Multiple sequence alignment - TraesCS1D01G142800

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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 TraesCS1D01G142800 chr1D 100.000 2946 0 0 1 2946 198166815 198169760 0.000000e+00 5441.0
1 TraesCS1D01G142800 chr3B 96.215 2061 41 9 224 2274 463458616 463456583 0.000000e+00 3339.0
2 TraesCS1D01G142800 chr3B 96.214 1981 33 8 301 2274 455509360 455511305 0.000000e+00 3205.0
3 TraesCS1D01G142800 chr3B 97.781 631 11 3 2318 2946 463456580 463455951 0.000000e+00 1085.0
4 TraesCS1D01G142800 chr3B 97.284 626 16 1 2318 2943 455511308 455511932 0.000000e+00 1061.0
5 TraesCS1D01G142800 chr7A 94.839 1395 26 6 1556 2946 471813390 471812038 0.000000e+00 2135.0
6 TraesCS1D01G142800 chr7A 95.278 1313 30 9 224 1517 471814680 471813381 0.000000e+00 2052.0
7 TraesCS1D01G142800 chr7A 97.980 99 2 0 112 210 471814972 471814874 3.900000e-39 172.0
8 TraesCS1D01G142800 chr6B 79.487 1755 249 60 484 2159 652522678 652520956 0.000000e+00 1144.0
9 TraesCS1D01G142800 chr6A 79.288 1685 251 57 484 2107 578701674 578700027 0.000000e+00 1088.0
10 TraesCS1D01G142800 chr6A 77.875 1713 277 56 440 2076 578926006 578927692 0.000000e+00 970.0
11 TraesCS1D01G142800 chr6D 78.748 1614 239 60 560 2107 432672610 432671035 0.000000e+00 985.0
12 TraesCS1D01G142800 chr6D 77.373 1812 289 78 482 2227 432810577 432812333 0.000000e+00 963.0
13 TraesCS1D01G142800 chr7B 79.783 277 52 4 1442 1716 12953022 12953296 6.440000e-47 198.0
14 TraesCS1D01G142800 chr7B 85.714 63 8 1 29 90 95423050 95423112 6.820000e-07 65.8
15 TraesCS1D01G142800 chr7B 92.500 40 3 0 51 90 64443710 64443749 1.140000e-04 58.4
16 TraesCS1D01G142800 chr5D 85.882 85 10 2 7 90 520426776 520426859 4.040000e-14 89.8
17 TraesCS1D01G142800 chr2D 91.379 58 4 1 34 90 192069240 192069297 8.750000e-11 78.7
18 TraesCS1D01G142800 chr2D 88.060 67 7 1 25 90 325762297 325762231 8.750000e-11 78.7
19 TraesCS1D01G142800 chr2D 100.000 38 0 0 53 90 448693942 448693979 1.460000e-08 71.3
20 TraesCS1D01G142800 chr2D 97.143 35 1 0 55 89 582692515 582692549 3.170000e-05 60.2
21 TraesCS1D01G142800 chr1A 100.000 38 0 0 53 90 586083837 586083874 1.460000e-08 71.3
22 TraesCS1D01G142800 chr3D 97.368 38 1 0 53 90 427049271 427049308 6.820000e-07 65.8


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 TraesCS1D01G142800 chr1D 198166815 198169760 2945 False 5441 5441 100.000000 1 2946 1 chr1D.!!$F1 2945
1 TraesCS1D01G142800 chr3B 463455951 463458616 2665 True 2212 3339 96.998000 224 2946 2 chr3B.!!$R1 2722
2 TraesCS1D01G142800 chr3B 455509360 455511932 2572 False 2133 3205 96.749000 301 2943 2 chr3B.!!$F1 2642
3 TraesCS1D01G142800 chr7A 471812038 471814972 2934 True 1453 2135 96.032333 112 2946 3 chr7A.!!$R1 2834
4 TraesCS1D01G142800 chr6B 652520956 652522678 1722 True 1144 1144 79.487000 484 2159 1 chr6B.!!$R1 1675
5 TraesCS1D01G142800 chr6A 578700027 578701674 1647 True 1088 1088 79.288000 484 2107 1 chr6A.!!$R1 1623
6 TraesCS1D01G142800 chr6A 578926006 578927692 1686 False 970 970 77.875000 440 2076 1 chr6A.!!$F1 1636
7 TraesCS1D01G142800 chr6D 432671035 432672610 1575 True 985 985 78.748000 560 2107 1 chr6D.!!$R1 1547
8 TraesCS1D01G142800 chr6D 432810577 432812333 1756 False 963 963 77.373000 482 2227 1 chr6D.!!$F1 1745

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
54 55 0.103755 GCATCGCAGATGTGAGAGGA 59.896 55.0 12.23 0.0 45.12 3.71 F
65 66 0.175073 GTGAGAGGAAACCCGCGTAT 59.825 55.0 4.92 0.0 0.00 3.06 F
1329 1562 0.178973 TCGTGGAGTCTGGTGGAAGA 60.179 55.0 0.00 0.0 0.00 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1386 1650 0.823460 AGAGCCTGAAGACTGCTAGC 59.177 55.000 8.10 8.1 34.99 3.42 R
1917 2194 2.324330 CGTGGAATCCGCACTTGCA 61.324 57.895 13.77 0.0 42.21 4.08 R
2426 2729 1.302907 ATCTTCAGGTTCATGCCCCT 58.697 50.000 0.00 0.0 0.00 4.79 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
21 22 3.116079 TGTCTCCTACAAACCGTTTCC 57.884 47.619 0.00 0.00 34.29 3.13
22 23 2.064014 GTCTCCTACAAACCGTTTCCG 58.936 52.381 0.00 0.00 0.00 4.30
23 24 1.688197 TCTCCTACAAACCGTTTCCGT 59.312 47.619 0.00 0.00 0.00 4.69
24 25 2.102925 TCTCCTACAAACCGTTTCCGTT 59.897 45.455 0.00 0.00 0.00 4.44
25 26 2.874086 CTCCTACAAACCGTTTCCGTTT 59.126 45.455 0.00 0.00 0.00 3.60
26 27 4.057432 CTCCTACAAACCGTTTCCGTTTA 58.943 43.478 0.00 0.00 0.00 2.01
27 28 4.640364 TCCTACAAACCGTTTCCGTTTAT 58.360 39.130 0.00 0.00 0.00 1.40
28 29 5.788450 TCCTACAAACCGTTTCCGTTTATA 58.212 37.500 0.00 0.00 0.00 0.98
29 30 6.405538 TCCTACAAACCGTTTCCGTTTATAT 58.594 36.000 0.00 0.00 0.00 0.86
30 31 7.551585 TCCTACAAACCGTTTCCGTTTATATA 58.448 34.615 0.00 0.00 0.00 0.86
31 32 7.491048 TCCTACAAACCGTTTCCGTTTATATAC 59.509 37.037 0.00 0.00 0.00 1.47
32 33 7.277539 CCTACAAACCGTTTCCGTTTATATACA 59.722 37.037 0.00 0.00 0.00 2.29
33 34 7.064060 ACAAACCGTTTCCGTTTATATACAG 57.936 36.000 0.00 0.00 0.00 2.74
34 35 6.092533 ACAAACCGTTTCCGTTTATATACAGG 59.907 38.462 0.00 0.00 0.00 4.00
35 36 4.696455 ACCGTTTCCGTTTATATACAGGG 58.304 43.478 1.84 1.84 0.00 4.45
36 37 3.495753 CCGTTTCCGTTTATATACAGGGC 59.504 47.826 3.22 0.00 0.00 5.19
37 38 4.121317 CGTTTCCGTTTATATACAGGGCA 58.879 43.478 3.22 0.00 0.00 5.36
38 39 4.753107 CGTTTCCGTTTATATACAGGGCAT 59.247 41.667 3.22 0.00 0.00 4.40
39 40 5.107220 CGTTTCCGTTTATATACAGGGCATC 60.107 44.000 3.22 0.00 0.00 3.91
40 41 4.182693 TCCGTTTATATACAGGGCATCG 57.817 45.455 3.22 0.00 0.00 3.84
41 42 2.671396 CCGTTTATATACAGGGCATCGC 59.329 50.000 0.00 0.00 0.00 4.58
42 43 3.322369 CGTTTATATACAGGGCATCGCA 58.678 45.455 0.00 0.00 0.00 5.10
43 44 3.367932 CGTTTATATACAGGGCATCGCAG 59.632 47.826 0.00 0.00 0.00 5.18
44 45 4.566004 GTTTATATACAGGGCATCGCAGA 58.434 43.478 0.00 0.00 45.75 4.26
45 46 5.178797 GTTTATATACAGGGCATCGCAGAT 58.821 41.667 0.00 0.00 45.12 2.90
46 47 2.749280 TATACAGGGCATCGCAGATG 57.251 50.000 12.35 12.35 45.12 2.90
47 48 0.761187 ATACAGGGCATCGCAGATGT 59.239 50.000 16.26 4.47 45.12 3.06
48 49 0.179076 TACAGGGCATCGCAGATGTG 60.179 55.000 16.26 11.03 45.12 3.21
49 50 1.153309 CAGGGCATCGCAGATGTGA 60.153 57.895 16.26 0.00 45.12 3.58
50 51 1.145598 AGGGCATCGCAGATGTGAG 59.854 57.895 16.26 0.00 45.12 3.51
51 52 1.144716 GGGCATCGCAGATGTGAGA 59.855 57.895 16.26 0.00 45.12 3.27
52 53 0.879400 GGGCATCGCAGATGTGAGAG 60.879 60.000 16.26 0.00 45.12 3.20
53 54 0.879400 GGCATCGCAGATGTGAGAGG 60.879 60.000 16.26 3.90 45.12 3.69
54 55 0.103755 GCATCGCAGATGTGAGAGGA 59.896 55.000 12.23 0.00 45.12 3.71
55 56 1.472201 GCATCGCAGATGTGAGAGGAA 60.472 52.381 12.23 0.00 45.12 3.36
56 57 2.897436 CATCGCAGATGTGAGAGGAAA 58.103 47.619 2.03 0.00 45.12 3.13
57 58 2.370281 TCGCAGATGTGAGAGGAAAC 57.630 50.000 0.00 0.00 0.00 2.78
58 59 1.066858 TCGCAGATGTGAGAGGAAACC 60.067 52.381 0.00 0.00 0.00 3.27
59 60 1.743996 GCAGATGTGAGAGGAAACCC 58.256 55.000 0.00 0.00 0.00 4.11
60 61 2.009042 GCAGATGTGAGAGGAAACCCG 61.009 57.143 0.00 0.00 0.00 5.28
61 62 0.250513 AGATGTGAGAGGAAACCCGC 59.749 55.000 0.00 0.00 0.00 6.13
62 63 1.079127 ATGTGAGAGGAAACCCGCG 60.079 57.895 0.00 0.00 0.00 6.46
63 64 1.827399 ATGTGAGAGGAAACCCGCGT 61.827 55.000 4.92 0.00 0.00 6.01
64 65 1.180456 TGTGAGAGGAAACCCGCGTA 61.180 55.000 4.92 0.00 0.00 4.42
65 66 0.175073 GTGAGAGGAAACCCGCGTAT 59.825 55.000 4.92 0.00 0.00 3.06
66 67 0.899720 TGAGAGGAAACCCGCGTATT 59.100 50.000 4.92 0.00 0.00 1.89
67 68 1.134907 TGAGAGGAAACCCGCGTATTC 60.135 52.381 4.92 6.29 0.00 1.75
68 69 0.899720 AGAGGAAACCCGCGTATTCA 59.100 50.000 4.92 0.00 0.00 2.57
69 70 1.004595 GAGGAAACCCGCGTATTCAC 58.995 55.000 4.92 1.59 0.00 3.18
78 79 4.211986 CGTATTCACGGGTTGGGG 57.788 61.111 0.00 0.00 44.59 4.96
79 80 2.110352 CGTATTCACGGGTTGGGGC 61.110 63.158 0.00 0.00 44.59 5.80
80 81 1.751544 GTATTCACGGGTTGGGGCC 60.752 63.158 0.00 0.00 0.00 5.80
81 82 3.332445 TATTCACGGGTTGGGGCCG 62.332 63.158 0.00 0.00 0.00 6.13
86 87 4.109675 CGGGTTGGGGCCGAGATT 62.110 66.667 0.00 0.00 0.00 2.40
87 88 2.359011 GGGTTGGGGCCGAGATTT 59.641 61.111 0.00 0.00 0.00 2.17
88 89 1.304962 GGGTTGGGGCCGAGATTTT 60.305 57.895 0.00 0.00 0.00 1.82
89 90 1.604147 GGGTTGGGGCCGAGATTTTG 61.604 60.000 0.00 0.00 0.00 2.44
90 91 0.610785 GGTTGGGGCCGAGATTTTGA 60.611 55.000 0.00 0.00 0.00 2.69
91 92 0.811281 GTTGGGGCCGAGATTTTGAG 59.189 55.000 0.00 0.00 0.00 3.02
92 93 0.965363 TTGGGGCCGAGATTTTGAGC 60.965 55.000 0.00 0.00 0.00 4.26
93 94 2.472909 GGGGCCGAGATTTTGAGCG 61.473 63.158 0.00 0.00 0.00 5.03
94 95 1.449601 GGGCCGAGATTTTGAGCGA 60.450 57.895 0.00 0.00 0.00 4.93
95 96 0.815615 GGGCCGAGATTTTGAGCGAT 60.816 55.000 0.00 0.00 0.00 4.58
96 97 0.583917 GGCCGAGATTTTGAGCGATC 59.416 55.000 0.00 0.00 0.00 3.69
97 98 1.576356 GCCGAGATTTTGAGCGATCT 58.424 50.000 0.90 0.00 35.41 2.75
98 99 1.260033 GCCGAGATTTTGAGCGATCTG 59.740 52.381 0.90 0.00 32.96 2.90
99 100 1.260033 CCGAGATTTTGAGCGATCTGC 59.740 52.381 0.90 1.92 46.98 4.26
108 109 3.096791 GCGATCTGCTGGAGTTGC 58.903 61.111 0.00 0.00 41.73 4.17
109 110 1.449246 GCGATCTGCTGGAGTTGCT 60.449 57.895 0.00 0.00 41.73 3.91
110 111 1.427592 GCGATCTGCTGGAGTTGCTC 61.428 60.000 0.00 0.00 41.73 4.26
126 127 2.746269 TGCTCTAACCGTGTGTTACAC 58.254 47.619 8.76 8.76 45.26 2.90
210 211 2.058675 CCTCGTCAGGTTGTTCCCT 58.941 57.895 0.00 0.00 34.60 4.20
211 212 1.263356 CCTCGTCAGGTTGTTCCCTA 58.737 55.000 0.00 0.00 34.60 3.53
213 214 1.893801 CTCGTCAGGTTGTTCCCTACT 59.106 52.381 0.00 0.00 36.75 2.57
214 215 2.299297 CTCGTCAGGTTGTTCCCTACTT 59.701 50.000 0.00 0.00 36.75 2.24
215 216 2.298163 TCGTCAGGTTGTTCCCTACTTC 59.702 50.000 0.00 0.00 36.75 3.01
217 218 2.638363 GTCAGGTTGTTCCCTACTTCCT 59.362 50.000 0.00 0.00 36.75 3.36
219 220 2.637872 CAGGTTGTTCCCTACTTCCTCA 59.362 50.000 0.00 0.00 36.75 3.86
222 223 4.717280 AGGTTGTTCCCTACTTCCTCATAG 59.283 45.833 0.00 0.00 36.75 2.23
375 556 3.933332 CTGTATAAAATAGCTAGCGGGGC 59.067 47.826 9.55 0.00 0.00 5.80
511 700 0.951558 GAAGGAAGCGAAAAGGTGCA 59.048 50.000 0.00 0.00 0.00 4.57
569 758 3.937062 CGCAAGTAATCGGCGGCC 61.937 66.667 9.54 9.54 46.46 6.13
887 1083 3.524648 TTGGCTTCACCGACGGACC 62.525 63.158 23.38 13.52 43.94 4.46
916 1112 4.873810 TGCACAAGCGCACCACCT 62.874 61.111 11.47 0.00 46.23 4.00
917 1113 3.595758 GCACAAGCGCACCACCTT 61.596 61.111 11.47 0.00 0.00 3.50
1240 1461 0.327000 CCCTCCTCCCAGACAGGAAT 60.327 60.000 0.00 0.00 39.69 3.01
1329 1562 0.178973 TCGTGGAGTCTGGTGGAAGA 60.179 55.000 0.00 0.00 0.00 2.87
1342 1575 0.321346 TGGAAGAATGCTGCTCGTCA 59.679 50.000 0.00 0.00 0.00 4.35
1386 1650 2.435693 GGAGATGGACTGGTCGGGG 61.436 68.421 0.00 0.00 0.00 5.73
1438 1705 2.047274 GCAGCCAGCGGTGTAAGA 60.047 61.111 14.40 0.00 39.77 2.10
1550 1817 3.008375 AGCAGCAACTCCATCTACTTCAA 59.992 43.478 0.00 0.00 0.00 2.69
1805 2082 9.944663 TGGATGTATGTTTAATTCTAATTTCGC 57.055 29.630 0.00 0.00 0.00 4.70
2027 2320 3.989817 GGCAATAAAGGCACAACTTCTTG 59.010 43.478 0.00 0.00 0.00 3.02
2095 2388 4.118410 GGCAGTCTCTGTGTTGATATCAG 58.882 47.826 5.39 0.00 33.43 2.90
2249 2551 9.658799 GAGTAATATGGCTATGATTTAAGAGCA 57.341 33.333 0.00 0.00 36.63 4.26
2371 2673 5.515797 TGAGTGACCTAATCTTATGACCG 57.484 43.478 0.00 0.00 0.00 4.79
2426 2729 4.444022 GGCAGCATATGGAGAAGAAGAGAA 60.444 45.833 4.56 0.00 0.00 2.87
2653 2957 3.583054 CATGTGACCTTCATGGCCT 57.417 52.632 3.32 0.00 38.97 5.19
2717 3021 4.816385 GGATTATCGTCCTTGCATCAAAGA 59.184 41.667 0.00 0.00 35.32 2.52
2727 3031 3.632643 TGCATCAAAGATACTGCAGGA 57.367 42.857 19.93 10.84 39.54 3.86
2728 3032 4.160642 TGCATCAAAGATACTGCAGGAT 57.839 40.909 12.48 12.48 39.54 3.24
2942 3248 9.823647 TGACTTGGTTTTCTTTATTTATTTGCA 57.176 25.926 0.00 0.00 0.00 4.08
2945 3251 7.644986 TGGTTTTCTTTATTTATTTGCACGG 57.355 32.000 0.00 0.00 0.00 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.671716 GGAAACGGTTTGTAGGAGACAT 58.328 45.455 11.43 0.00 38.07 3.06
1 2 3.116079 GGAAACGGTTTGTAGGAGACA 57.884 47.619 11.43 0.00 35.78 3.41
16 17 5.107220 CGATGCCCTGTATATAAACGGAAAC 60.107 44.000 0.00 0.00 0.00 2.78
17 18 4.992319 CGATGCCCTGTATATAAACGGAAA 59.008 41.667 0.00 0.00 0.00 3.13
18 19 4.562082 CGATGCCCTGTATATAAACGGAA 58.438 43.478 0.00 0.00 0.00 4.30
19 20 3.615592 GCGATGCCCTGTATATAAACGGA 60.616 47.826 0.00 0.00 0.00 4.69
20 21 2.671396 GCGATGCCCTGTATATAAACGG 59.329 50.000 0.00 0.00 0.00 4.44
21 22 3.322369 TGCGATGCCCTGTATATAAACG 58.678 45.455 0.00 0.00 0.00 3.60
22 23 4.566004 TCTGCGATGCCCTGTATATAAAC 58.434 43.478 0.00 0.00 0.00 2.01
23 24 4.882842 TCTGCGATGCCCTGTATATAAA 57.117 40.909 0.00 0.00 0.00 1.40
24 25 4.222810 ACATCTGCGATGCCCTGTATATAA 59.777 41.667 15.41 0.00 0.00 0.98
25 26 3.769300 ACATCTGCGATGCCCTGTATATA 59.231 43.478 15.41 0.00 0.00 0.86
26 27 2.568956 ACATCTGCGATGCCCTGTATAT 59.431 45.455 15.41 0.00 0.00 0.86
27 28 1.970640 ACATCTGCGATGCCCTGTATA 59.029 47.619 15.41 0.00 0.00 1.47
28 29 0.761187 ACATCTGCGATGCCCTGTAT 59.239 50.000 15.41 0.00 0.00 2.29
29 30 0.179076 CACATCTGCGATGCCCTGTA 60.179 55.000 15.41 0.00 0.00 2.74
30 31 1.450848 CACATCTGCGATGCCCTGT 60.451 57.895 15.41 0.00 0.00 4.00
31 32 1.153309 TCACATCTGCGATGCCCTG 60.153 57.895 15.41 8.89 0.00 4.45
32 33 1.145598 CTCACATCTGCGATGCCCT 59.854 57.895 15.41 0.00 0.00 5.19
33 34 0.879400 CTCTCACATCTGCGATGCCC 60.879 60.000 15.41 0.00 0.00 5.36
34 35 0.879400 CCTCTCACATCTGCGATGCC 60.879 60.000 15.41 0.00 0.00 4.40
35 36 0.103755 TCCTCTCACATCTGCGATGC 59.896 55.000 15.41 0.00 0.00 3.91
36 37 2.591571 TTCCTCTCACATCTGCGATG 57.408 50.000 14.34 14.34 0.00 3.84
37 38 2.419297 GGTTTCCTCTCACATCTGCGAT 60.419 50.000 0.00 0.00 0.00 4.58
38 39 1.066858 GGTTTCCTCTCACATCTGCGA 60.067 52.381 0.00 0.00 0.00 5.10
39 40 1.363744 GGTTTCCTCTCACATCTGCG 58.636 55.000 0.00 0.00 0.00 5.18
40 41 1.743996 GGGTTTCCTCTCACATCTGC 58.256 55.000 0.00 0.00 0.00 4.26
41 42 2.009042 GCGGGTTTCCTCTCACATCTG 61.009 57.143 0.00 0.00 0.00 2.90
42 43 0.250513 GCGGGTTTCCTCTCACATCT 59.749 55.000 0.00 0.00 0.00 2.90
43 44 1.084370 CGCGGGTTTCCTCTCACATC 61.084 60.000 0.00 0.00 0.00 3.06
44 45 1.079127 CGCGGGTTTCCTCTCACAT 60.079 57.895 0.00 0.00 0.00 3.21
45 46 1.180456 TACGCGGGTTTCCTCTCACA 61.180 55.000 11.50 0.00 0.00 3.58
46 47 0.175073 ATACGCGGGTTTCCTCTCAC 59.825 55.000 11.50 0.00 0.00 3.51
47 48 0.899720 AATACGCGGGTTTCCTCTCA 59.100 50.000 11.50 0.00 0.00 3.27
48 49 1.134907 TGAATACGCGGGTTTCCTCTC 60.135 52.381 11.50 0.00 0.00 3.20
49 50 0.899720 TGAATACGCGGGTTTCCTCT 59.100 50.000 11.50 0.00 0.00 3.69
50 51 1.004595 GTGAATACGCGGGTTTCCTC 58.995 55.000 11.50 3.38 0.00 3.71
51 52 0.738412 CGTGAATACGCGGGTTTCCT 60.738 55.000 11.50 0.00 44.11 3.36
52 53 1.711500 CGTGAATACGCGGGTTTCC 59.289 57.895 11.50 7.82 44.11 3.13
62 63 1.751544 GGCCCCAACCCGTGAATAC 60.752 63.158 0.00 0.00 0.00 1.89
63 64 2.678470 GGCCCCAACCCGTGAATA 59.322 61.111 0.00 0.00 0.00 1.75
64 65 4.733542 CGGCCCCAACCCGTGAAT 62.734 66.667 0.00 0.00 40.84 2.57
69 70 3.638592 AAATCTCGGCCCCAACCCG 62.639 63.158 0.00 0.00 46.88 5.28
70 71 1.304962 AAAATCTCGGCCCCAACCC 60.305 57.895 0.00 0.00 0.00 4.11
71 72 0.610785 TCAAAATCTCGGCCCCAACC 60.611 55.000 0.00 0.00 0.00 3.77
72 73 0.811281 CTCAAAATCTCGGCCCCAAC 59.189 55.000 0.00 0.00 0.00 3.77
73 74 0.965363 GCTCAAAATCTCGGCCCCAA 60.965 55.000 0.00 0.00 0.00 4.12
74 75 1.378514 GCTCAAAATCTCGGCCCCA 60.379 57.895 0.00 0.00 0.00 4.96
75 76 2.472909 CGCTCAAAATCTCGGCCCC 61.473 63.158 0.00 0.00 0.00 5.80
76 77 0.815615 ATCGCTCAAAATCTCGGCCC 60.816 55.000 0.00 0.00 0.00 5.80
77 78 0.583917 GATCGCTCAAAATCTCGGCC 59.416 55.000 0.00 0.00 0.00 6.13
78 79 1.260033 CAGATCGCTCAAAATCTCGGC 59.740 52.381 0.00 0.00 29.77 5.54
79 80 1.260033 GCAGATCGCTCAAAATCTCGG 59.740 52.381 2.84 0.00 37.77 4.63
80 81 2.642124 GCAGATCGCTCAAAATCTCG 57.358 50.000 2.84 0.00 37.77 4.04
91 92 1.427592 GAGCAACTCCAGCAGATCGC 61.428 60.000 1.92 1.92 42.91 4.58
92 93 0.175302 AGAGCAACTCCAGCAGATCG 59.825 55.000 0.00 0.00 0.00 3.69
93 94 3.194062 GTTAGAGCAACTCCAGCAGATC 58.806 50.000 0.00 0.00 34.06 2.75
94 95 2.093235 GGTTAGAGCAACTCCAGCAGAT 60.093 50.000 0.00 0.00 37.30 2.90
95 96 1.276421 GGTTAGAGCAACTCCAGCAGA 59.724 52.381 0.00 0.00 37.30 4.26
96 97 1.731720 GGTTAGAGCAACTCCAGCAG 58.268 55.000 0.00 0.00 37.30 4.24
97 98 0.037326 CGGTTAGAGCAACTCCAGCA 60.037 55.000 0.00 0.00 37.30 4.41
98 99 0.037232 ACGGTTAGAGCAACTCCAGC 60.037 55.000 0.00 0.00 37.30 4.85
99 100 1.000955 ACACGGTTAGAGCAACTCCAG 59.999 52.381 0.00 0.00 37.30 3.86
100 101 1.045407 ACACGGTTAGAGCAACTCCA 58.955 50.000 0.00 0.00 37.30 3.86
101 102 1.270147 ACACACGGTTAGAGCAACTCC 60.270 52.381 0.00 0.00 37.30 3.85
102 103 2.150397 ACACACGGTTAGAGCAACTC 57.850 50.000 0.00 0.00 37.30 3.01
103 104 2.614829 AACACACGGTTAGAGCAACT 57.385 45.000 0.00 0.00 38.15 3.16
104 105 3.060070 GTGTAACACACGGTTAGAGCAAC 60.060 47.826 0.00 0.00 42.44 4.17
105 106 3.125316 GTGTAACACACGGTTAGAGCAA 58.875 45.455 0.00 0.00 42.44 3.91
106 107 2.746269 GTGTAACACACGGTTAGAGCA 58.254 47.619 0.00 0.00 42.44 4.26
210 211 9.584008 AGGATTACGATTTACTATGAGGAAGTA 57.416 33.333 0.00 0.00 0.00 2.24
211 212 8.480133 AGGATTACGATTTACTATGAGGAAGT 57.520 34.615 0.00 0.00 0.00 3.01
213 214 7.039223 GGGAGGATTACGATTTACTATGAGGAA 60.039 40.741 0.00 0.00 0.00 3.36
214 215 6.436532 GGGAGGATTACGATTTACTATGAGGA 59.563 42.308 0.00 0.00 0.00 3.71
215 216 6.351117 GGGGAGGATTACGATTTACTATGAGG 60.351 46.154 0.00 0.00 0.00 3.86
217 218 6.320518 AGGGGAGGATTACGATTTACTATGA 58.679 40.000 0.00 0.00 0.00 2.15
219 220 6.563163 AGAGGGGAGGATTACGATTTACTAT 58.437 40.000 0.00 0.00 0.00 2.12
222 223 4.833938 AGAGAGGGGAGGATTACGATTTAC 59.166 45.833 0.00 0.00 0.00 2.01
511 700 2.251642 GGCGAGCGTTGTCAAGGTT 61.252 57.895 7.09 0.74 0.00 3.50
887 1083 0.742281 CTTGTGCACGAGGATGAGGG 60.742 60.000 24.34 0.00 0.00 4.30
1240 1461 1.550524 CACCACAGAATTCTCGAGGGA 59.449 52.381 13.56 1.90 0.00 4.20
1386 1650 0.823460 AGAGCCTGAAGACTGCTAGC 59.177 55.000 8.10 8.10 34.99 3.42
1438 1705 3.778629 ACTAAGGTGTTCACCGGGATAAT 59.221 43.478 15.07 0.00 34.28 1.28
1611 1878 3.684305 CGTCATGTATTTTGCAGGACTCA 59.316 43.478 8.34 0.00 43.04 3.41
1805 2082 4.342862 TGTTGAGGAAGAGAAGGACAAG 57.657 45.455 0.00 0.00 0.00 3.16
1917 2194 2.324330 CGTGGAATCCGCACTTGCA 61.324 57.895 13.77 0.00 42.21 4.08
2095 2388 9.793252 AGTCAAATATGCAAGAAATGATAACAC 57.207 29.630 0.00 0.00 0.00 3.32
2249 2551 8.193953 ACAGAAGTGGATAATGAAATTGGTTT 57.806 30.769 0.00 0.00 36.99 3.27
2369 2671 3.929610 ACAATTGGTGTTCACAAAAACGG 59.070 39.130 10.83 0.00 37.01 4.44
2426 2729 1.302907 ATCTTCAGGTTCATGCCCCT 58.697 50.000 0.00 0.00 0.00 4.79
2717 3021 4.675408 CGCGACACATATATCCTGCAGTAT 60.675 45.833 13.81 4.73 0.00 2.12
2727 3031 9.433317 CAAGAAAAATTAACGCGACACATATAT 57.567 29.630 15.93 0.00 0.00 0.86
2728 3032 8.444715 ACAAGAAAAATTAACGCGACACATATA 58.555 29.630 15.93 0.00 0.00 0.86


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

AutoCloner maintained by Alex Coulton.