Multiple sequence alignment - TraesCS4B01G059900

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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 TraesCS4B01G059900 chr4B 100.000 3021 0 0 1 3021 51126326 51123306 0.000000e+00 5579.0
1 TraesCS4B01G059900 chr4B 91.181 1304 80 15 431 1722 51748464 51749744 0.000000e+00 1738.0
2 TraesCS4B01G059900 chr4B 94.444 36 2 0 1761 1796 413165333 413165298 4.210000e-04 56.5
3 TraesCS4B01G059900 chr4D 90.038 1847 116 37 318 2137 35173047 35171242 0.000000e+00 2329.0
4 TraesCS4B01G059900 chr4D 91.685 1395 82 17 328 1701 35521655 35523036 0.000000e+00 1903.0
5 TraesCS4B01G059900 chr4D 91.667 48 4 0 2 49 35518996 35519043 1.940000e-07 67.6
6 TraesCS4B01G059900 chr4D 94.444 36 2 0 1761 1796 81595953 81595918 4.210000e-04 56.5
7 TraesCS4B01G059900 chr4A 87.573 1714 148 37 455 2132 567470407 567472091 0.000000e+00 1925.0
8 TraesCS4B01G059900 chr4A 89.129 1435 99 24 328 1720 567038830 567037411 0.000000e+00 1733.0
9 TraesCS4B01G059900 chr4A 88.470 902 83 11 2136 3018 242880157 242879258 0.000000e+00 1070.0
10 TraesCS4B01G059900 chr4A 75.455 330 55 18 2 306 567039236 567038908 1.460000e-28 137.0
11 TraesCS4B01G059900 chr5D 90.315 888 76 6 2136 3021 563999700 563998821 0.000000e+00 1155.0
12 TraesCS4B01G059900 chr5D 89.210 899 76 12 2134 3021 312601373 312600485 0.000000e+00 1103.0
13 TraesCS4B01G059900 chr5A 88.641 898 80 17 2134 3021 406665097 406664212 0.000000e+00 1074.0
14 TraesCS4B01G059900 chr5A 100.000 32 0 0 1761 1792 345860012 345860043 3.250000e-05 60.2
15 TraesCS4B01G059900 chr5A 82.857 70 6 4 1747 1816 650673535 650673472 1.170000e-04 58.4
16 TraesCS4B01G059900 chr2D 87.739 889 99 6 2136 3021 533319063 533318182 0.000000e+00 1029.0
17 TraesCS4B01G059900 chr2D 86.913 894 106 7 2133 3021 481950072 481950959 0.000000e+00 992.0
18 TraesCS4B01G059900 chr5B 87.584 894 95 13 2133 3021 170378484 170379366 0.000000e+00 1022.0
19 TraesCS4B01G059900 chr3D 87.191 890 104 8 2134 3021 347627822 347626941 0.000000e+00 1003.0
20 TraesCS4B01G059900 chr3A 87.528 882 90 14 2134 3010 448711694 448712560 0.000000e+00 1002.0
21 TraesCS4B01G059900 chr7B 89.655 58 5 1 188 244 711542186 711542243 4.180000e-09 73.1
22 TraesCS4B01G059900 chrUn 100.000 29 0 0 1761 1789 184676518 184676546 2.000000e-03 54.7
23 TraesCS4B01G059900 chrUn 100.000 29 0 0 1761 1789 270741550 270741578 2.000000e-03 54.7
24 TraesCS4B01G059900 chr6D 96.970 33 0 1 1761 1792 236052657 236052689 2.000000e-03 54.7
25 TraesCS4B01G059900 chr6D 96.970 33 0 1 1761 1792 451106429 451106461 2.000000e-03 54.7
26 TraesCS4B01G059900 chr1A 96.875 32 1 0 1761 1792 4396090 4396059 2.000000e-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 TraesCS4B01G059900 chr4B 51123306 51126326 3020 True 5579.0 5579 100.000 1 3021 1 chr4B.!!$R1 3020
1 TraesCS4B01G059900 chr4B 51748464 51749744 1280 False 1738.0 1738 91.181 431 1722 1 chr4B.!!$F1 1291
2 TraesCS4B01G059900 chr4D 35171242 35173047 1805 True 2329.0 2329 90.038 318 2137 1 chr4D.!!$R1 1819
3 TraesCS4B01G059900 chr4D 35518996 35523036 4040 False 985.3 1903 91.676 2 1701 2 chr4D.!!$F1 1699
4 TraesCS4B01G059900 chr4A 567470407 567472091 1684 False 1925.0 1925 87.573 455 2132 1 chr4A.!!$F1 1677
5 TraesCS4B01G059900 chr4A 242879258 242880157 899 True 1070.0 1070 88.470 2136 3018 1 chr4A.!!$R1 882
6 TraesCS4B01G059900 chr4A 567037411 567039236 1825 True 935.0 1733 82.292 2 1720 2 chr4A.!!$R2 1718
7 TraesCS4B01G059900 chr5D 563998821 563999700 879 True 1155.0 1155 90.315 2136 3021 1 chr5D.!!$R2 885
8 TraesCS4B01G059900 chr5D 312600485 312601373 888 True 1103.0 1103 89.210 2134 3021 1 chr5D.!!$R1 887
9 TraesCS4B01G059900 chr5A 406664212 406665097 885 True 1074.0 1074 88.641 2134 3021 1 chr5A.!!$R1 887
10 TraesCS4B01G059900 chr2D 533318182 533319063 881 True 1029.0 1029 87.739 2136 3021 1 chr2D.!!$R1 885
11 TraesCS4B01G059900 chr2D 481950072 481950959 887 False 992.0 992 86.913 2133 3021 1 chr2D.!!$F1 888
12 TraesCS4B01G059900 chr5B 170378484 170379366 882 False 1022.0 1022 87.584 2133 3021 1 chr5B.!!$F1 888
13 TraesCS4B01G059900 chr3D 347626941 347627822 881 True 1003.0 1003 87.191 2134 3021 1 chr3D.!!$R1 887
14 TraesCS4B01G059900 chr3A 448711694 448712560 866 False 1002.0 1002 87.528 2134 3010 1 chr3A.!!$F1 876

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
388 2736 0.037303 ACGAGGGTTCACCGTCTCTA 59.963 55.0 15.04 0.0 45.91 2.43 F
392 2740 0.384669 GGGTTCACCGTCTCTATCCG 59.615 60.0 0.00 0.0 36.71 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1919 4367 0.442310 CACTTCGTGTAATGTGGGCG 59.558 55.0 0.0 0.0 0.0 6.13 R
2261 4739 1.118356 TTTGGGCTGAAATTGGCGGT 61.118 50.0 0.0 0.0 0.0 5.68 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
32 33 4.122776 CTGAGAAGTAACCAATCCATCGG 58.877 47.826 0.00 0.00 0.00 4.18
36 37 2.999331 AGTAACCAATCCATCGGTTGG 58.001 47.619 0.12 0.12 45.13 3.77
48 49 6.746745 TCCATCGGTTGGTTATACTTTTTC 57.253 37.500 5.07 0.00 46.52 2.29
50 51 5.163591 CCATCGGTTGGTTATACTTTTTCCC 60.164 44.000 0.00 0.00 40.99 3.97
55 56 6.588373 CGGTTGGTTATACTTTTTCCCAAATG 59.412 38.462 0.00 0.00 34.05 2.32
86 2352 1.523711 CGTCAGGTGTGTGGCACTT 60.524 57.895 19.83 0.00 46.86 3.16
87 2353 1.095228 CGTCAGGTGTGTGGCACTTT 61.095 55.000 19.83 0.00 46.86 2.66
102 2368 1.950909 CACTTTGGCCCTGACGTTTTA 59.049 47.619 0.00 0.00 0.00 1.52
105 2371 0.106335 TTGGCCCTGACGTTTTACGA 59.894 50.000 0.00 0.00 46.05 3.43
108 2374 0.725117 GCCCTGACGTTTTACGATGG 59.275 55.000 6.19 4.92 46.05 3.51
117 2383 6.613233 TGACGTTTTACGATGGCAATTTTAT 58.387 32.000 6.19 0.00 46.05 1.40
118 2384 6.743627 TGACGTTTTACGATGGCAATTTTATC 59.256 34.615 6.19 0.00 46.05 1.75
138 2404 9.487790 TTTTATCCACACAAGGATGAAAAATTC 57.512 29.630 9.59 0.00 45.24 2.17
139 2405 6.923199 ATCCACACAAGGATGAAAAATTCT 57.077 33.333 0.00 0.00 46.47 2.40
149 2415 5.122396 AGGATGAAAAATTCTAGCGACACAC 59.878 40.000 0.00 0.00 0.00 3.82
153 2419 2.717580 AATTCTAGCGACACACGACA 57.282 45.000 0.00 0.00 45.77 4.35
155 2421 2.046283 TTCTAGCGACACACGACAAG 57.954 50.000 0.00 0.00 45.77 3.16
156 2422 0.949397 TCTAGCGACACACGACAAGT 59.051 50.000 0.00 0.00 45.77 3.16
157 2423 1.335810 TCTAGCGACACACGACAAGTT 59.664 47.619 0.00 0.00 45.77 2.66
158 2424 2.549329 TCTAGCGACACACGACAAGTTA 59.451 45.455 0.00 0.00 45.77 2.24
161 2427 2.475111 AGCGACACACGACAAGTTATTG 59.525 45.455 0.00 0.00 45.77 1.90
194 2482 5.138125 ACTGAATCACGAAAATTGCCATT 57.862 34.783 0.00 0.00 0.00 3.16
209 2497 3.937814 TGCCATTCTCGTGTCACTAAAT 58.062 40.909 0.65 0.00 0.00 1.40
210 2498 4.323417 TGCCATTCTCGTGTCACTAAATT 58.677 39.130 0.65 0.00 0.00 1.82
214 2502 5.106555 CCATTCTCGTGTCACTAAATTTGCT 60.107 40.000 0.00 0.00 0.00 3.91
241 2530 0.531974 ACGTTCGAAGTGCCATGTGT 60.532 50.000 0.00 0.00 0.00 3.72
244 2533 1.873591 GTTCGAAGTGCCATGTGTTCT 59.126 47.619 0.00 0.00 0.00 3.01
258 2547 2.132762 GTGTTCTTACCTGACGTGTGG 58.867 52.381 0.00 0.00 0.00 4.17
368 2716 2.592287 GGTTGCCCGGACGAACAA 60.592 61.111 0.73 0.00 0.00 2.83
388 2736 0.037303 ACGAGGGTTCACCGTCTCTA 59.963 55.000 15.04 0.00 45.91 2.43
392 2740 0.384669 GGGTTCACCGTCTCTATCCG 59.615 60.000 0.00 0.00 36.71 4.18
438 2786 4.517832 GGGTTCAAATTAGACAAGTTCGGT 59.482 41.667 0.00 0.00 0.00 4.69
829 3234 2.683362 GAGGAAGGCTTAATTTGGACGG 59.317 50.000 0.00 0.00 0.00 4.79
906 3314 2.584418 CCACGAGCGATGCCTGAG 60.584 66.667 0.00 0.00 0.00 3.35
908 3316 1.875813 CACGAGCGATGCCTGAGAC 60.876 63.158 0.00 0.00 0.00 3.36
912 3320 4.899239 GCGATGCCTGAGACCCCG 62.899 72.222 0.00 0.00 0.00 5.73
1087 3510 0.452184 GATCGAAGAGCCAGACGTGA 59.548 55.000 0.00 0.00 43.63 4.35
1181 3610 0.620556 ACCCCATCTTCTTCGTGCAT 59.379 50.000 0.00 0.00 0.00 3.96
1291 3720 0.951040 CGGGCAGACAGTTCCACTTC 60.951 60.000 0.00 0.00 0.00 3.01
1298 3727 2.696707 AGACAGTTCCACTTCCACGTTA 59.303 45.455 0.00 0.00 0.00 3.18
1625 4063 2.360350 CGGCAGCTGGTGGTGATT 60.360 61.111 17.12 0.00 43.76 2.57
1634 4072 3.134127 GTGGTGATTCCGGCCAGC 61.134 66.667 2.24 5.03 39.52 4.85
1704 4143 3.791353 GCTGTACTTGTGTTTGTTTCTGC 59.209 43.478 0.00 0.00 0.00 4.26
1733 4176 0.537371 GCACCCCATGTACATAGCCC 60.537 60.000 8.32 0.00 0.00 5.19
1757 4200 4.384056 TGTACCGATACTACTCTACTGCC 58.616 47.826 0.00 0.00 32.00 4.85
1768 4211 4.062677 ACTCTACTGCCGTGTGTAAAAA 57.937 40.909 0.00 0.00 0.00 1.94
1769 4212 3.805971 ACTCTACTGCCGTGTGTAAAAAC 59.194 43.478 0.00 0.00 0.00 2.43
1770 4213 3.794717 TCTACTGCCGTGTGTAAAAACA 58.205 40.909 0.00 0.00 0.00 2.83
1772 4215 4.817464 TCTACTGCCGTGTGTAAAAACATT 59.183 37.500 0.00 0.00 31.49 2.71
1774 4217 3.630312 ACTGCCGTGTGTAAAAACATTCT 59.370 39.130 0.00 0.00 31.49 2.40
1775 4218 4.097286 ACTGCCGTGTGTAAAAACATTCTT 59.903 37.500 0.00 0.00 31.49 2.52
1777 4220 6.016610 ACTGCCGTGTGTAAAAACATTCTTAT 60.017 34.615 0.00 0.00 31.49 1.73
1779 4222 8.046294 TGCCGTGTGTAAAAACATTCTTATAT 57.954 30.769 0.00 0.00 31.49 0.86
1780 4223 8.516234 TGCCGTGTGTAAAAACATTCTTATATT 58.484 29.630 0.00 0.00 31.49 1.28
1781 4224 9.991388 GCCGTGTGTAAAAACATTCTTATATTA 57.009 29.630 0.00 0.00 31.49 0.98
1835 4281 3.073678 TGTACATTGTGCTGTGATCCAC 58.926 45.455 6.45 0.00 34.56 4.02
1836 4282 2.275134 ACATTGTGCTGTGATCCACA 57.725 45.000 0.00 0.00 42.45 4.17
1850 4296 4.327357 GTGATCCACAGTACAGATGAAACG 59.673 45.833 0.00 0.00 34.08 3.60
1865 4311 3.459145 TGAAACGTGAAATCAACCGAGA 58.541 40.909 0.00 0.00 0.00 4.04
1866 4312 3.493129 TGAAACGTGAAATCAACCGAGAG 59.507 43.478 0.00 0.00 0.00 3.20
2001 4456 0.104725 GATCATGGGTCCCCTCTCCT 60.105 60.000 5.13 0.00 36.94 3.69
2007 4464 1.612739 GGTCCCCTCTCCTTCCGTT 60.613 63.158 0.00 0.00 0.00 4.44
2008 4465 1.199425 GGTCCCCTCTCCTTCCGTTT 61.199 60.000 0.00 0.00 0.00 3.60
2031 4488 1.331756 CGCATCAGCAATACAAGGGAC 59.668 52.381 0.00 0.00 42.27 4.46
2033 4490 3.741075 CGCATCAGCAATACAAGGGACTA 60.741 47.826 0.00 0.00 38.39 2.59
2048 4505 1.891150 GGACTAGGACAGTTTCGGACA 59.109 52.381 0.00 0.00 37.72 4.02
2061 4518 2.127271 TCGGACAGGTAATGGTACGA 57.873 50.000 0.00 0.00 32.51 3.43
2098 4555 3.162666 AGGTTCTGGTATTCAGTCGTCA 58.837 45.455 0.00 0.00 43.76 4.35
2115 4572 2.360350 AGTGGTGAGGCAATGGCG 60.360 61.111 0.00 0.00 42.47 5.69
2125 4582 2.837883 GCAATGGCGCCATCATCGT 61.838 57.895 40.38 23.24 35.31 3.73
2217 4680 1.078285 GTAATTTCGGCGTGGGGGA 60.078 57.895 6.85 0.00 0.00 4.81
2261 4739 2.685534 CCCATAGTTCGGCCCCCAA 61.686 63.158 0.00 0.00 0.00 4.12
2331 4814 2.292016 TCGTCGGCACAAATTCAACATT 59.708 40.909 0.00 0.00 0.00 2.71
2335 4818 4.384547 GTCGGCACAAATTCAACATTAACC 59.615 41.667 0.00 0.00 0.00 2.85
2416 4902 8.130307 AGCAAACTCATAATTCAAACACAAAC 57.870 30.769 0.00 0.00 0.00 2.93
2510 4997 2.780065 TGCAGTTCTTGATGCACAAC 57.220 45.000 0.00 0.00 46.97 3.32
2512 4999 3.475575 TGCAGTTCTTGATGCACAACTA 58.524 40.909 0.00 0.00 46.97 2.24
2567 5054 0.397941 GCCCATGATGCTGGTAGCTA 59.602 55.000 0.00 0.00 42.97 3.32
2615 5102 4.917385 TGCCTGTAATATGGTTCAGTGTT 58.083 39.130 0.00 0.00 0.00 3.32
2638 5125 0.320247 CACTTGCTCTTCCTGCTCGT 60.320 55.000 0.00 0.00 0.00 4.18
2704 5192 4.286297 TCCCACATTTGATCTTTCGACT 57.714 40.909 0.00 0.00 0.00 4.18
2721 5209 0.556747 ACTAGGTCAGAGCGGGGTAT 59.443 55.000 0.00 0.00 0.00 2.73
2728 5216 2.125961 AGAGCGGGGTATCGGACAC 61.126 63.158 0.00 0.00 0.00 3.67
2778 5267 0.905357 CCCACTCGACATCCTTCCTT 59.095 55.000 0.00 0.00 0.00 3.36
2806 5295 4.262894 CCTCCTAACACTTGGCAAAGTAGA 60.263 45.833 6.06 0.00 45.07 2.59
2863 5352 3.786368 TCACAAATGTGGACCATCTCA 57.214 42.857 13.22 0.00 45.65 3.27
2864 5353 4.305539 TCACAAATGTGGACCATCTCAT 57.694 40.909 13.22 0.00 45.65 2.90
2889 5381 3.829601 AGATGCCATCTGCTAGGTAGTAC 59.170 47.826 6.37 0.00 42.00 2.73
2970 5463 1.537202 GCTTGGCAAAGACATTCGAGT 59.463 47.619 4.56 0.00 35.19 4.18
2975 5468 2.334838 GCAAAGACATTCGAGTACCGT 58.665 47.619 4.11 0.00 39.75 4.83
3010 5504 3.264193 TCATTGTGAGTTCCTGGCATACT 59.736 43.478 0.00 0.00 0.00 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.746362 GTTACTTCTCAGCTTGCAGCAT 59.254 45.455 0.00 0.00 45.56 3.79
48 49 5.065859 TGACGTGTAGCATTTATCATTTGGG 59.934 40.000 0.00 0.00 0.00 4.12
50 51 6.183360 ACCTGACGTGTAGCATTTATCATTTG 60.183 38.462 0.00 0.00 0.00 2.32
55 56 4.778842 CACCTGACGTGTAGCATTTATC 57.221 45.455 0.00 0.00 37.73 1.75
86 2352 0.106335 TCGTAAAACGTCAGGGCCAA 59.894 50.000 6.18 0.00 43.14 4.52
87 2353 0.322322 ATCGTAAAACGTCAGGGCCA 59.678 50.000 6.18 0.00 43.14 5.36
102 2368 3.761218 TGTGTGGATAAAATTGCCATCGT 59.239 39.130 0.00 0.00 33.66 3.73
104 2370 5.105392 TCCTTGTGTGGATAAAATTGCCATC 60.105 40.000 0.00 0.00 33.66 3.51
105 2371 4.776837 TCCTTGTGTGGATAAAATTGCCAT 59.223 37.500 0.00 0.00 33.66 4.40
108 2374 5.964758 TCATCCTTGTGTGGATAAAATTGC 58.035 37.500 0.00 0.00 44.38 3.56
117 2383 6.071952 GCTAGAATTTTTCATCCTTGTGTGGA 60.072 38.462 0.00 0.00 40.82 4.02
118 2384 6.095377 GCTAGAATTTTTCATCCTTGTGTGG 58.905 40.000 0.00 0.00 0.00 4.17
131 2397 3.805422 TGTCGTGTGTCGCTAGAATTTTT 59.195 39.130 0.00 0.00 39.67 1.94
132 2398 3.386486 TGTCGTGTGTCGCTAGAATTTT 58.614 40.909 0.00 0.00 39.67 1.82
138 2404 1.767289 AACTTGTCGTGTGTCGCTAG 58.233 50.000 0.00 0.00 39.67 3.42
139 2405 3.564235 ATAACTTGTCGTGTGTCGCTA 57.436 42.857 0.00 0.00 39.67 4.26
164 2430 9.862585 GCAATTTTCGTGATTCAGTTTATTTTT 57.137 25.926 0.00 0.00 0.00 1.94
165 2431 8.495148 GGCAATTTTCGTGATTCAGTTTATTTT 58.505 29.630 0.00 0.00 0.00 1.82
166 2432 7.655328 TGGCAATTTTCGTGATTCAGTTTATTT 59.345 29.630 0.00 0.00 0.00 1.40
168 2434 6.686630 TGGCAATTTTCGTGATTCAGTTTAT 58.313 32.000 0.00 0.00 0.00 1.40
169 2435 6.078202 TGGCAATTTTCGTGATTCAGTTTA 57.922 33.333 0.00 0.00 0.00 2.01
170 2436 4.942852 TGGCAATTTTCGTGATTCAGTTT 58.057 34.783 0.00 0.00 0.00 2.66
171 2437 4.582701 TGGCAATTTTCGTGATTCAGTT 57.417 36.364 0.00 0.00 0.00 3.16
176 2442 4.414852 CGAGAATGGCAATTTTCGTGATT 58.585 39.130 16.58 0.00 42.46 2.57
177 2443 4.019919 CGAGAATGGCAATTTTCGTGAT 57.980 40.909 16.58 0.00 42.46 3.06
182 2448 3.914364 GTGACACGAGAATGGCAATTTTC 59.086 43.478 0.00 0.00 40.05 2.29
183 2449 3.569701 AGTGACACGAGAATGGCAATTTT 59.430 39.130 0.00 0.00 40.05 1.82
184 2450 3.149196 AGTGACACGAGAATGGCAATTT 58.851 40.909 0.00 0.00 40.05 1.82
185 2451 2.783135 AGTGACACGAGAATGGCAATT 58.217 42.857 0.00 0.00 40.05 2.32
194 2482 8.766000 TTTATAGCAAATTTAGTGACACGAGA 57.234 30.769 0.00 0.00 0.00 4.04
236 2525 3.390135 CACACGTCAGGTAAGAACACAT 58.610 45.455 0.00 0.00 0.00 3.21
241 2530 0.753867 TGCCACACGTCAGGTAAGAA 59.246 50.000 4.84 0.00 0.00 2.52
244 2533 0.466543 AAGTGCCACACGTCAGGTAA 59.533 50.000 0.00 0.00 39.64 2.85
290 2581 5.222192 TGCCATCCTTGGATGATATTTAGCT 60.222 40.000 26.19 0.00 46.92 3.32
297 2588 4.039488 GCAATTTGCCATCCTTGGATGATA 59.961 41.667 26.19 14.11 46.92 2.15
306 2597 1.868713 TCCATGCAATTTGCCATCCT 58.131 45.000 18.27 0.00 44.23 3.24
307 2598 2.695127 TTCCATGCAATTTGCCATCC 57.305 45.000 18.27 0.00 44.23 3.51
308 2599 6.870971 ATTATTTCCATGCAATTTGCCATC 57.129 33.333 18.27 0.00 44.23 3.51
309 2600 8.927675 AATATTATTTCCATGCAATTTGCCAT 57.072 26.923 18.27 9.24 44.23 4.40
310 2601 8.749026 AAATATTATTTCCATGCAATTTGCCA 57.251 26.923 18.27 7.36 44.23 4.92
321 2612 9.290282 TCCCCCTTTTCAAAATATTATTTCCAT 57.710 29.630 2.22 0.00 0.00 3.41
331 2678 4.757692 ACCACATCCCCCTTTTCAAAATA 58.242 39.130 0.00 0.00 0.00 1.40
336 2684 2.008242 CAACCACATCCCCCTTTTCA 57.992 50.000 0.00 0.00 0.00 2.69
368 2716 0.826672 AGAGACGGTGAACCCTCGTT 60.827 55.000 0.00 0.00 37.25 3.85
388 2736 3.751401 CGTCGATGTGTCGCCGGAT 62.751 63.158 5.05 0.00 44.49 4.18
438 2786 6.040955 AGGATAGCGTATGAGAACATCTTCAA 59.959 38.462 0.00 0.00 37.87 2.69
483 2834 7.431084 TCGTGTTATTGCAAAAAGAAGAAGAAC 59.569 33.333 1.71 0.00 0.00 3.01
787 3180 0.181587 TGTGGATTTGGGTGTCACGT 59.818 50.000 0.00 0.00 0.00 4.49
788 3181 0.591170 GTGTGGATTTGGGTGTCACG 59.409 55.000 0.00 0.00 0.00 4.35
790 3183 0.470341 TCGTGTGGATTTGGGTGTCA 59.530 50.000 0.00 0.00 0.00 3.58
791 3184 1.156736 CTCGTGTGGATTTGGGTGTC 58.843 55.000 0.00 0.00 0.00 3.67
792 3185 0.250727 CCTCGTGTGGATTTGGGTGT 60.251 55.000 0.00 0.00 0.00 4.16
793 3186 0.036164 TCCTCGTGTGGATTTGGGTG 59.964 55.000 0.00 0.00 0.00 4.61
829 3234 4.961511 TGGACTCGTGTGCGTGCC 62.962 66.667 4.67 0.00 37.34 5.01
840 3245 1.374758 CTGTTCGGGCTGTGGACTC 60.375 63.158 0.00 0.00 0.00 3.36
906 3314 0.887836 GTTGGTGTTCCTTCGGGGTC 60.888 60.000 0.00 0.00 36.25 4.46
908 3316 1.602605 GGTTGGTGTTCCTTCGGGG 60.603 63.158 0.00 0.00 35.37 5.73
912 3320 1.068588 GGCTTTGGTTGGTGTTCCTTC 59.931 52.381 0.00 0.00 34.23 3.46
1291 3720 2.808958 CGGCTCGCCATTAACGTGG 61.809 63.158 8.87 0.00 42.35 4.94
1338 3767 4.697756 CGGGTCGTGGTGGTGCAT 62.698 66.667 0.00 0.00 0.00 3.96
1526 3964 1.132199 CGCAGCCGTACTTACACGAG 61.132 60.000 0.00 0.00 44.69 4.18
1704 4143 4.584518 TGGGGTGCACCACAGCAG 62.585 66.667 37.07 0.00 46.28 4.24
1733 4176 5.106634 GGCAGTAGAGTAGTATCGGTACATG 60.107 48.000 8.86 0.00 33.09 3.21
1739 4182 2.223611 CACGGCAGTAGAGTAGTATCGG 59.776 54.545 0.00 0.00 0.00 4.18
1779 4222 9.893634 TTTACATATTCTTTCTTCGTCCCATAA 57.106 29.630 0.00 0.00 0.00 1.90
1780 4223 9.321562 GTTTACATATTCTTTCTTCGTCCCATA 57.678 33.333 0.00 0.00 0.00 2.74
1781 4224 8.047310 AGTTTACATATTCTTTCTTCGTCCCAT 58.953 33.333 0.00 0.00 0.00 4.00
1782 4225 7.391620 AGTTTACATATTCTTTCTTCGTCCCA 58.608 34.615 0.00 0.00 0.00 4.37
1783 4226 7.845066 AGTTTACATATTCTTTCTTCGTCCC 57.155 36.000 0.00 0.00 0.00 4.46
1784 4227 8.718734 ACAAGTTTACATATTCTTTCTTCGTCC 58.281 33.333 0.00 0.00 0.00 4.79
1787 4230 9.671521 CGTACAAGTTTACATATTCTTTCTTCG 57.328 33.333 0.00 0.00 0.00 3.79
1790 4233 9.485206 ACACGTACAAGTTTACATATTCTTTCT 57.515 29.630 0.00 0.00 0.00 2.52
1793 4236 9.695526 TGTACACGTACAAGTTTACATATTCTT 57.304 29.630 7.56 0.00 42.49 2.52
1812 4258 2.094258 GGATCACAGCACAATGTACACG 59.906 50.000 0.00 0.00 0.00 4.49
1835 4281 6.466308 TGATTTCACGTTTCATCTGTACTG 57.534 37.500 0.00 0.00 0.00 2.74
1836 4282 6.073222 GGTTGATTTCACGTTTCATCTGTACT 60.073 38.462 0.00 0.00 0.00 2.73
1840 4286 4.084066 TCGGTTGATTTCACGTTTCATCTG 60.084 41.667 0.00 0.00 0.00 2.90
1850 4296 3.814945 CAAAGCTCTCGGTTGATTTCAC 58.185 45.455 0.00 0.00 0.00 3.18
1865 4311 0.613260 TCCGTGGATGTAGCAAAGCT 59.387 50.000 0.00 0.00 43.41 3.74
1866 4312 1.009829 CTCCGTGGATGTAGCAAAGC 58.990 55.000 0.00 0.00 0.00 3.51
1919 4367 0.442310 CACTTCGTGTAATGTGGGCG 59.558 55.000 0.00 0.00 0.00 6.13
1927 4375 4.812626 GGAGGAGAAAAACACTTCGTGTAA 59.187 41.667 0.00 0.00 46.79 2.41
1937 4385 1.985895 GGGAGAGGGAGGAGAAAAACA 59.014 52.381 0.00 0.00 0.00 2.83
2001 4456 2.017138 TGCTGATGCGATAAACGGAA 57.983 45.000 0.00 0.00 46.49 4.30
2007 4464 3.814842 CCCTTGTATTGCTGATGCGATAA 59.185 43.478 0.15 0.00 44.50 1.75
2008 4465 3.070878 TCCCTTGTATTGCTGATGCGATA 59.929 43.478 0.00 0.00 42.81 2.92
2031 4488 1.893801 ACCTGTCCGAAACTGTCCTAG 59.106 52.381 0.00 0.00 0.00 3.02
2033 4490 2.005370 TACCTGTCCGAAACTGTCCT 57.995 50.000 0.00 0.00 0.00 3.85
2048 4505 8.671028 GTTAAAAACATGATCGTACCATTACCT 58.329 33.333 0.00 0.00 0.00 3.08
2061 4518 8.706322 ACCAGAACCTAAGTTAAAAACATGAT 57.294 30.769 0.00 0.00 35.94 2.45
2098 4555 2.360350 CGCCATTGCCTCACCACT 60.360 61.111 0.00 0.00 0.00 4.00
2115 4572 2.820059 TACTCCATGACGATGATGGC 57.180 50.000 0.00 0.00 40.35 4.40
2125 4582 4.285020 ACTGAGATGCTCTTACTCCATGA 58.715 43.478 0.00 0.00 0.00 3.07
2261 4739 1.118356 TTTGGGCTGAAATTGGCGGT 61.118 50.000 0.00 0.00 0.00 5.68
2416 4902 9.154847 TGATGTGTGATGAACTATGAGTTTTAG 57.845 33.333 0.00 0.00 38.80 1.85
2508 4995 2.510382 TCAGGAGATCCGAGACCTAGTT 59.490 50.000 0.00 0.00 42.08 2.24
2509 4996 2.128535 TCAGGAGATCCGAGACCTAGT 58.871 52.381 0.00 0.00 42.08 2.57
2510 4997 2.500229 GTCAGGAGATCCGAGACCTAG 58.500 57.143 13.38 0.00 42.08 3.02
2512 4999 0.464735 CGTCAGGAGATCCGAGACCT 60.465 60.000 16.67 0.00 40.44 3.85
2567 5054 2.553904 CCTCTTGCCCAAGTTGATCACT 60.554 50.000 3.87 0.00 39.38 3.41
2615 5102 1.141657 AGCAGGAAGAGCAAGTGTTCA 59.858 47.619 0.00 0.00 29.65 3.18
2623 5110 0.244994 GAGAACGAGCAGGAAGAGCA 59.755 55.000 0.00 0.00 0.00 4.26
2638 5125 5.474189 TCTTGCACAACATGATCATTGAGAA 59.526 36.000 14.50 0.29 0.00 2.87
2704 5192 0.536687 CGATACCCCGCTCTGACCTA 60.537 60.000 0.00 0.00 0.00 3.08
2721 5209 0.389817 CTCGATTTGCTGGTGTCCGA 60.390 55.000 0.00 0.00 0.00 4.55
2728 5216 1.332997 GCTCCAATCTCGATTTGCTGG 59.667 52.381 3.36 0.00 0.00 4.85
2758 5246 0.041238 AGGAAGGATGTCGAGTGGGA 59.959 55.000 0.00 0.00 0.00 4.37
2778 5267 1.271379 GCCAAGTGTTAGGAGGCTTGA 60.271 52.381 0.00 0.00 42.01 3.02
2864 5353 8.071977 GGTACTACCTAGCAGATGGCATCTATA 61.072 44.444 28.39 21.37 39.34 1.31
2889 5381 2.332654 GCGCCACTACAACAAGGGG 61.333 63.158 0.00 0.00 43.54 4.79
2970 5463 6.754675 CACAATGACATCAATGTACTACGGTA 59.245 38.462 2.33 0.00 41.95 4.02
2975 5468 7.549134 GGAACTCACAATGACATCAATGTACTA 59.451 37.037 2.33 0.00 41.95 1.82
2981 5475 4.703575 CCAGGAACTCACAATGACATCAAT 59.296 41.667 0.00 0.00 34.60 2.57


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

AutoCloner maintained by Alex Coulton.