Multiple sequence alignment - TraesCS4D01G266800

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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 TraesCS4D01G266800 chr4D 100.000 2385 0 0 1 2385 437514670 437517054 0.000000e+00 4405.0
1 TraesCS4D01G266800 chr4B 94.967 2265 90 12 122 2385 539965657 539967898 0.000000e+00 3530.0
2 TraesCS4D01G266800 chr4B 97.778 45 1 0 80 124 110230727 110230683 7.070000e-11 78.7
3 TraesCS4D01G266800 chr4A 93.289 1356 72 9 122 1459 30556315 30557669 0.000000e+00 1982.0
4 TraesCS4D01G266800 chr4A 93.656 930 29 10 1462 2385 30557706 30558611 0.000000e+00 1363.0
5 TraesCS4D01G266800 chr4A 97.826 46 0 1 80 124 18055243 18055288 7.070000e-11 78.7
6 TraesCS4D01G266800 chrUn 76.395 466 85 19 949 1402 6051755 6051303 6.630000e-56 228.0
7 TraesCS4D01G266800 chr1D 81.875 160 26 3 1220 1378 155340466 155340309 5.350000e-27 132.0
8 TraesCS4D01G266800 chr7D 91.358 81 5 1 2 82 17343574 17343652 2.510000e-20 110.0
9 TraesCS4D01G266800 chr7D 94.366 71 4 0 12 82 552304663 552304733 2.510000e-20 110.0
10 TraesCS4D01G266800 chr6A 90.588 85 4 3 3 84 593937790 593937873 2.510000e-20 110.0
11 TraesCS4D01G266800 chr7A 93.243 74 3 2 12 84 26979888 26979960 9.010000e-20 108.0
12 TraesCS4D01G266800 chr5A 93.243 74 3 2 12 84 40057745 40057673 9.010000e-20 108.0
13 TraesCS4D01G266800 chr2D 93.151 73 5 0 12 84 539154986 539154914 9.010000e-20 108.0
14 TraesCS4D01G266800 chr6D 90.244 82 4 3 2 82 47079679 47079757 1.170000e-18 104.0
15 TraesCS4D01G266800 chr5D 92.105 76 2 3 12 84 63104732 63104658 1.170000e-18 104.0
16 TraesCS4D01G266800 chr5D 90.123 81 6 1 2 82 549550735 549550813 1.170000e-18 104.0
17 TraesCS4D01G266800 chr5D 97.778 45 1 0 80 124 27486865 27486821 7.070000e-11 78.7
18 TraesCS4D01G266800 chr1B 95.918 49 2 0 80 128 449745408 449745360 1.970000e-11 80.5
19 TraesCS4D01G266800 chr1B 97.778 45 1 0 80 124 158157801 158157845 7.070000e-11 78.7
20 TraesCS4D01G266800 chr7B 97.778 45 1 0 80 124 504832502 504832546 7.070000e-11 78.7
21 TraesCS4D01G266800 chr7B 95.833 48 1 1 80 126 477972566 477972519 2.540000e-10 76.8
22 TraesCS4D01G266800 chr7B 94.000 50 2 1 81 129 194560876 194560827 9.140000e-10 75.0
23 TraesCS4D01G266800 chr2B 97.826 46 0 1 80 124 381299832 381299787 7.070000e-11 78.7


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 TraesCS4D01G266800 chr4D 437514670 437517054 2384 False 4405.0 4405 100.0000 1 2385 1 chr4D.!!$F1 2384
1 TraesCS4D01G266800 chr4B 539965657 539967898 2241 False 3530.0 3530 94.9670 122 2385 1 chr4B.!!$F1 2263
2 TraesCS4D01G266800 chr4A 30556315 30558611 2296 False 1672.5 1982 93.4725 122 2385 2 chr4A.!!$F2 2263

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
951 957 0.106419 CTCTTACCTCTCCCTCGGCT 60.106 60.0 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1752 1805 2.097304 CGAGGCAGAGATATCTCCATCG 59.903 54.545 25.88 23.92 43.88 3.84 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
36 37 4.752142 GCGCGCGCTAAAAGCCAA 62.752 61.111 44.38 0.00 38.18 4.52
37 38 2.574212 CGCGCGCTAAAAGCCAAG 60.574 61.111 30.48 5.07 38.18 3.61
38 39 2.561373 GCGCGCTAAAAGCCAAGT 59.439 55.556 26.67 0.00 38.18 3.16
39 40 1.081442 GCGCGCTAAAAGCCAAGTT 60.081 52.632 26.67 0.00 38.18 2.66
40 41 0.663269 GCGCGCTAAAAGCCAAGTTT 60.663 50.000 26.67 0.00 38.18 2.66
41 42 1.400500 GCGCGCTAAAAGCCAAGTTTA 60.400 47.619 26.67 0.00 38.18 2.01
42 43 2.239201 CGCGCTAAAAGCCAAGTTTAC 58.761 47.619 5.56 0.00 38.18 2.01
43 44 2.592194 GCGCTAAAAGCCAAGTTTACC 58.408 47.619 0.00 0.00 38.18 2.85
44 45 2.846693 CGCTAAAAGCCAAGTTTACCG 58.153 47.619 0.00 0.00 38.18 4.02
45 46 2.592194 GCTAAAAGCCAAGTTTACCGC 58.408 47.619 0.00 0.00 34.48 5.68
46 47 2.846693 CTAAAAGCCAAGTTTACCGCG 58.153 47.619 0.00 0.00 0.00 6.46
47 48 0.318360 AAAAGCCAAGTTTACCGCGC 60.318 50.000 0.00 0.00 0.00 6.86
48 49 1.448922 AAAGCCAAGTTTACCGCGCA 61.449 50.000 8.75 0.00 0.00 6.09
49 50 2.125202 AAGCCAAGTTTACCGCGCAC 62.125 55.000 8.75 0.00 0.00 5.34
50 51 2.172419 CCAAGTTTACCGCGCACG 59.828 61.111 8.75 0.00 39.67 5.34
51 52 2.498887 CAAGTTTACCGCGCACGC 60.499 61.111 8.75 4.64 38.22 5.34
69 70 3.660111 GACTTTTGGCGCGGCTGT 61.660 61.111 33.23 24.02 0.00 4.40
70 71 3.194272 GACTTTTGGCGCGGCTGTT 62.194 57.895 33.23 13.07 0.00 3.16
71 72 2.730604 CTTTTGGCGCGGCTGTTG 60.731 61.111 33.23 16.78 0.00 3.33
72 73 4.277593 TTTTGGCGCGGCTGTTGG 62.278 61.111 33.23 0.00 0.00 3.77
77 78 3.869272 GCGCGGCTGTTGGAGATG 61.869 66.667 8.83 0.00 0.00 2.90
78 79 3.869272 CGCGGCTGTTGGAGATGC 61.869 66.667 0.00 0.00 0.00 3.91
79 80 2.437359 GCGGCTGTTGGAGATGCT 60.437 61.111 0.00 0.00 0.00 3.79
80 81 2.467826 GCGGCTGTTGGAGATGCTC 61.468 63.158 0.00 0.00 0.00 4.26
81 82 1.220206 CGGCTGTTGGAGATGCTCT 59.780 57.895 0.00 0.00 0.00 4.09
82 83 0.392193 CGGCTGTTGGAGATGCTCTT 60.392 55.000 0.00 0.00 0.00 2.85
83 84 1.134699 CGGCTGTTGGAGATGCTCTTA 60.135 52.381 0.00 0.00 0.00 2.10
84 85 2.677902 CGGCTGTTGGAGATGCTCTTAA 60.678 50.000 0.00 0.00 0.00 1.85
85 86 3.549794 GGCTGTTGGAGATGCTCTTAAT 58.450 45.455 0.00 0.00 0.00 1.40
86 87 3.563390 GGCTGTTGGAGATGCTCTTAATC 59.437 47.826 0.00 0.00 0.00 1.75
87 88 4.194640 GCTGTTGGAGATGCTCTTAATCA 58.805 43.478 0.00 0.00 0.00 2.57
88 89 4.637534 GCTGTTGGAGATGCTCTTAATCAA 59.362 41.667 0.00 0.00 0.00 2.57
89 90 5.298777 GCTGTTGGAGATGCTCTTAATCAAT 59.701 40.000 0.00 0.00 0.00 2.57
90 91 6.688637 TGTTGGAGATGCTCTTAATCAATG 57.311 37.500 0.00 0.00 0.00 2.82
91 92 6.417258 TGTTGGAGATGCTCTTAATCAATGA 58.583 36.000 0.00 0.00 0.00 2.57
92 93 6.885918 TGTTGGAGATGCTCTTAATCAATGAA 59.114 34.615 0.00 0.00 0.00 2.57
93 94 7.394077 TGTTGGAGATGCTCTTAATCAATGAAA 59.606 33.333 0.00 0.00 0.00 2.69
94 95 8.411683 GTTGGAGATGCTCTTAATCAATGAAAT 58.588 33.333 0.00 0.00 0.00 2.17
95 96 7.937649 TGGAGATGCTCTTAATCAATGAAATG 58.062 34.615 0.00 0.00 0.00 2.32
96 97 7.013942 TGGAGATGCTCTTAATCAATGAAATGG 59.986 37.037 0.00 0.00 0.00 3.16
97 98 6.746120 AGATGCTCTTAATCAATGAAATGGC 58.254 36.000 0.00 0.00 0.00 4.40
98 99 5.918426 TGCTCTTAATCAATGAAATGGCA 57.082 34.783 0.00 0.00 0.00 4.92
99 100 6.283544 TGCTCTTAATCAATGAAATGGCAA 57.716 33.333 0.00 0.00 0.00 4.52
100 101 6.334989 TGCTCTTAATCAATGAAATGGCAAG 58.665 36.000 0.00 0.00 0.00 4.01
101 102 6.071221 TGCTCTTAATCAATGAAATGGCAAGT 60.071 34.615 0.00 0.00 0.00 3.16
102 103 6.474751 GCTCTTAATCAATGAAATGGCAAGTC 59.525 38.462 0.00 0.00 0.00 3.01
103 104 7.630082 GCTCTTAATCAATGAAATGGCAAGTCT 60.630 37.037 0.00 0.00 0.00 3.24
104 105 8.125978 TCTTAATCAATGAAATGGCAAGTCTT 57.874 30.769 0.00 0.00 0.00 3.01
105 106 8.587608 TCTTAATCAATGAAATGGCAAGTCTTT 58.412 29.630 0.00 0.00 0.00 2.52
106 107 9.211485 CTTAATCAATGAAATGGCAAGTCTTTT 57.789 29.630 0.00 0.00 0.00 2.27
107 108 7.429636 AATCAATGAAATGGCAAGTCTTTTG 57.570 32.000 0.00 1.55 0.00 2.44
108 109 4.751098 TCAATGAAATGGCAAGTCTTTTGC 59.249 37.500 3.39 3.39 44.22 3.68
109 110 4.612264 ATGAAATGGCAAGTCTTTTGCT 57.388 36.364 11.18 0.00 44.36 3.91
110 111 4.405116 TGAAATGGCAAGTCTTTTGCTT 57.595 36.364 11.18 0.00 44.36 3.91
111 112 4.121317 TGAAATGGCAAGTCTTTTGCTTG 58.879 39.130 11.18 0.00 44.36 4.01
112 113 3.825143 AATGGCAAGTCTTTTGCTTGT 57.175 38.095 11.18 0.00 43.65 3.16
113 114 3.825143 ATGGCAAGTCTTTTGCTTGTT 57.175 38.095 11.18 0.00 43.65 2.83
114 115 3.608316 TGGCAAGTCTTTTGCTTGTTT 57.392 38.095 11.18 0.00 43.65 2.83
115 116 3.520569 TGGCAAGTCTTTTGCTTGTTTC 58.479 40.909 11.18 0.00 43.65 2.78
116 117 3.056250 TGGCAAGTCTTTTGCTTGTTTCA 60.056 39.130 11.18 0.00 43.65 2.69
117 118 3.932089 GGCAAGTCTTTTGCTTGTTTCAA 59.068 39.130 11.18 0.00 43.65 2.69
118 119 4.391523 GGCAAGTCTTTTGCTTGTTTCAAA 59.608 37.500 11.18 0.00 43.65 2.69
119 120 5.106752 GGCAAGTCTTTTGCTTGTTTCAAAA 60.107 36.000 11.18 0.00 43.65 2.44
120 121 6.369799 GCAAGTCTTTTGCTTGTTTCAAAAA 58.630 32.000 4.73 0.00 43.65 1.94
287 288 4.763793 AGTGGACTAACTTAGCTAACACGA 59.236 41.667 0.86 0.00 0.00 4.35
396 399 1.737838 CAAGGACACACACACACACT 58.262 50.000 0.00 0.00 0.00 3.55
397 400 2.899976 CAAGGACACACACACACACTA 58.100 47.619 0.00 0.00 0.00 2.74
412 415 6.539464 CACACACACTACAGGGTAAACTTAAA 59.461 38.462 0.00 0.00 0.00 1.52
461 467 3.508744 AGACAAGCCGCCAAATAATTG 57.491 42.857 0.00 0.00 36.25 2.32
522 528 4.028490 CCCCCGCCACTTGCTACA 62.028 66.667 0.00 0.00 38.05 2.74
698 704 3.764237 GGAGGAACCTGTTAACAGACA 57.236 47.619 32.50 0.61 46.59 3.41
904 910 4.051922 CCCAAAGTATATCTCGACTGCAC 58.948 47.826 0.00 0.00 0.00 4.57
951 957 0.106419 CTCTTACCTCTCCCTCGGCT 60.106 60.000 0.00 0.00 0.00 5.52
999 1005 1.002868 CAGGAGCACCAGGTCAAGG 60.003 63.158 2.07 0.00 43.97 3.61
1159 1165 6.040878 ACAACGGTGAAGCTTCAGTATATAC 58.959 40.000 29.13 15.05 37.98 1.47
1197 1203 0.679505 ACAGTGCATGTGTCCGTAGT 59.320 50.000 0.00 0.00 41.91 2.73
1400 1408 1.171308 CTGACAATTGAGGTGGGCTG 58.829 55.000 13.59 0.00 0.00 4.85
1438 1457 6.456449 CCACATATGTTTAGGCTTCGTAACAC 60.456 42.308 5.37 0.00 0.00 3.32
1533 1586 6.373005 TCCACCAAGACAGATTTCATCTTA 57.627 37.500 0.00 0.00 37.58 2.10
1557 1610 3.009363 TCTGGCCACTCTTGAAATCATCA 59.991 43.478 0.00 0.00 35.85 3.07
1584 1637 5.047802 ACCAATCAGGCAGTTGTTCTTAATG 60.048 40.000 0.00 0.00 43.14 1.90
1608 1661 1.153289 ATCGATCAGCCCTGCACAC 60.153 57.895 0.00 0.00 0.00 3.82
1615 1668 0.746063 CAGCCCTGCACACAAGAAAA 59.254 50.000 0.00 0.00 0.00 2.29
1640 1693 3.270877 CATAAGCCTGTAACCAGACACC 58.729 50.000 0.00 0.00 41.50 4.16
1654 1707 5.027460 ACCAGACACCATATACAGGTACAA 58.973 41.667 0.00 0.00 37.23 2.41
1912 1965 6.240549 TCTCCTTGAACTCCCTATTTCATC 57.759 41.667 0.00 0.00 31.87 2.92
1937 1990 3.612479 GCCATATGAGGGCGCAAATTTAG 60.612 47.826 10.83 0.00 42.39 1.85
2000 2053 4.652822 AGGACTGGTGGAGTAACATTTTC 58.347 43.478 0.00 0.00 33.83 2.29
2086 2142 2.371910 GCCGGTGGCTATAGAGAATC 57.628 55.000 1.90 0.00 46.69 2.52
2186 2242 4.616181 AAAGCATATTCGCAGTGGTTAC 57.384 40.909 0.00 0.00 33.67 2.50
2219 2276 4.692155 TCCATATTAATCATGCGTGCTCAG 59.308 41.667 0.00 0.00 0.00 3.35
2236 2299 3.368843 GCTCAGGCATCAAACTCAGAGTA 60.369 47.826 2.64 0.00 38.54 2.59
2237 2300 4.180057 CTCAGGCATCAAACTCAGAGTAC 58.820 47.826 2.64 0.00 0.00 2.73
2238 2301 3.834813 TCAGGCATCAAACTCAGAGTACT 59.165 43.478 2.64 0.00 0.00 2.73
2239 2302 4.081972 TCAGGCATCAAACTCAGAGTACTC 60.082 45.833 15.41 15.41 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 4.752142 TTGGCTTTTAGCGCGCGC 62.752 61.111 45.10 45.10 43.62 6.86
20 21 2.574212 CTTGGCTTTTAGCGCGCG 60.574 61.111 28.44 28.44 43.62 6.86
21 22 0.663269 AAACTTGGCTTTTAGCGCGC 60.663 50.000 26.66 26.66 43.62 6.86
22 23 2.239201 GTAAACTTGGCTTTTAGCGCG 58.761 47.619 0.00 0.00 43.62 6.86
23 24 2.592194 GGTAAACTTGGCTTTTAGCGC 58.408 47.619 0.00 0.00 43.62 5.92
25 26 2.592194 GCGGTAAACTTGGCTTTTAGC 58.408 47.619 0.00 0.00 41.46 3.09
26 27 2.846693 CGCGGTAAACTTGGCTTTTAG 58.153 47.619 0.00 0.00 0.00 1.85
27 28 1.069091 GCGCGGTAAACTTGGCTTTTA 60.069 47.619 8.83 0.00 0.00 1.52
28 29 0.318360 GCGCGGTAAACTTGGCTTTT 60.318 50.000 8.83 0.00 0.00 2.27
29 30 1.284715 GCGCGGTAAACTTGGCTTT 59.715 52.632 8.83 0.00 0.00 3.51
30 31 1.894756 TGCGCGGTAAACTTGGCTT 60.895 52.632 8.83 0.00 0.00 4.35
31 32 2.281208 TGCGCGGTAAACTTGGCT 60.281 55.556 8.83 0.00 0.00 4.75
32 33 2.127003 GTGCGCGGTAAACTTGGC 60.127 61.111 8.83 0.00 0.00 4.52
33 34 2.172419 CGTGCGCGGTAAACTTGG 59.828 61.111 12.87 0.00 0.00 3.61
34 35 2.498887 GCGTGCGCGGTAAACTTG 60.499 61.111 22.73 0.00 38.78 3.16
51 52 4.741781 CAGCCGCGCCAAAAGTCG 62.742 66.667 0.00 0.00 0.00 4.18
52 53 3.194272 AACAGCCGCGCCAAAAGTC 62.194 57.895 0.00 0.00 0.00 3.01
53 54 3.216292 AACAGCCGCGCCAAAAGT 61.216 55.556 0.00 0.00 0.00 2.66
54 55 2.730604 CAACAGCCGCGCCAAAAG 60.731 61.111 0.00 0.00 0.00 2.27
55 56 4.277593 CCAACAGCCGCGCCAAAA 62.278 61.111 0.00 0.00 0.00 2.44
60 61 3.869272 CATCTCCAACAGCCGCGC 61.869 66.667 0.00 0.00 0.00 6.86
61 62 3.869272 GCATCTCCAACAGCCGCG 61.869 66.667 0.00 0.00 0.00 6.46
62 63 2.437359 AGCATCTCCAACAGCCGC 60.437 61.111 0.00 0.00 0.00 6.53
63 64 3.805267 GAGCATCTCCAACAGCCG 58.195 61.111 0.00 0.00 0.00 5.52
74 75 6.509656 TGCCATTTCATTGATTAAGAGCATC 58.490 36.000 0.00 0.00 0.00 3.91
75 76 6.474140 TGCCATTTCATTGATTAAGAGCAT 57.526 33.333 0.00 0.00 0.00 3.79
76 77 5.918426 TGCCATTTCATTGATTAAGAGCA 57.082 34.783 0.00 0.00 0.00 4.26
77 78 6.335777 ACTTGCCATTTCATTGATTAAGAGC 58.664 36.000 0.00 0.00 0.00 4.09
78 79 7.769220 AGACTTGCCATTTCATTGATTAAGAG 58.231 34.615 0.00 0.00 0.00 2.85
79 80 7.707624 AGACTTGCCATTTCATTGATTAAGA 57.292 32.000 0.00 0.00 0.00 2.10
80 81 8.767478 AAAGACTTGCCATTTCATTGATTAAG 57.233 30.769 0.00 0.00 0.00 1.85
81 82 8.991026 CAAAAGACTTGCCATTTCATTGATTAA 58.009 29.630 0.00 0.00 0.00 1.40
82 83 7.118101 GCAAAAGACTTGCCATTTCATTGATTA 59.882 33.333 0.00 0.00 39.38 1.75
83 84 6.072893 GCAAAAGACTTGCCATTTCATTGATT 60.073 34.615 0.00 0.00 39.38 2.57
84 85 5.410439 GCAAAAGACTTGCCATTTCATTGAT 59.590 36.000 0.00 0.00 39.38 2.57
85 86 4.751098 GCAAAAGACTTGCCATTTCATTGA 59.249 37.500 0.00 0.00 39.38 2.57
86 87 4.753107 AGCAAAAGACTTGCCATTTCATTG 59.247 37.500 5.87 0.00 45.98 2.82
87 88 4.964593 AGCAAAAGACTTGCCATTTCATT 58.035 34.783 5.87 0.00 45.98 2.57
88 89 4.612264 AGCAAAAGACTTGCCATTTCAT 57.388 36.364 5.87 0.00 45.98 2.57
89 90 4.121317 CAAGCAAAAGACTTGCCATTTCA 58.879 39.130 5.87 0.00 45.98 2.69
90 91 4.122046 ACAAGCAAAAGACTTGCCATTTC 58.878 39.130 5.87 0.00 46.81 2.17
91 92 4.141233 ACAAGCAAAAGACTTGCCATTT 57.859 36.364 5.87 0.00 46.81 2.32
92 93 3.825143 ACAAGCAAAAGACTTGCCATT 57.175 38.095 5.87 0.00 46.81 3.16
93 94 3.825143 AACAAGCAAAAGACTTGCCAT 57.175 38.095 5.87 0.00 46.81 4.40
94 95 3.056250 TGAAACAAGCAAAAGACTTGCCA 60.056 39.130 5.87 0.00 46.81 4.92
95 96 3.520569 TGAAACAAGCAAAAGACTTGCC 58.479 40.909 5.87 0.00 46.81 4.52
96 97 5.529014 TTTGAAACAAGCAAAAGACTTGC 57.471 34.783 3.52 1.19 46.81 4.01
119 120 0.865769 CGGCGAGCAGTACTGTTTTT 59.134 50.000 23.44 7.75 0.00 1.94
120 121 0.249741 ACGGCGAGCAGTACTGTTTT 60.250 50.000 23.44 10.19 0.00 2.43
121 122 0.666577 GACGGCGAGCAGTACTGTTT 60.667 55.000 23.44 12.66 0.00 2.83
122 123 1.080705 GACGGCGAGCAGTACTGTT 60.081 57.895 23.44 18.44 0.00 3.16
123 124 2.567049 GACGGCGAGCAGTACTGT 59.433 61.111 23.44 10.82 0.00 3.55
152 153 3.620488 TGCTTTTATCATGTCACCTCCC 58.380 45.455 0.00 0.00 0.00 4.30
202 203 9.192642 TGTGTGCTACTAGTATATGGAACTTTA 57.807 33.333 2.33 0.00 0.00 1.85
287 288 0.621862 GATGTGGAGGGAGGAGGGTT 60.622 60.000 0.00 0.00 0.00 4.11
323 324 2.739932 CGACTTGGTAGCTTCTCATGGG 60.740 54.545 0.00 0.00 0.00 4.00
396 399 6.512514 TCCCTTGTTTAAGTTTACCCTGTA 57.487 37.500 0.00 0.00 31.80 2.74
397 400 5.391577 TCCCTTGTTTAAGTTTACCCTGT 57.608 39.130 0.00 0.00 31.80 4.00
412 415 2.558359 CCTTTGCGATTCTTTCCCTTGT 59.442 45.455 0.00 0.00 0.00 3.16
522 528 1.493950 CCGAGAGCGACCGTACGTAT 61.494 60.000 15.21 1.14 40.82 3.06
614 620 0.548031 TGGAGAACATCATGAGGGCC 59.452 55.000 12.66 7.92 0.00 5.80
697 703 3.338818 ACTGACGTGCAACTGAATTTG 57.661 42.857 0.00 0.00 31.75 2.32
698 704 5.493133 TTAACTGACGTGCAACTGAATTT 57.507 34.783 0.00 0.00 31.75 1.82
737 743 6.810182 TCGACTGTTTGCTCTAAATAACCTAC 59.190 38.462 0.00 0.00 0.00 3.18
904 910 6.017852 TGACGAGATATGTTGCTAGTCTACTG 60.018 42.308 0.00 0.00 37.56 2.74
951 957 1.074405 AGCACCAGGATTCAGCTGAAA 59.926 47.619 31.55 16.04 37.61 2.69
993 999 1.097547 CCGCACCCATCATCCTTGAC 61.098 60.000 0.00 0.00 33.85 3.18
999 1005 2.969238 CTCGCCGCACCCATCATC 60.969 66.667 0.00 0.00 0.00 2.92
1159 1165 3.594134 TGTTGGTGCAAAAACTTGGAAG 58.406 40.909 12.52 0.00 0.00 3.46
1197 1203 3.197983 TCTGTCGATCTGTCTCTCACCTA 59.802 47.826 0.00 0.00 0.00 3.08
1400 1408 5.376854 ACATATGTGGTTTCTGTTCTTGC 57.623 39.130 7.78 0.00 0.00 4.01
1533 1586 2.373169 TGATTTCAAGAGTGGCCAGACT 59.627 45.455 5.11 5.59 0.00 3.24
1557 1610 0.185901 ACAACTGCCTGATTGGTGGT 59.814 50.000 0.00 0.00 38.35 4.16
1584 1637 0.883814 CAGGGCTGATCGATCTTGCC 60.884 60.000 34.30 34.30 42.21 4.52
1608 1661 8.519526 TGGTTACAGGCTTATGTTATTTTCTTG 58.480 33.333 0.00 0.00 34.56 3.02
1640 1693 5.636965 GCTCTGCTGATTGTACCTGTATATG 59.363 44.000 0.00 0.00 0.00 1.78
1654 1707 1.277273 TGTGTAGCTTGCTCTGCTGAT 59.723 47.619 0.00 0.00 41.32 2.90
1752 1805 2.097304 CGAGGCAGAGATATCTCCATCG 59.903 54.545 25.88 23.92 43.88 3.84
1937 1990 5.632347 CCATGCTGAAAACTTCATCAACTTC 59.368 40.000 0.00 0.00 39.02 3.01
1964 2017 3.875134 ACCAGTCCTTGTTAGTTTCAACG 59.125 43.478 0.00 0.00 0.00 4.10
2086 2142 4.460382 AGTGGCTTTTGTATGATTGGACAG 59.540 41.667 0.00 0.00 0.00 3.51
2167 2223 3.118775 TCTGTAACCACTGCGAATATGCT 60.119 43.478 0.00 0.00 35.36 3.79
2219 2276 4.464069 AGAGTACTCTGAGTTTGATGCC 57.536 45.455 24.62 0.00 38.75 4.40


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

AutoCloner maintained by Alex Coulton.