Multiple sequence alignment - TraesCS5D01G115500

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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 TraesCS5D01G115500 chr5D 100.000 2556 0 0 1 2556 135238528 135241083 0.000000e+00 4721
1 TraesCS5D01G115500 chr5D 95.890 146 6 0 3 148 42949579 42949724 1.180000e-58 237
2 TraesCS5D01G115500 chr5B 95.782 2442 62 12 123 2556 146913823 146916231 0.000000e+00 3901
3 TraesCS5D01G115500 chr5A 92.767 2309 103 28 261 2556 169818287 169816030 0.000000e+00 3280
4 TraesCS5D01G115500 chr5A 93.182 88 6 0 141 228 169818453 169818366 2.060000e-26 130
5 TraesCS5D01G115500 chr6D 96.575 146 5 0 3 148 431000161 431000016 2.540000e-60 243
6 TraesCS5D01G115500 chr3D 94.805 154 7 1 3 156 324359679 324359831 3.290000e-59 239
7 TraesCS5D01G115500 chr1D 95.890 146 6 0 3 148 39948915 39948770 1.180000e-58 237
8 TraesCS5D01G115500 chr1D 95.270 148 7 0 3 150 9218227 9218374 4.250000e-58 235
9 TraesCS5D01G115500 chr4A 93.671 158 9 1 3 160 428284138 428284294 4.250000e-58 235
10 TraesCS5D01G115500 chr4A 94.667 150 8 0 3 152 554788016 554787867 1.530000e-57 233
11 TraesCS5D01G115500 chr2D 95.270 148 7 0 3 150 609886936 609886789 4.250000e-58 235
12 TraesCS5D01G115500 chr2D 94.667 150 8 0 5 154 142056928 142056779 1.530000e-57 233


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 TraesCS5D01G115500 chr5D 135238528 135241083 2555 False 4721 4721 100.0000 1 2556 1 chr5D.!!$F2 2555
1 TraesCS5D01G115500 chr5B 146913823 146916231 2408 False 3901 3901 95.7820 123 2556 1 chr5B.!!$F1 2433
2 TraesCS5D01G115500 chr5A 169816030 169818453 2423 True 1705 3280 92.9745 141 2556 2 chr5A.!!$R1 2415

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
259 307 0.779997 AAGGCTGATGGAGTTTGGGT 59.22 50.0 0.0 0.0 0.0 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1993 2061 0.951558 AGCTTGCGTACAGTTTTGGG 59.048 50.0 0.0 0.0 0.0 4.12 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
42 43 8.909708 ACATTTCAAATGGAATACAACATACG 57.090 30.769 14.70 0.00 34.91 3.06
43 44 7.973388 ACATTTCAAATGGAATACAACATACGG 59.027 33.333 14.70 0.00 34.91 4.02
44 45 7.689446 TTTCAAATGGAATACAACATACGGA 57.311 32.000 0.00 0.00 34.91 4.69
45 46 7.873719 TTCAAATGGAATACAACATACGGAT 57.126 32.000 0.00 0.00 0.00 4.18
46 47 7.258022 TCAAATGGAATACAACATACGGATG 57.742 36.000 5.94 5.94 39.16 3.51
48 49 7.988028 TCAAATGGAATACAACATACGGATGTA 59.012 33.333 15.10 0.00 45.93 2.29
49 50 8.783093 CAAATGGAATACAACATACGGATGTAT 58.217 33.333 15.10 8.21 45.93 2.29
87 88 7.934855 AGAGTGTAGATTCATTCATTTTGCT 57.065 32.000 0.00 0.00 0.00 3.91
88 89 7.983307 AGAGTGTAGATTCATTCATTTTGCTC 58.017 34.615 0.00 0.00 0.00 4.26
89 90 7.066766 AGAGTGTAGATTCATTCATTTTGCTCC 59.933 37.037 0.00 0.00 0.00 4.70
90 91 5.967674 GTGTAGATTCATTCATTTTGCTCCG 59.032 40.000 0.00 0.00 0.00 4.63
91 92 5.647658 TGTAGATTCATTCATTTTGCTCCGT 59.352 36.000 0.00 0.00 0.00 4.69
92 93 6.821160 TGTAGATTCATTCATTTTGCTCCGTA 59.179 34.615 0.00 0.00 0.00 4.02
93 94 6.949352 AGATTCATTCATTTTGCTCCGTAT 57.051 33.333 0.00 0.00 0.00 3.06
94 95 6.732154 AGATTCATTCATTTTGCTCCGTATG 58.268 36.000 0.00 0.00 0.00 2.39
95 96 5.895636 TTCATTCATTTTGCTCCGTATGT 57.104 34.783 0.00 0.00 0.00 2.29
96 97 6.993786 TTCATTCATTTTGCTCCGTATGTA 57.006 33.333 0.00 0.00 0.00 2.29
97 98 6.603237 TCATTCATTTTGCTCCGTATGTAG 57.397 37.500 0.00 0.00 0.00 2.74
98 99 6.112734 TCATTCATTTTGCTCCGTATGTAGT 58.887 36.000 0.00 0.00 0.00 2.73
99 100 6.257849 TCATTCATTTTGCTCCGTATGTAGTC 59.742 38.462 0.00 0.00 0.00 2.59
100 101 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
101 102 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
102 103 4.530710 TTTTGCTCCGTATGTAGTCACT 57.469 40.909 0.00 0.00 0.00 3.41
103 104 4.530710 TTTGCTCCGTATGTAGTCACTT 57.469 40.909 0.00 0.00 0.00 3.16
104 105 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.00 0.00 3.16
105 106 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16
106 107 3.257375 TGCTCCGTATGTAGTCACTTGTT 59.743 43.478 0.00 0.00 0.00 2.83
107 108 3.612860 GCTCCGTATGTAGTCACTTGTTG 59.387 47.826 0.00 0.00 0.00 3.33
108 109 4.617530 GCTCCGTATGTAGTCACTTGTTGA 60.618 45.833 0.00 0.00 0.00 3.18
109 110 5.456548 TCCGTATGTAGTCACTTGTTGAA 57.543 39.130 0.00 0.00 35.39 2.69
110 111 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
111 112 6.282167 TCCGTATGTAGTCACTTGTTGAAAA 58.718 36.000 0.00 0.00 35.39 2.29
112 113 6.932400 TCCGTATGTAGTCACTTGTTGAAAAT 59.068 34.615 0.00 0.00 35.39 1.82
113 114 7.442969 TCCGTATGTAGTCACTTGTTGAAAATT 59.557 33.333 0.00 0.00 35.39 1.82
114 115 7.744715 CCGTATGTAGTCACTTGTTGAAAATTC 59.255 37.037 0.00 0.00 35.39 2.17
115 116 8.495949 CGTATGTAGTCACTTGTTGAAAATTCT 58.504 33.333 0.00 0.00 35.39 2.40
118 119 8.725405 TGTAGTCACTTGTTGAAAATTCTACA 57.275 30.769 6.37 6.37 40.25 2.74
119 120 9.168451 TGTAGTCACTTGTTGAAAATTCTACAA 57.832 29.630 17.73 17.73 45.67 2.41
120 121 9.997482 GTAGTCACTTGTTGAAAATTCTACAAA 57.003 29.630 18.75 6.84 46.53 2.83
122 123 8.956426 AGTCACTTGTTGAAAATTCTACAAAGA 58.044 29.630 18.75 16.59 46.53 2.52
123 124 9.010366 GTCACTTGTTGAAAATTCTACAAAGAC 57.990 33.333 22.98 22.98 46.53 3.01
124 125 8.956426 TCACTTGTTGAAAATTCTACAAAGACT 58.044 29.630 18.75 5.02 46.53 3.24
125 126 9.573133 CACTTGTTGAAAATTCTACAAAGACTT 57.427 29.630 18.75 4.57 46.53 3.01
134 135 9.981114 AAAATTCTACAAAGACTTACATTTGGG 57.019 29.630 3.08 0.00 40.05 4.12
135 136 8.934023 AATTCTACAAAGACTTACATTTGGGA 57.066 30.769 3.08 0.00 40.05 4.37
253 288 1.701847 ACACTGAAAGGCTGATGGAGT 59.298 47.619 0.00 0.00 39.30 3.85
256 291 3.057736 CACTGAAAGGCTGATGGAGTTTG 60.058 47.826 0.00 0.00 39.30 2.93
259 307 0.779997 AAGGCTGATGGAGTTTGGGT 59.220 50.000 0.00 0.00 0.00 4.51
347 395 3.000041 TGTGCAGGCATACGAACTTAAG 59.000 45.455 0.00 0.00 0.00 1.85
378 427 8.325787 TCAGACCTAAAAATGCTTCTTACCATA 58.674 33.333 0.00 0.00 0.00 2.74
409 458 4.380973 CGAACTCAAGATCTTAGCAGTCCA 60.381 45.833 7.86 0.00 0.00 4.02
422 471 2.158623 AGCAGTCCAAATTGTCTGACCA 60.159 45.455 15.65 0.00 0.00 4.02
432 481 2.535012 TGTCTGACCAACGTGCATAA 57.465 45.000 5.17 0.00 0.00 1.90
440 495 2.159382 CCAACGTGCATAACTCCCTTT 58.841 47.619 0.00 0.00 0.00 3.11
456 511 6.929625 ACTCCCTTTCATATGATCTACGATG 58.070 40.000 6.17 0.00 0.00 3.84
499 554 8.438676 TTTATATTGCTCTAAAACTCTCAGCC 57.561 34.615 0.00 0.00 0.00 4.85
611 667 2.574006 ACCAGTTCACATGCTCACAT 57.426 45.000 0.00 0.00 36.79 3.21
638 694 9.458374 AAAAACTGATTAATTTGTTAGGTCACG 57.542 29.630 7.23 0.00 0.00 4.35
1098 1163 6.043411 GGTTACAAGTAGTGCCATCTTCTAG 58.957 44.000 0.00 0.00 0.00 2.43
1125 1190 5.576447 ATTGGTGGAAATATTGAACGGAC 57.424 39.130 0.00 0.00 0.00 4.79
1280 1348 2.309528 TACAGATCGACCACAATGGC 57.690 50.000 0.00 0.00 42.67 4.40
1360 1428 1.837439 CTAGCAACTGGGGGTGATACA 59.163 52.381 0.00 0.00 0.00 2.29
1369 1437 1.408822 GGGGGTGATACAAGGAAGCAG 60.409 57.143 0.00 0.00 0.00 4.24
1649 1717 5.735285 ATCAGAGGAATGCGATCAATAGA 57.265 39.130 0.00 0.00 0.00 1.98
1718 1786 1.208259 CACCAACGCCAAGAAAAAGC 58.792 50.000 0.00 0.00 0.00 3.51
1774 1842 4.409247 ACAAGGGAGGGAGATGTACATAAC 59.591 45.833 8.71 5.81 0.00 1.89
1785 1853 7.147880 GGGAGATGTACATAACTATCCGCTAAT 60.148 40.741 8.71 0.00 0.00 1.73
1827 1895 6.282199 AGAGATCTTCAAGCGTAAACCTTA 57.718 37.500 0.00 0.00 0.00 2.69
1993 2061 4.718961 ACCATCCATACAGAAATGCCTAC 58.281 43.478 0.00 0.00 0.00 3.18
2044 2112 6.071984 CCTGGTGGATACTACTCTACTGAAT 58.928 44.000 0.00 0.00 34.57 2.57
2075 2143 2.079925 CCTAGCAAGCAGTTTGTCTCC 58.920 52.381 0.00 0.00 39.08 3.71
2081 2149 3.363178 CAAGCAGTTTGTCTCCGTTTTC 58.637 45.455 0.00 0.00 31.92 2.29
2174 2243 4.655963 CCCATGAAGACTTCCTTTCAGAA 58.344 43.478 12.66 0.00 34.68 3.02
2338 2408 8.641498 AATAAATCCTCAGTTCAGATTGTTGT 57.359 30.769 0.00 0.00 30.80 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 9.009327 CGTATGTTGTATTCCATTTGAAATGTC 57.991 33.333 15.93 3.21 36.33 3.06
17 18 7.973388 CCGTATGTTGTATTCCATTTGAAATGT 59.027 33.333 15.93 1.43 36.33 2.71
18 19 8.187480 TCCGTATGTTGTATTCCATTTGAAATG 58.813 33.333 10.84 10.84 36.33 2.32
19 20 8.287439 TCCGTATGTTGTATTCCATTTGAAAT 57.713 30.769 0.00 0.00 36.33 2.17
20 21 7.689446 TCCGTATGTTGTATTCCATTTGAAA 57.311 32.000 0.00 0.00 36.33 2.69
21 22 7.338196 ACATCCGTATGTTGTATTCCATTTGAA 59.662 33.333 0.00 0.00 44.07 2.69
22 23 6.826231 ACATCCGTATGTTGTATTCCATTTGA 59.174 34.615 0.00 0.00 44.07 2.69
23 24 7.026631 ACATCCGTATGTTGTATTCCATTTG 57.973 36.000 0.00 0.00 44.07 2.32
24 25 8.783093 CATACATCCGTATGTTGTATTCCATTT 58.217 33.333 0.00 0.00 46.70 2.32
25 26 8.322906 CATACATCCGTATGTTGTATTCCATT 57.677 34.615 0.00 0.00 46.70 3.16
26 27 7.905604 CATACATCCGTATGTTGTATTCCAT 57.094 36.000 0.00 0.00 46.70 3.41
61 62 9.453572 AGCAAAATGAATGAATCTACACTCTAA 57.546 29.630 0.00 0.00 0.00 2.10
62 63 9.102757 GAGCAAAATGAATGAATCTACACTCTA 57.897 33.333 0.00 0.00 0.00 2.43
63 64 7.066766 GGAGCAAAATGAATGAATCTACACTCT 59.933 37.037 0.00 0.00 0.00 3.24
64 65 7.192232 GGAGCAAAATGAATGAATCTACACTC 58.808 38.462 0.00 0.00 0.00 3.51
65 66 6.183360 CGGAGCAAAATGAATGAATCTACACT 60.183 38.462 0.00 0.00 0.00 3.55
66 67 5.967674 CGGAGCAAAATGAATGAATCTACAC 59.032 40.000 0.00 0.00 0.00 2.90
67 68 5.647658 ACGGAGCAAAATGAATGAATCTACA 59.352 36.000 0.00 0.00 0.00 2.74
68 69 6.124088 ACGGAGCAAAATGAATGAATCTAC 57.876 37.500 0.00 0.00 0.00 2.59
69 70 7.498900 ACATACGGAGCAAAATGAATGAATCTA 59.501 33.333 0.00 0.00 0.00 1.98
70 71 6.319658 ACATACGGAGCAAAATGAATGAATCT 59.680 34.615 0.00 0.00 0.00 2.40
71 72 6.498304 ACATACGGAGCAAAATGAATGAATC 58.502 36.000 0.00 0.00 0.00 2.52
72 73 6.455360 ACATACGGAGCAAAATGAATGAAT 57.545 33.333 0.00 0.00 0.00 2.57
73 74 5.895636 ACATACGGAGCAAAATGAATGAA 57.104 34.783 0.00 0.00 0.00 2.57
74 75 6.112734 ACTACATACGGAGCAAAATGAATGA 58.887 36.000 0.00 0.00 0.00 2.57
75 76 6.037062 TGACTACATACGGAGCAAAATGAATG 59.963 38.462 0.00 0.00 0.00 2.67
76 77 6.037172 GTGACTACATACGGAGCAAAATGAAT 59.963 38.462 0.00 0.00 0.00 2.57
77 78 5.350365 GTGACTACATACGGAGCAAAATGAA 59.650 40.000 0.00 0.00 0.00 2.57
78 79 4.868171 GTGACTACATACGGAGCAAAATGA 59.132 41.667 0.00 0.00 0.00 2.57
79 80 4.870426 AGTGACTACATACGGAGCAAAATG 59.130 41.667 0.00 0.00 0.00 2.32
80 81 5.086104 AGTGACTACATACGGAGCAAAAT 57.914 39.130 0.00 0.00 0.00 1.82
81 82 4.530710 AGTGACTACATACGGAGCAAAA 57.469 40.909 0.00 0.00 0.00 2.44
82 83 4.242475 CAAGTGACTACATACGGAGCAAA 58.758 43.478 0.00 0.00 0.00 3.68
83 84 3.257375 ACAAGTGACTACATACGGAGCAA 59.743 43.478 0.00 0.00 0.00 3.91
84 85 2.823747 ACAAGTGACTACATACGGAGCA 59.176 45.455 0.00 0.00 0.00 4.26
85 86 3.505464 ACAAGTGACTACATACGGAGC 57.495 47.619 0.00 0.00 0.00 4.70
86 87 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
87 88 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
88 89 6.533819 TTTTCAACAAGTGACTACATACGG 57.466 37.500 0.00 0.00 35.39 4.02
89 90 8.495949 AGAATTTTCAACAAGTGACTACATACG 58.504 33.333 0.00 0.00 35.39 3.06
92 93 9.337396 TGTAGAATTTTCAACAAGTGACTACAT 57.663 29.630 0.00 0.00 36.58 2.29
93 94 8.725405 TGTAGAATTTTCAACAAGTGACTACA 57.275 30.769 0.00 0.00 37.97 2.74
94 95 9.997482 TTTGTAGAATTTTCAACAAGTGACTAC 57.003 29.630 0.00 0.00 35.39 2.73
96 97 8.956426 TCTTTGTAGAATTTTCAACAAGTGACT 58.044 29.630 0.00 0.00 35.39 3.41
97 98 9.010366 GTCTTTGTAGAATTTTCAACAAGTGAC 57.990 33.333 0.00 0.00 31.18 3.67
98 99 8.956426 AGTCTTTGTAGAATTTTCAACAAGTGA 58.044 29.630 0.00 0.00 30.65 3.41
99 100 9.573133 AAGTCTTTGTAGAATTTTCAACAAGTG 57.427 29.630 0.00 0.00 35.29 3.16
108 109 9.981114 CCCAAATGTAAGTCTTTGTAGAATTTT 57.019 29.630 0.00 0.00 39.28 1.82
109 110 9.362151 TCCCAAATGTAAGTCTTTGTAGAATTT 57.638 29.630 0.00 0.00 39.28 1.82
110 111 8.934023 TCCCAAATGTAAGTCTTTGTAGAATT 57.066 30.769 0.00 0.00 41.26 2.17
111 112 8.793592 GTTCCCAAATGTAAGTCTTTGTAGAAT 58.206 33.333 0.00 0.00 31.33 2.40
112 113 7.041644 CGTTCCCAAATGTAAGTCTTTGTAGAA 60.042 37.037 0.00 0.00 31.83 2.10
113 114 6.425721 CGTTCCCAAATGTAAGTCTTTGTAGA 59.574 38.462 0.00 0.00 31.83 2.59
114 115 6.348213 CCGTTCCCAAATGTAAGTCTTTGTAG 60.348 42.308 0.00 0.00 31.83 2.74
115 116 5.470777 CCGTTCCCAAATGTAAGTCTTTGTA 59.529 40.000 0.00 0.00 31.83 2.41
116 117 4.277423 CCGTTCCCAAATGTAAGTCTTTGT 59.723 41.667 0.00 0.00 31.83 2.83
117 118 4.517453 TCCGTTCCCAAATGTAAGTCTTTG 59.483 41.667 0.00 0.00 33.20 2.77
118 119 4.721132 TCCGTTCCCAAATGTAAGTCTTT 58.279 39.130 0.00 0.00 0.00 2.52
119 120 4.324267 CTCCGTTCCCAAATGTAAGTCTT 58.676 43.478 0.00 0.00 0.00 3.01
120 121 3.307480 CCTCCGTTCCCAAATGTAAGTCT 60.307 47.826 0.00 0.00 0.00 3.24
121 122 3.007635 CCTCCGTTCCCAAATGTAAGTC 58.992 50.000 0.00 0.00 0.00 3.01
122 123 2.290705 CCCTCCGTTCCCAAATGTAAGT 60.291 50.000 0.00 0.00 0.00 2.24
123 124 2.026636 TCCCTCCGTTCCCAAATGTAAG 60.027 50.000 0.00 0.00 0.00 2.34
124 125 1.986631 TCCCTCCGTTCCCAAATGTAA 59.013 47.619 0.00 0.00 0.00 2.41
125 126 1.557832 CTCCCTCCGTTCCCAAATGTA 59.442 52.381 0.00 0.00 0.00 2.29
126 127 0.328258 CTCCCTCCGTTCCCAAATGT 59.672 55.000 0.00 0.00 0.00 2.71
127 128 0.328258 ACTCCCTCCGTTCCCAAATG 59.672 55.000 0.00 0.00 0.00 2.32
128 129 1.961133 TACTCCCTCCGTTCCCAAAT 58.039 50.000 0.00 0.00 0.00 2.32
129 130 1.961133 ATACTCCCTCCGTTCCCAAA 58.039 50.000 0.00 0.00 0.00 3.28
130 131 2.852714 TATACTCCCTCCGTTCCCAA 57.147 50.000 0.00 0.00 0.00 4.12
131 132 2.852714 TTATACTCCCTCCGTTCCCA 57.147 50.000 0.00 0.00 0.00 4.37
132 133 3.902467 AGAATTATACTCCCTCCGTTCCC 59.098 47.826 0.00 0.00 0.00 3.97
133 134 6.664384 AGATAGAATTATACTCCCTCCGTTCC 59.336 42.308 0.00 0.00 0.00 3.62
134 135 7.393796 TGAGATAGAATTATACTCCCTCCGTTC 59.606 40.741 0.00 0.00 0.00 3.95
135 136 7.239438 TGAGATAGAATTATACTCCCTCCGTT 58.761 38.462 0.00 0.00 0.00 4.44
347 395 7.565323 AGAAGCATTTTTAGGTCTGATCATC 57.435 36.000 0.00 0.00 0.00 2.92
378 427 1.205893 GATCTTGAGTTCGTGGAGGCT 59.794 52.381 0.00 0.00 0.00 4.58
409 458 2.020720 TGCACGTTGGTCAGACAATTT 58.979 42.857 2.17 0.00 32.24 1.82
422 471 3.134574 TGAAAGGGAGTTATGCACGTT 57.865 42.857 0.00 0.00 0.00 3.99
432 481 6.071108 CCATCGTAGATCATATGAAAGGGAGT 60.071 42.308 9.99 0.00 45.12 3.85
440 495 9.189156 TCATGAATACCATCGTAGATCATATGA 57.811 33.333 8.10 8.10 45.12 2.15
484 539 5.620206 TGTGAATTGGCTGAGAGTTTTAGA 58.380 37.500 0.00 0.00 0.00 2.10
499 554 6.904498 TGGTACGTATTTTCCTTGTGAATTG 58.096 36.000 0.00 0.00 31.67 2.32
626 682 2.542597 GTGTGTGACGTGACCTAACAA 58.457 47.619 1.78 0.00 0.00 2.83
638 694 2.113860 ATGCTATGGTGGTGTGTGAC 57.886 50.000 0.00 0.00 0.00 3.67
1079 1143 4.399004 AGCTAGAAGATGGCACTACTTG 57.601 45.455 7.87 0.65 38.00 3.16
1098 1163 7.174253 TCCGTTCAATATTTCCACCAATATAGC 59.826 37.037 0.00 0.00 30.48 2.97
1125 1190 4.376340 ACCTGCTTCAACAAAAGAACAG 57.624 40.909 0.00 0.00 0.00 3.16
1242 1310 4.208632 CCAGCATCGGTTCTGGTC 57.791 61.111 6.16 0.00 43.66 4.02
1280 1348 1.998315 CTTCTCGCCTGAGTTGATGTG 59.002 52.381 0.00 0.00 43.09 3.21
1360 1428 2.172293 GGATGTCATCTCCTGCTTCCTT 59.828 50.000 12.54 0.00 0.00 3.36
1451 1519 3.521727 ACCTCAGGTCTACATTGGACTT 58.478 45.455 0.00 0.00 34.47 3.01
1718 1786 4.966850 AGACGATTACACAGTTTGTTCG 57.033 40.909 2.72 2.72 42.03 3.95
1723 1791 6.292919 GCAGAAAGAAGACGATTACACAGTTT 60.293 38.462 0.00 0.00 0.00 2.66
1774 1842 7.362662 ACAATGCAACATTTATTAGCGGATAG 58.637 34.615 0.00 0.00 0.00 2.08
1785 1853 9.836864 AGATCTCTACATACAATGCAACATTTA 57.163 29.630 0.00 0.00 0.00 1.40
1827 1895 5.045797 GTCCCTAAGATAAAGTGGACAAGGT 60.046 44.000 0.00 0.00 41.46 3.50
1993 2061 0.951558 AGCTTGCGTACAGTTTTGGG 59.048 50.000 0.00 0.00 0.00 4.12
2044 2112 4.058124 CTGCTTGCTAGGCATATTTCGTA 58.942 43.478 0.00 0.00 38.76 3.43
2075 2143 3.599338 TCAATGTTCAACGACGAAAACG 58.401 40.909 0.00 0.00 0.00 3.60
2081 2149 3.253371 AGCTTTCAATGTTCAACGACG 57.747 42.857 0.00 0.00 0.00 5.12
2174 2243 4.973168 TGACTGAGTTTCTGCCAGTTATT 58.027 39.130 0.00 0.00 40.80 1.40
2335 2405 5.384063 TGAGCTTCAAACTTGTTTGACAA 57.616 34.783 23.35 12.47 40.29 3.18
2508 2579 3.612717 CGATATGATTCCCAGGTGAGACG 60.613 52.174 0.00 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.