Multiple sequence alignment - TraesCS2B01G610300

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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 TraesCS2B01G610300 chr2B 100.000 2279 0 0 958 3236 789951246 789948968 0.000000e+00 4209.0
1 TraesCS2B01G610300 chr2B 100.000 506 0 0 1 506 789952203 789951698 0.000000e+00 935.0
2 TraesCS2B01G610300 chr2B 82.707 133 12 4 1 132 680815071 680815193 1.230000e-19 108.0
3 TraesCS2B01G610300 chr2A 92.174 2185 113 17 967 3129 771329754 771327606 0.000000e+00 3035.0
4 TraesCS2B01G610300 chr2A 80.451 266 29 9 238 502 771330270 771330027 7.130000e-42 182.0
5 TraesCS2B01G610300 chr2D 96.045 1593 45 5 960 2549 645682130 645683707 0.000000e+00 2577.0
6 TraesCS2B01G610300 chr2D 87.106 667 51 12 2583 3236 645684311 645684955 0.000000e+00 723.0
7 TraesCS2B01G610300 chr2D 94.631 447 24 0 2545 2991 645683866 645684312 0.000000e+00 693.0
8 TraesCS2B01G610300 chr2D 86.861 274 15 8 229 502 645681633 645681885 1.470000e-73 287.0
9 TraesCS2B01G610300 chr2D 85.075 134 7 7 1 132 390705735 390705613 1.220000e-24 124.0
10 TraesCS2B01G610300 chr4A 93.488 906 46 6 1512 2409 462309150 462310050 0.000000e+00 1334.0
11 TraesCS2B01G610300 chr1D 85.821 134 6 7 1 132 6543683 6543805 2.620000e-26 130.0
12 TraesCS2B01G610300 chr7B 84.962 133 9 5 1 132 524611804 524611926 1.220000e-24 124.0
13 TraesCS2B01G610300 chr5A 83.582 134 10 8 1 132 672843712 672843589 7.340000e-22 115.0
14 TraesCS2B01G610300 chr7D 83.582 134 9 7 1 132 566556980 566556858 2.640000e-21 113.0
15 TraesCS2B01G610300 chr7D 80.451 133 15 5 1 132 174978665 174978787 1.240000e-14 91.6
16 TraesCS2B01G610300 chr5D 80.451 133 15 5 1 132 540995737 540995615 1.240000e-14 91.6
17 TraesCS2B01G610300 chr7A 88.158 76 7 2 58 132 24932415 24932489 4.450000e-14 89.8
18 TraesCS2B01G610300 chr6A 79.104 134 15 9 1 132 493540476 493540354 2.680000e-11 80.5
19 TraesCS2B01G610300 chr3D 78.947 133 16 6 1 132 305315076 305314955 2.680000e-11 80.5
20 TraesCS2B01G610300 chr5B 76.378 127 18 5 12 137 57098416 57098531 1.250000e-04 58.4


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 TraesCS2B01G610300 chr2B 789948968 789952203 3235 True 2572.0 4209 100.00000 1 3236 2 chr2B.!!$R1 3235
1 TraesCS2B01G610300 chr2A 771327606 771330270 2664 True 1608.5 3035 86.31250 238 3129 2 chr2A.!!$R1 2891
2 TraesCS2B01G610300 chr2D 645681633 645684955 3322 False 1070.0 2577 91.16075 229 3236 4 chr2D.!!$F1 3007
3 TraesCS2B01G610300 chr4A 462309150 462310050 900 False 1334.0 1334 93.48800 1512 2409 1 chr4A.!!$F1 897

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
65 66 0.096628 CGGTCTCGTACTCTCGTTGG 59.903 60.000 0.0 0.0 0.0 3.77 F
323 324 0.740737 GAATGATTCTTGCCCCACCG 59.259 55.000 0.0 0.0 0.0 4.94 F
1851 1890 1.592669 CGTCCTCATGATCGGTGGC 60.593 63.158 0.0 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1905 1944 1.152819 CATGGTGGCCAGATCCAGG 60.153 63.158 17.74 14.34 36.75 4.45 R
2211 2250 1.580942 CATTGCTGTGAACCCACCG 59.419 57.895 0.00 0.00 42.53 4.94 R
2987 3582 4.294523 GCATGACTGCCACGGTTA 57.705 55.556 0.00 0.00 42.88 2.85 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
44 45 3.669344 TTTTTGCTCCCGCCGCAG 61.669 61.111 0.00 0.00 38.80 5.18
45 46 4.947147 TTTTGCTCCCGCCGCAGT 62.947 61.111 0.00 0.00 38.80 4.40
57 58 3.175724 CGCAGTCGGTCTCGTACT 58.824 61.111 0.00 0.00 37.69 2.73
58 59 1.060622 CGCAGTCGGTCTCGTACTC 59.939 63.158 0.00 0.00 37.69 2.59
59 60 1.360194 CGCAGTCGGTCTCGTACTCT 61.360 60.000 0.00 0.00 37.69 3.24
60 61 0.374410 GCAGTCGGTCTCGTACTCTC 59.626 60.000 0.00 0.00 37.69 3.20
61 62 0.646381 CAGTCGGTCTCGTACTCTCG 59.354 60.000 0.00 0.00 37.69 4.04
62 63 0.246086 AGTCGGTCTCGTACTCTCGT 59.754 55.000 0.00 0.00 37.69 4.18
63 64 1.074752 GTCGGTCTCGTACTCTCGTT 58.925 55.000 0.00 0.00 37.69 3.85
64 65 1.073964 TCGGTCTCGTACTCTCGTTG 58.926 55.000 0.00 0.00 37.69 4.10
65 66 0.096628 CGGTCTCGTACTCTCGTTGG 59.903 60.000 0.00 0.00 0.00 3.77
66 67 1.446907 GGTCTCGTACTCTCGTTGGA 58.553 55.000 0.00 0.00 0.00 3.53
67 68 2.015587 GGTCTCGTACTCTCGTTGGAT 58.984 52.381 0.00 0.00 0.00 3.41
68 69 3.201290 GGTCTCGTACTCTCGTTGGATA 58.799 50.000 0.00 0.00 0.00 2.59
69 70 3.624861 GGTCTCGTACTCTCGTTGGATAA 59.375 47.826 0.00 0.00 0.00 1.75
70 71 4.095483 GGTCTCGTACTCTCGTTGGATAAA 59.905 45.833 0.00 0.00 0.00 1.40
71 72 5.392380 GGTCTCGTACTCTCGTTGGATAAAA 60.392 44.000 0.00 0.00 0.00 1.52
72 73 6.264088 GTCTCGTACTCTCGTTGGATAAAAT 58.736 40.000 0.00 0.00 0.00 1.82
73 74 6.750963 GTCTCGTACTCTCGTTGGATAAAATT 59.249 38.462 0.00 0.00 0.00 1.82
74 75 7.275123 GTCTCGTACTCTCGTTGGATAAAATTT 59.725 37.037 0.00 0.00 0.00 1.82
75 76 8.461222 TCTCGTACTCTCGTTGGATAAAATTTA 58.539 33.333 0.00 0.00 0.00 1.40
76 77 9.245962 CTCGTACTCTCGTTGGATAAAATTTAT 57.754 33.333 0.00 0.00 0.00 1.40
77 78 9.027129 TCGTACTCTCGTTGGATAAAATTTATG 57.973 33.333 2.58 0.00 0.00 1.90
78 79 8.273557 CGTACTCTCGTTGGATAAAATTTATGG 58.726 37.037 2.58 0.00 0.00 2.74
79 80 9.106070 GTACTCTCGTTGGATAAAATTTATGGT 57.894 33.333 2.58 0.00 0.00 3.55
80 81 8.575649 ACTCTCGTTGGATAAAATTTATGGTT 57.424 30.769 2.58 0.00 0.00 3.67
81 82 9.675464 ACTCTCGTTGGATAAAATTTATGGTTA 57.325 29.630 2.58 0.00 0.00 2.85
94 95 9.471084 AAAATTTATGGTTAAAGTTGAACCTCG 57.529 29.630 20.86 0.00 45.63 4.63
95 96 7.989416 ATTTATGGTTAAAGTTGAACCTCGA 57.011 32.000 20.86 3.68 45.63 4.04
96 97 7.804843 TTTATGGTTAAAGTTGAACCTCGAA 57.195 32.000 20.86 10.58 45.63 3.71
97 98 7.804843 TTATGGTTAAAGTTGAACCTCGAAA 57.195 32.000 20.86 8.67 45.63 3.46
98 99 6.702716 ATGGTTAAAGTTGAACCTCGAAAA 57.297 33.333 20.86 2.31 45.63 2.29
99 100 6.512342 TGGTTAAAGTTGAACCTCGAAAAA 57.488 33.333 20.86 0.00 45.63 1.94
100 101 6.324042 TGGTTAAAGTTGAACCTCGAAAAAC 58.676 36.000 20.86 0.00 45.63 2.43
101 102 5.453266 GGTTAAAGTTGAACCTCGAAAAACG 59.547 40.000 14.26 0.00 42.68 3.60
102 103 2.750301 AGTTGAACCTCGAAAAACGC 57.250 45.000 0.00 0.00 42.26 4.84
103 104 1.004292 AGTTGAACCTCGAAAAACGCG 60.004 47.619 3.53 3.53 42.26 6.01
107 108 4.439472 CCTCGAAAAACGCGGGCG 62.439 66.667 12.47 12.04 42.35 6.13
118 119 2.943653 GCGGGCGCGCTATATTTT 59.056 55.556 37.00 0.00 0.00 1.82
119 120 1.440353 GCGGGCGCGCTATATTTTG 60.440 57.895 37.00 12.40 0.00 2.44
120 121 1.206578 CGGGCGCGCTATATTTTGG 59.793 57.895 32.29 5.80 0.00 3.28
121 122 1.225376 CGGGCGCGCTATATTTTGGA 61.225 55.000 32.29 0.00 0.00 3.53
122 123 0.948678 GGGCGCGCTATATTTTGGAA 59.051 50.000 32.29 0.00 0.00 3.53
123 124 1.069227 GGGCGCGCTATATTTTGGAAG 60.069 52.381 32.29 0.00 0.00 3.46
124 125 1.069227 GGCGCGCTATATTTTGGAAGG 60.069 52.381 32.29 0.00 0.00 3.46
125 126 1.871039 GCGCGCTATATTTTGGAAGGA 59.129 47.619 26.67 0.00 0.00 3.36
126 127 2.096218 GCGCGCTATATTTTGGAAGGAG 60.096 50.000 26.67 0.00 0.00 3.69
127 128 2.480419 CGCGCTATATTTTGGAAGGAGG 59.520 50.000 5.56 0.00 0.00 4.30
128 129 2.814336 GCGCTATATTTTGGAAGGAGGG 59.186 50.000 0.00 0.00 0.00 4.30
129 130 3.496160 GCGCTATATTTTGGAAGGAGGGA 60.496 47.826 0.00 0.00 0.00 4.20
130 131 4.319177 CGCTATATTTTGGAAGGAGGGAG 58.681 47.826 0.00 0.00 0.00 4.30
131 132 4.202367 CGCTATATTTTGGAAGGAGGGAGT 60.202 45.833 0.00 0.00 0.00 3.85
132 133 5.066593 GCTATATTTTGGAAGGAGGGAGTG 58.933 45.833 0.00 0.00 0.00 3.51
133 134 2.907458 ATTTTGGAAGGAGGGAGTGG 57.093 50.000 0.00 0.00 0.00 4.00
134 135 1.529744 TTTTGGAAGGAGGGAGTGGT 58.470 50.000 0.00 0.00 0.00 4.16
135 136 2.426431 TTTGGAAGGAGGGAGTGGTA 57.574 50.000 0.00 0.00 0.00 3.25
136 137 2.661176 TTGGAAGGAGGGAGTGGTAT 57.339 50.000 0.00 0.00 0.00 2.73
137 138 2.661176 TGGAAGGAGGGAGTGGTATT 57.339 50.000 0.00 0.00 0.00 1.89
138 139 2.196595 TGGAAGGAGGGAGTGGTATTG 58.803 52.381 0.00 0.00 0.00 1.90
139 140 2.197465 GGAAGGAGGGAGTGGTATTGT 58.803 52.381 0.00 0.00 0.00 2.71
140 141 2.576648 GGAAGGAGGGAGTGGTATTGTT 59.423 50.000 0.00 0.00 0.00 2.83
141 142 3.010250 GGAAGGAGGGAGTGGTATTGTTT 59.990 47.826 0.00 0.00 0.00 2.83
142 143 4.508584 GGAAGGAGGGAGTGGTATTGTTTT 60.509 45.833 0.00 0.00 0.00 2.43
143 144 4.741928 AGGAGGGAGTGGTATTGTTTTT 57.258 40.909 0.00 0.00 0.00 1.94
144 145 4.407365 AGGAGGGAGTGGTATTGTTTTTG 58.593 43.478 0.00 0.00 0.00 2.44
145 146 4.141018 AGGAGGGAGTGGTATTGTTTTTGT 60.141 41.667 0.00 0.00 0.00 2.83
146 147 4.587262 GGAGGGAGTGGTATTGTTTTTGTT 59.413 41.667 0.00 0.00 0.00 2.83
147 148 5.069914 GGAGGGAGTGGTATTGTTTTTGTTT 59.930 40.000 0.00 0.00 0.00 2.83
148 149 5.912892 AGGGAGTGGTATTGTTTTTGTTTG 58.087 37.500 0.00 0.00 0.00 2.93
149 150 4.509970 GGGAGTGGTATTGTTTTTGTTTGC 59.490 41.667 0.00 0.00 0.00 3.68
150 151 5.112686 GGAGTGGTATTGTTTTTGTTTGCA 58.887 37.500 0.00 0.00 0.00 4.08
151 152 5.757808 GGAGTGGTATTGTTTTTGTTTGCAT 59.242 36.000 0.00 0.00 0.00 3.96
152 153 6.926272 GGAGTGGTATTGTTTTTGTTTGCATA 59.074 34.615 0.00 0.00 0.00 3.14
153 154 7.602265 GGAGTGGTATTGTTTTTGTTTGCATAT 59.398 33.333 0.00 0.00 0.00 1.78
154 155 9.632807 GAGTGGTATTGTTTTTGTTTGCATATA 57.367 29.630 0.00 0.00 0.00 0.86
155 156 9.988815 AGTGGTATTGTTTTTGTTTGCATATAA 57.011 25.926 0.00 0.00 0.00 0.98
218 219 8.158169 TTGTTTGGCATAATGCATAAAACAAA 57.842 26.923 18.78 15.63 46.72 2.83
219 220 8.072567 TTGTTTGGCATAATGCATAAAACAAAC 58.927 29.630 24.59 24.59 46.72 2.93
225 226 8.687824 GCATAATGCATAAAACAAACTACAGT 57.312 30.769 0.00 0.00 44.26 3.55
226 227 9.781834 GCATAATGCATAAAACAAACTACAGTA 57.218 29.630 0.00 0.00 44.26 2.74
314 315 1.823899 GGCCCGCCGAATGATTCTT 60.824 57.895 3.43 0.00 0.00 2.52
323 324 0.740737 GAATGATTCTTGCCCCACCG 59.259 55.000 0.00 0.00 0.00 4.94
397 398 3.391382 CACCCTCACCCGACCTCC 61.391 72.222 0.00 0.00 0.00 4.30
1401 1434 1.820481 CTCCTCCTCGTCGTCCTCC 60.820 68.421 0.00 0.00 0.00 4.30
1851 1890 1.592669 CGTCCTCATGATCGGTGGC 60.593 63.158 0.00 0.00 0.00 5.01
1872 1911 3.069318 AGGTCGTCCTTCGCCCTC 61.069 66.667 0.00 0.00 45.09 4.30
1905 1944 4.148825 ACGGTGCTCATCCTCCGC 62.149 66.667 0.00 0.00 45.76 5.54
1980 2019 3.123620 CGCTGCTTCACTGGCCTC 61.124 66.667 3.32 0.00 0.00 4.70
2130 2169 2.675423 TGGGAGGAGGACGACGTG 60.675 66.667 4.58 0.00 0.00 4.49
2211 2250 2.127758 CGCGGCTTTGTGTTCGAC 60.128 61.111 0.00 0.00 0.00 4.20
2328 2369 4.963318 TTGATCTGGGACATCCATCTAC 57.037 45.455 0.00 0.00 46.01 2.59
2458 2499 4.285807 TGGTTCGTTGTTTCAGACATTG 57.714 40.909 0.00 0.00 38.26 2.82
2794 3000 2.739379 GCTGTTAGTGCTTGGAGTTCTC 59.261 50.000 0.00 0.00 0.00 2.87
2875 3081 6.809869 TGATACACGACTCATCAAATGATCT 58.190 36.000 0.00 0.00 38.85 2.75
2906 3112 9.712305 AATATAGGCATTGAGTGTTCATACTAC 57.288 33.333 0.00 0.00 32.27 2.73
2912 3118 5.420725 TTGAGTGTTCATACTACCTGCAT 57.579 39.130 0.00 0.00 32.27 3.96
2915 3121 3.774766 AGTGTTCATACTACCTGCATGGA 59.225 43.478 8.91 0.00 39.71 3.41
2947 3153 5.242393 GCCACTGCATATGAACTAATTGGAT 59.758 40.000 6.97 0.00 37.47 3.41
2987 3582 7.803189 GTCATTGTTCAATACTTTGATGTCGTT 59.197 33.333 0.00 0.00 41.38 3.85
2991 3586 7.577979 TGTTCAATACTTTGATGTCGTTAACC 58.422 34.615 0.00 0.00 41.38 2.85
2996 3591 1.149987 TTGATGTCGTTAACCGTGGC 58.850 50.000 0.00 0.00 37.94 5.01
3038 3633 2.823758 GCCCTGAGGTAGATGCCCC 61.824 68.421 0.00 0.00 34.57 5.80
3039 3634 1.384502 CCCTGAGGTAGATGCCCCA 60.385 63.158 0.00 0.00 0.00 4.96
3050 3645 4.323868 GGTAGATGCCCCAATAGAGATTCC 60.324 50.000 0.00 0.00 0.00 3.01
3051 3646 3.330198 AGATGCCCCAATAGAGATTCCA 58.670 45.455 0.00 0.00 0.00 3.53
3083 3685 7.462328 ACATGTAGGGAATCCTAATGGACATAT 59.538 37.037 0.00 0.00 46.39 1.78
3131 3733 0.395173 ACCGGCCAACTCTTGTTTGT 60.395 50.000 0.00 0.00 33.52 2.83
3148 3750 6.507958 TGTTTGTGAGTTTTGAGTTGATGA 57.492 33.333 0.00 0.00 0.00 2.92
3213 3819 5.957842 TTTTTCTTTACGAGTGCATGGAT 57.042 34.783 0.00 0.00 0.00 3.41
3230 3836 3.040477 TGGATGCCATCTACTGTCATCA 58.960 45.455 4.41 0.00 36.25 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 1.060622 GAGTACGAGACCGACTGCG 59.939 63.158 0.00 0.00 39.50 5.18
41 42 0.374410 GAGAGTACGAGACCGACTGC 59.626 60.000 0.00 0.00 39.50 4.40
42 43 0.646381 CGAGAGTACGAGACCGACTG 59.354 60.000 0.00 0.00 39.50 3.51
43 44 0.246086 ACGAGAGTACGAGACCGACT 59.754 55.000 0.00 0.00 46.88 4.18
44 45 2.748268 ACGAGAGTACGAGACCGAC 58.252 57.895 0.00 0.00 46.88 4.79
77 78 5.453266 CGTTTTTCGAGGTTCAACTTTAACC 59.547 40.000 0.00 0.00 45.65 2.85
78 79 5.052829 GCGTTTTTCGAGGTTCAACTTTAAC 60.053 40.000 0.00 0.00 42.86 2.01
79 80 5.029654 GCGTTTTTCGAGGTTCAACTTTAA 58.970 37.500 0.00 0.00 42.86 1.52
80 81 4.590226 GCGTTTTTCGAGGTTCAACTTTA 58.410 39.130 0.00 0.00 42.86 1.85
81 82 3.431856 GCGTTTTTCGAGGTTCAACTTT 58.568 40.909 0.00 0.00 42.86 2.66
82 83 2.538132 CGCGTTTTTCGAGGTTCAACTT 60.538 45.455 0.00 0.00 42.86 2.66
83 84 1.004292 CGCGTTTTTCGAGGTTCAACT 60.004 47.619 0.00 0.00 42.86 3.16
84 85 1.382163 CGCGTTTTTCGAGGTTCAAC 58.618 50.000 0.00 0.00 42.86 3.18
85 86 3.810148 CGCGTTTTTCGAGGTTCAA 57.190 47.368 0.00 0.00 42.86 2.69
102 103 1.206578 CCAAAATATAGCGCGCCCG 59.793 57.895 30.33 7.08 37.57 6.13
103 104 0.948678 TTCCAAAATATAGCGCGCCC 59.051 50.000 30.33 0.16 0.00 6.13
104 105 1.069227 CCTTCCAAAATATAGCGCGCC 60.069 52.381 30.33 10.31 0.00 6.53
105 106 1.871039 TCCTTCCAAAATATAGCGCGC 59.129 47.619 26.66 26.66 0.00 6.86
106 107 2.480419 CCTCCTTCCAAAATATAGCGCG 59.520 50.000 0.00 0.00 0.00 6.86
107 108 2.814336 CCCTCCTTCCAAAATATAGCGC 59.186 50.000 0.00 0.00 0.00 5.92
108 109 4.202367 ACTCCCTCCTTCCAAAATATAGCG 60.202 45.833 0.00 0.00 0.00 4.26
109 110 5.066593 CACTCCCTCCTTCCAAAATATAGC 58.933 45.833 0.00 0.00 0.00 2.97
110 111 5.132816 ACCACTCCCTCCTTCCAAAATATAG 59.867 44.000 0.00 0.00 0.00 1.31
111 112 5.043762 ACCACTCCCTCCTTCCAAAATATA 58.956 41.667 0.00 0.00 0.00 0.86
112 113 3.858638 ACCACTCCCTCCTTCCAAAATAT 59.141 43.478 0.00 0.00 0.00 1.28
113 114 3.265489 ACCACTCCCTCCTTCCAAAATA 58.735 45.455 0.00 0.00 0.00 1.40
114 115 2.073776 ACCACTCCCTCCTTCCAAAAT 58.926 47.619 0.00 0.00 0.00 1.82
115 116 1.529744 ACCACTCCCTCCTTCCAAAA 58.470 50.000 0.00 0.00 0.00 2.44
116 117 2.426431 TACCACTCCCTCCTTCCAAA 57.574 50.000 0.00 0.00 0.00 3.28
117 118 2.576191 CAATACCACTCCCTCCTTCCAA 59.424 50.000 0.00 0.00 0.00 3.53
118 119 2.196595 CAATACCACTCCCTCCTTCCA 58.803 52.381 0.00 0.00 0.00 3.53
119 120 2.197465 ACAATACCACTCCCTCCTTCC 58.803 52.381 0.00 0.00 0.00 3.46
120 121 4.302559 AAACAATACCACTCCCTCCTTC 57.697 45.455 0.00 0.00 0.00 3.46
121 122 4.741928 AAAACAATACCACTCCCTCCTT 57.258 40.909 0.00 0.00 0.00 3.36
122 123 4.141018 ACAAAAACAATACCACTCCCTCCT 60.141 41.667 0.00 0.00 0.00 3.69
123 124 4.149598 ACAAAAACAATACCACTCCCTCC 58.850 43.478 0.00 0.00 0.00 4.30
124 125 5.784578 AACAAAAACAATACCACTCCCTC 57.215 39.130 0.00 0.00 0.00 4.30
125 126 5.683770 GCAAACAAAAACAATACCACTCCCT 60.684 40.000 0.00 0.00 0.00 4.20
126 127 4.509970 GCAAACAAAAACAATACCACTCCC 59.490 41.667 0.00 0.00 0.00 4.30
127 128 5.112686 TGCAAACAAAAACAATACCACTCC 58.887 37.500 0.00 0.00 0.00 3.85
128 129 6.843069 ATGCAAACAAAAACAATACCACTC 57.157 33.333 0.00 0.00 0.00 3.51
129 130 9.988815 TTATATGCAAACAAAAACAATACCACT 57.011 25.926 0.00 0.00 0.00 4.00
190 191 8.623903 TGTTTTATGCATTATGCCAAACAAAAA 58.376 25.926 24.34 15.10 44.23 1.94
191 192 8.158169 TGTTTTATGCATTATGCCAAACAAAA 57.842 26.923 24.34 16.07 44.23 2.44
192 193 7.734924 TGTTTTATGCATTATGCCAAACAAA 57.265 28.000 24.34 12.55 44.23 2.83
193 194 7.734924 TTGTTTTATGCATTATGCCAAACAA 57.265 28.000 28.47 28.47 44.80 2.83
194 195 7.443575 AGTTTGTTTTATGCATTATGCCAAACA 59.556 29.630 29.72 26.76 43.64 2.83
195 196 7.805700 AGTTTGTTTTATGCATTATGCCAAAC 58.194 30.769 25.34 25.34 44.23 2.93
196 197 7.976135 AGTTTGTTTTATGCATTATGCCAAA 57.024 28.000 15.06 12.70 44.23 3.28
197 198 8.090831 TGTAGTTTGTTTTATGCATTATGCCAA 58.909 29.630 15.06 7.40 44.23 4.52
198 199 7.606349 TGTAGTTTGTTTTATGCATTATGCCA 58.394 30.769 15.06 3.35 44.23 4.92
199 200 7.759433 ACTGTAGTTTGTTTTATGCATTATGCC 59.241 33.333 15.06 0.00 44.23 4.40
200 201 8.687824 ACTGTAGTTTGTTTTATGCATTATGC 57.312 30.769 10.65 10.65 45.29 3.14
262 263 5.298197 TGAGATCGATAGGAAATACGAGC 57.702 43.478 0.00 0.00 40.58 5.03
303 304 0.740737 GGTGGGGCAAGAATCATTCG 59.259 55.000 0.00 0.00 34.02 3.34
339 340 2.599082 CGTGAACTGATAAAGCGAGGAC 59.401 50.000 0.00 0.00 0.00 3.85
342 343 2.703190 GCGTGAACTGATAAAGCGAG 57.297 50.000 0.00 0.00 0.00 5.03
440 441 3.327404 GGTGGATGACGGGTGGGT 61.327 66.667 0.00 0.00 0.00 4.51
446 447 3.892740 TTGGTGCGGTGGATGACGG 62.893 63.158 0.00 0.00 0.00 4.79
1041 1056 3.499737 CAGTGGATCGGCGCCAAC 61.500 66.667 28.98 16.31 37.12 3.77
1372 1405 1.230819 AGGAGGAGGAGGAGGAGGT 60.231 63.158 0.00 0.00 0.00 3.85
1905 1944 1.152819 CATGGTGGCCAGATCCAGG 60.153 63.158 17.74 14.34 36.75 4.45
2211 2250 1.580942 CATTGCTGTGAACCCACCG 59.419 57.895 0.00 0.00 42.53 4.94
2247 2286 5.533903 CCAGTCTGGGATATCTTTTTCCATG 59.466 44.000 11.46 0.00 32.67 3.66
2328 2369 5.509501 GGAGATATCAGTTCCTCTTCAGCAG 60.510 48.000 5.32 0.00 0.00 4.24
2534 2575 8.943909 ATAATGCAGACTAGTTACCAGTTAAC 57.056 34.615 0.00 0.00 40.57 2.01
2568 2772 1.892338 CATGTGGGATGTGGCCAAC 59.108 57.895 7.24 0.21 32.14 3.77
2608 2812 0.037046 ATCGTCAGATGCACAGCACA 60.037 50.000 0.00 0.00 43.04 4.57
2722 2928 8.314143 ACAAAAATAAAGATGGCATCACAAAG 57.686 30.769 27.93 11.29 0.00 2.77
2759 2965 5.289675 GCACTAACAGCAGTAGTAGTTGATG 59.710 44.000 0.00 0.00 36.80 3.07
2794 3000 5.163663 ACACGGGTAACAAAATGCATATCAG 60.164 40.000 0.00 0.00 39.74 2.90
2875 3081 7.342581 TGAACACTCAATGCCTATATTAACCA 58.657 34.615 0.00 0.00 0.00 3.67
2912 3118 4.728409 CAGTGGCTCTGCAATCCA 57.272 55.556 3.33 0.00 37.36 3.41
2947 3153 6.764379 TGAACAATGACCAGAGTTATGTACA 58.236 36.000 0.00 0.00 0.00 2.90
2987 3582 4.294523 GCATGACTGCCACGGTTA 57.705 55.556 0.00 0.00 42.88 2.85
2996 3591 5.121105 TCCTATGACTCAAATGCATGACTG 58.879 41.667 0.00 0.00 0.00 3.51
3038 3633 9.265901 CTACATGTAGGTTTGGAATCTCTATTG 57.734 37.037 22.95 0.00 0.00 1.90
3039 3634 8.432805 CCTACATGTAGGTTTGGAATCTCTATT 58.567 37.037 34.86 0.00 45.93 1.73
3051 3646 7.421382 CCATTAGGATTCCCTACATGTAGGTTT 60.421 40.741 37.95 26.48 44.42 3.27
3083 3685 7.120923 AGTCTACAGGTAAGTTTTGAACAGA 57.879 36.000 0.00 0.00 0.00 3.41
3131 3733 7.761704 GCTAGACTATCATCAACTCAAAACTCA 59.238 37.037 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.