Multiple sequence alignment - TraesCS2A01G275500

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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 TraesCS2A01G275500 chr2A 100.000 2344 0 0 1 2344 453515361 453517704 0.000000e+00 4329.0
1 TraesCS2A01G275500 chr2A 86.301 73 7 3 2274 2344 762691922 762691851 2.500000e-10 76.8
2 TraesCS2A01G275500 chr2B 91.871 1058 60 6 330 1362 408291837 408292893 0.000000e+00 1454.0
3 TraesCS2A01G275500 chr2B 94.479 489 25 2 1725 2212 408295461 408295948 0.000000e+00 752.0
4 TraesCS2A01G275500 chr2B 93.023 301 21 0 1355 1655 408295069 408295369 7.690000e-120 440.0
5 TraesCS2A01G275500 chr2B 98.601 143 2 0 202 344 408289455 408289597 1.080000e-63 254.0
6 TraesCS2A01G275500 chr2B 92.391 92 5 2 2254 2344 408296027 408296117 1.890000e-26 130.0
7 TraesCS2A01G275500 chr2B 86.916 107 11 2 33 138 408195681 408195785 1.470000e-22 117.0
8 TraesCS2A01G275500 chr2B 96.721 61 1 1 1654 1714 408295416 408295475 1.480000e-17 100.0
9 TraesCS2A01G275500 chr2D 91.656 815 43 7 858 1655 343168005 343168811 0.000000e+00 1105.0
10 TraesCS2A01G275500 chr2D 94.492 472 21 3 1725 2194 343168904 343169372 0.000000e+00 723.0
11 TraesCS2A01G275500 chr2D 92.484 306 14 4 240 536 343160781 343161086 1.660000e-116 429.0
12 TraesCS2A01G275500 chr2D 88.259 247 20 8 524 765 343161105 343161347 1.060000e-73 287.0
13 TraesCS2A01G275500 chr2D 91.176 136 9 3 2209 2344 343181355 343181487 5.150000e-42 182.0
14 TraesCS2A01G275500 chr2D 100.000 56 0 0 1654 1709 343168859 343168914 1.150000e-18 104.0
15 TraesCS2A01G275500 chr2D 100.000 33 0 0 1 33 343160323 343160355 6.990000e-06 62.1
16 TraesCS2A01G275500 chr3A 87.671 73 6 3 2274 2344 606741377 606741448 5.370000e-12 82.4
17 TraesCS2A01G275500 chr7A 86.957 69 8 1 2274 2341 555478252 555478320 2.500000e-10 76.8
18 TraesCS2A01G275500 chr5A 85.915 71 10 0 2274 2344 11777843 11777913 2.500000e-10 76.8
19 TraesCS2A01G275500 chr1A 86.111 72 9 1 2274 2344 399234716 399234787 2.500000e-10 76.8
20 TraesCS2A01G275500 chr4A 84.932 73 11 0 2272 2344 563677753 563677681 8.980000e-10 75.0
21 TraesCS2A01G275500 chr3B 84.932 73 9 2 2274 2344 820958760 820958688 3.230000e-09 73.1
22 TraesCS2A01G275500 chr1B 97.222 36 1 0 2209 2244 667077134 667077169 6.990000e-06 62.1
23 TraesCS2A01G275500 chr7D 97.143 35 1 0 2209 2243 259291315 259291281 2.520000e-05 60.2
24 TraesCS2A01G275500 chr7B 97.143 35 1 0 2209 2243 238528006 238527972 2.520000e-05 60.2
25 TraesCS2A01G275500 chr6D 97.222 36 0 1 2214 2248 290322003 290321968 2.520000e-05 60.2
26 TraesCS2A01G275500 chr6B 100.000 32 0 0 2214 2245 701243796 701243765 2.520000e-05 60.2
27 TraesCS2A01G275500 chr5B 100.000 32 0 0 2214 2245 583048528 583048559 2.520000e-05 60.2
28 TraesCS2A01G275500 chr4B 100.000 31 0 0 2215 2245 59832693 59832663 9.050000e-05 58.4
29 TraesCS2A01G275500 chr4D 94.595 37 1 1 2214 2249 176779494 176779530 3.250000e-04 56.5


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 TraesCS2A01G275500 chr2A 453515361 453517704 2343 False 4329.000000 4329 100.000000 1 2344 1 chr2A.!!$F1 2343
1 TraesCS2A01G275500 chr2B 408289455 408296117 6662 False 521.666667 1454 94.514333 202 2344 6 chr2B.!!$F2 2142
2 TraesCS2A01G275500 chr2D 343168005 343169372 1367 False 644.000000 1105 95.382667 858 2194 3 chr2D.!!$F3 1336
3 TraesCS2A01G275500 chr2D 343160323 343161347 1024 False 259.366667 429 93.581000 1 765 3 chr2D.!!$F2 764

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
415 2953 0.038744 ACCACCTCCTCCAAATGCTG 59.961 55.0 0.0 0.0 0.0 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1579 6370 0.395586 TTGCATGTGGGTCCTATGCC 60.396 55.0 19.25 8.54 44.91 4.4 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
33 34 7.467811 CGCTTGGCATAGAGTGATAAATTTCTT 60.468 37.037 0.00 0.00 0.00 2.52
53 54 6.648879 TCTTAAAATATATTGCCCACCTGC 57.351 37.500 0.00 0.00 0.00 4.85
57 58 1.819753 TATATTGCCCACCTGCCTCT 58.180 50.000 0.00 0.00 0.00 3.69
60 61 0.475906 ATTGCCCACCTGCCTCTATC 59.524 55.000 0.00 0.00 0.00 2.08
61 62 0.913934 TTGCCCACCTGCCTCTATCA 60.914 55.000 0.00 0.00 0.00 2.15
62 63 1.340399 TGCCCACCTGCCTCTATCAG 61.340 60.000 0.00 0.00 0.00 2.90
63 64 1.341156 GCCCACCTGCCTCTATCAGT 61.341 60.000 0.00 0.00 0.00 3.41
64 65 1.207791 CCCACCTGCCTCTATCAGTT 58.792 55.000 0.00 0.00 0.00 3.16
68 69 3.265791 CACCTGCCTCTATCAGTTTGAC 58.734 50.000 0.00 0.00 0.00 3.18
69 70 3.055530 CACCTGCCTCTATCAGTTTGACT 60.056 47.826 0.00 0.00 0.00 3.41
70 71 3.584848 ACCTGCCTCTATCAGTTTGACTT 59.415 43.478 0.00 0.00 0.00 3.01
71 72 4.042187 ACCTGCCTCTATCAGTTTGACTTT 59.958 41.667 0.00 0.00 0.00 2.66
72 73 5.006386 CCTGCCTCTATCAGTTTGACTTTT 58.994 41.667 0.00 0.00 0.00 2.27
73 74 5.106396 CCTGCCTCTATCAGTTTGACTTTTG 60.106 44.000 0.00 0.00 0.00 2.44
75 76 5.003804 GCCTCTATCAGTTTGACTTTTGGA 58.996 41.667 0.00 0.00 0.00 3.53
76 77 5.649831 GCCTCTATCAGTTTGACTTTTGGAT 59.350 40.000 0.00 0.00 0.00 3.41
77 78 6.823689 GCCTCTATCAGTTTGACTTTTGGATA 59.176 38.462 0.00 0.00 0.00 2.59
78 79 7.336931 GCCTCTATCAGTTTGACTTTTGGATAA 59.663 37.037 0.00 0.00 0.00 1.75
81 82 9.793259 TCTATCAGTTTGACTTTTGGATAAGTT 57.207 29.630 0.00 0.00 38.43 2.66
82 83 9.831737 CTATCAGTTTGACTTTTGGATAAGTTG 57.168 33.333 0.00 0.00 38.43 3.16
83 84 7.873719 TCAGTTTGACTTTTGGATAAGTTGA 57.126 32.000 0.00 0.00 38.43 3.18
84 85 7.703328 TCAGTTTGACTTTTGGATAAGTTGAC 58.297 34.615 0.00 0.00 38.43 3.18
85 86 7.556275 TCAGTTTGACTTTTGGATAAGTTGACT 59.444 33.333 0.00 0.00 38.43 3.41
86 87 7.645340 CAGTTTGACTTTTGGATAAGTTGACTG 59.355 37.037 0.00 0.00 38.43 3.51
87 88 7.339466 AGTTTGACTTTTGGATAAGTTGACTGT 59.661 33.333 0.00 0.00 38.43 3.55
88 89 8.617809 GTTTGACTTTTGGATAAGTTGACTGTA 58.382 33.333 0.00 0.00 38.43 2.74
89 90 7.962964 TGACTTTTGGATAAGTTGACTGTAG 57.037 36.000 0.00 0.00 38.43 2.74
90 91 6.426937 TGACTTTTGGATAAGTTGACTGTAGC 59.573 38.462 0.00 0.00 38.43 3.58
92 93 6.942576 ACTTTTGGATAAGTTGACTGTAGCAT 59.057 34.615 0.00 0.00 34.81 3.79
94 95 5.675684 TGGATAAGTTGACTGTAGCATGA 57.324 39.130 0.00 0.00 0.00 3.07
96 97 6.653020 TGGATAAGTTGACTGTAGCATGAAT 58.347 36.000 0.00 0.00 0.00 2.57
97 98 7.112122 TGGATAAGTTGACTGTAGCATGAATT 58.888 34.615 0.00 0.00 0.00 2.17
98 99 7.280876 TGGATAAGTTGACTGTAGCATGAATTC 59.719 37.037 0.00 0.00 0.00 2.17
99 100 7.280876 GGATAAGTTGACTGTAGCATGAATTCA 59.719 37.037 11.26 11.26 0.00 2.57
100 101 6.882610 AAGTTGACTGTAGCATGAATTCAA 57.117 33.333 13.09 0.00 0.00 2.69
101 102 7.458409 AAGTTGACTGTAGCATGAATTCAAT 57.542 32.000 13.09 4.40 0.00 2.57
102 103 8.565896 AAGTTGACTGTAGCATGAATTCAATA 57.434 30.769 13.09 3.40 0.00 1.90
103 104 8.743085 AGTTGACTGTAGCATGAATTCAATAT 57.257 30.769 13.09 3.67 0.00 1.28
126 136 7.981102 ATATACTTAGTACATGAGTCGCTCA 57.019 36.000 11.12 11.12 44.99 4.26
157 432 8.128582 GTGATGAGAACAACAGATAACAAAACA 58.871 33.333 0.00 0.00 29.89 2.83
164 439 8.474006 AACAACAGATAACAAAACAAAACTCC 57.526 30.769 0.00 0.00 0.00 3.85
187 462 8.117813 TCCGATAGAACAGCAACATATACATA 57.882 34.615 0.00 0.00 39.76 2.29
188 463 8.749354 TCCGATAGAACAGCAACATATACATAT 58.251 33.333 0.00 0.00 39.76 1.78
353 2886 0.696501 ATAACCCTTTGGCGACCACT 59.303 50.000 0.00 0.00 30.78 4.00
415 2953 0.038744 ACCACCTCCTCCAAATGCTG 59.961 55.000 0.00 0.00 0.00 4.41
419 2957 0.396695 CCTCCTCCAAATGCTGCCAT 60.397 55.000 0.00 0.00 0.00 4.40
420 2958 0.744874 CTCCTCCAAATGCTGCCATG 59.255 55.000 0.00 0.00 0.00 3.66
545 3114 0.171007 CCGCGGATTCAAAAGCATGT 59.829 50.000 24.07 0.00 0.00 3.21
546 3115 1.538276 CGCGGATTCAAAAGCATGTC 58.462 50.000 0.00 0.00 0.00 3.06
553 3122 5.405797 GGATTCAAAAGCATGTCTTCCTTC 58.594 41.667 0.00 0.00 32.88 3.46
604 3174 4.838152 AGCTGCCGCGTACCCATG 62.838 66.667 4.92 0.00 42.32 3.66
627 3197 2.435586 CGCTGCAGCCTGCTAGTT 60.436 61.111 32.07 0.00 45.31 2.24
691 3261 1.168714 GGCCATCAACTCCAACTGAC 58.831 55.000 0.00 0.00 0.00 3.51
692 3262 1.168714 GCCATCAACTCCAACTGACC 58.831 55.000 0.00 0.00 0.00 4.02
758 3329 1.335142 GCAGAGAACACGAACGAGTCT 60.335 52.381 0.14 0.52 0.00 3.24
772 3343 2.029828 ACGAGTCTTGCACGATTTCTCT 60.030 45.455 0.00 0.00 35.23 3.10
789 3360 2.300152 TCTCTCTCCTTCACGTTTGCAT 59.700 45.455 0.00 0.00 0.00 3.96
834 3405 6.369890 CACAGACTATACTTGAGTTTGCATGT 59.630 38.462 0.00 0.00 33.44 3.21
835 3406 6.936900 ACAGACTATACTTGAGTTTGCATGTT 59.063 34.615 0.00 0.00 33.44 2.71
865 3436 7.378181 TGATGCATCTATATAAACGAGCTCAA 58.622 34.615 26.32 0.00 0.00 3.02
866 3437 7.543520 TGATGCATCTATATAAACGAGCTCAAG 59.456 37.037 26.32 0.13 0.00 3.02
1090 3693 2.586245 CAGCGAGGCCATTGGAGA 59.414 61.111 5.01 0.00 0.00 3.71
1262 3870 5.507985 GGTGGATCACAGGTCAAAAGAAAAG 60.508 44.000 0.00 0.00 35.86 2.27
1273 3881 6.554605 AGGTCAAAAGAAAAGGATGGATCAAA 59.445 34.615 0.00 0.00 0.00 2.69
1347 3955 9.607988 ATCGTGATTTGTGGAATGTATAGTTAA 57.392 29.630 0.00 0.00 0.00 2.01
1435 6226 3.947196 ACTTGATGCTTGAACTTGACACA 59.053 39.130 0.00 0.00 0.00 3.72
1454 6245 4.244862 CACAAATATTCACTTTGGTGCCC 58.755 43.478 0.00 0.00 42.72 5.36
1457 6248 0.037590 TATTCACTTTGGTGCCCGCT 59.962 50.000 0.00 0.00 42.72 5.52
1550 6341 2.987821 CACGCAAAATGCAATGACATGA 59.012 40.909 0.00 0.00 45.36 3.07
1562 6353 7.336161 TGCAATGACATGACATCATATTTCA 57.664 32.000 11.07 0.00 35.72 2.69
1563 6354 7.773149 TGCAATGACATGACATCATATTTCAA 58.227 30.769 11.07 0.00 35.72 2.69
1579 6370 0.522626 TCAATTGACGTGCCAGCATG 59.477 50.000 3.38 10.26 38.78 4.06
1619 6410 7.377398 TGCAACAATAAAACATGATAGCTTGT 58.623 30.769 0.00 0.86 34.23 3.16
1701 6541 9.890629 AGCATTTTGATGTCTAGTAAGATTACA 57.109 29.630 5.59 0.00 36.12 2.41
1705 6545 8.718102 TTTGATGTCTAGTAAGATTACAAGGC 57.282 34.615 5.59 0.00 36.12 4.35
1706 6546 7.661536 TGATGTCTAGTAAGATTACAAGGCT 57.338 36.000 5.59 0.00 36.12 4.58
1707 6547 8.079211 TGATGTCTAGTAAGATTACAAGGCTT 57.921 34.615 0.00 0.00 36.12 4.35
1708 6548 9.197306 TGATGTCTAGTAAGATTACAAGGCTTA 57.803 33.333 0.00 0.00 36.12 3.09
1709 6549 9.685828 GATGTCTAGTAAGATTACAAGGCTTAG 57.314 37.037 0.00 0.00 36.12 2.18
1710 6550 8.818622 TGTCTAGTAAGATTACAAGGCTTAGA 57.181 34.615 0.00 0.00 36.12 2.10
1711 6551 9.422681 TGTCTAGTAAGATTACAAGGCTTAGAT 57.577 33.333 0.00 0.00 36.12 1.98
1780 6620 1.785647 AATGGTCTACGGTCTACCCC 58.214 55.000 8.78 0.00 31.97 4.95
2146 6989 4.093408 CGATCTCAGTATGGTTTGTGTTGG 59.907 45.833 0.00 0.00 36.16 3.77
2164 7007 0.598065 GGCGTTGCAAACTGGATTCT 59.402 50.000 0.00 0.00 46.99 2.40
2196 7039 5.371115 AAACTACGCTTATGTTGTTGCAT 57.629 34.783 0.00 0.00 37.75 3.96
2200 7043 7.083875 ACTACGCTTATGTTGTTGCATAAAT 57.916 32.000 0.00 0.00 39.80 1.40
2212 7055 9.926158 TGTTGTTGCATAAATCAAAACTATCAT 57.074 25.926 0.00 0.00 0.00 2.45
2214 7057 9.585099 TTGTTGCATAAATCAAAACTATCATCC 57.415 29.630 0.00 0.00 0.00 3.51
2215 7058 8.196771 TGTTGCATAAATCAAAACTATCATCCC 58.803 33.333 0.00 0.00 0.00 3.85
2216 7059 8.416329 GTTGCATAAATCAAAACTATCATCCCT 58.584 33.333 0.00 0.00 0.00 4.20
2217 7060 7.944061 TGCATAAATCAAAACTATCATCCCTG 58.056 34.615 0.00 0.00 0.00 4.45
2218 7061 7.014518 TGCATAAATCAAAACTATCATCCCTGG 59.985 37.037 0.00 0.00 0.00 4.45
2220 7063 3.297134 TCAAAACTATCATCCCTGGCC 57.703 47.619 0.00 0.00 0.00 5.36
2221 7064 2.852449 TCAAAACTATCATCCCTGGCCT 59.148 45.455 3.32 0.00 0.00 5.19
2222 7065 3.117888 TCAAAACTATCATCCCTGGCCTC 60.118 47.826 3.32 0.00 0.00 4.70
2224 7067 1.727062 ACTATCATCCCTGGCCTCTG 58.273 55.000 3.32 0.00 0.00 3.35
2225 7068 0.324285 CTATCATCCCTGGCCTCTGC 59.676 60.000 3.32 0.00 0.00 4.26
2226 7069 0.400381 TATCATCCCTGGCCTCTGCA 60.400 55.000 3.32 0.00 40.13 4.41
2228 7071 1.228184 CATCCCTGGCCTCTGCATC 60.228 63.158 3.32 0.00 40.13 3.91
2229 7072 1.695239 ATCCCTGGCCTCTGCATCA 60.695 57.895 3.32 0.00 40.13 3.07
2244 7087 2.554806 CATCAAGCGATGCACACAAT 57.445 45.000 0.00 0.00 42.54 2.71
2245 7088 3.678915 CATCAAGCGATGCACACAATA 57.321 42.857 0.00 0.00 42.54 1.90
2246 7089 4.219143 CATCAAGCGATGCACACAATAT 57.781 40.909 0.00 0.00 42.54 1.28
2247 7090 4.603985 CATCAAGCGATGCACACAATATT 58.396 39.130 0.00 0.00 42.54 1.28
2248 7091 5.750650 CATCAAGCGATGCACACAATATTA 58.249 37.500 0.00 0.00 42.54 0.98
2249 7092 5.809719 TCAAGCGATGCACACAATATTAA 57.190 34.783 0.00 0.00 0.00 1.40
2250 7093 6.188400 TCAAGCGATGCACACAATATTAAA 57.812 33.333 0.00 0.00 0.00 1.52
2251 7094 6.027131 TCAAGCGATGCACACAATATTAAAC 58.973 36.000 0.00 0.00 0.00 2.01
2252 7095 5.559427 AGCGATGCACACAATATTAAACA 57.441 34.783 0.00 0.00 0.00 2.83
2253 7096 5.948588 AGCGATGCACACAATATTAAACAA 58.051 33.333 0.00 0.00 0.00 2.83
2257 7100 7.201427 GCGATGCACACAATATTAAACAACAAT 60.201 33.333 0.00 0.00 0.00 2.71
2275 7156 8.094798 ACAACAATAATAGCATACCGGTAATG 57.905 34.615 20.22 17.32 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 5.073437 AGGCAGGTGGGCAATATATTTTA 57.927 39.130 0.00 0.00 46.44 1.52
35 36 3.140895 AGAGGCAGGTGGGCAATATATTT 59.859 43.478 0.00 0.00 46.44 1.40
36 37 2.718609 AGAGGCAGGTGGGCAATATATT 59.281 45.455 0.00 0.00 46.44 1.28
37 38 2.352371 AGAGGCAGGTGGGCAATATAT 58.648 47.619 0.00 0.00 46.44 0.86
38 39 1.819753 AGAGGCAGGTGGGCAATATA 58.180 50.000 0.00 0.00 46.44 0.86
39 40 1.819753 TAGAGGCAGGTGGGCAATAT 58.180 50.000 0.00 0.00 46.44 1.28
41 42 0.475906 GATAGAGGCAGGTGGGCAAT 59.524 55.000 0.00 0.00 46.44 3.56
42 43 0.913934 TGATAGAGGCAGGTGGGCAA 60.914 55.000 0.00 0.00 46.44 4.52
46 47 2.237143 TCAAACTGATAGAGGCAGGTGG 59.763 50.000 0.00 0.00 37.69 4.61
47 48 3.055530 AGTCAAACTGATAGAGGCAGGTG 60.056 47.826 0.00 0.00 37.69 4.00
48 49 3.177228 AGTCAAACTGATAGAGGCAGGT 58.823 45.455 0.00 0.00 37.69 4.00
49 50 3.902881 AGTCAAACTGATAGAGGCAGG 57.097 47.619 0.00 0.00 37.69 4.85
50 51 5.106396 CCAAAAGTCAAACTGATAGAGGCAG 60.106 44.000 0.00 0.00 39.26 4.85
52 53 5.003804 TCCAAAAGTCAAACTGATAGAGGC 58.996 41.667 0.00 0.00 0.00 4.70
53 54 8.792830 TTATCCAAAAGTCAAACTGATAGAGG 57.207 34.615 0.00 0.00 0.00 3.69
57 58 9.567776 TCAACTTATCCAAAAGTCAAACTGATA 57.432 29.630 0.00 0.00 38.76 2.15
60 61 7.645340 CAGTCAACTTATCCAAAAGTCAAACTG 59.355 37.037 9.62 9.62 38.76 3.16
61 62 7.339466 ACAGTCAACTTATCCAAAAGTCAAACT 59.661 33.333 0.00 0.00 38.76 2.66
62 63 7.480810 ACAGTCAACTTATCCAAAAGTCAAAC 58.519 34.615 0.00 0.00 38.76 2.93
63 64 7.639113 ACAGTCAACTTATCCAAAAGTCAAA 57.361 32.000 0.00 0.00 38.76 2.69
64 65 7.041372 GCTACAGTCAACTTATCCAAAAGTCAA 60.041 37.037 0.00 0.00 38.76 3.18
68 69 6.801539 TGCTACAGTCAACTTATCCAAAAG 57.198 37.500 0.00 0.00 0.00 2.27
69 70 6.939730 TCATGCTACAGTCAACTTATCCAAAA 59.060 34.615 0.00 0.00 0.00 2.44
70 71 6.472016 TCATGCTACAGTCAACTTATCCAAA 58.528 36.000 0.00 0.00 0.00 3.28
71 72 6.048732 TCATGCTACAGTCAACTTATCCAA 57.951 37.500 0.00 0.00 0.00 3.53
72 73 5.675684 TCATGCTACAGTCAACTTATCCA 57.324 39.130 0.00 0.00 0.00 3.41
73 74 7.280876 TGAATTCATGCTACAGTCAACTTATCC 59.719 37.037 3.38 0.00 0.00 2.59
75 76 8.565896 TTGAATTCATGCTACAGTCAACTTAT 57.434 30.769 9.40 0.00 0.00 1.73
76 77 7.977789 TTGAATTCATGCTACAGTCAACTTA 57.022 32.000 9.40 0.00 0.00 2.24
77 78 6.882610 TTGAATTCATGCTACAGTCAACTT 57.117 33.333 9.40 0.00 0.00 2.66
78 79 8.743085 ATATTGAATTCATGCTACAGTCAACT 57.257 30.769 9.40 0.00 0.00 3.16
100 101 9.668497 TGAGCGACTCATGTACTAAGTATATAT 57.332 33.333 5.59 0.00 35.39 0.86
102 103 7.981102 TGAGCGACTCATGTACTAAGTATAT 57.019 36.000 5.59 0.00 35.39 0.86
126 136 7.879677 TGTTATCTGTTGTTCTCATCACTGAAT 59.120 33.333 0.00 0.00 0.00 2.57
157 432 4.385825 TGTTGCTGTTCTATCGGAGTTTT 58.614 39.130 0.00 0.00 0.00 2.43
238 513 2.539547 CGTTGTGAGAACTGCAACTTGG 60.540 50.000 12.97 0.00 39.98 3.61
415 2953 3.338250 TCTCCCACCCACCATGGC 61.338 66.667 13.04 0.00 35.79 4.40
419 2957 3.556038 ATCGGTCTCCCACCCACCA 62.556 63.158 0.00 0.00 43.31 4.17
420 2958 2.687566 ATCGGTCTCCCACCCACC 60.688 66.667 0.00 0.00 43.31 4.61
545 3114 3.026630 CTGCACTAACGTGAAGGAAGA 57.973 47.619 0.00 0.00 42.22 2.87
553 3122 0.511221 CGGAAACCTGCACTAACGTG 59.489 55.000 0.00 0.00 44.07 4.49
627 3197 2.293170 TGAACCGTTCATGTTTGCTCA 58.707 42.857 9.99 0.00 34.08 4.26
726 3297 4.159120 GTGTTCTCTGCGCTTAAATTTCC 58.841 43.478 9.73 0.00 0.00 3.13
758 3329 3.006859 TGAAGGAGAGAGAAATCGTGCAA 59.993 43.478 0.00 0.00 0.00 4.08
772 3343 2.143122 GTGATGCAAACGTGAAGGAGA 58.857 47.619 0.00 0.00 0.00 3.71
789 3360 1.000163 GAGACTGTTCTCTTGGCGTGA 60.000 52.381 0.00 0.00 44.54 4.35
809 3380 6.369890 ACATGCAAACTCAAGTATAGTCTGTG 59.630 38.462 0.00 0.00 0.00 3.66
839 3410 7.378181 TGAGCTCGTTTATATAGATGCATCAA 58.622 34.615 27.81 13.47 0.00 2.57
865 3436 2.728007 GGCTAAGTTGGATTTGGAGCT 58.272 47.619 0.00 0.00 0.00 4.09
866 3437 1.401905 CGGCTAAGTTGGATTTGGAGC 59.598 52.381 0.00 0.00 0.00 4.70
1025 3628 1.228063 ACCAACAGGAGCAGCACTG 60.228 57.895 13.82 13.82 40.48 3.66
1074 3677 1.684386 CTCTCTCCAATGGCCTCGCT 61.684 60.000 3.32 0.00 0.00 4.93
1090 3693 4.035843 GGTCCACCCGTGATCTCT 57.964 61.111 0.00 0.00 0.00 3.10
1262 3870 5.187576 TCCATTTTCAAGGTTTGATCCATCC 59.812 40.000 0.00 0.00 39.84 3.51
1273 3881 5.476599 TCGATCATGTTTCCATTTTCAAGGT 59.523 36.000 0.00 0.00 0.00 3.50
1299 3907 7.704472 ACGATAGAAATACAAGAAGAGCAGAAG 59.296 37.037 0.00 0.00 41.38 2.85
1310 3918 8.196802 TCCACAAATCACGATAGAAATACAAG 57.803 34.615 0.00 0.00 41.38 3.16
1457 6248 4.109766 CCAGTTATCTGTATTTCGCGACA 58.890 43.478 9.15 1.21 39.82 4.35
1550 6341 5.125257 TGGCACGTCAATTGAAATATGATGT 59.875 36.000 10.35 0.00 42.44 3.06
1562 6353 1.885157 CCATGCTGGCACGTCAATT 59.115 52.632 0.00 0.00 0.00 2.32
1563 6354 3.594568 CCATGCTGGCACGTCAAT 58.405 55.556 0.00 0.00 0.00 2.57
1579 6370 0.395586 TTGCATGTGGGTCCTATGCC 60.396 55.000 19.25 8.54 44.91 4.40
1714 6554 9.620259 ACAAATTAAGCCTTTTATGGTCAAAAA 57.380 25.926 0.00 0.00 0.00 1.94
1715 6555 9.620259 AACAAATTAAGCCTTTTATGGTCAAAA 57.380 25.926 0.00 0.00 0.00 2.44
1716 6556 9.050601 CAACAAATTAAGCCTTTTATGGTCAAA 57.949 29.630 0.00 0.00 0.00 2.69
1717 6557 8.207545 ACAACAAATTAAGCCTTTTATGGTCAA 58.792 29.630 0.00 0.00 0.00 3.18
1718 6558 7.731054 ACAACAAATTAAGCCTTTTATGGTCA 58.269 30.769 0.00 0.00 0.00 4.02
1719 6559 9.353999 CTACAACAAATTAAGCCTTTTATGGTC 57.646 33.333 0.00 0.00 0.00 4.02
1720 6560 9.084533 TCTACAACAAATTAAGCCTTTTATGGT 57.915 29.630 0.00 0.00 0.00 3.55
1721 6561 9.353999 GTCTACAACAAATTAAGCCTTTTATGG 57.646 33.333 0.00 0.00 0.00 2.74
1722 6562 9.061610 CGTCTACAACAAATTAAGCCTTTTATG 57.938 33.333 0.00 0.00 0.00 1.90
1723 6563 9.005777 TCGTCTACAACAAATTAAGCCTTTTAT 57.994 29.630 0.00 0.00 0.00 1.40
1724 6564 8.380743 TCGTCTACAACAAATTAAGCCTTTTA 57.619 30.769 0.00 0.00 0.00 1.52
1725 6565 7.266922 TCGTCTACAACAAATTAAGCCTTTT 57.733 32.000 0.00 0.00 0.00 2.27
1726 6566 6.870971 TCGTCTACAACAAATTAAGCCTTT 57.129 33.333 0.00 0.00 0.00 3.11
1780 6620 8.765044 AAAATAAAAACAATCATGTGCAAACG 57.235 26.923 0.00 0.00 40.46 3.60
2108 6951 7.672983 ACTGAGATCGACATTTGTTTTGTAT 57.327 32.000 0.00 0.00 0.00 2.29
2146 6989 1.537202 AGAGAATCCAGTTTGCAACGC 59.463 47.619 0.00 0.00 33.66 4.84
2164 7007 9.244799 CAACATAAGCGTAGTTTACATCATAGA 57.755 33.333 0.00 0.00 35.72 1.98
2196 7039 5.833131 GGCCAGGGATGATAGTTTTGATTTA 59.167 40.000 0.00 0.00 0.00 1.40
2200 7043 2.852449 AGGCCAGGGATGATAGTTTTGA 59.148 45.455 5.01 0.00 0.00 2.69
2212 7055 1.918467 CTTGATGCAGAGGCCAGGGA 61.918 60.000 5.01 0.00 40.13 4.20
2213 7056 1.453379 CTTGATGCAGAGGCCAGGG 60.453 63.158 5.01 0.00 40.13 4.45
2214 7057 2.119655 GCTTGATGCAGAGGCCAGG 61.120 63.158 5.01 0.00 42.31 4.45
2215 7058 2.470362 CGCTTGATGCAGAGGCCAG 61.470 63.158 5.01 0.00 43.06 4.85
2216 7059 2.261430 ATCGCTTGATGCAGAGGCCA 62.261 55.000 5.01 0.00 43.06 5.36
2217 7060 1.525535 ATCGCTTGATGCAGAGGCC 60.526 57.895 0.00 0.00 43.06 5.19
2218 7061 1.647629 CATCGCTTGATGCAGAGGC 59.352 57.895 0.00 0.00 42.78 4.70
2226 7069 4.906065 AATATTGTGTGCATCGCTTGAT 57.094 36.364 0.00 0.00 0.00 2.57
2228 7071 5.799435 TGTTTAATATTGTGTGCATCGCTTG 59.201 36.000 0.00 0.00 0.00 4.01
2229 7072 5.948588 TGTTTAATATTGTGTGCATCGCTT 58.051 33.333 0.00 0.00 0.00 4.68
2245 7088 9.127277 ACCGGTATGCTATTATTGTTGTTTAAT 57.873 29.630 4.49 0.00 0.00 1.40
2246 7089 8.508883 ACCGGTATGCTATTATTGTTGTTTAA 57.491 30.769 4.49 0.00 0.00 1.52
2247 7090 9.610705 TTACCGGTATGCTATTATTGTTGTTTA 57.389 29.630 16.67 0.00 0.00 2.01
2248 7091 8.508883 TTACCGGTATGCTATTATTGTTGTTT 57.491 30.769 16.67 0.00 0.00 2.83
2249 7092 8.564574 CATTACCGGTATGCTATTATTGTTGTT 58.435 33.333 16.67 0.00 0.00 2.83
2250 7093 7.717875 ACATTACCGGTATGCTATTATTGTTGT 59.282 33.333 16.67 0.00 0.00 3.32
2251 7094 8.094798 ACATTACCGGTATGCTATTATTGTTG 57.905 34.615 16.67 0.00 0.00 3.33
2252 7095 9.953565 ATACATTACCGGTATGCTATTATTGTT 57.046 29.630 16.67 0.00 30.56 2.83
2257 7100 9.650714 ATCCTATACATTACCGGTATGCTATTA 57.349 33.333 16.67 0.00 33.68 0.98


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

AutoCloner maintained by Alex Coulton.