Multiple sequence alignment - TraesCS3D01G398200

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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 TraesCS3D01G398200 chr3D 100.000 3863 0 0 1 3863 512708780 512704918 0.000000e+00 7134.0
1 TraesCS3D01G398200 chr3A 92.179 3836 124 66 129 3861 648313164 648309402 0.000000e+00 5260.0
2 TraesCS3D01G398200 chr3B 90.146 2050 106 42 1 2024 675283227 675281248 0.000000e+00 2579.0
3 TraesCS3D01G398200 chr3B 92.810 1808 82 22 2079 3861 675281243 675279459 0.000000e+00 2575.0
4 TraesCS3D01G398200 chr1D 92.395 263 16 4 1346 1606 355698587 355698327 4.710000e-99 372.0
5 TraesCS3D01G398200 chr1D 91.429 175 14 1 1082 1255 355698831 355698657 4.990000e-59 239.0
6 TraesCS3D01G398200 chr1A 92.395 263 16 4 1346 1606 456323326 456323066 4.710000e-99 372.0
7 TraesCS3D01G398200 chr1A 90.857 175 15 1 1082 1255 456323587 456323413 2.320000e-57 233.0
8 TraesCS3D01G398200 chr1B 92.015 263 17 4 1346 1606 478583492 478583232 2.190000e-97 366.0
9 TraesCS3D01G398200 chr1B 92.000 175 13 1 1082 1255 478583757 478583583 1.070000e-60 244.0
10 TraesCS3D01G398200 chr7D 86.786 280 32 4 1346 1621 401093668 401093390 1.350000e-79 307.0
11 TraesCS3D01G398200 chr7D 89.634 164 13 4 1096 1258 401094034 401093874 5.060000e-49 206.0
12 TraesCS3D01G398200 chr7D 85.135 74 7 4 1110 1181 34151675 34151604 5.350000e-09 73.1
13 TraesCS3D01G398200 chr7A 86.786 280 32 4 1346 1621 458934572 458934294 1.350000e-79 307.0
14 TraesCS3D01G398200 chr7A 89.634 164 13 4 1096 1258 458934934 458934774 5.060000e-49 206.0
15 TraesCS3D01G398200 chr7B 86.071 280 34 4 1346 1621 410620575 410620297 2.920000e-76 296.0
16 TraesCS3D01G398200 chr7B 89.024 164 14 4 1096 1258 410620942 410620782 2.350000e-47 200.0
17 TraesCS3D01G398200 chr5A 76.349 241 43 12 1360 1590 666525277 666525041 2.440000e-22 117.0


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 TraesCS3D01G398200 chr3D 512704918 512708780 3862 True 7134.0 7134 100.0000 1 3863 1 chr3D.!!$R1 3862
1 TraesCS3D01G398200 chr3A 648309402 648313164 3762 True 5260.0 5260 92.1790 129 3861 1 chr3A.!!$R1 3732
2 TraesCS3D01G398200 chr3B 675279459 675283227 3768 True 2577.0 2579 91.4780 1 3861 2 chr3B.!!$R1 3860
3 TraesCS3D01G398200 chr1D 355698327 355698831 504 True 305.5 372 91.9120 1082 1606 2 chr1D.!!$R1 524
4 TraesCS3D01G398200 chr1A 456323066 456323587 521 True 302.5 372 91.6260 1082 1606 2 chr1A.!!$R1 524
5 TraesCS3D01G398200 chr1B 478583232 478583757 525 True 305.0 366 92.0075 1082 1606 2 chr1B.!!$R1 524
6 TraesCS3D01G398200 chr7D 401093390 401094034 644 True 256.5 307 88.2100 1096 1621 2 chr7D.!!$R2 525
7 TraesCS3D01G398200 chr7A 458934294 458934934 640 True 256.5 307 88.2100 1096 1621 2 chr7A.!!$R1 525
8 TraesCS3D01G398200 chr7B 410620297 410620942 645 True 248.0 296 87.5475 1096 1621 2 chr7B.!!$R1 525

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
73 74 1.144913 TGTTAATGATGCCTAGCCCCC 59.855 52.381 0.00 0.0 0.0 5.40 F
849 894 1.476488 TCGATCGATTCTCCACTTGCA 59.524 47.619 15.15 0.0 0.0 4.08 F
2107 2351 1.068402 CAATTCTTCGCATGCCACACA 60.068 47.619 13.15 0.0 0.0 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2067 2308 3.286353 TGAGGATGTCTACTCTCTGCTG 58.714 50.0 0.00 0.00 34.84 4.41 R
2418 2682 1.383523 GCTTTAAGGTGGCTGCTAGG 58.616 55.0 0.00 0.00 0.00 3.02 R
3620 3909 0.251877 TACCATCCACCGGTGAGTGA 60.252 55.0 36.07 23.97 40.34 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
43 44 7.039923 ACCATTTGATGATCAAGCATAGATTCC 60.040 37.037 8.01 0.00 37.70 3.01
44 45 6.889301 TTTGATGATCAAGCATAGATTCCC 57.111 37.500 8.01 0.00 37.70 3.97
52 53 6.119240 TCAAGCATAGATTCCCAATAGAGG 57.881 41.667 0.00 0.00 0.00 3.69
60 61 9.224267 CATAGATTCCCAATAGAGGTGTTAATG 57.776 37.037 0.00 0.00 0.00 1.90
65 66 4.520492 CCCAATAGAGGTGTTAATGATGCC 59.480 45.833 0.00 0.00 0.00 4.40
73 74 1.144913 TGTTAATGATGCCTAGCCCCC 59.855 52.381 0.00 0.00 0.00 5.40
103 104 4.261867 CCCAAGGCTTTTAGGTTTACACAC 60.262 45.833 0.00 0.00 0.00 3.82
185 186 5.639931 GTGGAACTCTCTCATTTGGACTTAC 59.360 44.000 0.00 0.00 0.00 2.34
203 204 4.572389 ACTTACGGAGATGCTAGCAAAATG 59.428 41.667 23.54 13.07 0.00 2.32
204 205 1.672881 ACGGAGATGCTAGCAAAATGC 59.327 47.619 23.54 14.32 45.46 3.56
218 226 3.864243 CAAAATGCCAATGCCACACTAT 58.136 40.909 0.00 0.00 36.33 2.12
226 234 5.530915 TGCCAATGCCACACTATAGTTATTC 59.469 40.000 1.56 0.00 36.33 1.75
288 297 5.765510 AGGAGGATAAATTGGTGCAACATA 58.234 37.500 4.62 0.00 39.98 2.29
289 298 6.376248 AGGAGGATAAATTGGTGCAACATAT 58.624 36.000 4.62 0.00 39.98 1.78
290 299 7.526041 AGGAGGATAAATTGGTGCAACATATA 58.474 34.615 4.62 0.00 39.98 0.86
291 300 7.667219 AGGAGGATAAATTGGTGCAACATATAG 59.333 37.037 4.62 0.00 39.98 1.31
292 301 7.094205 GGAGGATAAATTGGTGCAACATATAGG 60.094 40.741 4.62 0.00 39.98 2.57
293 302 7.526041 AGGATAAATTGGTGCAACATATAGGA 58.474 34.615 4.62 0.00 39.98 2.94
399 434 2.609610 AGAGTAGCCGGGCCCAAA 60.610 61.111 24.92 0.00 0.00 3.28
626 666 4.700365 CGTCACGGCTCGCTCACA 62.700 66.667 0.00 0.00 0.00 3.58
712 752 4.436998 GCGACCAGTAGCAGCCGT 62.437 66.667 0.00 0.00 0.00 5.68
782 826 3.304559 CGACTAATCCTTGTGCTTTCTCG 59.695 47.826 0.00 0.00 0.00 4.04
823 868 5.828328 CCCAAACACTAATCTTATCCCTTCC 59.172 44.000 0.00 0.00 0.00 3.46
824 869 5.828328 CCAAACACTAATCTTATCCCTTCCC 59.172 44.000 0.00 0.00 0.00 3.97
849 894 1.476488 TCGATCGATTCTCCACTTGCA 59.524 47.619 15.15 0.00 0.00 4.08
1272 1326 4.499183 CAGGTCTGGAACAATCACTCTAC 58.501 47.826 0.00 0.00 38.70 2.59
1772 1989 3.933332 GCGCCTGTACTAGTTCTTTGATT 59.067 43.478 0.00 0.00 0.00 2.57
1780 1997 8.842358 TGTACTAGTTCTTTGATTTTGGGTAG 57.158 34.615 0.00 0.00 0.00 3.18
1826 2047 8.816640 ATTTTGCCTTTATTGTACTTCTTGTG 57.183 30.769 0.00 0.00 0.00 3.33
1827 2048 5.371115 TGCCTTTATTGTACTTCTTGTGC 57.629 39.130 0.00 0.00 0.00 4.57
1828 2049 4.824537 TGCCTTTATTGTACTTCTTGTGCA 59.175 37.500 0.00 0.00 39.46 4.57
1829 2050 5.476599 TGCCTTTATTGTACTTCTTGTGCAT 59.523 36.000 0.00 0.00 40.78 3.96
1830 2051 6.657117 TGCCTTTATTGTACTTCTTGTGCATA 59.343 34.615 0.00 0.00 40.78 3.14
1831 2052 7.175816 TGCCTTTATTGTACTTCTTGTGCATAA 59.824 33.333 0.00 0.00 40.78 1.90
1905 2127 9.905713 ATCTTCTTTATCTTATTACTTGCACCA 57.094 29.630 0.00 0.00 0.00 4.17
1951 2184 2.887783 ACGCACTCGATTGGATATCTCT 59.112 45.455 4.82 0.00 39.41 3.10
1959 2192 9.045223 CACTCGATTGGATATCTCTCTAGATAG 57.955 40.741 2.05 0.00 45.64 2.08
1960 2193 7.715249 ACTCGATTGGATATCTCTCTAGATAGC 59.285 40.741 2.05 2.76 45.64 2.97
2045 2286 7.662258 TCTTTTTGACCGGAATCAATTGTAGTA 59.338 33.333 9.46 0.00 38.37 1.82
2046 2287 7.931578 TTTTGACCGGAATCAATTGTAGTAT 57.068 32.000 9.46 0.00 38.37 2.12
2048 2289 5.286438 TGACCGGAATCAATTGTAGTATCG 58.714 41.667 9.46 3.96 0.00 2.92
2050 2291 5.287226 ACCGGAATCAATTGTAGTATCGAC 58.713 41.667 9.46 0.00 0.00 4.20
2055 2296 8.691727 CGGAATCAATTGTAGTATCGACTTTAG 58.308 37.037 5.13 0.00 37.10 1.85
2077 2318 9.561069 TTTAGAACTAAATTTTCAGCAGAGAGT 57.439 29.630 0.00 0.00 30.78 3.24
2106 2350 1.199789 TCAATTCTTCGCATGCCACAC 59.800 47.619 13.15 0.00 0.00 3.82
2107 2351 1.068402 CAATTCTTCGCATGCCACACA 60.068 47.619 13.15 0.00 0.00 3.72
2134 2387 1.881324 TGTCGATCCTCACGTGTTACA 59.119 47.619 16.51 7.67 0.00 2.41
2135 2388 2.248487 GTCGATCCTCACGTGTTACAC 58.752 52.381 16.51 5.27 0.00 2.90
2136 2389 1.200716 TCGATCCTCACGTGTTACACC 59.799 52.381 16.51 1.33 0.00 4.16
2172 2430 2.165437 GACAGAAATCTCTCTCTGCCGT 59.835 50.000 0.00 0.00 42.39 5.68
2475 2739 1.479323 GGATACCTACAGTCAACCGCA 59.521 52.381 0.00 0.00 0.00 5.69
2479 2743 1.080772 CTACAGTCAACCGCAGCGA 60.081 57.895 18.75 0.00 0.00 4.93
2501 2768 1.960250 GCGATCATCAGCAGGAGGC 60.960 63.158 0.00 0.00 45.30 4.70
2976 3250 4.202202 CCTCTCTCTCTCTCTCACTCTCTC 60.202 54.167 0.00 0.00 0.00 3.20
3077 3361 2.406559 AGATCACCCCATCTTCTCAGG 58.593 52.381 0.00 0.00 27.71 3.86
3078 3362 2.122768 GATCACCCCATCTTCTCAGGT 58.877 52.381 0.00 0.00 0.00 4.00
3079 3363 2.940514 TCACCCCATCTTCTCAGGTA 57.059 50.000 0.00 0.00 0.00 3.08
3080 3364 2.467880 TCACCCCATCTTCTCAGGTAC 58.532 52.381 0.00 0.00 0.00 3.34
3081 3365 2.044492 TCACCCCATCTTCTCAGGTACT 59.956 50.000 0.00 0.00 43.88 2.73
3082 3366 3.271225 TCACCCCATCTTCTCAGGTACTA 59.729 47.826 0.00 0.00 36.02 1.82
3083 3367 3.385111 CACCCCATCTTCTCAGGTACTAC 59.615 52.174 0.00 0.00 36.02 2.73
3366 3651 6.542821 GGAATGATTAGGAGAGAGAGAGAGA 58.457 44.000 0.00 0.00 0.00 3.10
3387 3672 2.172483 GAGAGAACTTGCAGGCCGGA 62.172 60.000 5.05 0.00 0.00 5.14
3494 3779 5.630415 TTTGTCTTTTCTCTCTTCTCCCA 57.370 39.130 0.00 0.00 0.00 4.37
3513 3798 1.205179 CACTCTCTGCATGCTCTCTGT 59.795 52.381 20.33 9.58 0.00 3.41
3618 3907 0.038251 GAGCGTGTCATGGACTCACA 60.038 55.000 0.00 0.00 33.15 3.58
3620 3909 0.319900 GCGTGTCATGGACTCACACT 60.320 55.000 11.50 0.00 38.64 3.55
3641 3936 0.252103 ACTCACCGGTGGATGGTACT 60.252 55.000 33.40 6.48 37.72 2.73
3670 3965 3.351416 GGTGTCGTCCCGGTTTGC 61.351 66.667 0.00 0.00 0.00 3.68
3756 4051 6.240351 GGAGATAAGATACCTCCTGTCTACCT 60.240 46.154 0.00 0.00 42.36 3.08
3757 4052 7.037442 GGAGATAAGATACCTCCTGTCTACCTA 60.037 44.444 0.00 0.00 42.36 3.08
3758 4053 7.924541 AGATAAGATACCTCCTGTCTACCTAG 58.075 42.308 0.00 0.00 0.00 3.02
3789 4089 1.605457 GCCCGTGCATGAGATCGATAA 60.605 52.381 7.72 0.00 37.47 1.75
3796 4096 4.447054 GTGCATGAGATCGATAACTTGGAG 59.553 45.833 0.00 0.00 0.00 3.86
3827 4127 4.823276 CTCGTAGGGAGCAAGCTG 57.177 61.111 0.00 0.00 35.63 4.24
3828 4128 1.893786 CTCGTAGGGAGCAAGCTGT 59.106 57.895 0.00 0.00 35.63 4.40
3834 4134 1.902938 AGGGAGCAAGCTGTTTTCTC 58.097 50.000 0.00 0.00 0.00 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 5.380043 AGGCATCATTAACACCTCTATTGG 58.620 41.667 0.00 0.00 0.00 3.16
44 45 6.148480 GCTAGGCATCATTAACACCTCTATTG 59.852 42.308 0.00 0.00 31.79 1.90
52 53 2.230660 GGGGCTAGGCATCATTAACAC 58.769 52.381 19.14 0.00 0.00 3.32
78 79 2.024176 AAACCTAAAAGCCTTGGGGG 57.976 50.000 3.93 0.00 38.36 5.40
79 80 3.257375 GTGTAAACCTAAAAGCCTTGGGG 59.743 47.826 3.93 0.00 0.00 4.96
80 81 3.892588 TGTGTAAACCTAAAAGCCTTGGG 59.107 43.478 0.00 0.00 0.00 4.12
103 104 2.095567 CGTCTGGTGAAATGGAAGCTTG 60.096 50.000 2.10 0.00 0.00 4.01
185 186 1.002033 GGCATTTTGCTAGCATCTCCG 60.002 52.381 20.13 7.72 44.28 4.63
203 204 5.530915 TGAATAACTATAGTGTGGCATTGGC 59.469 40.000 6.06 2.73 40.13 4.52
204 205 7.587629 CATGAATAACTATAGTGTGGCATTGG 58.412 38.462 6.06 0.00 0.00 3.16
226 234 6.161855 TGAGGTTATTACTCTACTGGCATG 57.838 41.667 0.00 0.00 35.98 4.06
264 273 4.016444 TGTTGCACCAATTTATCCTCCTC 58.984 43.478 0.00 0.00 0.00 3.71
288 297 8.677300 CGCACCTATAATGCATATTTTTCCTAT 58.323 33.333 0.00 0.00 43.57 2.57
289 298 7.120579 CCGCACCTATAATGCATATTTTTCCTA 59.879 37.037 0.00 0.00 43.57 2.94
290 299 6.071952 CCGCACCTATAATGCATATTTTTCCT 60.072 38.462 0.00 0.00 43.57 3.36
291 300 6.072175 TCCGCACCTATAATGCATATTTTTCC 60.072 38.462 0.00 0.00 43.57 3.13
292 301 6.908825 TCCGCACCTATAATGCATATTTTTC 58.091 36.000 0.00 0.00 43.57 2.29
293 302 6.892658 TCCGCACCTATAATGCATATTTTT 57.107 33.333 0.00 0.00 43.57 1.94
296 305 5.804639 TCTTCCGCACCTATAATGCATATT 58.195 37.500 0.00 0.00 43.57 1.28
298 307 4.882842 TCTTCCGCACCTATAATGCATA 57.117 40.909 0.00 0.00 43.57 3.14
399 434 7.255277 GCTTTGGTGATTTTCTGTACTCTTTCT 60.255 37.037 0.00 0.00 0.00 2.52
625 665 0.877071 GGAGTGGCAATGGCGATATG 59.123 55.000 1.51 0.00 42.47 1.78
626 666 0.473755 TGGAGTGGCAATGGCGATAT 59.526 50.000 1.51 0.00 42.47 1.63
712 752 4.275810 ACCTAGCGTGAGTATTAACTGGA 58.724 43.478 0.00 0.00 35.56 3.86
782 826 7.769044 AGTGTTTGGGCCAATATATATATCGAC 59.231 37.037 21.65 10.91 0.00 4.20
824 869 0.827925 TGGAGAATCGATCGAGGGGG 60.828 60.000 23.84 0.00 34.37 5.40
833 878 3.186909 CGTATTGCAAGTGGAGAATCGA 58.813 45.455 4.94 0.00 34.37 3.59
1272 1326 6.684686 TGAATTCTGAAAAGAGGCAATTGAG 58.315 36.000 10.34 0.00 0.00 3.02
1621 1822 6.427242 TGAGATGCTAGAATACAGGTACTACG 59.573 42.308 0.00 0.00 36.02 3.51
1622 1823 7.747155 TGAGATGCTAGAATACAGGTACTAC 57.253 40.000 0.00 0.00 36.02 2.73
1624 1825 8.387039 TCTATGAGATGCTAGAATACAGGTACT 58.613 37.037 0.00 0.00 43.88 2.73
1625 1826 8.568676 TCTATGAGATGCTAGAATACAGGTAC 57.431 38.462 0.00 0.00 0.00 3.34
1628 1829 9.941325 AATTTCTATGAGATGCTAGAATACAGG 57.059 33.333 0.00 0.00 34.76 4.00
1655 1856 3.820852 GCAGATGGATAGATCAGGAGGGA 60.821 52.174 0.00 0.00 0.00 4.20
1826 2047 5.585500 TCTGAAACGGCGTATATTTATGC 57.415 39.130 15.20 0.00 39.25 3.14
1827 2048 7.582435 AGATCTGAAACGGCGTATATTTATG 57.418 36.000 15.20 0.38 0.00 1.90
1828 2049 8.301720 TGTAGATCTGAAACGGCGTATATTTAT 58.698 33.333 15.20 2.96 0.00 1.40
1829 2050 7.650890 TGTAGATCTGAAACGGCGTATATTTA 58.349 34.615 15.20 0.00 0.00 1.40
1830 2051 6.509656 TGTAGATCTGAAACGGCGTATATTT 58.490 36.000 15.20 2.97 0.00 1.40
1831 2052 6.080648 TGTAGATCTGAAACGGCGTATATT 57.919 37.500 15.20 3.44 0.00 1.28
1959 2192 9.868277 ATATGTTCAAGATTCTAGCTATAGTGC 57.132 33.333 0.84 0.00 0.00 4.40
1964 2197 9.319060 TCCTCATATGTTCAAGATTCTAGCTAT 57.681 33.333 1.90 0.00 0.00 2.97
1972 2205 8.324191 TCTAGGTTCCTCATATGTTCAAGATT 57.676 34.615 1.90 0.00 0.00 2.40
1988 2221 6.943899 ATCTAGGATGGAATTCTAGGTTCC 57.056 41.667 16.46 16.46 43.54 3.62
2045 2286 8.999431 TGCTGAAAATTTAGTTCTAAAGTCGAT 58.001 29.630 10.16 0.42 0.00 3.59
2046 2287 8.373048 TGCTGAAAATTTAGTTCTAAAGTCGA 57.627 30.769 10.16 0.00 0.00 4.20
2048 2289 9.818796 CTCTGCTGAAAATTTAGTTCTAAAGTC 57.181 33.333 10.16 8.10 0.00 3.01
2055 2296 8.652463 GTCTACTCTCTGCTGAAAATTTAGTTC 58.348 37.037 0.00 0.00 0.00 3.01
2058 2299 8.715191 ATGTCTACTCTCTGCTGAAAATTTAG 57.285 34.615 0.00 0.00 0.00 1.85
2060 2301 6.597280 GGATGTCTACTCTCTGCTGAAAATTT 59.403 38.462 0.00 0.00 0.00 1.82
2067 2308 3.286353 TGAGGATGTCTACTCTCTGCTG 58.714 50.000 0.00 0.00 34.84 4.41
2069 2310 4.935352 ATTGAGGATGTCTACTCTCTGC 57.065 45.455 0.00 0.00 34.84 4.26
2070 2311 6.713762 AGAATTGAGGATGTCTACTCTCTG 57.286 41.667 0.00 0.00 34.84 3.35
2077 2318 4.736126 TGCGAAGAATTGAGGATGTCTA 57.264 40.909 0.00 0.00 0.00 2.59
2106 2350 2.604914 CGTGAGGATCGACAAGGAAATG 59.395 50.000 0.00 0.00 38.61 2.32
2107 2351 2.233922 ACGTGAGGATCGACAAGGAAAT 59.766 45.455 0.00 0.00 38.61 2.17
2134 2387 3.087031 CTGTCTGCAAATTCATGGAGGT 58.913 45.455 0.00 0.00 39.06 3.85
2135 2388 3.349927 TCTGTCTGCAAATTCATGGAGG 58.650 45.455 0.00 0.00 39.06 4.30
2136 2389 5.381174 TTTCTGTCTGCAAATTCATGGAG 57.619 39.130 0.00 0.00 39.84 3.86
2172 2430 2.048597 CCGGTGCGCTTGTAGACA 60.049 61.111 9.73 0.00 0.00 3.41
2418 2682 1.383523 GCTTTAAGGTGGCTGCTAGG 58.616 55.000 0.00 0.00 0.00 3.02
2475 2739 3.490793 CTGATGATCGCCGGTCGCT 62.491 63.158 12.56 4.05 38.27 4.93
2479 2743 2.107750 CTGCTGATGATCGCCGGT 59.892 61.111 1.90 0.00 0.00 5.28
2734 3001 3.496131 CGGCGTAATTGGCTGCGT 61.496 61.111 0.00 0.00 0.00 5.24
2976 3250 2.230130 AACTGTGGAGAGAGAGAGGG 57.770 55.000 0.00 0.00 0.00 4.30
3078 3362 7.503549 TCTTGATCATACTGGAGTACGTAGTA 58.496 38.462 2.11 0.00 45.11 1.82
3080 3364 6.706716 TCTCTTGATCATACTGGAGTACGTAG 59.293 42.308 0.00 0.00 32.72 3.51
3081 3365 6.589135 TCTCTTGATCATACTGGAGTACGTA 58.411 40.000 0.00 0.00 32.72 3.57
3082 3366 5.437946 TCTCTTGATCATACTGGAGTACGT 58.562 41.667 0.00 0.00 32.72 3.57
3083 3367 6.378710 TTCTCTTGATCATACTGGAGTACG 57.621 41.667 0.00 0.00 32.72 3.67
3366 3651 1.682257 GGCCTGCAAGTTCTCTCCT 59.318 57.895 0.00 0.00 0.00 3.69
3387 3672 2.203728 TACACCCCGACAGCACCT 60.204 61.111 0.00 0.00 0.00 4.00
3494 3779 1.559368 ACAGAGAGCATGCAGAGAGT 58.441 50.000 21.98 9.82 0.00 3.24
3618 3907 1.544825 CCATCCACCGGTGAGTGAGT 61.545 60.000 36.07 11.42 40.34 3.41
3620 3909 0.251877 TACCATCCACCGGTGAGTGA 60.252 55.000 36.07 23.97 40.34 3.41
3641 3936 4.382320 GACACCGCCTGGCCGTAA 62.382 66.667 14.12 0.00 39.70 3.18
3681 3976 0.960364 CCTTTCCATCCCCACACACG 60.960 60.000 0.00 0.00 0.00 4.49
3756 4051 1.108776 CACGGGCCAAGTAGCTACTA 58.891 55.000 26.29 0.00 34.99 1.82
3757 4052 1.898154 CACGGGCCAAGTAGCTACT 59.102 57.895 20.95 20.95 38.39 2.57
3758 4053 1.814169 GCACGGGCCAAGTAGCTAC 60.814 63.158 16.43 16.43 0.00 3.58
3789 4089 5.442391 GAGTATAGACTGTCCTCTCCAAGT 58.558 45.833 3.76 0.00 35.45 3.16
3796 4096 4.040217 TCCCTACGAGTATAGACTGTCCTC 59.960 50.000 3.76 3.17 35.45 3.71
3824 4124 9.403110 CCAGCAATATATATTTGAGAAAACAGC 57.597 33.333 5.18 2.74 0.00 4.40
3834 4134 9.507329 AGTACCAAGACCAGCAATATATATTTG 57.493 33.333 5.18 3.12 0.00 2.32


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

AutoCloner maintained by Alex Coulton.