627428 GGATTTAAAGAAATAAACGATATGCGC 58.373 33.333 0.00 0.00 38.31 6.09
124 125 8.827599 CGGATTTAAAGAAATAAACGATATGCG 58.172 33.333 0.00 0.00 39.65 4.73
125 126 9.659830 ACGGATTTAAAGAAATAAACGATATGC 57.340 29.630 0.00 0.00 35.33 3.14
155 156 9.474313 AGATGGCAAATACTCCTATTTAAAACA 57.526 29.630 0.00 0.00 31.80 2.83
169 170 7.173218 TCGAAGATATTCCAAGATGGCAAATAC 59.827 37.037 0.00 0.00 37.47 1.89
253 254 2.107950 TACCTGCGACCCAAAATCTG 57.892 50.000 0.00 0.00 0.00 2.90
269 270 2.949644 CCCAAAATTCGGTGGAGATACC 59.050 50.000 4.70 0.00 37.03 2.73
284 285 6.517529 CGGTTTGAATCATTTCCTACCCAAAA 60.518 38.462 0.00 0.00 33.76 2.44
287 288 4.013728 CGGTTTGAATCATTTCCTACCCA 58.986 43.478 0.00 0.00 33.76 4.51
291 292 2.680841 CCGCGGTTTGAATCATTTCCTA 59.319 45.455 19.50 0.00 0.00 2.94
996 1000 2.743718 GCCACCGGATCCATCGAT 59.256 61.111 9.46 0.00 0.00 3.59
1752 1774 3.211963 GCGGCCATGATGACCACC 61.212 66.667 2.24 0.00 0.00 4.61
1869 1891 2.981560 CTGGTGTGTCGGCAATGGC 61.982 63.158 0.00 0.00 40.13 4.40
1942 1964 0.698238 TTCATCAGGTTGTGGGGGAG 59.302 55.000 0.00 0.00 0.00 4.30
2161 2187 6.761714 AGTCTGTAACAAAGAGTAACAACAGG 59.238 38.462 0.00 0.00 0.00 4.00
2176 2202 2.917933 ACTTGCAAGCAGTCTGTAACA 58.082 42.857 26.27 0.00 0.00 2.41
2334 2367 0.461961 CACTAAGCCCTTCCTCTCCG 59.538 60.000 0.00 0.00 0.00 4.63
2532 2574 9.191995 TGTATGTATGAATGCAGAAACGTATAG 57.808 33.333 0.00 0.00 0.00 1.31
2607 2653 1.278637 GGTGAAGTTGTTCGTGCGG 59.721 57.895 0.00 0.00 35.17 5.69
2714 2761 2.828095 TGTGGTGTGTGCTGGTGC 60.828 61.111 0.00 0.00 40.20 5.01
2726 2773 0.610509 TGCAAGGTTGTGTGTGTGGT 60.611 50.000 0.00 0.00 0.00 4.16
2727 2774 0.529833 TTGCAAGGTTGTGTGTGTGG 59.470 50.000 0.00 0.00 0.00 4.17
2745 2803 5.163385 TGTCCGGTCCGAGACATAAAATATT 60.163 40.000 23.49 0.00 38.07 1.28
2865 2923 5.000591 TGATTCGAGCACCATTTTTGAGTA 58.999 37.500 0.00 0.00 0.00 2.59
2887 2945 3.502211 AGCGTTTAGAATTTGGACCACTG 59.498 43.478 0.00 0.00 0.00 3.66
2898 2956 8.739972 ACATTATGGAGAAAAAGCGTTTAGAAT 58.260 29.630 0.00 0.00 0.00 2.40
2903 2961 7.042119 CCAAAACATTATGGAGAAAAAGCGTTT 60.042 33.333 0.00 0.00 39.12 3.60
3009 3071 6.622833 TCAAGATACCATTGTGCATGTATG 57.377 37.500 0.00 0.00 0.00 2.39


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

AutoCloner maintained by Alex Coulton.