Multiple sequence alignment - TraesCS1D01G295100

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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 TraesCS1D01G295100 chr1D 100.000 3455 0 0 1 3455 394058320 394061774 0.000000e+00 6381.0
1 TraesCS1D01G295100 chr1D 100.000 1312 0 0 3708 5019 394062027 394063338 0.000000e+00 2423.0
2 TraesCS1D01G295100 chr1B 91.539 2671 121 49 1 2639 528362018 528359421 0.000000e+00 3583.0
3 TraesCS1D01G295100 chr1B 91.828 930 62 11 3929 4849 528357741 528356817 0.000000e+00 1284.0
4 TraesCS1D01G295100 chr1B 95.584 770 34 0 2686 3455 528359100 528358331 0.000000e+00 1234.0
5 TraesCS1D01G295100 chr1B 93.165 278 18 1 1199 1475 614498855 614499132 1.680000e-109 407.0
6 TraesCS1D01G295100 chr1A 97.259 1204 28 2 1914 3113 491264277 491263075 0.000000e+00 2036.0
7 TraesCS1D01G295100 chr1A 94.883 1192 55 5 3831 5019 491250145 491248957 0.000000e+00 1858.0
8 TraesCS1D01G295100 chr1A 93.421 608 27 7 396 998 491268592 491267993 0.000000e+00 889.0
9 TraesCS1D01G295100 chr1A 97.391 345 9 0 3111 3455 491252355 491252011 5.600000e-164 588.0
10 TraesCS1D01G295100 chr1A 92.105 418 27 4 980 1392 491264686 491264270 7.240000e-163 584.0
11 TraesCS1D01G295100 chr1A 94.505 273 9 5 1 270 491268860 491268591 2.800000e-112 416.0
12 TraesCS1D01G295100 chr1A 89.820 167 12 3 713 878 271887429 271887591 5.090000e-50 209.0
13 TraesCS1D01G295100 chr1A 86.772 189 18 7 692 878 290344444 290344261 2.370000e-48 204.0
14 TraesCS1D01G295100 chr1A 82.278 158 19 9 4825 4975 199913689 199913844 1.470000e-25 128.0
15 TraesCS1D01G295100 chr1A 82.313 147 22 3 4821 4964 108355909 108355764 1.900000e-24 124.0
16 TraesCS1D01G295100 chr6D 83.871 465 55 16 4437 4890 175709498 175709953 4.640000e-115 425.0
17 TraesCS1D01G295100 chr6D 92.727 275 20 0 1199 1473 85809972 85809698 1.010000e-106 398.0
18 TraesCS1D01G295100 chr4A 93.818 275 17 0 1199 1473 618681051 618681325 1.010000e-111 414.0
19 TraesCS1D01G295100 chr4A 91.250 160 9 3 720 878 457823943 457823788 3.940000e-51 213.0
20 TraesCS1D01G295100 chr3D 91.727 278 22 1 1199 1475 34726593 34726316 7.880000e-103 385.0
21 TraesCS1D01G295100 chr3D 79.653 403 59 21 4432 4828 320640448 320640833 8.280000e-68 268.0
22 TraesCS1D01G295100 chr3B 91.007 278 24 1 1199 1476 57394227 57393951 1.710000e-99 374.0
23 TraesCS1D01G295100 chr3B 80.829 386 43 29 4518 4889 56090048 56090416 1.780000e-69 274.0
24 TraesCS1D01G295100 chr6A 90.681 279 25 1 1198 1475 103248505 103248227 2.210000e-98 370.0
25 TraesCS1D01G295100 chr6A 89.080 174 12 4 707 878 7988650 7988482 5.090000e-50 209.0
26 TraesCS1D01G295100 chr6A 84.091 132 12 9 4825 4949 95204985 95205114 8.830000e-23 119.0
27 TraesCS1D01G295100 chr7D 90.288 278 26 1 1199 1475 58772104 58772381 3.690000e-96 363.0
28 TraesCS1D01G295100 chr7D 87.879 198 22 2 3989 4185 28009244 28009440 1.090000e-56 231.0
29 TraesCS1D01G295100 chr5A 83.028 436 38 21 4432 4855 632667577 632667166 3.690000e-96 363.0
30 TraesCS1D01G295100 chr5A 82.493 377 51 13 4432 4801 242948170 242947802 2.920000e-82 316.0
31 TraesCS1D01G295100 chr2A 81.156 467 60 23 4432 4890 339088497 339088051 2.880000e-92 350.0
32 TraesCS1D01G295100 chr2A 83.333 198 27 6 4827 5019 135823498 135823302 1.440000e-40 178.0
33 TraesCS1D01G295100 chr5B 83.791 364 41 16 4505 4860 153881952 153882305 3.750000e-86 329.0
34 TraesCS1D01G295100 chr2B 84.821 224 29 5 3992 4212 148235127 148234906 2.350000e-53 220.0
35 TraesCS1D01G295100 chr2B 96.970 33 0 1 557 588 651649296 651649264 3.000000e-03 54.7
36 TraesCS1D01G295100 chr3A 88.827 179 13 4 702 878 68866474 68866647 3.940000e-51 213.0
37 TraesCS1D01G295100 chr3A 91.250 160 9 3 720 878 701344488 701344643 3.940000e-51 213.0
38 TraesCS1D01G295100 chr3A 80.769 182 25 10 4821 4995 532439744 532439922 3.150000e-27 134.0
39 TraesCS1D01G295100 chr3A 81.579 152 17 10 4821 4965 359219097 359218950 1.140000e-21 115.0
40 TraesCS1D01G295100 chr5D 89.017 173 12 4 708 878 488352314 488352481 1.830000e-49 207.0
41 TraesCS1D01G295100 chr6B 81.773 203 30 6 4822 5019 698965395 698965595 4.020000e-36 163.0
42 TraesCS1D01G295100 chr4B 100.000 29 0 0 557 585 524138988 524138960 3.000000e-03 54.7


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 TraesCS1D01G295100 chr1D 394058320 394063338 5018 False 4402.000000 6381 100.000000 1 5019 2 chr1D.!!$F1 5018
1 TraesCS1D01G295100 chr1B 528356817 528362018 5201 True 2033.666667 3583 92.983667 1 4849 3 chr1B.!!$R1 4848
2 TraesCS1D01G295100 chr1A 491248957 491252355 3398 True 1223.000000 1858 96.137000 3111 5019 2 chr1A.!!$R3 1908
3 TraesCS1D01G295100 chr1A 491263075 491268860 5785 True 981.250000 2036 94.322500 1 3113 4 chr1A.!!$R4 3112

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
437 462 0.249531 TTCTTGTTCACTACGCGGCA 60.250 50.0 12.47 0.00 0.00 5.69 F
1561 4920 0.238289 GACACCAGTTGCAATCACGG 59.762 55.0 0.59 3.58 0.00 4.94 F
1637 4997 0.037790 GCGACTCTGCCTTGAACTCT 60.038 55.0 0.00 0.00 0.00 3.24 F
2445 5810 0.108585 GGAGGACAGGCACTTTGTCA 59.891 55.0 6.89 0.00 45.23 3.58 F
3914 9275 0.094558 GTGTGTGTGTGTGTGTGTCG 59.905 55.0 0.00 0.00 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1638 4998 0.319083 TGGATCACGCGGTACAACTT 59.681 50.000 12.47 0.00 0.0 2.66 R
2445 5810 0.671781 GTCACTGCATCGCCTTGTCT 60.672 55.000 0.00 0.00 0.0 3.41 R
2782 6441 1.064017 TCCCCAAATACAGACATGGCC 60.064 52.381 0.00 0.00 0.0 5.36 R
3914 9275 0.166814 GAATCAACACAGAGGCGCAC 59.833 55.000 10.83 2.06 0.0 5.34 R
4869 10545 1.596496 CCCCTCACTTACCCCTTCAT 58.404 55.000 0.00 0.00 0.0 2.57 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
28 29 9.571810 TCATGAACTTTTTATCGAAATTGATGG 57.428 29.630 0.00 0.00 0.00 3.51
182 185 6.630443 CGTGAACAATTCTTGAGTTTGAAGAG 59.370 38.462 0.00 0.00 31.17 2.85
236 239 9.334693 GAATTCATGAACATTTCTTGAGTACAC 57.665 33.333 11.07 0.00 42.46 2.90
360 385 1.512926 CCGGTCAACCTCTTCACTTG 58.487 55.000 0.00 0.00 0.00 3.16
371 396 4.529769 ACCTCTTCACTTGTCATCTGATCA 59.470 41.667 0.00 0.00 0.00 2.92
381 406 2.102578 TCATCTGATCAAGCGACCTCA 58.897 47.619 0.00 0.00 0.00 3.86
394 419 1.586154 GACCTCACATTGTTGGGCCG 61.586 60.000 0.00 0.00 0.00 6.13
437 462 0.249531 TTCTTGTTCACTACGCGGCA 60.250 50.000 12.47 0.00 0.00 5.69
567 595 7.664082 ATGTGTGAACAAACATTTGAAAACA 57.336 28.000 11.24 8.47 40.55 2.83
821 851 7.764695 AAAAGAAAAAGAAAATACCCACACG 57.235 32.000 0.00 0.00 0.00 4.49
851 881 5.230942 CCCGTAAGATCAATGACATAGGAC 58.769 45.833 0.00 0.00 43.02 3.85
1091 4445 2.135933 GACCAGTTACTGCTGTGTGTC 58.864 52.381 6.88 4.30 34.84 3.67
1096 4450 1.404479 TTACTGCTGTGTGTCCCCGT 61.404 55.000 6.48 0.00 0.00 5.28
1146 4501 2.406616 CCAGAAAATGGGCCGACCG 61.407 63.158 0.00 0.00 46.36 4.79
1172 4527 1.048601 GATCCCCCGAAGTGCTATCA 58.951 55.000 0.00 0.00 0.00 2.15
1235 4590 1.852157 ATGCGGTGGTGTTCTCCCAT 61.852 55.000 0.00 0.00 33.76 4.00
1272 4627 1.073125 TGTTCTCATCCTTTTCCGGCA 59.927 47.619 0.00 0.00 0.00 5.69
1438 4797 7.394016 ACCATATGTGTAATCTCTGTGAACAA 58.606 34.615 1.24 0.00 0.00 2.83
1561 4920 0.238289 GACACCAGTTGCAATCACGG 59.762 55.000 0.59 3.58 0.00 4.94
1592 4952 1.808390 GGACGGGTCGAAATCACGG 60.808 63.158 1.09 0.00 35.91 4.94
1595 4955 2.822701 GGGTCGAAATCACGGGCC 60.823 66.667 0.00 0.00 0.00 5.80
1634 4994 3.016474 GCGCGACTCTGCCTTGAAC 62.016 63.158 12.10 0.00 0.00 3.18
1635 4995 1.373497 CGCGACTCTGCCTTGAACT 60.373 57.895 0.00 0.00 0.00 3.01
1636 4996 1.347817 CGCGACTCTGCCTTGAACTC 61.348 60.000 0.00 0.00 0.00 3.01
1637 4997 0.037790 GCGACTCTGCCTTGAACTCT 60.038 55.000 0.00 0.00 0.00 3.24
1638 4998 1.202582 GCGACTCTGCCTTGAACTCTA 59.797 52.381 0.00 0.00 0.00 2.43
1639 4999 2.352814 GCGACTCTGCCTTGAACTCTAA 60.353 50.000 0.00 0.00 0.00 2.10
1640 5000 3.506810 CGACTCTGCCTTGAACTCTAAG 58.493 50.000 0.00 0.00 0.00 2.18
1708 5069 2.901042 CCTCTAACTCCCGCCACC 59.099 66.667 0.00 0.00 0.00 4.61
1891 5252 4.845580 CCCTCTGCGCGGCATCTT 62.846 66.667 12.58 0.00 38.13 2.40
1892 5253 3.267860 CCTCTGCGCGGCATCTTC 61.268 66.667 12.58 0.00 38.13 2.87
1893 5254 3.624300 CTCTGCGCGGCATCTTCG 61.624 66.667 12.58 0.00 38.13 3.79
1894 5255 4.435436 TCTGCGCGGCATCTTCGT 62.435 61.111 12.58 0.00 38.13 3.85
1895 5256 3.918220 CTGCGCGGCATCTTCGTC 61.918 66.667 8.83 0.00 38.13 4.20
1898 5259 3.607987 CGCGGCATCTTCGTCGAC 61.608 66.667 5.18 5.18 32.30 4.20
1899 5260 2.202623 GCGGCATCTTCGTCGACT 60.203 61.111 14.70 0.00 0.00 4.18
1900 5261 1.805945 GCGGCATCTTCGTCGACTT 60.806 57.895 14.70 0.00 0.00 3.01
1917 5278 4.616747 GACTTCTTCGACAACTTCTTCG 57.383 45.455 0.00 0.00 36.55 3.79
2445 5810 0.108585 GGAGGACAGGCACTTTGTCA 59.891 55.000 6.89 0.00 45.23 3.58
2777 6436 1.599542 ACTAACGACTACGGGTATCGC 59.400 52.381 0.00 0.00 44.46 4.58
2782 6441 2.225019 ACGACTACGGGTATCGCATTAG 59.775 50.000 0.00 0.00 44.46 1.73
3259 6918 4.771577 AGGCGATACTCTTCTCATCATGAT 59.228 41.667 1.18 1.18 0.00 2.45
3431 7090 7.935520 TGTGTGCAACTTTATGAAATTCTACA 58.064 30.769 0.00 0.00 38.04 2.74
3774 7433 6.817765 TTTTCGCTGTCAGATCCTTAATTT 57.182 33.333 3.32 0.00 0.00 1.82
3850 9207 2.277247 GCGTGTGTGTGTGTGTGC 60.277 61.111 0.00 0.00 0.00 4.57
3876 9237 3.860125 GCGTGCGTGTGTGTGTGT 61.860 61.111 0.00 0.00 0.00 3.72
3880 9241 1.669437 TGCGTGTGTGTGTGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
3884 9245 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3905 9266 2.021243 CGTGCGTGTGTGTGTGTG 59.979 61.111 0.00 0.00 0.00 3.82
3914 9275 0.094558 GTGTGTGTGTGTGTGTGTCG 59.905 55.000 0.00 0.00 0.00 4.35
3916 9277 0.094558 GTGTGTGTGTGTGTGTCGTG 59.905 55.000 0.00 0.00 0.00 4.35
4073 9743 6.410540 CAAATCAGCTAGAAGAAACCTAGGT 58.589 40.000 9.21 9.21 43.36 3.08
4096 9766 4.899457 TGGATCACCGTCCTAACAGATTAT 59.101 41.667 0.00 0.00 39.12 1.28
4123 9793 8.518702 AGAGTTTGAATCAAAAGATTTCTAGCC 58.481 33.333 10.27 0.00 35.03 3.93
4124 9794 7.308435 AGTTTGAATCAAAAGATTTCTAGCCG 58.692 34.615 10.27 0.00 35.03 5.52
4151 9821 1.080569 GCCATTGTGTTTGCCTCCG 60.081 57.895 0.00 0.00 0.00 4.63
4159 9829 0.249868 TGTTTGCCTCCGTCAGACAG 60.250 55.000 0.41 0.00 0.00 3.51
4160 9830 0.951040 GTTTGCCTCCGTCAGACAGG 60.951 60.000 0.41 1.86 0.00 4.00
4185 9855 7.035612 GGAGTAAATTGAACATCACCAATTCC 58.964 38.462 0.00 0.00 40.78 3.01
4201 9871 4.142816 CCAATTCCGTGAGCTAAGTGAAAG 60.143 45.833 0.00 0.00 0.00 2.62
4354 10024 2.436109 GGGTTGCTTCTGGGCTGA 59.564 61.111 0.00 0.00 0.00 4.26
4359 10029 1.758440 TTGCTTCTGGGCTGACGACT 61.758 55.000 0.00 0.00 0.00 4.18
4466 10138 0.618458 TCTTCACGAATTGGAGGGGG 59.382 55.000 0.00 0.00 30.47 5.40
4491 10165 2.158813 TGAGGAGGGACACAAAGAACAC 60.159 50.000 0.00 0.00 0.00 3.32
4671 10347 4.645535 TGAGTCTTGAAGATTCACTTGGG 58.354 43.478 15.24 0.00 36.27 4.12
4701 10377 3.375699 TCCCTTAGGAGGTCTTGATGAC 58.624 50.000 0.00 0.00 41.85 3.06
4869 10545 6.200114 GGGGGAGTATATATAGTACAAGCCA 58.800 44.000 11.26 0.00 0.00 4.75
4885 10561 1.561542 AGCCATGAAGGGGTAAGTGAG 59.438 52.381 0.00 0.00 36.76 3.51
4898 10574 0.475044 AAGTGAGGGGCAAAACGGTA 59.525 50.000 0.00 0.00 0.00 4.02
4906 10582 1.248101 GGCAAAACGGTACATGGGCT 61.248 55.000 0.00 0.00 0.00 5.19
4964 10640 2.346365 GGAACGGCCGGAAGTTCT 59.654 61.111 31.76 2.42 44.33 3.01
5000 10676 3.830192 GCAAGCTTCCGGGCATGG 61.830 66.667 0.00 0.00 32.45 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
335 340 0.613777 AAGAGGTTGACCGGGATCAC 59.386 55.000 6.32 0.00 42.08 3.06
360 385 2.159184 TGAGGTCGCTTGATCAGATGAC 60.159 50.000 12.36 12.36 0.00 3.06
371 396 1.238439 CCAACAATGTGAGGTCGCTT 58.762 50.000 0.00 0.00 0.00 4.68
381 406 2.282887 GGTCCGGCCCAACAATGT 60.283 61.111 0.00 0.00 0.00 2.71
431 456 0.028242 TAAGTGTTTGTTGTGCCGCG 59.972 50.000 0.00 0.00 0.00 6.46
437 462 3.136626 AGCTCCTCCTAAGTGTTTGTTGT 59.863 43.478 0.00 0.00 0.00 3.32
611 639 7.712797 TCCAAGAAGTGTTAGGAAATTTCAAC 58.287 34.615 19.49 15.45 0.00 3.18
690 719 7.391016 CCATTGAAAAACTGTTCGTCTTTTTC 58.609 34.615 7.55 7.55 41.32 2.29
704 733 5.624509 GCCCTAGACATTCCCATTGAAAAAC 60.625 44.000 0.00 0.00 36.33 2.43
808 837 3.617284 GGGAGATTCGTGTGGGTATTTT 58.383 45.455 0.00 0.00 0.00 1.82
821 851 4.991687 GTCATTGATCTTACGGGGAGATTC 59.008 45.833 0.00 0.00 34.13 2.52
851 881 6.806388 TGCCATATGTATTGCACATCTAAG 57.194 37.500 1.24 0.00 44.99 2.18
1071 4425 2.135933 GACACACAGCAGTAACTGGTC 58.864 52.381 0.00 0.00 40.40 4.02
1146 4501 2.640184 CACTTCGGGGGATCTAAAACC 58.360 52.381 0.00 0.00 0.00 3.27
1172 4527 1.303317 GAGGCGACCAAACCCACAT 60.303 57.895 0.00 0.00 0.00 3.21
1235 4590 5.186215 TGAGAACAACCGTCATACCAAGATA 59.814 40.000 0.00 0.00 0.00 1.98
1291 4650 3.478857 AACATAGTCCACAAACGTCCA 57.521 42.857 0.00 0.00 0.00 4.02
1398 4757 2.961526 ATGGTCACCATACGAGACAC 57.038 50.000 7.87 0.00 43.19 3.67
1475 4834 2.415512 GGAAAATCGTATATGGCGCTCC 59.584 50.000 7.64 0.00 0.00 4.70
1476 4835 3.064207 TGGAAAATCGTATATGGCGCTC 58.936 45.455 7.64 0.00 0.00 5.03
1519 4878 1.139734 CGTCAGCACCGTCATAGCT 59.860 57.895 0.00 0.00 39.63 3.32
1577 4937 3.192922 GCCCGTGATTTCGACCCG 61.193 66.667 0.00 0.00 0.00 5.28
1587 4947 1.202879 ACTGAAAAATCTGGCCCGTGA 60.203 47.619 0.00 0.00 0.00 4.35
1592 4952 2.291605 ACCCCTACTGAAAAATCTGGCC 60.292 50.000 0.00 0.00 0.00 5.36
1595 4955 3.127030 GCGAACCCCTACTGAAAAATCTG 59.873 47.826 0.00 0.00 0.00 2.90
1625 4985 4.638304 GGTACAACTTAGAGTTCAAGGCA 58.362 43.478 0.00 0.00 36.03 4.75
1634 4994 2.624316 TCACGCGGTACAACTTAGAG 57.376 50.000 12.47 0.00 0.00 2.43
1635 4995 2.159338 GGATCACGCGGTACAACTTAGA 60.159 50.000 12.47 0.00 0.00 2.10
1636 4996 2.190981 GGATCACGCGGTACAACTTAG 58.809 52.381 12.47 0.00 0.00 2.18
1637 4997 1.545136 TGGATCACGCGGTACAACTTA 59.455 47.619 12.47 0.00 0.00 2.24
1638 4998 0.319083 TGGATCACGCGGTACAACTT 59.681 50.000 12.47 0.00 0.00 2.66
1639 4999 0.389426 GTGGATCACGCGGTACAACT 60.389 55.000 12.47 0.00 0.00 3.16
1640 5000 1.356527 GGTGGATCACGCGGTACAAC 61.357 60.000 12.47 1.31 34.83 3.32
1708 5069 1.523938 GGCGCTTAGGGTTAGGCTG 60.524 63.158 7.64 0.00 30.21 4.85
1808 5169 3.114616 CGCCAGTTCCTGCAGACG 61.115 66.667 17.39 0.00 0.00 4.18
1895 5256 7.046852 GTCGAAGAAGTTGTCGAAGAAGTCG 62.047 48.000 9.25 0.00 46.91 4.18
1896 5257 4.146788 GTCGAAGAAGTTGTCGAAGAAGTC 59.853 45.833 9.25 0.00 46.91 3.01
1897 5258 4.043073 GTCGAAGAAGTTGTCGAAGAAGT 58.957 43.478 9.25 0.00 46.91 3.01
1898 5259 4.042398 TGTCGAAGAAGTTGTCGAAGAAG 58.958 43.478 9.25 0.00 46.91 2.85
1899 5260 4.036567 TGTCGAAGAAGTTGTCGAAGAA 57.963 40.909 9.25 0.00 46.91 2.52
1900 5261 3.703286 TGTCGAAGAAGTTGTCGAAGA 57.297 42.857 9.25 0.00 46.91 2.87
1906 5267 3.871594 CCTTCTGTTGTCGAAGAAGTTGT 59.128 43.478 18.60 0.00 45.24 3.32
1915 5276 1.300620 CCGTGCCTTCTGTTGTCGA 60.301 57.895 0.00 0.00 0.00 4.20
1917 5278 1.166531 AAGCCGTGCCTTCTGTTGTC 61.167 55.000 0.00 0.00 0.00 3.18
2154 5515 1.810030 GATCGAACACGAGGTGCCC 60.810 63.158 0.00 0.00 39.38 5.36
2445 5810 0.671781 GTCACTGCATCGCCTTGTCT 60.672 55.000 0.00 0.00 0.00 3.41
2777 6436 4.279169 CCCAAATACAGACATGGCCTAATG 59.721 45.833 3.32 2.28 0.00 1.90
2782 6441 1.064017 TCCCCAAATACAGACATGGCC 60.064 52.381 0.00 0.00 0.00 5.36
3237 6896 4.511617 TCATGATGAGAAGAGTATCGCC 57.488 45.455 0.00 0.00 42.67 5.54
3834 9191 2.021243 CGCACACACACACACACG 59.979 61.111 0.00 0.00 0.00 4.49
3860 9217 2.021243 CACACACACACACGCACG 59.979 61.111 0.00 0.00 0.00 5.34
3864 9221 0.179227 CACACACACACACACACACG 60.179 55.000 0.00 0.00 0.00 4.49
3866 9223 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3872 9233 1.669437 ACGCACACACACACACACA 60.669 52.632 0.00 0.00 0.00 3.72
3876 9237 3.858989 CGCACGCACACACACACA 61.859 61.111 0.00 0.00 0.00 3.72
3880 9241 3.858989 CACACGCACGCACACACA 61.859 61.111 0.00 0.00 0.00 3.72
3884 9245 3.858989 CACACACACGCACGCACA 61.859 61.111 0.00 0.00 0.00 4.57
3905 9266 3.702555 GAGGCGCACGACACACAC 61.703 66.667 10.83 0.00 0.00 3.82
3914 9275 0.166814 GAATCAACACAGAGGCGCAC 59.833 55.000 10.83 2.06 0.00 5.34
3916 9277 0.166814 GTGAATCAACACAGAGGCGC 59.833 55.000 0.00 0.00 40.11 6.53
4073 9743 2.225382 TCTGTTAGGACGGTGATCCA 57.775 50.000 0.00 0.00 41.73 3.41
4151 9821 5.305585 TGTTCAATTTACTCCCTGTCTGAC 58.694 41.667 0.00 0.00 0.00 3.51
4159 9829 5.975693 TTGGTGATGTTCAATTTACTCCC 57.024 39.130 0.00 0.00 0.00 4.30
4160 9830 7.035612 GGAATTGGTGATGTTCAATTTACTCC 58.964 38.462 0.00 0.00 41.80 3.85
4185 9855 3.433274 TGATTGCTTTCACTTAGCTCACG 59.567 43.478 0.00 0.00 39.38 4.35
4201 9871 5.640732 ACTGGATATGTTTTCGTTGATTGC 58.359 37.500 0.00 0.00 0.00 3.56
4298 9968 2.586792 GGATCGCACTGAAGCCCT 59.413 61.111 0.00 0.00 0.00 5.19
4354 10024 5.007724 CCAAGCTTTTGAAGAAGTTAGTCGT 59.992 40.000 0.00 0.00 0.00 4.34
4359 10029 5.240844 GGTAGCCAAGCTTTTGAAGAAGTTA 59.759 40.000 0.00 0.00 40.44 2.24
4466 10138 3.551846 TCTTTGTGTCCCTCCTCAAAAC 58.448 45.455 0.00 0.00 31.07 2.43
4491 10165 2.722094 TGATTTCTCCATGTTTCCCCG 58.278 47.619 0.00 0.00 0.00 5.73
4645 10320 6.171921 CAAGTGAATCTTCAAGACTCATCCT 58.828 40.000 1.11 0.00 32.76 3.24
4701 10377 5.274279 GGGAGAAGGATTCCCCAAGTGAG 62.274 56.522 0.00 0.00 46.11 3.51
4869 10545 1.596496 CCCCTCACTTACCCCTTCAT 58.404 55.000 0.00 0.00 0.00 2.57
4885 10561 1.600511 CCCATGTACCGTTTTGCCCC 61.601 60.000 0.00 0.00 0.00 5.80
4906 10582 4.908687 AGCAGTGTGTTCGGCGCA 62.909 61.111 10.83 0.00 34.05 6.09
4946 10622 2.745100 GAACTTCCGGCCGTTCCC 60.745 66.667 26.12 4.00 34.83 3.97
4947 10623 2.033194 CAGAACTTCCGGCCGTTCC 61.033 63.158 26.12 6.74 40.18 3.62


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

AutoCloner maintained by Alex Coulton.