Multiple sequence alignment - TraesCS5A01G164800

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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 TraesCS5A01G164800 chr5A 100.000 1507 0 0 1 1507 353596942 353598448 0.000000e+00 2784.0
1 TraesCS5A01G164800 chr5A 100.000 385 0 0 1937 2321 353598878 353599262 0.000000e+00 712.0
2 TraesCS5A01G164800 chr6B 99.188 985 7 1 524 1507 551036114 551035130 0.000000e+00 1773.0
3 TraesCS5A01G164800 chr4A 98.927 932 6 2 576 1507 10534976 10534049 0.000000e+00 1663.0
4 TraesCS5A01G164800 chr3A 92.832 851 59 1 657 1507 642168525 642169373 0.000000e+00 1232.0
5 TraesCS5A01G164800 chr3A 97.778 45 1 0 583 627 642168482 642168526 6.880000e-11 78.7
6 TraesCS5A01G164800 chr5B 91.327 392 27 5 1937 2321 301204565 301204174 1.580000e-146 529.0
7 TraesCS5A01G164800 chr5B 91.536 319 23 4 210 525 301204880 301204563 9.850000e-119 436.0
8 TraesCS5A01G164800 chr5B 93.204 103 7 0 98 200 12039948 12040050 3.990000e-33 152.0
9 TraesCS5A01G164800 chr5D 90.585 393 20 5 1937 2321 267083335 267082952 2.660000e-139 505.0
10 TraesCS5A01G164800 chr5D 91.463 328 25 3 199 525 267083658 267083333 4.550000e-122 448.0
11 TraesCS5A01G164800 chr3B 95.563 293 9 2 586 877 293752708 293752419 1.260000e-127 466.0
12 TraesCS5A01G164800 chr3B 83.140 172 15 8 1329 1493 169694146 169693982 6.680000e-31 145.0
13 TraesCS5A01G164800 chr2B 86.647 337 38 5 1163 1495 638764465 638764132 1.310000e-97 366.0
14 TraesCS5A01G164800 chr2B 79.532 171 21 8 45 201 498150790 498150620 2.440000e-20 110.0
15 TraesCS5A01G164800 chr2A 84.078 358 45 4 1133 1480 679270551 679270196 3.700000e-88 335.0
16 TraesCS5A01G164800 chr1B 88.281 128 14 1 81 208 671241068 671241194 3.990000e-33 152.0
17 TraesCS5A01G164800 chr4D 87.097 124 14 2 81 204 315569204 315569325 3.110000e-29 139.0
18 TraesCS5A01G164800 chr4D 86.400 125 17 0 81 205 486536616 486536740 1.120000e-28 137.0
19 TraesCS5A01G164800 chr2D 87.097 124 15 1 81 203 357635269 357635392 3.110000e-29 139.0
20 TraesCS5A01G164800 chr2D 84.286 140 21 1 81 220 8068861 8068723 4.020000e-28 135.0
21 TraesCS5A01G164800 chr2D 81.699 153 17 4 210 361 453758773 453758631 1.460000e-22 117.0
22 TraesCS5A01G164800 chr6A 86.290 124 16 1 81 204 23854255 23854377 1.450000e-27 134.0
23 TraesCS5A01G164800 chr7D 84.328 134 20 1 81 213 62150556 62150689 1.870000e-26 130.0
24 TraesCS5A01G164800 chr7D 84.328 134 20 1 81 213 62152831 62152964 1.870000e-26 130.0
25 TraesCS5A01G164800 chr7D 91.489 47 4 0 1 47 464826679 464826633 5.350000e-07 65.8
26 TraesCS5A01G164800 chr1A 79.245 159 27 5 209 365 314438103 314437949 3.150000e-19 106.0


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 TraesCS5A01G164800 chr5A 353596942 353599262 2320 False 1748.00 2784 100.0000 1 2321 2 chr5A.!!$F1 2320
1 TraesCS5A01G164800 chr6B 551035130 551036114 984 True 1773.00 1773 99.1880 524 1507 1 chr6B.!!$R1 983
2 TraesCS5A01G164800 chr4A 10534049 10534976 927 True 1663.00 1663 98.9270 576 1507 1 chr4A.!!$R1 931
3 TraesCS5A01G164800 chr3A 642168482 642169373 891 False 655.35 1232 95.3050 583 1507 2 chr3A.!!$F1 924
4 TraesCS5A01G164800 chr5B 301204174 301204880 706 True 482.50 529 91.4315 210 2321 2 chr5B.!!$R1 2111
5 TraesCS5A01G164800 chr5D 267082952 267083658 706 True 476.50 505 91.0240 199 2321 2 chr5D.!!$R1 2122

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
405 407 0.042361 CTTCCGATACGACGACGAGG 60.042 60.0 15.32 11.19 42.66 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2034 2043 0.044702 TGGATGGAGTGGAGGTGGAT 59.955 55.0 0.0 0.0 0.0 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
24 25 5.894298 ATATGTGATGTGACCACCTATGT 57.106 39.130 0.00 0.00 33.80 2.29
25 26 3.610040 TGTGATGTGACCACCTATGTC 57.390 47.619 0.00 0.00 33.80 3.06
26 27 2.903135 TGTGATGTGACCACCTATGTCA 59.097 45.455 0.00 0.00 40.28 3.58
31 32 1.568504 TGACCACCTATGTCACTCCC 58.431 55.000 0.00 0.00 37.80 4.30
32 33 1.203250 TGACCACCTATGTCACTCCCA 60.203 52.381 0.00 0.00 37.80 4.37
33 34 1.207329 GACCACCTATGTCACTCCCAC 59.793 57.143 0.00 0.00 32.91 4.61
34 35 1.203313 ACCACCTATGTCACTCCCACT 60.203 52.381 0.00 0.00 0.00 4.00
35 36 1.208052 CCACCTATGTCACTCCCACTG 59.792 57.143 0.00 0.00 0.00 3.66
36 37 1.902508 CACCTATGTCACTCCCACTGT 59.097 52.381 0.00 0.00 0.00 3.55
37 38 1.902508 ACCTATGTCACTCCCACTGTG 59.097 52.381 0.00 0.00 36.82 3.66
38 39 1.208052 CCTATGTCACTCCCACTGTGG 59.792 57.143 20.01 20.01 36.21 4.17
49 50 1.633774 CCACTGTGGGTAGTCTGAGT 58.366 55.000 19.23 0.00 32.67 3.41
50 51 1.273606 CCACTGTGGGTAGTCTGAGTG 59.726 57.143 19.23 0.00 32.67 3.51
51 52 1.273606 CACTGTGGGTAGTCTGAGTGG 59.726 57.143 0.00 0.00 0.00 4.00
52 53 1.147191 ACTGTGGGTAGTCTGAGTGGA 59.853 52.381 0.00 0.00 0.00 4.02
53 54 1.821753 CTGTGGGTAGTCTGAGTGGAG 59.178 57.143 0.00 0.00 0.00 3.86
54 55 1.187087 GTGGGTAGTCTGAGTGGAGG 58.813 60.000 0.00 0.00 0.00 4.30
55 56 1.081481 TGGGTAGTCTGAGTGGAGGA 58.919 55.000 0.00 0.00 0.00 3.71
56 57 1.431633 TGGGTAGTCTGAGTGGAGGAA 59.568 52.381 0.00 0.00 0.00 3.36
57 58 2.104170 GGGTAGTCTGAGTGGAGGAAG 58.896 57.143 0.00 0.00 0.00 3.46
58 59 2.557901 GGGTAGTCTGAGTGGAGGAAGT 60.558 54.545 0.00 0.00 0.00 3.01
59 60 3.308976 GGGTAGTCTGAGTGGAGGAAGTA 60.309 52.174 0.00 0.00 0.00 2.24
60 61 3.949113 GGTAGTCTGAGTGGAGGAAGTAG 59.051 52.174 0.00 0.00 0.00 2.57
61 62 2.452505 AGTCTGAGTGGAGGAAGTAGC 58.547 52.381 0.00 0.00 0.00 3.58
62 63 2.042433 AGTCTGAGTGGAGGAAGTAGCT 59.958 50.000 0.00 0.00 0.00 3.32
63 64 3.267291 AGTCTGAGTGGAGGAAGTAGCTA 59.733 47.826 0.00 0.00 0.00 3.32
64 65 4.017808 GTCTGAGTGGAGGAAGTAGCTAA 58.982 47.826 0.00 0.00 0.00 3.09
65 66 4.017808 TCTGAGTGGAGGAAGTAGCTAAC 58.982 47.826 0.00 0.00 0.00 2.34
66 67 4.020543 CTGAGTGGAGGAAGTAGCTAACT 58.979 47.826 0.00 0.00 41.49 2.24
67 68 5.045066 TCTGAGTGGAGGAAGTAGCTAACTA 60.045 44.000 0.00 0.00 37.50 2.24
68 69 5.767670 TGAGTGGAGGAAGTAGCTAACTAT 58.232 41.667 0.00 0.00 37.50 2.12
69 70 5.828859 TGAGTGGAGGAAGTAGCTAACTATC 59.171 44.000 0.00 0.00 37.50 2.08
70 71 5.767670 AGTGGAGGAAGTAGCTAACTATCA 58.232 41.667 0.00 0.00 37.50 2.15
71 72 6.377912 AGTGGAGGAAGTAGCTAACTATCAT 58.622 40.000 0.00 0.00 37.50 2.45
72 73 6.841755 AGTGGAGGAAGTAGCTAACTATCATT 59.158 38.462 0.00 0.00 37.50 2.57
73 74 7.345914 AGTGGAGGAAGTAGCTAACTATCATTT 59.654 37.037 0.00 0.00 37.50 2.32
74 75 7.988028 GTGGAGGAAGTAGCTAACTATCATTTT 59.012 37.037 0.00 0.00 37.50 1.82
75 76 9.209048 TGGAGGAAGTAGCTAACTATCATTTTA 57.791 33.333 0.00 0.00 37.50 1.52
134 135 9.619316 TCATTAATTTTACCTCGATTGTTGTTG 57.381 29.630 0.00 0.00 0.00 3.33
135 136 9.619316 CATTAATTTTACCTCGATTGTTGTTGA 57.381 29.630 0.00 0.00 0.00 3.18
137 138 9.619316 TTAATTTTACCTCGATTGTTGTTGATG 57.381 29.630 0.00 0.00 0.00 3.07
138 139 6.869315 TTTTACCTCGATTGTTGTTGATGA 57.131 33.333 0.00 0.00 0.00 2.92
139 140 5.856126 TTACCTCGATTGTTGTTGATGAC 57.144 39.130 0.00 0.00 0.00 3.06
140 141 3.074412 ACCTCGATTGTTGTTGATGACC 58.926 45.455 0.00 0.00 0.00 4.02
141 142 3.244561 ACCTCGATTGTTGTTGATGACCT 60.245 43.478 0.00 0.00 0.00 3.85
142 143 3.753272 CCTCGATTGTTGTTGATGACCTT 59.247 43.478 0.00 0.00 0.00 3.50
143 144 4.935205 CCTCGATTGTTGTTGATGACCTTA 59.065 41.667 0.00 0.00 0.00 2.69
144 145 5.586243 CCTCGATTGTTGTTGATGACCTTAT 59.414 40.000 0.00 0.00 0.00 1.73
145 146 6.761242 CCTCGATTGTTGTTGATGACCTTATA 59.239 38.462 0.00 0.00 0.00 0.98
146 147 7.442364 CCTCGATTGTTGTTGATGACCTTATAT 59.558 37.037 0.00 0.00 0.00 0.86
147 148 9.476202 CTCGATTGTTGTTGATGACCTTATATA 57.524 33.333 0.00 0.00 0.00 0.86
148 149 9.476202 TCGATTGTTGTTGATGACCTTATATAG 57.524 33.333 0.00 0.00 0.00 1.31
149 150 9.476202 CGATTGTTGTTGATGACCTTATATAGA 57.524 33.333 0.00 0.00 0.00 1.98
176 177 9.860650 TGTAAAATGTATATTTCATAGTGGCCT 57.139 29.630 3.32 0.00 35.50 5.19
179 180 8.766994 AAATGTATATTTCATAGTGGCCTTGT 57.233 30.769 3.32 0.00 30.85 3.16
180 181 9.860650 AAATGTATATTTCATAGTGGCCTTGTA 57.139 29.630 3.32 0.00 30.85 2.41
188 189 9.914834 ATTTCATAGTGGCCTTGTATAAGTAAA 57.085 29.630 3.32 0.00 31.80 2.01
189 190 9.914834 TTTCATAGTGGCCTTGTATAAGTAAAT 57.085 29.630 3.32 0.00 31.80 1.40
194 195 7.736893 AGTGGCCTTGTATAAGTAAATAGAGG 58.263 38.462 3.32 0.00 31.80 3.69
195 196 6.935208 GTGGCCTTGTATAAGTAAATAGAGGG 59.065 42.308 3.32 0.00 31.80 4.30
196 197 6.847567 TGGCCTTGTATAAGTAAATAGAGGGA 59.152 38.462 3.32 0.00 31.80 4.20
197 198 7.016268 TGGCCTTGTATAAGTAAATAGAGGGAG 59.984 40.741 3.32 0.00 31.80 4.30
198 199 7.016366 GGCCTTGTATAAGTAAATAGAGGGAGT 59.984 40.741 0.00 0.00 31.80 3.85
199 200 9.086758 GCCTTGTATAAGTAAATAGAGGGAGTA 57.913 37.037 0.00 0.00 31.80 2.59
252 253 6.627395 TCTGGCAAAACGAAGAATTTTCTA 57.373 33.333 0.00 0.00 36.28 2.10
340 342 1.530419 TTTTGCCATGCACCCGAGT 60.530 52.632 0.00 0.00 38.71 4.18
389 391 2.682155 TGTTTTTGCCCAACCACTTC 57.318 45.000 0.00 0.00 0.00 3.01
405 407 0.042361 CTTCCGATACGACGACGAGG 60.042 60.000 15.32 11.19 42.66 4.63
490 494 0.393077 CGCCGGAAGAGGGAATATGT 59.607 55.000 5.05 0.00 0.00 2.29
573 577 0.924777 CACACAGCACACGAACGTTA 59.075 50.000 0.00 0.00 0.00 3.18
1977 1986 3.759618 TCTTCCCGAAGTCTCTTCTTCTC 59.240 47.826 4.45 0.00 40.89 2.87
1983 1992 3.359654 GAAGTCTCTTCTTCTCGATCGC 58.640 50.000 11.09 0.00 40.19 4.58
2034 2043 1.669604 CGACGAGATCCTCTTCTCCA 58.330 55.000 0.00 0.00 39.19 3.86
2055 2064 1.219124 CACCTCCACTCCATCCACG 59.781 63.158 0.00 0.00 0.00 4.94
2151 2167 4.651008 GTGGTCACCCGCGACGAA 62.651 66.667 8.23 0.00 36.73 3.85
2156 2172 4.953868 CACCCGCGACGAACACCA 62.954 66.667 8.23 0.00 0.00 4.17
2201 2217 2.286962 TCCCGAGGAGGAGGAGGA 60.287 66.667 0.00 0.00 45.00 3.71
2202 2218 2.197324 CCCGAGGAGGAGGAGGAG 59.803 72.222 0.00 0.00 45.00 3.69
2203 2219 2.197324 CCGAGGAGGAGGAGGAGG 59.803 72.222 0.00 0.00 45.00 4.30
2204 2220 2.387772 CCGAGGAGGAGGAGGAGGA 61.388 68.421 0.00 0.00 45.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.235399 TGACATAGGTGGTCACATCACATATAT 59.765 37.037 3.40 0.00 39.22 0.86
1 2 6.553100 TGACATAGGTGGTCACATCACATATA 59.447 38.462 3.40 0.00 39.22 0.86
2 3 5.366477 TGACATAGGTGGTCACATCACATAT 59.634 40.000 3.40 0.00 41.05 1.78
3 4 4.714308 TGACATAGGTGGTCACATCACATA 59.286 41.667 3.40 0.00 40.16 2.29
5 6 2.903135 TGACATAGGTGGTCACATCACA 59.097 45.455 3.40 0.00 40.16 3.58
6 7 3.610040 TGACATAGGTGGTCACATCAC 57.390 47.619 3.40 0.00 40.16 3.06
13 14 1.207329 GTGGGAGTGACATAGGTGGTC 59.793 57.143 0.00 0.00 35.83 4.02
14 15 1.203313 AGTGGGAGTGACATAGGTGGT 60.203 52.381 0.00 0.00 0.00 4.16
15 16 1.208052 CAGTGGGAGTGACATAGGTGG 59.792 57.143 0.00 0.00 0.00 4.61
16 17 1.902508 ACAGTGGGAGTGACATAGGTG 59.097 52.381 0.00 0.00 0.00 4.00
17 18 1.902508 CACAGTGGGAGTGACATAGGT 59.097 52.381 0.00 0.00 39.30 3.08
18 19 1.208052 CCACAGTGGGAGTGACATAGG 59.792 57.143 12.40 0.00 39.30 2.57
19 20 2.680312 CCACAGTGGGAGTGACATAG 57.320 55.000 12.40 0.00 39.30 2.23
30 31 1.273606 CACTCAGACTACCCACAGTGG 59.726 57.143 13.35 13.35 37.25 4.00
31 32 1.273606 CCACTCAGACTACCCACAGTG 59.726 57.143 0.00 0.00 0.00 3.66
32 33 1.147191 TCCACTCAGACTACCCACAGT 59.853 52.381 0.00 0.00 0.00 3.55
33 34 1.821753 CTCCACTCAGACTACCCACAG 59.178 57.143 0.00 0.00 0.00 3.66
34 35 1.550179 CCTCCACTCAGACTACCCACA 60.550 57.143 0.00 0.00 0.00 4.17
35 36 1.187087 CCTCCACTCAGACTACCCAC 58.813 60.000 0.00 0.00 0.00 4.61
36 37 1.081481 TCCTCCACTCAGACTACCCA 58.919 55.000 0.00 0.00 0.00 4.51
37 38 2.104170 CTTCCTCCACTCAGACTACCC 58.896 57.143 0.00 0.00 0.00 3.69
38 39 2.810164 ACTTCCTCCACTCAGACTACC 58.190 52.381 0.00 0.00 0.00 3.18
39 40 3.379057 GCTACTTCCTCCACTCAGACTAC 59.621 52.174 0.00 0.00 0.00 2.73
40 41 3.267291 AGCTACTTCCTCCACTCAGACTA 59.733 47.826 0.00 0.00 0.00 2.59
41 42 2.042433 AGCTACTTCCTCCACTCAGACT 59.958 50.000 0.00 0.00 0.00 3.24
42 43 2.452505 AGCTACTTCCTCCACTCAGAC 58.547 52.381 0.00 0.00 0.00 3.51
43 44 2.909504 AGCTACTTCCTCCACTCAGA 57.090 50.000 0.00 0.00 0.00 3.27
44 45 4.020543 AGTTAGCTACTTCCTCCACTCAG 58.979 47.826 0.00 0.00 31.29 3.35
45 46 4.048970 AGTTAGCTACTTCCTCCACTCA 57.951 45.455 0.00 0.00 31.29 3.41
46 47 5.828859 TGATAGTTAGCTACTTCCTCCACTC 59.171 44.000 0.00 0.00 38.33 3.51
47 48 5.767670 TGATAGTTAGCTACTTCCTCCACT 58.232 41.667 0.00 0.00 38.33 4.00
48 49 6.658188 ATGATAGTTAGCTACTTCCTCCAC 57.342 41.667 0.00 0.00 38.33 4.02
49 50 7.676683 AAATGATAGTTAGCTACTTCCTCCA 57.323 36.000 0.00 0.00 38.33 3.86
108 109 9.619316 CAACAACAATCGAGGTAAAATTAATGA 57.381 29.630 0.00 0.00 0.00 2.57
109 110 9.619316 TCAACAACAATCGAGGTAAAATTAATG 57.381 29.630 0.00 0.00 0.00 1.90
111 112 9.619316 CATCAACAACAATCGAGGTAAAATTAA 57.381 29.630 0.00 0.00 0.00 1.40
112 113 9.004717 TCATCAACAACAATCGAGGTAAAATTA 57.995 29.630 0.00 0.00 0.00 1.40
113 114 7.807907 GTCATCAACAACAATCGAGGTAAAATT 59.192 33.333 0.00 0.00 0.00 1.82
114 115 7.305474 GTCATCAACAACAATCGAGGTAAAAT 58.695 34.615 0.00 0.00 0.00 1.82
115 116 6.293735 GGTCATCAACAACAATCGAGGTAAAA 60.294 38.462 0.00 0.00 0.00 1.52
116 117 5.180492 GGTCATCAACAACAATCGAGGTAAA 59.820 40.000 0.00 0.00 0.00 2.01
117 118 4.693566 GGTCATCAACAACAATCGAGGTAA 59.306 41.667 0.00 0.00 0.00 2.85
118 119 4.020573 AGGTCATCAACAACAATCGAGGTA 60.021 41.667 0.00 0.00 0.00 3.08
119 120 3.074412 GGTCATCAACAACAATCGAGGT 58.926 45.455 0.00 0.00 0.00 3.85
120 121 3.338249 AGGTCATCAACAACAATCGAGG 58.662 45.455 0.00 0.00 0.00 4.63
121 122 6.668541 ATAAGGTCATCAACAACAATCGAG 57.331 37.500 0.00 0.00 0.00 4.04
122 123 9.476202 CTATATAAGGTCATCAACAACAATCGA 57.524 33.333 0.00 0.00 0.00 3.59
123 124 9.476202 TCTATATAAGGTCATCAACAACAATCG 57.524 33.333 0.00 0.00 0.00 3.34
150 151 9.860650 AGGCCACTATGAAATATACATTTTACA 57.139 29.630 5.01 0.00 34.44 2.41
153 154 9.200817 ACAAGGCCACTATGAAATATACATTTT 57.799 29.630 5.01 0.00 34.44 1.82
154 155 8.766994 ACAAGGCCACTATGAAATATACATTT 57.233 30.769 5.01 0.00 37.06 2.32
162 163 9.914834 TTTACTTATACAAGGCCACTATGAAAT 57.085 29.630 5.01 1.32 35.97 2.17
163 164 9.914834 ATTTACTTATACAAGGCCACTATGAAA 57.085 29.630 5.01 0.00 35.97 2.69
168 169 8.867097 CCTCTATTTACTTATACAAGGCCACTA 58.133 37.037 5.01 0.00 35.97 2.74
169 170 7.202102 CCCTCTATTTACTTATACAAGGCCACT 60.202 40.741 5.01 0.00 35.97 4.00
170 171 6.935208 CCCTCTATTTACTTATACAAGGCCAC 59.065 42.308 5.01 0.00 35.97 5.01
171 172 6.847567 TCCCTCTATTTACTTATACAAGGCCA 59.152 38.462 5.01 0.00 35.97 5.36
172 173 7.016366 ACTCCCTCTATTTACTTATACAAGGCC 59.984 40.741 0.00 0.00 35.97 5.19
173 174 7.964624 ACTCCCTCTATTTACTTATACAAGGC 58.035 38.462 0.00 0.00 35.97 4.35
204 205 5.613358 TTGCCACGTGTTTTTGAATTTTT 57.387 30.435 15.65 0.00 0.00 1.94
205 206 5.613358 TTTGCCACGTGTTTTTGAATTTT 57.387 30.435 15.65 0.00 0.00 1.82
206 207 5.809719 ATTTGCCACGTGTTTTTGAATTT 57.190 30.435 15.65 0.00 0.00 1.82
207 208 5.584251 AGAATTTGCCACGTGTTTTTGAATT 59.416 32.000 15.65 11.07 0.00 2.17
208 209 5.006552 CAGAATTTGCCACGTGTTTTTGAAT 59.993 36.000 15.65 3.27 0.00 2.57
218 219 0.749649 TTTGCCAGAATTTGCCACGT 59.250 45.000 0.00 0.00 0.00 4.49
220 221 1.526464 CGTTTTGCCAGAATTTGCCAC 59.474 47.619 0.00 0.00 0.00 5.01
340 342 5.163933 GGTTATGTTATTGAGCGAACGTTCA 60.164 40.000 26.71 8.38 33.65 3.18
389 391 1.884464 TCCCTCGTCGTCGTATCGG 60.884 63.158 1.33 0.00 38.33 4.18
405 407 2.248431 GTTTGCGTGCACTCGTCC 59.752 61.111 16.19 0.00 0.00 4.79
448 451 1.725706 TGTAAACGATTTGTACGCGGG 59.274 47.619 12.47 0.00 0.00 6.13
490 494 4.508492 CGTGTTGGTTATGCATATTCGGTA 59.492 41.667 7.36 0.00 0.00 4.02
573 577 0.543174 ACGGGAAGAGAGAGCCTTGT 60.543 55.000 0.00 0.00 0.00 3.16
1936 1944 0.765510 AAAGGAAAGGAGCGACAGGT 59.234 50.000 0.00 0.00 0.00 4.00
1937 1945 1.002544 AGAAAGGAAAGGAGCGACAGG 59.997 52.381 0.00 0.00 0.00 4.00
1938 1946 2.464157 AGAAAGGAAAGGAGCGACAG 57.536 50.000 0.00 0.00 0.00 3.51
1977 1986 3.499737 GTTGTGGGCTGGCGATCG 61.500 66.667 11.69 11.69 0.00 3.69
1983 1992 2.978010 GTGTCGGTTGTGGGCTGG 60.978 66.667 0.00 0.00 0.00 4.85
2034 2043 0.044702 TGGATGGAGTGGAGGTGGAT 59.955 55.000 0.00 0.00 0.00 3.41
2055 2064 3.397613 ATCGCCTGCCTTGCTCTCC 62.398 63.158 0.00 0.00 0.00 3.71
2078 2094 4.203076 GGGGATCGACGGTCGTGG 62.203 72.222 27.53 1.67 41.35 4.94
2190 2206 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
2196 2212 1.231928 GTCCTCCTCCTCCTCCTCC 59.768 68.421 0.00 0.00 0.00 4.30
2197 2213 0.396556 GTGTCCTCCTCCTCCTCCTC 60.397 65.000 0.00 0.00 0.00 3.71
2198 2214 1.700985 GTGTCCTCCTCCTCCTCCT 59.299 63.158 0.00 0.00 0.00 3.69
2199 2215 1.755008 CGTGTCCTCCTCCTCCTCC 60.755 68.421 0.00 0.00 0.00 4.30
2200 2216 1.755008 CCGTGTCCTCCTCCTCCTC 60.755 68.421 0.00 0.00 0.00 3.71
2201 2217 2.360980 CCGTGTCCTCCTCCTCCT 59.639 66.667 0.00 0.00 0.00 3.69
2202 2218 2.760385 CCCGTGTCCTCCTCCTCC 60.760 72.222 0.00 0.00 0.00 4.30
2203 2219 3.462678 GCCCGTGTCCTCCTCCTC 61.463 72.222 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.