Multiple sequence alignment - TraesCS7A01G258300

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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 TraesCS7A01G258300 chr7A 100.000 2636 0 0 1 2636 249580212 249582847 0 4868
1 TraesCS7A01G258300 chr7D 94.835 2478 103 14 168 2636 234793555 234796016 0 3843
2 TraesCS7A01G258300 chr7B 92.926 2403 109 22 247 2636 210805865 210808219 0 3439


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 TraesCS7A01G258300 chr7A 249580212 249582847 2635 False 4868 4868 100.000 1 2636 1 chr7A.!!$F1 2635
1 TraesCS7A01G258300 chr7D 234793555 234796016 2461 False 3843 3843 94.835 168 2636 1 chr7D.!!$F1 2468
2 TraesCS7A01G258300 chr7B 210805865 210808219 2354 False 3439 3439 92.926 247 2636 1 chr7B.!!$F1 2389

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
74 75 0.320334 TTTCAGCGGAGATTCGTGCA 60.320 50.0 0.00 0.0 0.00 4.57 F
77 78 0.529337 CAGCGGAGATTCGTGCAGAT 60.529 55.0 0.00 0.0 0.00 2.90 F
224 225 1.014044 ATGTGGTGCTTACGTCGCAG 61.014 55.0 12.12 0.0 38.19 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1221 1232 0.391263 GGAAGTACTCCCAGTTGCCG 60.391 60.000 0.0 0.0 38.44 5.69 R
1572 1583 0.856641 CGTACTGGTGGTCGTGTTTG 59.143 55.000 0.0 0.0 0.00 2.93 R
2085 2098 2.282391 GGGCACACCATCTGCACA 60.282 61.111 0.0 0.0 38.01 4.57 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
63 64 8.037382 AGTCATATGATATTGATTTTCAGCGG 57.963 34.615 9.02 0.00 0.00 5.52
64 65 7.879677 AGTCATATGATATTGATTTTCAGCGGA 59.120 33.333 9.02 0.00 0.00 5.54
65 66 8.173775 GTCATATGATATTGATTTTCAGCGGAG 58.826 37.037 9.02 0.00 0.00 4.63
66 67 8.096414 TCATATGATATTGATTTTCAGCGGAGA 58.904 33.333 0.00 0.00 0.00 3.71
67 68 8.890718 CATATGATATTGATTTTCAGCGGAGAT 58.109 33.333 0.00 0.00 0.00 2.75
68 69 7.756395 ATGATATTGATTTTCAGCGGAGATT 57.244 32.000 0.00 0.00 0.00 2.40
69 70 7.194607 TGATATTGATTTTCAGCGGAGATTC 57.805 36.000 0.00 0.00 0.00 2.52
70 71 4.542662 ATTGATTTTCAGCGGAGATTCG 57.457 40.909 0.00 0.00 0.00 3.34
71 72 2.972625 TGATTTTCAGCGGAGATTCGT 58.027 42.857 0.00 0.00 0.00 3.85
72 73 2.672874 TGATTTTCAGCGGAGATTCGTG 59.327 45.455 0.00 0.00 0.00 4.35
73 74 0.796312 TTTTCAGCGGAGATTCGTGC 59.204 50.000 0.00 0.00 0.00 5.34
74 75 0.320334 TTTCAGCGGAGATTCGTGCA 60.320 50.000 0.00 0.00 0.00 4.57
75 76 0.737367 TTCAGCGGAGATTCGTGCAG 60.737 55.000 0.00 0.00 0.00 4.41
76 77 1.153765 CAGCGGAGATTCGTGCAGA 60.154 57.895 0.00 0.00 0.00 4.26
77 78 0.529337 CAGCGGAGATTCGTGCAGAT 60.529 55.000 0.00 0.00 0.00 2.90
78 79 1.032794 AGCGGAGATTCGTGCAGATA 58.967 50.000 0.00 0.00 0.00 1.98
79 80 1.615883 AGCGGAGATTCGTGCAGATAT 59.384 47.619 0.00 0.00 0.00 1.63
80 81 2.036475 AGCGGAGATTCGTGCAGATATT 59.964 45.455 0.00 0.00 0.00 1.28
81 82 2.802816 GCGGAGATTCGTGCAGATATTT 59.197 45.455 0.00 0.00 0.00 1.40
82 83 3.248602 GCGGAGATTCGTGCAGATATTTT 59.751 43.478 0.00 0.00 0.00 1.82
83 84 4.609336 GCGGAGATTCGTGCAGATATTTTC 60.609 45.833 0.00 0.00 0.00 2.29
84 85 4.747108 CGGAGATTCGTGCAGATATTTTCT 59.253 41.667 0.00 0.00 33.90 2.52
85 86 5.235186 CGGAGATTCGTGCAGATATTTTCTT 59.765 40.000 0.00 0.00 29.93 2.52
86 87 6.563010 CGGAGATTCGTGCAGATATTTTCTTC 60.563 42.308 0.00 0.00 29.93 2.87
87 88 6.481644 GGAGATTCGTGCAGATATTTTCTTCT 59.518 38.462 0.00 0.00 29.93 2.85
88 89 7.011857 GGAGATTCGTGCAGATATTTTCTTCTT 59.988 37.037 0.00 0.00 29.93 2.52
89 90 8.273780 AGATTCGTGCAGATATTTTCTTCTTT 57.726 30.769 0.00 0.00 29.93 2.52
90 91 8.734386 AGATTCGTGCAGATATTTTCTTCTTTT 58.266 29.630 0.00 0.00 29.93 2.27
91 92 9.346725 GATTCGTGCAGATATTTTCTTCTTTTT 57.653 29.630 0.00 0.00 29.93 1.94
92 93 8.728088 TTCGTGCAGATATTTTCTTCTTTTTC 57.272 30.769 0.00 0.00 29.93 2.29
93 94 8.099364 TCGTGCAGATATTTTCTTCTTTTTCT 57.901 30.769 0.00 0.00 29.93 2.52
94 95 8.567948 TCGTGCAGATATTTTCTTCTTTTTCTT 58.432 29.630 0.00 0.00 29.93 2.52
95 96 9.185192 CGTGCAGATATTTTCTTCTTTTTCTTT 57.815 29.630 0.00 0.00 29.93 2.52
97 98 9.696917 TGCAGATATTTTCTTCTTTTTCTTTCC 57.303 29.630 0.00 0.00 29.93 3.13
98 99 9.920133 GCAGATATTTTCTTCTTTTTCTTTCCT 57.080 29.630 0.00 0.00 29.93 3.36
124 125 9.780413 TTTTTCTTTTTATGTTTGATTTGTGCC 57.220 25.926 0.00 0.00 0.00 5.01
125 126 8.498054 TTTCTTTTTATGTTTGATTTGTGCCA 57.502 26.923 0.00 0.00 0.00 4.92
126 127 7.475771 TCTTTTTATGTTTGATTTGTGCCAC 57.524 32.000 0.00 0.00 0.00 5.01
127 128 7.271511 TCTTTTTATGTTTGATTTGTGCCACT 58.728 30.769 0.00 0.00 0.00 4.00
128 129 7.768120 TCTTTTTATGTTTGATTTGTGCCACTT 59.232 29.630 0.00 0.00 0.00 3.16
129 130 8.948631 TTTTTATGTTTGATTTGTGCCACTTA 57.051 26.923 0.00 0.00 0.00 2.24
130 131 8.586570 TTTTATGTTTGATTTGTGCCACTTAG 57.413 30.769 0.00 0.00 0.00 2.18
131 132 7.517614 TTATGTTTGATTTGTGCCACTTAGA 57.482 32.000 0.00 0.00 0.00 2.10
132 133 6.594788 ATGTTTGATTTGTGCCACTTAGAT 57.405 33.333 0.00 0.00 0.00 1.98
133 134 5.771469 TGTTTGATTTGTGCCACTTAGATG 58.229 37.500 0.00 0.00 0.00 2.90
134 135 5.534278 TGTTTGATTTGTGCCACTTAGATGA 59.466 36.000 0.00 0.00 0.00 2.92
135 136 5.885230 TTGATTTGTGCCACTTAGATGAG 57.115 39.130 0.00 0.00 0.00 2.90
136 137 3.691118 TGATTTGTGCCACTTAGATGAGC 59.309 43.478 0.00 0.00 0.00 4.26
137 138 2.857186 TTGTGCCACTTAGATGAGCA 57.143 45.000 0.00 0.00 0.00 4.26
138 139 2.857186 TGTGCCACTTAGATGAGCAA 57.143 45.000 0.00 0.00 34.79 3.91
139 140 3.354948 TGTGCCACTTAGATGAGCAAT 57.645 42.857 0.00 0.00 34.79 3.56
140 141 4.486125 TGTGCCACTTAGATGAGCAATA 57.514 40.909 0.00 0.00 34.79 1.90
141 142 4.842574 TGTGCCACTTAGATGAGCAATAA 58.157 39.130 0.00 0.00 34.79 1.40
142 143 5.439721 TGTGCCACTTAGATGAGCAATAAT 58.560 37.500 0.00 0.00 34.79 1.28
143 144 5.887598 TGTGCCACTTAGATGAGCAATAATT 59.112 36.000 0.00 0.00 34.79 1.40
144 145 7.053498 TGTGCCACTTAGATGAGCAATAATTA 58.947 34.615 0.00 0.00 34.79 1.40
145 146 7.227314 TGTGCCACTTAGATGAGCAATAATTAG 59.773 37.037 0.00 0.00 34.79 1.73
146 147 7.442364 GTGCCACTTAGATGAGCAATAATTAGA 59.558 37.037 0.00 0.00 34.79 2.10
147 148 8.159447 TGCCACTTAGATGAGCAATAATTAGAT 58.841 33.333 0.00 0.00 0.00 1.98
148 149 8.449397 GCCACTTAGATGAGCAATAATTAGATG 58.551 37.037 0.00 0.00 0.00 2.90
149 150 9.499479 CCACTTAGATGAGCAATAATTAGATGT 57.501 33.333 0.00 0.00 0.00 3.06
151 152 8.997323 ACTTAGATGAGCAATAATTAGATGTGC 58.003 33.333 5.52 5.52 35.41 4.57
152 153 6.814506 AGATGAGCAATAATTAGATGTGCC 57.185 37.500 8.70 3.76 35.80 5.01
153 154 5.709164 AGATGAGCAATAATTAGATGTGCCC 59.291 40.000 8.70 0.79 35.80 5.36
154 155 5.052693 TGAGCAATAATTAGATGTGCCCT 57.947 39.130 8.70 0.00 35.80 5.19
155 156 4.823442 TGAGCAATAATTAGATGTGCCCTG 59.177 41.667 8.70 0.00 35.80 4.45
156 157 4.147321 AGCAATAATTAGATGTGCCCTGG 58.853 43.478 8.70 0.00 35.80 4.45
157 158 3.256631 GCAATAATTAGATGTGCCCTGGG 59.743 47.826 8.86 8.86 0.00 4.45
181 182 5.695818 CACACCCATAAAAACGTCTTAAGG 58.304 41.667 1.85 0.00 0.00 2.69
224 225 1.014044 ATGTGGTGCTTACGTCGCAG 61.014 55.000 12.12 0.00 38.19 5.18
293 294 4.202020 ACGCTTTTCCTTGAGAAACCTTTC 60.202 41.667 0.00 0.00 44.20 2.62
306 307 1.562783 ACCTTTCCCTTCCTCTCTCG 58.437 55.000 0.00 0.00 0.00 4.04
336 337 2.892425 CGCCAGCAACGATCTCCC 60.892 66.667 0.00 0.00 0.00 4.30
355 356 3.887335 TTTTCCCGGTTCGCCTCCG 62.887 63.158 0.00 5.93 46.49 4.63
371 372 2.237392 CCTCCGTTCTCCATTTCTTCCT 59.763 50.000 0.00 0.00 0.00 3.36
380 381 3.690460 TCCATTTCTTCCTTTGCTCCTC 58.310 45.455 0.00 0.00 0.00 3.71
543 545 5.065090 TGCATCAGTTTTTGACATATCTCCG 59.935 40.000 0.00 0.00 38.99 4.63
545 547 6.257849 GCATCAGTTTTTGACATATCTCCGTA 59.742 38.462 0.00 0.00 38.99 4.02
550 552 6.538742 AGTTTTTGACATATCTCCGTACATGG 59.461 38.462 0.00 0.00 0.00 3.66
594 601 1.806542 TCGCAGGCAATCTTCAAGAAC 59.193 47.619 0.00 0.00 0.00 3.01
595 602 1.808945 CGCAGGCAATCTTCAAGAACT 59.191 47.619 0.00 0.00 0.00 3.01
723 733 8.557029 GTTTTCTTTTAGATCTTCTGGTCGAAA 58.443 33.333 0.00 0.00 0.00 3.46
734 744 5.179368 TCTTCTGGTCGAAACATTGAATGTC 59.821 40.000 11.70 0.00 44.07 3.06
1504 1515 1.975327 CACCGGGAGAAGAAGCTCA 59.025 57.895 6.32 0.00 36.62 4.26
1572 1583 0.960364 CCACCATGTGCCACTACACC 60.960 60.000 0.00 0.00 39.93 4.16
1730 1743 3.490439 TGTCCAAGAAATGCTGTCAGA 57.510 42.857 3.32 0.00 0.00 3.27
1841 1854 5.188327 ACATATATCAGAGTGTCGTGGTG 57.812 43.478 0.00 0.00 0.00 4.17
1891 1904 3.185246 TGCTGCTAAGTAAGATGAGGC 57.815 47.619 0.00 0.00 0.00 4.70
1928 1941 5.705441 GGAGTGTGATCTTACCAACAAATGA 59.295 40.000 0.00 0.00 0.00 2.57
1959 1972 2.113986 GCAGGAAGCACAGGGTGT 59.886 61.111 0.00 0.00 44.79 4.16
2085 2098 1.750399 GCCCACCACTGCGAATGAT 60.750 57.895 0.00 0.00 0.00 2.45
2243 2256 6.636454 TGTGGAAGGGAAATAAGTCATACT 57.364 37.500 0.00 0.00 0.00 2.12
2355 2368 3.425525 GCCGTTGATACATATCACACTCG 59.574 47.826 0.94 5.05 42.00 4.18
2432 2456 6.846283 GCGTGAACAGAAATATACTATGCAAC 59.154 38.462 0.00 0.00 0.00 4.17
2433 2457 7.465379 GCGTGAACAGAAATATACTATGCAACA 60.465 37.037 0.00 0.00 0.00 3.33
2434 2458 8.387354 CGTGAACAGAAATATACTATGCAACAA 58.613 33.333 0.00 0.00 0.00 2.83
2555 2579 9.973661 TCATAAATGAGAAAAGGACAGGAAATA 57.026 29.630 0.00 0.00 32.11 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 8.509690 CCGCTGAAAATCAATATCATATGACTT 58.490 33.333 7.78 2.00 0.00 3.01
38 39 7.879677 TCCGCTGAAAATCAATATCATATGACT 59.120 33.333 7.78 0.39 0.00 3.41
39 40 8.032952 TCCGCTGAAAATCAATATCATATGAC 57.967 34.615 7.78 0.00 0.00 3.06
40 41 8.096414 TCTCCGCTGAAAATCAATATCATATGA 58.904 33.333 8.10 8.10 0.00 2.15
41 42 8.260270 TCTCCGCTGAAAATCAATATCATATG 57.740 34.615 0.00 0.00 0.00 1.78
42 43 9.458727 AATCTCCGCTGAAAATCAATATCATAT 57.541 29.630 0.00 0.00 0.00 1.78
43 44 8.853077 AATCTCCGCTGAAAATCAATATCATA 57.147 30.769 0.00 0.00 0.00 2.15
44 45 7.360691 CGAATCTCCGCTGAAAATCAATATCAT 60.361 37.037 0.00 0.00 0.00 2.45
45 46 6.073602 CGAATCTCCGCTGAAAATCAATATCA 60.074 38.462 0.00 0.00 0.00 2.15
46 47 6.073548 ACGAATCTCCGCTGAAAATCAATATC 60.074 38.462 0.00 0.00 0.00 1.63
47 48 5.760253 ACGAATCTCCGCTGAAAATCAATAT 59.240 36.000 0.00 0.00 0.00 1.28
48 49 5.006649 CACGAATCTCCGCTGAAAATCAATA 59.993 40.000 0.00 0.00 0.00 1.90
49 50 3.941483 ACGAATCTCCGCTGAAAATCAAT 59.059 39.130 0.00 0.00 0.00 2.57
50 51 3.125146 CACGAATCTCCGCTGAAAATCAA 59.875 43.478 0.00 0.00 0.00 2.57
51 52 2.672874 CACGAATCTCCGCTGAAAATCA 59.327 45.455 0.00 0.00 0.00 2.57
52 53 2.537730 GCACGAATCTCCGCTGAAAATC 60.538 50.000 0.00 0.00 0.00 2.17
53 54 1.398390 GCACGAATCTCCGCTGAAAAT 59.602 47.619 0.00 0.00 0.00 1.82
54 55 0.796312 GCACGAATCTCCGCTGAAAA 59.204 50.000 0.00 0.00 0.00 2.29
55 56 0.320334 TGCACGAATCTCCGCTGAAA 60.320 50.000 0.00 0.00 0.00 2.69
56 57 0.737367 CTGCACGAATCTCCGCTGAA 60.737 55.000 0.00 0.00 0.00 3.02
57 58 1.153765 CTGCACGAATCTCCGCTGA 60.154 57.895 0.00 0.00 0.00 4.26
58 59 0.529337 ATCTGCACGAATCTCCGCTG 60.529 55.000 0.00 0.00 0.00 5.18
59 60 1.032794 TATCTGCACGAATCTCCGCT 58.967 50.000 0.00 0.00 0.00 5.52
60 61 2.071688 ATATCTGCACGAATCTCCGC 57.928 50.000 0.00 0.00 0.00 5.54
61 62 4.747108 AGAAAATATCTGCACGAATCTCCG 59.253 41.667 0.00 0.00 36.88 4.63
62 63 6.481644 AGAAGAAAATATCTGCACGAATCTCC 59.518 38.462 0.00 0.00 38.79 3.71
63 64 7.475771 AGAAGAAAATATCTGCACGAATCTC 57.524 36.000 0.00 0.00 38.79 2.75
64 65 7.856145 AAGAAGAAAATATCTGCACGAATCT 57.144 32.000 0.00 0.00 38.79 2.40
65 66 8.902040 AAAAGAAGAAAATATCTGCACGAATC 57.098 30.769 0.00 0.00 38.79 2.52
66 67 9.346725 GAAAAAGAAGAAAATATCTGCACGAAT 57.653 29.630 0.00 0.00 38.79 3.34
67 68 8.567948 AGAAAAAGAAGAAAATATCTGCACGAA 58.432 29.630 0.00 0.00 38.79 3.85
68 69 8.099364 AGAAAAAGAAGAAAATATCTGCACGA 57.901 30.769 0.00 0.00 38.79 4.35
69 70 8.733857 AAGAAAAAGAAGAAAATATCTGCACG 57.266 30.769 0.00 0.00 38.79 5.34
71 72 9.696917 GGAAAGAAAAAGAAGAAAATATCTGCA 57.303 29.630 0.00 0.00 38.79 4.41
72 73 9.920133 AGGAAAGAAAAAGAAGAAAATATCTGC 57.080 29.630 0.00 0.00 38.79 4.26
98 99 9.780413 GGCACAAATCAAACATAAAAAGAAAAA 57.220 25.926 0.00 0.00 0.00 1.94
99 100 8.950210 TGGCACAAATCAAACATAAAAAGAAAA 58.050 25.926 0.00 0.00 31.92 2.29
100 101 8.394121 GTGGCACAAATCAAACATAAAAAGAAA 58.606 29.630 13.86 0.00 44.16 2.52
101 102 7.768120 AGTGGCACAAATCAAACATAAAAAGAA 59.232 29.630 21.41 0.00 44.16 2.52
102 103 7.271511 AGTGGCACAAATCAAACATAAAAAGA 58.728 30.769 21.41 0.00 44.16 2.52
103 104 7.481275 AGTGGCACAAATCAAACATAAAAAG 57.519 32.000 21.41 0.00 44.16 2.27
104 105 7.856145 AAGTGGCACAAATCAAACATAAAAA 57.144 28.000 21.41 0.00 44.16 1.94
105 106 8.417106 TCTAAGTGGCACAAATCAAACATAAAA 58.583 29.630 21.41 0.00 44.16 1.52
106 107 7.946207 TCTAAGTGGCACAAATCAAACATAAA 58.054 30.769 21.41 0.00 44.16 1.40
107 108 7.517614 TCTAAGTGGCACAAATCAAACATAA 57.482 32.000 21.41 0.00 44.16 1.90
108 109 7.392953 TCATCTAAGTGGCACAAATCAAACATA 59.607 33.333 21.41 0.00 44.16 2.29
109 110 6.209192 TCATCTAAGTGGCACAAATCAAACAT 59.791 34.615 21.41 0.00 44.16 2.71
110 111 5.534278 TCATCTAAGTGGCACAAATCAAACA 59.466 36.000 21.41 0.00 44.16 2.83
111 112 6.012658 TCATCTAAGTGGCACAAATCAAAC 57.987 37.500 21.41 0.00 44.16 2.93
112 113 5.335897 GCTCATCTAAGTGGCACAAATCAAA 60.336 40.000 21.41 0.00 44.16 2.69
113 114 4.156556 GCTCATCTAAGTGGCACAAATCAA 59.843 41.667 21.41 0.00 44.16 2.57
114 115 3.691118 GCTCATCTAAGTGGCACAAATCA 59.309 43.478 21.41 0.00 44.16 2.57
115 116 3.691118 TGCTCATCTAAGTGGCACAAATC 59.309 43.478 21.41 0.00 44.16 2.17
116 117 3.689347 TGCTCATCTAAGTGGCACAAAT 58.311 40.909 21.41 8.10 44.16 2.32
117 118 3.138884 TGCTCATCTAAGTGGCACAAA 57.861 42.857 21.41 6.06 44.16 2.83
118 119 2.857186 TGCTCATCTAAGTGGCACAA 57.143 45.000 21.41 6.46 44.16 3.33
119 120 2.857186 TTGCTCATCTAAGTGGCACA 57.143 45.000 21.41 0.00 32.47 4.57
120 121 6.382869 AATTATTGCTCATCTAAGTGGCAC 57.617 37.500 10.29 10.29 32.47 5.01
121 122 7.508687 TCTAATTATTGCTCATCTAAGTGGCA 58.491 34.615 0.00 0.00 0.00 4.92
122 123 7.969536 TCTAATTATTGCTCATCTAAGTGGC 57.030 36.000 0.00 0.00 0.00 5.01
123 124 9.499479 ACATCTAATTATTGCTCATCTAAGTGG 57.501 33.333 0.00 0.00 0.00 4.00
125 126 8.997323 GCACATCTAATTATTGCTCATCTAAGT 58.003 33.333 0.00 0.00 0.00 2.24
126 127 8.449397 GGCACATCTAATTATTGCTCATCTAAG 58.551 37.037 7.86 0.00 33.55 2.18
127 128 7.391554 GGGCACATCTAATTATTGCTCATCTAA 59.608 37.037 7.86 0.00 33.63 2.10
128 129 6.881065 GGGCACATCTAATTATTGCTCATCTA 59.119 38.462 7.86 0.00 33.63 1.98
129 130 5.709164 GGGCACATCTAATTATTGCTCATCT 59.291 40.000 7.86 0.00 33.63 2.90
130 131 5.709164 AGGGCACATCTAATTATTGCTCATC 59.291 40.000 9.69 0.00 36.04 2.92
131 132 5.475909 CAGGGCACATCTAATTATTGCTCAT 59.524 40.000 9.69 0.00 36.04 2.90
132 133 4.823442 CAGGGCACATCTAATTATTGCTCA 59.177 41.667 9.69 0.00 36.04 4.26
133 134 4.217118 CCAGGGCACATCTAATTATTGCTC 59.783 45.833 0.00 5.02 33.61 4.26
134 135 4.147321 CCAGGGCACATCTAATTATTGCT 58.853 43.478 0.00 0.00 33.55 3.91
135 136 3.256631 CCCAGGGCACATCTAATTATTGC 59.743 47.826 0.00 0.00 0.00 3.56
156 157 1.883926 AGACGTTTTTATGGGTGTGCC 59.116 47.619 0.00 0.00 0.00 5.01
157 158 3.636282 AAGACGTTTTTATGGGTGTGC 57.364 42.857 0.00 0.00 0.00 4.57
158 159 5.470777 TCCTTAAGACGTTTTTATGGGTGTG 59.529 40.000 17.79 2.37 0.00 3.82
159 160 5.623169 TCCTTAAGACGTTTTTATGGGTGT 58.377 37.500 17.79 0.00 0.00 4.16
160 161 6.753107 ATCCTTAAGACGTTTTTATGGGTG 57.247 37.500 17.79 2.84 0.00 4.61
161 162 8.866970 TTTATCCTTAAGACGTTTTTATGGGT 57.133 30.769 17.79 15.35 0.00 4.51
165 166 9.712359 GCGAATTTATCCTTAAGACGTTTTTAT 57.288 29.630 3.36 0.00 0.00 1.40
166 167 8.719648 TGCGAATTTATCCTTAAGACGTTTTTA 58.280 29.630 3.36 0.00 0.00 1.52
181 182 3.347958 TTTGGGCGATGCGAATTTATC 57.652 42.857 0.00 0.00 0.00 1.75
207 208 3.011760 GCTGCGACGTAAGCACCAC 62.012 63.158 13.32 3.99 40.01 4.16
224 225 7.495934 CCTATATATATGTGTTGGTAGCCTTGC 59.504 40.741 5.44 0.00 0.00 4.01
264 265 1.536766 CTCAAGGAAAAGCGTGCATGA 59.463 47.619 10.93 0.00 0.00 3.07
293 294 2.042435 AGGGCGAGAGAGGAAGGG 60.042 66.667 0.00 0.00 0.00 3.95
306 307 2.909965 TGGCGTTGTTTCCAGGGC 60.910 61.111 0.00 0.00 0.00 5.19
336 337 2.038837 GGAGGCGAACCGGGAAAAG 61.039 63.158 6.32 0.00 42.76 2.27
355 356 4.082517 GGAGCAAAGGAAGAAATGGAGAAC 60.083 45.833 0.00 0.00 0.00 3.01
454 455 2.478335 TTTGGCCGGAGTGGATCACC 62.478 60.000 5.05 0.00 42.00 4.02
543 545 2.380084 TCTTGCGAGGTTCCATGTAC 57.620 50.000 0.00 0.00 0.00 2.90
545 547 1.003580 ACATCTTGCGAGGTTCCATGT 59.996 47.619 0.00 0.17 28.05 3.21
550 552 3.444916 TCGATTACATCTTGCGAGGTTC 58.555 45.455 0.00 0.00 35.52 3.62
626 633 0.890542 ATGCTCTGCGTTCCAAAGCA 60.891 50.000 0.00 0.00 46.04 3.91
628 635 0.455633 GCATGCTCTGCGTTCCAAAG 60.456 55.000 11.37 0.00 41.97 2.77
648 655 1.033574 CCAACCGGCAACCTTAAACA 58.966 50.000 0.00 0.00 0.00 2.83
816 826 0.032130 TCGATCTTCGTAGGCATGGC 59.968 55.000 12.14 12.14 41.35 4.40
826 836 2.034254 GTGATGCATGTGTCGATCTTCG 60.034 50.000 2.46 0.00 42.10 3.79
971 982 9.771534 ATCAAATCAGTCTCCTAGCTAATTTAC 57.228 33.333 0.00 0.00 0.00 2.01
1221 1232 0.391263 GGAAGTACTCCCAGTTGCCG 60.391 60.000 0.00 0.00 38.44 5.69
1504 1515 2.276863 CTGAGCAGCACGTCTCCGAT 62.277 60.000 0.00 0.00 37.88 4.18
1572 1583 0.856641 CGTACTGGTGGTCGTGTTTG 59.143 55.000 0.00 0.00 0.00 2.93
1654 1665 4.347360 AAACTCTTAACCAACTAGCGGT 57.653 40.909 0.00 0.00 38.85 5.68
1730 1743 2.901839 AGCCCTGATTGCTTTGTCAATT 59.098 40.909 0.00 0.00 36.85 2.32
1841 1854 2.979813 CTGGCATACAGTTTTTCGTTGC 59.020 45.455 0.00 0.00 42.42 4.17
1891 1904 3.446570 ACTCCGTAAGCCCCGTCG 61.447 66.667 0.00 0.00 0.00 5.12
1959 1972 5.772393 ACTTCTACCCACCATTGTAATCA 57.228 39.130 0.00 0.00 0.00 2.57
2085 2098 2.282391 GGGCACACCATCTGCACA 60.282 61.111 0.00 0.00 38.01 4.57
2222 2235 5.045213 TGCAGTATGACTTATTTCCCTTCCA 60.045 40.000 0.00 0.00 39.69 3.53
2243 2256 3.354948 AGTCAGATAGCCACAATTGCA 57.645 42.857 5.05 0.00 0.00 4.08
2343 2356 1.005662 CGCTGCAACGAGTGTGATATG 60.006 52.381 2.68 0.00 34.06 1.78
2345 2358 0.038618 ACGCTGCAACGAGTGTGATA 60.039 50.000 17.68 0.00 35.34 2.15
2355 2368 1.160329 ACCTTCAGTGACGCTGCAAC 61.160 55.000 11.29 0.00 44.66 4.17
2548 2572 7.036863 TCCTATTTTCTTGGAGGTGTATTTCCT 60.037 37.037 0.00 0.00 38.09 3.36


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

AutoCloner maintained by Alex Coulton.