Multiple sequence alignment - TraesCS3A01G233200

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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 TraesCS3A01G233200 chr3A 100.000 3029 0 0 1 3029 435802711 435799683 0.000000e+00 5594
1 TraesCS3A01G233200 chr7B 96.960 2895 53 8 138 3029 376391138 376388276 0.000000e+00 4826
2 TraesCS3A01G233200 chr7B 77.994 2872 504 64 146 2948 540055414 540058226 0.000000e+00 1685
3 TraesCS3A01G233200 chr2A 93.828 2884 143 8 149 3029 591619764 591622615 0.000000e+00 4307
4 TraesCS3A01G233200 chr2A 75.823 1063 218 25 650 1692 551495160 551496203 1.250000e-138 503
5 TraesCS3A01G233200 chr7A 75.896 2510 500 56 476 2948 662656770 662659211 0.000000e+00 1186
6 TraesCS3A01G233200 chr6D 94.847 718 26 3 2317 3029 456683182 456683893 0.000000e+00 1110
7 TraesCS3A01G233200 chr6D 75.378 2380 475 70 485 2796 289613736 289611400 0.000000e+00 1046
8 TraesCS3A01G233200 chr6D 95.722 187 8 0 2145 2331 456678293 456678479 4.910000e-78 302
9 TraesCS3A01G233200 chr5B 75.852 2348 433 88 525 2789 493609098 493606802 0.000000e+00 1072
10 TraesCS3A01G233200 chr3D 74.926 2369 496 74 482 2796 313612520 313614844 0.000000e+00 994
11 TraesCS3A01G233200 chr3D 100.000 100 0 0 1 100 299911842 299911941 5.160000e-43 185
12 TraesCS3A01G233200 chr6A 75.068 2214 445 73 624 2771 97586203 97588375 0.000000e+00 931
13 TraesCS3A01G233200 chr1A 76.487 1816 362 42 1013 2789 61259671 61257882 0.000000e+00 928
14 TraesCS3A01G233200 chr7D 83.236 1026 149 14 1047 2064 207187379 207188389 0.000000e+00 920
15 TraesCS3A01G233200 chr3B 99.000 100 1 0 1 100 421228864 421228765 2.400000e-41 180
16 TraesCS3A01G233200 chr4B 81.395 129 24 0 2667 2795 72721075 72720947 4.130000e-19 106


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 TraesCS3A01G233200 chr3A 435799683 435802711 3028 True 5594 5594 100.000 1 3029 1 chr3A.!!$R1 3028
1 TraesCS3A01G233200 chr7B 376388276 376391138 2862 True 4826 4826 96.960 138 3029 1 chr7B.!!$R1 2891
2 TraesCS3A01G233200 chr7B 540055414 540058226 2812 False 1685 1685 77.994 146 2948 1 chr7B.!!$F1 2802
3 TraesCS3A01G233200 chr2A 591619764 591622615 2851 False 4307 4307 93.828 149 3029 1 chr2A.!!$F2 2880
4 TraesCS3A01G233200 chr2A 551495160 551496203 1043 False 503 503 75.823 650 1692 1 chr2A.!!$F1 1042
5 TraesCS3A01G233200 chr7A 662656770 662659211 2441 False 1186 1186 75.896 476 2948 1 chr7A.!!$F1 2472
6 TraesCS3A01G233200 chr6D 456683182 456683893 711 False 1110 1110 94.847 2317 3029 1 chr6D.!!$F2 712
7 TraesCS3A01G233200 chr6D 289611400 289613736 2336 True 1046 1046 75.378 485 2796 1 chr6D.!!$R1 2311
8 TraesCS3A01G233200 chr5B 493606802 493609098 2296 True 1072 1072 75.852 525 2789 1 chr5B.!!$R1 2264
9 TraesCS3A01G233200 chr3D 313612520 313614844 2324 False 994 994 74.926 482 2796 1 chr3D.!!$F2 2314
10 TraesCS3A01G233200 chr6A 97586203 97588375 2172 False 931 931 75.068 624 2771 1 chr6A.!!$F1 2147
11 TraesCS3A01G233200 chr1A 61257882 61259671 1789 True 928 928 76.487 1013 2789 1 chr1A.!!$R1 1776
12 TraesCS3A01G233200 chr7D 207187379 207188389 1010 False 920 920 83.236 1047 2064 1 chr7D.!!$F1 1017

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
22 23 0.173029 TAAATGCGCGGGTCGTAGAA 59.827 50.0 8.83 0.0 39.69 2.10 F
40 41 0.178831 AACCTGGGATGGGAGTCCTT 60.179 55.0 9.58 0.0 38.38 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1694 1780 1.607251 CGTCCACCTTCCTGTACCAAC 60.607 57.143 0.0 0.0 0.00 3.77 R
2878 3020 6.625362 TGACAACTAAAATTGCACAAAGACA 58.375 32.000 0.0 0.0 32.47 3.41 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
17 18 3.937062 GCCTAAATGCGCGGGTCG 61.937 66.667 8.83 0.00 42.12 4.79
18 19 2.510691 CCTAAATGCGCGGGTCGT 60.511 61.111 8.83 0.00 41.07 4.34
19 20 1.227031 CCTAAATGCGCGGGTCGTA 60.227 57.895 8.83 0.00 41.07 3.43
20 21 1.213094 CCTAAATGCGCGGGTCGTAG 61.213 60.000 8.83 0.00 41.07 3.51
21 22 0.248743 CTAAATGCGCGGGTCGTAGA 60.249 55.000 8.83 0.00 41.07 2.59
22 23 0.173029 TAAATGCGCGGGTCGTAGAA 59.827 50.000 8.83 0.00 39.69 2.10
32 33 0.464452 GGTCGTAGAACCTGGGATGG 59.536 60.000 0.00 0.00 39.11 3.51
33 34 0.464452 GTCGTAGAACCTGGGATGGG 59.536 60.000 0.00 0.00 39.69 4.00
34 35 0.337082 TCGTAGAACCTGGGATGGGA 59.663 55.000 0.00 0.00 0.00 4.37
35 36 0.753262 CGTAGAACCTGGGATGGGAG 59.247 60.000 0.00 0.00 0.00 4.30
36 37 1.880941 GTAGAACCTGGGATGGGAGT 58.119 55.000 0.00 0.00 0.00 3.85
37 38 1.763545 GTAGAACCTGGGATGGGAGTC 59.236 57.143 0.00 0.00 0.00 3.36
38 39 0.621862 AGAACCTGGGATGGGAGTCC 60.622 60.000 0.00 0.00 37.56 3.85
39 40 0.621862 GAACCTGGGATGGGAGTCCT 60.622 60.000 9.58 0.00 38.38 3.85
40 41 0.178831 AACCTGGGATGGGAGTCCTT 60.179 55.000 9.58 0.00 38.38 3.36
41 42 0.916358 ACCTGGGATGGGAGTCCTTG 60.916 60.000 9.58 0.00 38.38 3.61
42 43 0.916358 CCTGGGATGGGAGTCCTTGT 60.916 60.000 9.58 0.00 38.38 3.16
43 44 0.254178 CTGGGATGGGAGTCCTTGTG 59.746 60.000 9.58 0.00 38.38 3.33
44 45 1.077429 GGGATGGGAGTCCTTGTGC 60.077 63.158 9.58 0.66 38.38 4.57
45 46 1.566298 GGGATGGGAGTCCTTGTGCT 61.566 60.000 9.58 0.00 38.38 4.40
46 47 0.393537 GGATGGGAGTCCTTGTGCTG 60.394 60.000 9.58 0.00 35.32 4.41
47 48 1.001641 ATGGGAGTCCTTGTGCTGC 60.002 57.895 9.58 0.00 0.00 5.25
48 49 1.495579 ATGGGAGTCCTTGTGCTGCT 61.496 55.000 9.58 0.00 0.00 4.24
49 50 1.073897 GGGAGTCCTTGTGCTGCTT 59.926 57.895 9.58 0.00 0.00 3.91
50 51 0.538287 GGGAGTCCTTGTGCTGCTTT 60.538 55.000 9.58 0.00 0.00 3.51
51 52 1.271379 GGGAGTCCTTGTGCTGCTTTA 60.271 52.381 9.58 0.00 0.00 1.85
52 53 2.619074 GGGAGTCCTTGTGCTGCTTTAT 60.619 50.000 9.58 0.00 0.00 1.40
53 54 2.421424 GGAGTCCTTGTGCTGCTTTATG 59.579 50.000 0.41 0.00 0.00 1.90
54 55 1.815003 AGTCCTTGTGCTGCTTTATGC 59.185 47.619 0.00 0.00 43.25 3.14
69 70 5.954335 GCTTTATGCAAAAGCTAAAGAGGA 58.046 37.500 25.78 0.00 46.64 3.71
70 71 5.802451 GCTTTATGCAAAAGCTAAAGAGGAC 59.198 40.000 25.78 7.35 46.64 3.85
71 72 5.545658 TTATGCAAAAGCTAAAGAGGACG 57.454 39.130 0.00 0.00 0.00 4.79
72 73 2.846193 TGCAAAAGCTAAAGAGGACGT 58.154 42.857 0.00 0.00 0.00 4.34
73 74 2.548057 TGCAAAAGCTAAAGAGGACGTG 59.452 45.455 0.00 0.00 0.00 4.49
74 75 2.095718 GCAAAAGCTAAAGAGGACGTGG 60.096 50.000 0.00 0.00 0.00 4.94
75 76 3.399330 CAAAAGCTAAAGAGGACGTGGA 58.601 45.455 0.00 0.00 0.00 4.02
76 77 2.745515 AAGCTAAAGAGGACGTGGAC 57.254 50.000 0.00 0.00 0.00 4.02
77 78 0.526662 AGCTAAAGAGGACGTGGACG 59.473 55.000 0.00 0.00 46.33 4.79
78 79 0.458025 GCTAAAGAGGACGTGGACGG 60.458 60.000 0.00 0.00 44.95 4.79
79 80 1.171308 CTAAAGAGGACGTGGACGGA 58.829 55.000 0.00 0.00 44.95 4.69
80 81 1.749634 CTAAAGAGGACGTGGACGGAT 59.250 52.381 0.00 0.00 44.95 4.18
81 82 0.531200 AAAGAGGACGTGGACGGATC 59.469 55.000 0.00 0.00 44.95 3.36
82 83 0.611062 AAGAGGACGTGGACGGATCA 60.611 55.000 0.00 0.00 44.95 2.92
83 84 1.139095 GAGGACGTGGACGGATCAC 59.861 63.158 0.00 0.00 44.95 3.06
84 85 2.183555 GGACGTGGACGGATCACC 59.816 66.667 0.00 0.00 44.95 4.02
85 86 2.348888 GGACGTGGACGGATCACCT 61.349 63.158 0.00 0.00 44.95 4.00
86 87 1.033746 GGACGTGGACGGATCACCTA 61.034 60.000 0.00 0.00 44.95 3.08
87 88 0.813184 GACGTGGACGGATCACCTAA 59.187 55.000 0.00 0.00 44.95 2.69
88 89 1.203052 GACGTGGACGGATCACCTAAA 59.797 52.381 0.00 0.00 44.95 1.85
89 90 1.829222 ACGTGGACGGATCACCTAAAT 59.171 47.619 3.93 0.00 44.95 1.40
90 91 2.235402 ACGTGGACGGATCACCTAAATT 59.765 45.455 3.93 0.00 44.95 1.82
91 92 2.864343 CGTGGACGGATCACCTAAATTC 59.136 50.000 0.00 0.00 35.37 2.17
92 93 2.864343 GTGGACGGATCACCTAAATTCG 59.136 50.000 0.00 0.00 0.00 3.34
93 94 2.159014 TGGACGGATCACCTAAATTCGG 60.159 50.000 0.00 0.00 29.06 4.30
94 95 2.101917 GGACGGATCACCTAAATTCGGA 59.898 50.000 0.00 0.00 29.06 4.55
95 96 3.121544 GACGGATCACCTAAATTCGGAC 58.878 50.000 0.00 0.00 29.06 4.79
96 97 2.124903 CGGATCACCTAAATTCGGACG 58.875 52.381 0.00 0.00 0.00 4.79
97 98 1.865340 GGATCACCTAAATTCGGACGC 59.135 52.381 0.00 0.00 0.00 5.19
98 99 1.865340 GATCACCTAAATTCGGACGCC 59.135 52.381 1.09 0.00 0.00 5.68
99 100 0.609151 TCACCTAAATTCGGACGCCA 59.391 50.000 1.09 0.00 0.00 5.69
100 101 1.208535 TCACCTAAATTCGGACGCCAT 59.791 47.619 1.09 0.00 0.00 4.40
101 102 2.014128 CACCTAAATTCGGACGCCATT 58.986 47.619 1.09 0.00 0.00 3.16
102 103 2.014128 ACCTAAATTCGGACGCCATTG 58.986 47.619 1.09 0.00 0.00 2.82
103 104 1.333619 CCTAAATTCGGACGCCATTGG 59.666 52.381 0.00 0.00 0.00 3.16
104 105 2.285083 CTAAATTCGGACGCCATTGGA 58.715 47.619 6.95 0.00 0.00 3.53
105 106 1.540267 AAATTCGGACGCCATTGGAA 58.460 45.000 6.95 0.00 0.00 3.53
106 107 1.094785 AATTCGGACGCCATTGGAAG 58.905 50.000 6.95 1.75 0.00 3.46
107 108 1.376609 ATTCGGACGCCATTGGAAGC 61.377 55.000 6.95 0.00 0.00 3.86
113 114 3.903783 GCCATTGGAAGCGTGCTA 58.096 55.556 6.95 0.00 0.00 3.49
114 115 1.429423 GCCATTGGAAGCGTGCTAC 59.571 57.895 6.95 0.00 0.00 3.58
115 116 1.715585 CCATTGGAAGCGTGCTACG 59.284 57.895 0.00 4.61 45.88 3.51
128 129 3.948851 CGTGCTACGCTCTGTATAAAGA 58.051 45.455 0.00 0.00 33.65 2.52
129 130 3.724751 CGTGCTACGCTCTGTATAAAGAC 59.275 47.826 0.00 0.00 33.65 3.01
130 131 4.669318 GTGCTACGCTCTGTATAAAGACA 58.331 43.478 0.00 0.00 31.20 3.41
131 132 4.735822 GTGCTACGCTCTGTATAAAGACAG 59.264 45.833 0.00 0.00 46.90 3.51
132 133 3.731717 GCTACGCTCTGTATAAAGACAGC 59.268 47.826 0.00 0.00 45.44 4.40
133 134 3.166489 ACGCTCTGTATAAAGACAGCC 57.834 47.619 0.00 0.00 45.44 4.85
134 135 2.120232 CGCTCTGTATAAAGACAGCCG 58.880 52.381 0.00 2.42 45.44 5.52
135 136 2.223502 CGCTCTGTATAAAGACAGCCGA 60.224 50.000 10.17 0.00 45.44 5.54
136 137 3.117046 GCTCTGTATAAAGACAGCCGAC 58.883 50.000 0.00 0.00 45.44 4.79
154 155 1.446792 CGGAGCTGTGAAGATGCGT 60.447 57.895 0.00 0.00 34.50 5.24
256 257 3.346734 TTCATGCCCCTCCCACCC 61.347 66.667 0.00 0.00 0.00 4.61
818 876 5.543507 TGTCTACAAAATGGGCACAAATT 57.456 34.783 0.00 0.00 0.00 1.82
1558 1644 2.264455 AGGTCAAATGGCTCACTCTCT 58.736 47.619 0.00 0.00 0.00 3.10
1694 1780 1.442184 CGGACGTCCACGAGTTCAG 60.442 63.158 32.80 10.53 43.02 3.02
2427 2554 2.877097 TGGAGCCTATCTTTGTGCAA 57.123 45.000 0.00 0.00 0.00 4.08
2462 2589 2.666596 CTTGCTATGCCCGACTCCCC 62.667 65.000 0.00 0.00 0.00 4.81
2463 2590 3.942439 GCTATGCCCGACTCCCCC 61.942 72.222 0.00 0.00 0.00 5.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.213094 CTACGACCCGCGCATTTAGG 61.213 60.000 8.75 0.00 46.04 2.69
2 3 0.248743 TCTACGACCCGCGCATTTAG 60.249 55.000 8.75 0.00 46.04 1.85
3 4 0.173029 TTCTACGACCCGCGCATTTA 59.827 50.000 8.75 0.00 46.04 1.40
4 5 1.079681 TTCTACGACCCGCGCATTT 60.080 52.632 8.75 0.00 46.04 2.32
5 6 1.808390 GTTCTACGACCCGCGCATT 60.808 57.895 8.75 0.00 46.04 3.56
6 7 2.202703 GTTCTACGACCCGCGCAT 60.203 61.111 8.75 0.00 46.04 4.73
7 8 4.424566 GGTTCTACGACCCGCGCA 62.425 66.667 8.75 0.00 46.04 6.09
8 9 4.125695 AGGTTCTACGACCCGCGC 62.126 66.667 0.00 0.00 46.04 6.86
10 11 2.183555 CCAGGTTCTACGACCCGC 59.816 66.667 0.00 0.00 40.73 6.13
11 12 1.041447 ATCCCAGGTTCTACGACCCG 61.041 60.000 0.00 0.00 40.73 5.28
12 13 0.464452 CATCCCAGGTTCTACGACCC 59.536 60.000 0.00 0.00 40.73 4.46
13 14 0.464452 CCATCCCAGGTTCTACGACC 59.536 60.000 0.00 0.00 40.11 4.79
14 15 0.464452 CCCATCCCAGGTTCTACGAC 59.536 60.000 0.00 0.00 0.00 4.34
15 16 0.337082 TCCCATCCCAGGTTCTACGA 59.663 55.000 0.00 0.00 0.00 3.43
16 17 0.753262 CTCCCATCCCAGGTTCTACG 59.247 60.000 0.00 0.00 0.00 3.51
17 18 1.763545 GACTCCCATCCCAGGTTCTAC 59.236 57.143 0.00 0.00 0.00 2.59
18 19 1.344087 GGACTCCCATCCCAGGTTCTA 60.344 57.143 0.00 0.00 31.94 2.10
19 20 0.621862 GGACTCCCATCCCAGGTTCT 60.622 60.000 0.00 0.00 31.94 3.01
20 21 0.621862 AGGACTCCCATCCCAGGTTC 60.622 60.000 0.00 0.00 39.91 3.62
21 22 0.178831 AAGGACTCCCATCCCAGGTT 60.179 55.000 0.00 0.00 39.91 3.50
22 23 0.916358 CAAGGACTCCCATCCCAGGT 60.916 60.000 0.00 0.00 39.91 4.00
23 24 0.916358 ACAAGGACTCCCATCCCAGG 60.916 60.000 0.00 0.00 39.91 4.45
24 25 0.254178 CACAAGGACTCCCATCCCAG 59.746 60.000 0.00 0.00 39.91 4.45
25 26 1.852157 GCACAAGGACTCCCATCCCA 61.852 60.000 0.00 0.00 39.91 4.37
26 27 1.077429 GCACAAGGACTCCCATCCC 60.077 63.158 0.00 0.00 39.91 3.85
27 28 0.393537 CAGCACAAGGACTCCCATCC 60.394 60.000 0.00 0.00 39.28 3.51
28 29 1.028868 GCAGCACAAGGACTCCCATC 61.029 60.000 0.00 0.00 33.88 3.51
29 30 1.001641 GCAGCACAAGGACTCCCAT 60.002 57.895 0.00 0.00 33.88 4.00
30 31 1.708993 AAGCAGCACAAGGACTCCCA 61.709 55.000 0.00 0.00 33.88 4.37
31 32 0.538287 AAAGCAGCACAAGGACTCCC 60.538 55.000 0.00 0.00 0.00 4.30
32 33 2.185004 TAAAGCAGCACAAGGACTCC 57.815 50.000 0.00 0.00 0.00 3.85
33 34 2.159462 GCATAAAGCAGCACAAGGACTC 60.159 50.000 0.00 0.00 44.79 3.36
34 35 1.815003 GCATAAAGCAGCACAAGGACT 59.185 47.619 0.00 0.00 44.79 3.85
35 36 2.268730 GCATAAAGCAGCACAAGGAC 57.731 50.000 0.00 0.00 44.79 3.85
54 55 3.186613 GTCCACGTCCTCTTTAGCTTTTG 59.813 47.826 0.00 0.00 0.00 2.44
55 56 3.400255 GTCCACGTCCTCTTTAGCTTTT 58.600 45.455 0.00 0.00 0.00 2.27
56 57 2.609737 CGTCCACGTCCTCTTTAGCTTT 60.610 50.000 0.00 0.00 34.11 3.51
57 58 1.067776 CGTCCACGTCCTCTTTAGCTT 60.068 52.381 0.00 0.00 34.11 3.74
58 59 0.526662 CGTCCACGTCCTCTTTAGCT 59.473 55.000 0.00 0.00 34.11 3.32
59 60 0.458025 CCGTCCACGTCCTCTTTAGC 60.458 60.000 0.00 0.00 37.74 3.09
60 61 1.171308 TCCGTCCACGTCCTCTTTAG 58.829 55.000 0.00 0.00 37.74 1.85
61 62 1.747355 GATCCGTCCACGTCCTCTTTA 59.253 52.381 0.00 0.00 37.74 1.85
62 63 0.531200 GATCCGTCCACGTCCTCTTT 59.469 55.000 0.00 0.00 37.74 2.52
63 64 0.611062 TGATCCGTCCACGTCCTCTT 60.611 55.000 0.00 0.00 37.74 2.85
64 65 1.001269 TGATCCGTCCACGTCCTCT 60.001 57.895 0.00 0.00 37.74 3.69
65 66 1.139095 GTGATCCGTCCACGTCCTC 59.861 63.158 0.00 0.00 37.74 3.71
66 67 2.348888 GGTGATCCGTCCACGTCCT 61.349 63.158 0.00 0.00 37.74 3.85
67 68 1.033746 TAGGTGATCCGTCCACGTCC 61.034 60.000 0.00 0.00 39.05 4.79
68 69 0.813184 TTAGGTGATCCGTCCACGTC 59.187 55.000 0.00 0.00 39.05 4.34
69 70 1.259609 TTTAGGTGATCCGTCCACGT 58.740 50.000 0.00 0.00 39.05 4.49
70 71 2.596904 ATTTAGGTGATCCGTCCACG 57.403 50.000 0.00 0.00 39.05 4.94
71 72 2.864343 CGAATTTAGGTGATCCGTCCAC 59.136 50.000 0.00 0.00 39.05 4.02
72 73 2.159014 CCGAATTTAGGTGATCCGTCCA 60.159 50.000 0.00 0.00 39.05 4.02
73 74 2.101917 TCCGAATTTAGGTGATCCGTCC 59.898 50.000 0.00 0.00 39.05 4.79
74 75 3.121544 GTCCGAATTTAGGTGATCCGTC 58.878 50.000 0.00 0.00 39.05 4.79
75 76 2.480759 CGTCCGAATTTAGGTGATCCGT 60.481 50.000 0.00 0.00 39.05 4.69
76 77 2.124903 CGTCCGAATTTAGGTGATCCG 58.875 52.381 0.00 0.00 39.05 4.18
77 78 1.865340 GCGTCCGAATTTAGGTGATCC 59.135 52.381 0.00 0.00 0.00 3.36
78 79 1.865340 GGCGTCCGAATTTAGGTGATC 59.135 52.381 0.00 0.00 0.00 2.92
79 80 1.208535 TGGCGTCCGAATTTAGGTGAT 59.791 47.619 0.00 0.00 0.00 3.06
80 81 0.609151 TGGCGTCCGAATTTAGGTGA 59.391 50.000 0.00 0.00 0.00 4.02
81 82 1.663695 ATGGCGTCCGAATTTAGGTG 58.336 50.000 0.00 0.00 0.00 4.00
82 83 2.014128 CAATGGCGTCCGAATTTAGGT 58.986 47.619 0.00 0.00 0.00 3.08
83 84 1.333619 CCAATGGCGTCCGAATTTAGG 59.666 52.381 0.00 0.00 0.00 2.69
84 85 2.285083 TCCAATGGCGTCCGAATTTAG 58.715 47.619 0.00 0.00 0.00 1.85
85 86 2.404923 TCCAATGGCGTCCGAATTTA 57.595 45.000 0.00 0.00 0.00 1.40
86 87 1.472480 CTTCCAATGGCGTCCGAATTT 59.528 47.619 0.00 0.00 0.00 1.82
87 88 1.094785 CTTCCAATGGCGTCCGAATT 58.905 50.000 0.00 0.00 0.00 2.17
88 89 1.376609 GCTTCCAATGGCGTCCGAAT 61.377 55.000 0.00 0.00 0.00 3.34
89 90 2.038269 GCTTCCAATGGCGTCCGAA 61.038 57.895 0.00 0.00 0.00 4.30
90 91 2.435938 GCTTCCAATGGCGTCCGA 60.436 61.111 0.00 0.00 0.00 4.55
91 92 3.864686 CGCTTCCAATGGCGTCCG 61.865 66.667 0.00 0.00 45.34 4.79
96 97 1.429423 GTAGCACGCTTCCAATGGC 59.571 57.895 0.00 0.00 0.00 4.40
97 98 1.715585 CGTAGCACGCTTCCAATGG 59.284 57.895 0.00 0.00 33.65 3.16
119 120 2.093890 TCCGTCGGCTGTCTTTATACA 58.906 47.619 6.34 0.00 0.00 2.29
120 121 2.728922 CTCCGTCGGCTGTCTTTATAC 58.271 52.381 6.34 0.00 0.00 1.47
121 122 1.066605 GCTCCGTCGGCTGTCTTTATA 59.933 52.381 6.34 0.00 0.00 0.98
122 123 0.179108 GCTCCGTCGGCTGTCTTTAT 60.179 55.000 6.34 0.00 0.00 1.40
123 124 1.214589 GCTCCGTCGGCTGTCTTTA 59.785 57.895 6.34 0.00 0.00 1.85
124 125 2.048127 GCTCCGTCGGCTGTCTTT 60.048 61.111 6.34 0.00 0.00 2.52
125 126 2.992114 AGCTCCGTCGGCTGTCTT 60.992 61.111 6.34 0.00 38.73 3.01
130 131 3.288308 CTTCACAGCTCCGTCGGCT 62.288 63.158 6.34 0.00 41.07 5.52
131 132 2.564553 ATCTTCACAGCTCCGTCGGC 62.565 60.000 6.34 0.00 0.00 5.54
132 133 0.803768 CATCTTCACAGCTCCGTCGG 60.804 60.000 4.39 4.39 0.00 4.79
133 134 1.416813 GCATCTTCACAGCTCCGTCG 61.417 60.000 0.00 0.00 0.00 5.12
134 135 1.416813 CGCATCTTCACAGCTCCGTC 61.417 60.000 0.00 0.00 0.00 4.79
135 136 1.446792 CGCATCTTCACAGCTCCGT 60.447 57.895 0.00 0.00 0.00 4.69
136 137 1.446792 ACGCATCTTCACAGCTCCG 60.447 57.895 0.00 0.00 0.00 4.63
786 837 2.623878 TTTGTAGACAACGGGAGCAA 57.376 45.000 0.00 0.00 35.28 3.91
1694 1780 1.607251 CGTCCACCTTCCTGTACCAAC 60.607 57.143 0.00 0.00 0.00 3.77
2878 3020 6.625362 TGACAACTAAAATTGCACAAAGACA 58.375 32.000 0.00 0.00 32.47 3.41


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

AutoCloner maintained by Alex Coulton.