Multiple sequence alignment - TraesCS3A01G406800

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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 TraesCS3A01G406800 chr3A 100.000 3584 0 0 1 3584 651647817 651651400 0.000000e+00 6619.0
1 TraesCS3A01G406800 chr3A 92.327 2815 156 27 810 3582 651962045 651964841 0.000000e+00 3947.0
2 TraesCS3A01G406800 chr3A 91.212 1923 107 33 707 2609 651996065 651997945 0.000000e+00 2558.0
3 TraesCS3A01G406800 chr3A 86.111 144 15 3 2839 2978 572347530 572347672 2.230000e-32 150.0
4 TraesCS3A01G406800 chr3A 88.312 77 7 2 699 775 651961962 651962036 1.370000e-14 91.6
5 TraesCS3A01G406800 chr3B 92.042 2928 147 36 719 3584 680677203 680674300 0.000000e+00 4037.0
6 TraesCS3A01G406800 chr3B 90.850 2765 147 49 1 2711 680733774 680731062 0.000000e+00 3607.0
7 TraesCS3A01G406800 chr3B 93.046 1510 88 11 1107 2609 680477839 680476340 0.000000e+00 2191.0
8 TraesCS3A01G406800 chr3B 83.019 689 75 27 472 1143 680478507 680477844 1.430000e-163 586.0
9 TraesCS3A01G406800 chr3B 78.589 411 70 14 3186 3584 37640455 37640051 4.590000e-64 255.0
10 TraesCS3A01G406800 chr3D 94.998 2439 107 7 1149 3584 516671473 516673899 0.000000e+00 3814.0
11 TraesCS3A01G406800 chr3D 95.991 848 33 1 1763 2609 516856631 516857478 0.000000e+00 1376.0
12 TraesCS3A01G406800 chr3D 86.438 1283 89 44 472 1711 516855208 516856448 0.000000e+00 1327.0
13 TraesCS3A01G406800 chr3D 85.520 663 49 26 1 639 516670343 516670982 0.000000e+00 649.0
14 TraesCS3A01G406800 chr3D 86.420 405 29 8 698 1092 516670987 516671375 1.540000e-113 420.0
15 TraesCS3A01G406800 chr7D 90.156 1666 155 9 949 2609 502231425 502233086 0.000000e+00 2159.0
16 TraesCS3A01G406800 chr1D 84.293 764 113 7 1808 2566 360467955 360468716 0.000000e+00 739.0
17 TraesCS3A01G406800 chr5D 82.176 533 91 4 1162 1692 192537909 192538439 4.220000e-124 455.0
18 TraesCS3A01G406800 chr2D 84.000 150 17 4 2835 2978 586806526 586806378 1.740000e-28 137.0
19 TraesCS3A01G406800 chr2D 81.818 143 22 1 2835 2973 18635940 18636082 2.260000e-22 117.0
20 TraesCS3A01G406800 chr2D 76.190 231 40 10 3365 3584 58849633 58849407 1.360000e-19 108.0
21 TraesCS3A01G406800 chr5B 81.595 163 27 3 2823 2983 211063934 211064095 8.070000e-27 132.0
22 TraesCS3A01G406800 chr1A 87.069 116 13 1 2865 2978 586623830 586623715 2.900000e-26 130.0
23 TraesCS3A01G406800 chr2B 81.879 149 22 2 2834 2978 144022612 144022759 1.750000e-23 121.0
24 TraesCS3A01G406800 chr7B 84.677 124 13 5 3465 3584 289229511 289229632 6.290000e-23 119.0
25 TraesCS3A01G406800 chr1B 83.333 102 17 0 3483 3584 296681051 296680950 1.060000e-15 95.3
26 TraesCS3A01G406800 chr5A 82.178 101 16 2 3476 3575 693294876 693294777 6.380000e-13 86.1


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 TraesCS3A01G406800 chr3A 651647817 651651400 3583 False 6619.000000 6619 100.000000 1 3584 1 chr3A.!!$F2 3583
1 TraesCS3A01G406800 chr3A 651996065 651997945 1880 False 2558.000000 2558 91.212000 707 2609 1 chr3A.!!$F3 1902
2 TraesCS3A01G406800 chr3A 651961962 651964841 2879 False 2019.300000 3947 90.319500 699 3582 2 chr3A.!!$F4 2883
3 TraesCS3A01G406800 chr3B 680674300 680677203 2903 True 4037.000000 4037 92.042000 719 3584 1 chr3B.!!$R2 2865
4 TraesCS3A01G406800 chr3B 680731062 680733774 2712 True 3607.000000 3607 90.850000 1 2711 1 chr3B.!!$R3 2710
5 TraesCS3A01G406800 chr3B 680476340 680478507 2167 True 1388.500000 2191 88.032500 472 2609 2 chr3B.!!$R4 2137
6 TraesCS3A01G406800 chr3D 516670343 516673899 3556 False 1627.666667 3814 88.979333 1 3584 3 chr3D.!!$F1 3583
7 TraesCS3A01G406800 chr3D 516855208 516857478 2270 False 1351.500000 1376 91.214500 472 2609 2 chr3D.!!$F2 2137
8 TraesCS3A01G406800 chr7D 502231425 502233086 1661 False 2159.000000 2159 90.156000 949 2609 1 chr7D.!!$F1 1660
9 TraesCS3A01G406800 chr1D 360467955 360468716 761 False 739.000000 739 84.293000 1808 2566 1 chr1D.!!$F1 758
10 TraesCS3A01G406800 chr5D 192537909 192538439 530 False 455.000000 455 82.176000 1162 1692 1 chr5D.!!$F1 530

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
319 323 0.038251 AGCTTTCATGCACGAGACGA 60.038 50.0 0.0 0.0 34.99 4.20 F
489 501 0.320683 GCAAAAGGTGATGGTTGGCC 60.321 55.0 0.0 0.0 0.00 5.36 F
513 529 0.324460 CTCGGAAGACTACCCACCCT 60.324 60.0 0.0 0.0 35.39 4.34 F
946 997 0.392998 TGGCAGCAGTTAAGCTAGGC 60.393 55.0 0.0 0.0 44.54 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1445 1587 0.032912 TGTAGCCGATAGACACCCCA 60.033 55.000 0.0 0.0 39.76 4.96 R
2019 2314 0.250234 AGCCGCAGAGCATGTAGAAA 59.750 50.000 0.0 0.0 34.23 2.52 R
2094 2389 1.207089 CAGAATGGCTCGTAGAACCCA 59.793 52.381 0.0 0.0 43.26 4.51 R
2908 3229 1.133136 GGAGGTGCTCATAGGGGTAGA 60.133 57.143 0.0 0.0 31.08 2.59 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
71 72 3.456277 CAGCCTCTCCCCTATAAAACACT 59.544 47.826 0.00 0.00 0.00 3.55
72 73 4.080299 CAGCCTCTCCCCTATAAAACACTT 60.080 45.833 0.00 0.00 0.00 3.16
136 137 2.334653 GATCAGCTCTCGCCGAGG 59.665 66.667 15.08 6.26 40.25 4.63
169 170 4.704833 TGCTTGCCTCCGGTGCTC 62.705 66.667 17.33 8.87 0.00 4.26
246 249 0.883833 GAAATGCACTCACCAGGGTG 59.116 55.000 12.29 12.29 46.64 4.61
254 257 4.087892 CACCAGGGTGGAGCGAGG 62.088 72.222 10.67 0.00 40.96 4.63
272 275 5.509771 GCGAGGTAGCTACTAAGTTAGTTC 58.490 45.833 22.74 12.57 40.14 3.01
273 276 5.296531 GCGAGGTAGCTACTAAGTTAGTTCT 59.703 44.000 22.74 18.09 40.14 3.01
296 300 3.320626 GCACTGCTGCGATCTTATCATA 58.679 45.455 0.00 0.00 32.44 2.15
297 301 3.931468 GCACTGCTGCGATCTTATCATAT 59.069 43.478 0.00 0.00 32.44 1.78
300 304 6.558909 CACTGCTGCGATCTTATCATATCTA 58.441 40.000 0.00 0.00 0.00 1.98
301 305 6.692249 CACTGCTGCGATCTTATCATATCTAG 59.308 42.308 0.00 0.00 0.00 2.43
302 306 5.586339 TGCTGCGATCTTATCATATCTAGC 58.414 41.667 0.00 0.00 33.86 3.42
303 307 5.359292 TGCTGCGATCTTATCATATCTAGCT 59.641 40.000 0.00 0.00 34.13 3.32
304 308 6.127507 TGCTGCGATCTTATCATATCTAGCTT 60.128 38.462 0.00 0.00 34.13 3.74
306 310 7.043458 GCTGCGATCTTATCATATCTAGCTTTC 60.043 40.741 0.00 0.00 32.14 2.62
307 311 7.830739 TGCGATCTTATCATATCTAGCTTTCA 58.169 34.615 0.00 0.00 0.00 2.69
308 312 8.473219 TGCGATCTTATCATATCTAGCTTTCAT 58.527 33.333 0.00 0.00 0.00 2.57
309 313 8.754096 GCGATCTTATCATATCTAGCTTTCATG 58.246 37.037 0.00 0.00 0.00 3.07
310 314 8.754096 CGATCTTATCATATCTAGCTTTCATGC 58.246 37.037 0.00 0.00 0.00 4.06
311 315 9.597170 GATCTTATCATATCTAGCTTTCATGCA 57.403 33.333 0.00 0.00 34.99 3.96
315 319 5.225642 TCATATCTAGCTTTCATGCACGAG 58.774 41.667 0.00 0.00 34.99 4.18
316 320 3.808466 ATCTAGCTTTCATGCACGAGA 57.192 42.857 0.00 0.00 34.99 4.04
317 321 2.881074 TCTAGCTTTCATGCACGAGAC 58.119 47.619 0.00 0.00 34.99 3.36
318 322 1.585668 CTAGCTTTCATGCACGAGACG 59.414 52.381 0.00 0.00 34.99 4.18
319 323 0.038251 AGCTTTCATGCACGAGACGA 60.038 50.000 0.00 0.00 34.99 4.20
320 324 0.368227 GCTTTCATGCACGAGACGAG 59.632 55.000 0.00 0.00 0.00 4.18
324 328 1.807165 CATGCACGAGACGAGGTGG 60.807 63.158 0.00 0.00 34.76 4.61
325 329 3.006756 ATGCACGAGACGAGGTGGG 62.007 63.158 0.00 0.00 34.76 4.61
330 342 3.386237 GAGACGAGGTGGGCAGCT 61.386 66.667 0.00 0.00 42.58 4.24
338 350 2.431683 GTGGGCAGCTCTGTGGAA 59.568 61.111 0.00 0.00 0.00 3.53
341 353 1.073897 GGGCAGCTCTGTGGAAAGT 59.926 57.895 0.00 0.00 0.00 2.66
346 358 2.079925 CAGCTCTGTGGAAAGTTAGGC 58.920 52.381 0.00 0.00 0.00 3.93
349 361 3.084786 GCTCTGTGGAAAGTTAGGCATT 58.915 45.455 0.00 0.00 0.00 3.56
412 424 3.006537 TGGGCTTAGGTATGATCGTTAGC 59.993 47.826 0.00 0.00 0.00 3.09
446 458 5.566623 CAATTAGCATGTGTCTGATGTGTC 58.433 41.667 0.00 0.00 0.00 3.67
464 476 3.106407 GACTGCTGTGCCGACGAC 61.106 66.667 0.00 0.00 0.00 4.34
489 501 0.320683 GCAAAAGGTGATGGTTGGCC 60.321 55.000 0.00 0.00 0.00 5.36
511 527 1.477295 CTTCTCGGAAGACTACCCACC 59.523 57.143 7.62 0.00 35.39 4.61
513 529 0.324460 CTCGGAAGACTACCCACCCT 60.324 60.000 0.00 0.00 35.39 4.34
514 530 0.613853 TCGGAAGACTACCCACCCTG 60.614 60.000 0.00 0.00 33.31 4.45
515 531 0.903454 CGGAAGACTACCCACCCTGT 60.903 60.000 0.00 0.00 0.00 4.00
517 533 1.640917 GAAGACTACCCACCCTGTCA 58.359 55.000 0.00 0.00 32.41 3.58
587 613 3.493767 ACTCTGTTTCCAAAGAGGGTC 57.506 47.619 0.00 0.00 38.49 4.46
704 734 3.740397 CACCCACCATGCGCAGTG 61.740 66.667 18.32 19.18 0.00 3.66
735 765 4.409574 TCCTCCTATAAATTGCACCGGTAA 59.590 41.667 6.87 0.00 0.00 2.85
786 822 3.444805 ACCACCTCGCGCTCTCTC 61.445 66.667 5.56 0.00 0.00 3.20
804 840 4.972591 GCTCGCCAGCAAACATTT 57.027 50.000 0.00 0.00 46.06 2.32
806 842 1.617740 GCTCGCCAGCAAACATTTAC 58.382 50.000 0.00 0.00 46.06 2.01
920 964 2.507102 CACCTGCACGCCTACTCG 60.507 66.667 0.00 0.00 0.00 4.18
946 997 0.392998 TGGCAGCAGTTAAGCTAGGC 60.393 55.000 0.00 0.00 44.54 3.93
959 1012 1.167155 GCTAGGCAGAGGTCGATCGA 61.167 60.000 15.15 15.15 0.00 3.59
1008 1061 3.151710 TACCCGCCGATGGAGGTG 61.152 66.667 4.88 0.00 41.19 4.00
1045 1098 3.953775 ACACCGCTGGGTCCAAGG 61.954 66.667 0.00 8.89 46.01 3.61
1047 1100 3.953775 ACCGCTGGGTCCAAGGTG 61.954 66.667 13.61 0.68 46.01 4.00
1100 1155 3.262420 CGTAAAACCCCTGTCTCATCTG 58.738 50.000 0.00 0.00 0.00 2.90
1105 1200 1.008815 ACCCCTGTCTCATCTGATGGA 59.991 52.381 17.06 10.53 0.00 3.41
1111 1242 5.163269 CCCTGTCTCATCTGATGGAATACAA 60.163 44.000 17.06 0.00 0.00 2.41
1139 1270 5.436175 TGATTGTTGGTTTCTCACTCTGAA 58.564 37.500 0.00 0.00 0.00 3.02
1157 1299 0.810031 AAGTACCGATGCCGATGTGC 60.810 55.000 0.00 0.00 38.22 4.57
1723 2007 8.638629 GTCATAGGTAGGTGACTCTTATACAT 57.361 38.462 0.00 0.00 43.67 2.29
1745 2036 6.363626 ACATATTGATAGATCGACGAAAGCAC 59.636 38.462 0.00 0.00 0.00 4.40
1923 2218 2.040012 CGCCTACTCCTACTCCCTCATA 59.960 54.545 0.00 0.00 0.00 2.15
2019 2314 4.955774 GTCGCGGTGACCACGGTT 62.956 66.667 12.50 0.00 42.04 4.44
2094 2389 1.759236 GAACCTCCTCACGGGGTTT 59.241 57.895 0.00 0.00 41.22 3.27
2298 2596 1.303317 GGTGAACATGTTCCGGGCT 60.303 57.895 30.66 0.00 38.77 5.19
2550 2848 1.522355 CATCGCCGGCATCAAGTCT 60.522 57.895 28.98 0.00 0.00 3.24
2727 3037 4.788679 TGAAGTCATGCATGAGATCCATT 58.211 39.130 29.38 16.12 37.51 3.16
2855 3170 9.995003 TTTCCTTTCTTTTAACACAATGCATAT 57.005 25.926 0.00 0.00 0.00 1.78
2883 3204 7.551617 CAGATGGTCATACATATGCACATACAT 59.448 37.037 1.58 1.60 33.88 2.29
2901 3222 7.066163 CACATACATTCACACCTATGAACACAT 59.934 37.037 0.00 0.00 41.29 3.21
2908 3229 4.081406 ACACCTATGAACACATGCACATT 58.919 39.130 0.00 0.00 0.00 2.71
2998 3319 2.910544 TGCCTAGGACTTGAACCCTAA 58.089 47.619 14.75 0.00 34.86 2.69
3017 3338 5.394738 CCTAATGGACTGAGGATACCACTA 58.605 45.833 0.00 0.00 35.19 2.74
3108 3430 5.598830 GGTGATGGAGATTGTAACCTCTAGA 59.401 44.000 0.00 0.00 0.00 2.43
3379 3706 9.851686 ATGCCTGATCACAAAAGAATATAAGTA 57.148 29.630 0.00 0.00 0.00 2.24
3455 3782 2.027745 ACTCCACGCTCAATCTGTCATT 60.028 45.455 0.00 0.00 0.00 2.57
3456 3783 3.195610 ACTCCACGCTCAATCTGTCATTA 59.804 43.478 0.00 0.00 0.00 1.90
3537 3867 3.554692 GGACGGCTTGCACGATCG 61.555 66.667 14.88 14.88 34.93 3.69
3546 3876 1.014044 TTGCACGATCGTCCTTCTGC 61.014 55.000 19.84 17.86 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 1.141019 GTCTGCATCGACCGGCTAA 59.859 57.895 0.00 0.00 0.00 3.09
72 73 2.805546 GTCTGCATCGACCGGCTA 59.194 61.111 0.00 0.00 0.00 3.93
246 249 2.574450 ACTTAGTAGCTACCTCGCTCC 58.426 52.381 20.31 0.00 41.30 4.70
254 257 6.035217 GTGCCAGAACTAACTTAGTAGCTAC 58.965 44.000 16.43 16.43 38.26 3.58
261 264 3.681897 CAGCAGTGCCAGAACTAACTTAG 59.318 47.826 12.58 0.00 0.00 2.18
263 266 2.498167 CAGCAGTGCCAGAACTAACTT 58.502 47.619 12.58 0.00 0.00 2.66
265 268 0.519077 GCAGCAGTGCCAGAACTAAC 59.481 55.000 12.58 0.00 44.72 2.34
296 300 3.452474 GTCTCGTGCATGAAAGCTAGAT 58.548 45.455 10.41 0.00 34.99 1.98
297 301 2.732282 CGTCTCGTGCATGAAAGCTAGA 60.732 50.000 10.41 0.00 34.99 2.43
300 304 0.038251 TCGTCTCGTGCATGAAAGCT 60.038 50.000 10.41 0.00 34.99 3.74
301 305 0.368227 CTCGTCTCGTGCATGAAAGC 59.632 55.000 10.41 2.35 0.00 3.51
302 306 0.994995 CCTCGTCTCGTGCATGAAAG 59.005 55.000 10.41 4.49 0.00 2.62
303 307 0.317160 ACCTCGTCTCGTGCATGAAA 59.683 50.000 10.41 0.00 0.00 2.69
304 308 0.388520 CACCTCGTCTCGTGCATGAA 60.389 55.000 10.41 0.00 0.00 2.57
306 310 1.807165 CCACCTCGTCTCGTGCATG 60.807 63.158 0.00 0.00 0.00 4.06
307 311 2.573869 CCACCTCGTCTCGTGCAT 59.426 61.111 0.00 0.00 0.00 3.96
308 312 3.680786 CCCACCTCGTCTCGTGCA 61.681 66.667 0.00 0.00 0.00 4.57
310 314 3.633094 CTGCCCACCTCGTCTCGTG 62.633 68.421 0.00 0.00 0.00 4.35
311 315 3.374402 CTGCCCACCTCGTCTCGT 61.374 66.667 0.00 0.00 0.00 4.18
315 319 3.386237 AGAGCTGCCCACCTCGTC 61.386 66.667 0.00 0.00 33.39 4.20
316 320 3.699894 CAGAGCTGCCCACCTCGT 61.700 66.667 0.00 0.00 33.39 4.18
317 321 3.699894 ACAGAGCTGCCCACCTCG 61.700 66.667 0.00 0.00 33.39 4.63
318 322 2.046507 CACAGAGCTGCCCACCTC 60.047 66.667 0.00 0.00 0.00 3.85
319 323 3.644606 CCACAGAGCTGCCCACCT 61.645 66.667 0.00 0.00 0.00 4.00
320 324 2.697147 TTTCCACAGAGCTGCCCACC 62.697 60.000 0.00 0.00 0.00 4.61
324 328 2.079925 CTAACTTTCCACAGAGCTGCC 58.920 52.381 0.00 0.00 0.00 4.85
325 329 2.079925 CCTAACTTTCCACAGAGCTGC 58.920 52.381 0.00 0.00 0.00 5.25
326 330 2.079925 GCCTAACTTTCCACAGAGCTG 58.920 52.381 0.00 0.00 0.00 4.24
330 342 4.287067 AGAGAATGCCTAACTTTCCACAGA 59.713 41.667 0.00 0.00 33.87 3.41
338 350 4.762251 GGTGAAACAGAGAATGCCTAACTT 59.238 41.667 0.00 0.00 39.98 2.66
341 353 4.365514 TGGTGAAACAGAGAATGCCTAA 57.634 40.909 0.00 0.00 39.98 2.69
346 358 5.335426 CCAGTCAATGGTGAAACAGAGAATG 60.335 44.000 0.00 0.00 44.91 2.67
349 361 3.743521 CCAGTCAATGGTGAAACAGAGA 58.256 45.455 0.00 0.00 44.91 3.10
412 424 1.026182 TGCTAATTGCTCACAGCCGG 61.026 55.000 0.00 0.00 41.51 6.13
436 448 0.961753 ACAGCAGTCGACACATCAGA 59.038 50.000 19.50 0.00 0.00 3.27
440 452 1.669115 GGCACAGCAGTCGACACAT 60.669 57.895 19.50 0.00 0.00 3.21
442 454 3.406361 CGGCACAGCAGTCGACAC 61.406 66.667 19.50 9.51 0.00 3.67
446 458 4.700365 TCGTCGGCACAGCAGTCG 62.700 66.667 3.01 3.01 36.81 4.18
464 476 1.094785 CCATCACCTTTTGCCCTACG 58.905 55.000 0.00 0.00 0.00 3.51
489 501 1.112950 GGGTAGTCTTCCGAGAAGGG 58.887 60.000 11.99 0.00 41.52 3.95
511 527 0.036010 GTGGAGGTGGACATGACAGG 60.036 60.000 0.00 0.00 0.00 4.00
513 529 0.766288 TGGTGGAGGTGGACATGACA 60.766 55.000 0.00 0.00 0.00 3.58
514 530 0.620556 ATGGTGGAGGTGGACATGAC 59.379 55.000 0.00 0.00 0.00 3.06
515 531 0.620030 CATGGTGGAGGTGGACATGA 59.380 55.000 0.00 0.00 40.92 3.07
517 533 1.210204 AGCATGGTGGAGGTGGACAT 61.210 55.000 0.00 0.00 0.00 3.06
687 717 3.740397 CACTGCGCATGGTGGGTG 61.740 66.667 19.13 14.86 32.36 4.61
798 834 4.219944 TGCAGAGACCGAGTAGTAAATGTT 59.780 41.667 0.00 0.00 0.00 2.71
804 840 3.118371 TGATCTGCAGAGACCGAGTAGTA 60.118 47.826 22.96 0.00 0.00 1.82
805 841 2.294074 GATCTGCAGAGACCGAGTAGT 58.706 52.381 22.96 0.03 0.00 2.73
806 842 2.032799 GTGATCTGCAGAGACCGAGTAG 59.967 54.545 22.96 0.00 0.00 2.57
946 997 0.039617 GCCATCTCGATCGACCTCTG 60.040 60.000 15.15 4.16 0.00 3.35
959 1012 2.283529 ACGACCTTGTCCGCCATCT 61.284 57.895 0.00 0.00 0.00 2.90
1111 1242 7.173907 CAGAGTGAGAAACCAACAATCAAGTAT 59.826 37.037 0.00 0.00 32.30 2.12
1139 1270 1.227263 GCACATCGGCATCGGTACT 60.227 57.895 0.00 0.00 36.95 2.73
1157 1299 3.490759 GTCCACATCGTGCCTGCG 61.491 66.667 0.00 0.00 31.34 5.18
1445 1587 0.032912 TGTAGCCGATAGACACCCCA 60.033 55.000 0.00 0.00 39.76 4.96
1723 2007 6.073327 AGTGCTTTCGTCGATCTATCAATA 57.927 37.500 0.00 0.00 0.00 1.90
1745 2036 2.392662 TGCTCAACAGGATCTAGGGAG 58.607 52.381 0.00 0.00 0.00 4.30
1923 2218 2.093447 GGTGTCCTGGATTTCGATGAGT 60.093 50.000 0.00 0.00 0.00 3.41
2019 2314 0.250234 AGCCGCAGAGCATGTAGAAA 59.750 50.000 0.00 0.00 34.23 2.52
2094 2389 1.207089 CAGAATGGCTCGTAGAACCCA 59.793 52.381 0.00 0.00 43.26 4.51
2855 3170 4.067192 GTGCATATGTATGACCATCTGCA 58.933 43.478 4.29 9.32 46.36 4.41
2861 3176 7.173047 GTGAATGTATGTGCATATGTATGACCA 59.827 37.037 6.16 0.00 35.75 4.02
2883 3204 3.501828 GTGCATGTGTTCATAGGTGTGAA 59.498 43.478 0.00 0.00 35.84 3.18
2901 3222 2.104792 GCTCATAGGGGTAGAATGTGCA 59.895 50.000 0.00 0.00 33.54 4.57
2908 3229 1.133136 GGAGGTGCTCATAGGGGTAGA 60.133 57.143 0.00 0.00 31.08 2.59
3017 3338 2.025887 GTGGTTGGATGGTCAGAAGGAT 60.026 50.000 0.00 0.00 0.00 3.24
3022 3343 1.704628 ACATGTGGTTGGATGGTCAGA 59.295 47.619 0.00 0.00 0.00 3.27
3050 3372 8.432805 TGTATCTATCAGGAAATCCTTTTCTCC 58.567 37.037 0.00 0.00 46.09 3.71
3083 3405 4.104086 AGAGGTTACAATCTCCATCACCA 58.896 43.478 0.00 0.00 36.82 4.17
3108 3430 4.765339 GCCCTGACCATTACAACTACTTTT 59.235 41.667 0.00 0.00 0.00 2.27
3201 3528 1.308069 GGTCGGCTCACGTACCAGTA 61.308 60.000 0.00 0.00 44.69 2.74
3347 3674 6.012658 TCTTTTGTGATCAGGCATGTAAAC 57.987 37.500 0.00 0.00 0.00 2.01
3392 3719 5.700373 GCAGGGCAGAAAATACAATTTTTCA 59.300 36.000 11.07 0.00 44.41 2.69
3537 3867 2.961526 TTAGATGACGGCAGAAGGAC 57.038 50.000 0.00 0.00 0.00 3.85
3546 3876 3.005897 ACGATGGAGGATTTAGATGACGG 59.994 47.826 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.