Multiple sequence alignment - TraesCS3B01G173400

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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 TraesCS3B01G173400 chr3B 100.000 2267 0 0 1 2267 173557502 173559768 0.000000e+00 4187
1 TraesCS3B01G173400 chr3B 91.081 370 27 6 945 1313 175953212 175952848 1.560000e-136 496
2 TraesCS3B01G173400 chr3B 76.989 352 71 10 1913 2257 654173854 654174202 2.300000e-45 193
3 TraesCS3B01G173400 chr3B 87.970 133 9 4 580 705 175953582 175953450 1.400000e-32 150
4 TraesCS3B01G173400 chr3B 89.130 92 5 4 757 844 175953369 175953279 2.380000e-20 110
5 TraesCS3B01G173400 chr3A 89.922 1419 61 33 163 1553 128164147 128165511 0.000000e+00 1753
6 TraesCS3B01G173400 chr3A 84.959 492 25 19 945 1420 130896647 130896189 9.550000e-124 453
7 TraesCS3B01G173400 chr3A 78.397 287 43 13 425 705 130897158 130896885 3.870000e-38 169
8 TraesCS3B01G173400 chr3D 91.382 1172 60 18 482 1637 121976890 121978036 0.000000e+00 1567
9 TraesCS3B01G173400 chr3D 90.156 640 46 10 1644 2267 121978103 121978741 0.000000e+00 817
10 TraesCS3B01G173400 chr3D 89.000 500 32 11 9 497 121976385 121976872 4.170000e-167 597
11 TraesCS3B01G173400 chr3D 90.058 171 9 2 586 755 123368358 123368195 4.900000e-52 215
12 TraesCS3B01G173400 chr7D 77.500 360 73 8 1913 2266 555165657 555165300 2.280000e-50 209
13 TraesCS3B01G173400 chr6B 77.410 363 67 14 1913 2266 591514920 591514564 3.820000e-48 202
14 TraesCS3B01G173400 chr6B 77.410 363 67 14 1913 2266 591517226 591516870 3.820000e-48 202
15 TraesCS3B01G173400 chrUn 77.135 363 68 14 1913 2266 398717110 398717466 1.780000e-46 196
16 TraesCS3B01G173400 chr1B 76.630 368 69 15 1911 2266 801011 801373 1.070000e-43 187
17 TraesCS3B01G173400 chr6D 76.899 316 61 11 1913 2221 398172091 398171781 3.870000e-38 169
18 TraesCS3B01G173400 chr7A 74.799 373 79 12 1904 2266 26578062 26578429 1.080000e-33 154


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 TraesCS3B01G173400 chr3B 173557502 173559768 2266 False 4187.000000 4187 100.000000 1 2267 1 chr3B.!!$F1 2266
1 TraesCS3B01G173400 chr3B 175952848 175953582 734 True 252.000000 496 89.393667 580 1313 3 chr3B.!!$R1 733
2 TraesCS3B01G173400 chr3A 128164147 128165511 1364 False 1753.000000 1753 89.922000 163 1553 1 chr3A.!!$F1 1390
3 TraesCS3B01G173400 chr3A 130896189 130897158 969 True 311.000000 453 81.678000 425 1420 2 chr3A.!!$R1 995
4 TraesCS3B01G173400 chr3D 121976385 121978741 2356 False 993.666667 1567 90.179333 9 2267 3 chr3D.!!$F1 2258
5 TraesCS3B01G173400 chr6B 591514564 591517226 2662 True 202.000000 202 77.410000 1913 2266 2 chr6B.!!$R1 353

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
407 426 0.042188 CAAACGCAAGGTCTCACGTG 60.042 55.0 9.94 9.94 46.39 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1338 1462 0.105039 CTCCCAGGTCCATCGTAAGC 59.895 60.0 0.0 0.0 37.18 3.09 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
20 21 2.277692 TACGCGACGGCATCTTCG 60.278 61.111 15.93 0.00 39.92 3.79
73 74 2.246719 AATACAATGAGCTCCCTCGC 57.753 50.000 12.15 0.00 41.13 5.03
79 80 1.639635 ATGAGCTCCCTCGCCCATTT 61.640 55.000 12.15 0.00 41.13 2.32
116 117 4.021016 TCAGTGGAAAAGAGCTCCTAAGAC 60.021 45.833 10.93 0.61 33.77 3.01
123 124 2.501610 GCTCCTAAGACTGGGGCG 59.498 66.667 0.00 0.00 41.63 6.13
124 125 2.058595 GCTCCTAAGACTGGGGCGA 61.059 63.158 0.00 0.00 41.63 5.54
126 127 1.996798 CTCCTAAGACTGGGGCGATA 58.003 55.000 0.00 0.00 0.00 2.92
127 128 2.530701 CTCCTAAGACTGGGGCGATAT 58.469 52.381 0.00 0.00 0.00 1.63
128 129 3.698289 CTCCTAAGACTGGGGCGATATA 58.302 50.000 0.00 0.00 0.00 0.86
129 130 3.428532 TCCTAAGACTGGGGCGATATAC 58.571 50.000 0.00 0.00 0.00 1.47
131 132 3.056749 CCTAAGACTGGGGCGATATACAC 60.057 52.174 0.00 0.00 0.00 2.90
143 155 6.047231 GGGCGATATACACTACTCTGTTTTT 58.953 40.000 0.00 0.00 0.00 1.94
265 277 1.659794 GCCATGAAACAAGTGCCGT 59.340 52.632 0.00 0.00 0.00 5.68
309 321 3.864583 TCTACGTTGTTACTGCACGTTTT 59.135 39.130 11.68 0.00 38.10 2.43
327 345 3.396260 TTTCGTCCCTACAAAGTCCTG 57.604 47.619 0.00 0.00 0.00 3.86
407 426 0.042188 CAAACGCAAGGTCTCACGTG 60.042 55.000 9.94 9.94 46.39 4.49
408 427 0.461339 AAACGCAAGGTCTCACGTGT 60.461 50.000 16.51 0.00 46.39 4.49
409 428 0.874607 AACGCAAGGTCTCACGTGTC 60.875 55.000 16.51 7.46 46.39 3.67
410 429 1.299850 CGCAAGGTCTCACGTGTCA 60.300 57.895 16.51 0.00 0.00 3.58
411 430 1.548973 CGCAAGGTCTCACGTGTCAC 61.549 60.000 16.51 12.76 0.00 3.67
435 454 1.087771 CACGCCCATAAACCCTCGTC 61.088 60.000 0.00 0.00 0.00 4.20
572 625 1.276138 CATTTCTGCCACCTTTTCCCC 59.724 52.381 0.00 0.00 0.00 4.81
623 676 4.351938 CAGGGCGTCGTTGACCGA 62.352 66.667 0.00 0.00 44.11 4.69
630 683 2.915659 TCGTTGACCGACCTGCCT 60.916 61.111 0.00 0.00 41.60 4.75
747 835 1.443872 GCACACGTACTGGGTCTCG 60.444 63.158 0.00 0.00 0.00 4.04
751 850 0.809385 CACGTACTGGGTCTCGACAT 59.191 55.000 0.00 0.00 0.00 3.06
823 925 2.165319 AACTACCAAACTCTCCGTGC 57.835 50.000 0.00 0.00 0.00 5.34
833 935 1.269102 ACTCTCCGTGCGATATTTCCG 60.269 52.381 0.00 0.00 0.00 4.30
898 1000 2.744709 GCCTTGCCCGCTTCGTTA 60.745 61.111 0.00 0.00 0.00 3.18
987 1094 1.075600 GCCTCCTAGCCTGGTCTCT 60.076 63.158 0.00 0.00 0.00 3.10
1268 1376 4.849310 GGGCGCCGGCAACTGATA 62.849 66.667 28.98 0.00 42.47 2.15
1269 1377 3.573491 GGCGCCGGCAACTGATAC 61.573 66.667 28.98 4.21 42.47 2.24
1300 1409 1.592081 CGTACGTCTAGTCTTCTCCCG 59.408 57.143 7.22 0.00 0.00 5.14
1365 1489 0.333652 TGGACCTGGGAGACGATGTA 59.666 55.000 0.00 0.00 0.00 2.29
1374 1498 4.194640 TGGGAGACGATGTACTACTGTAC 58.805 47.826 0.00 0.00 46.74 2.90
1425 1549 4.182339 GCTAGCTAGCTACGAAGGTTTTT 58.818 43.478 33.71 0.00 45.62 1.94
1426 1550 4.268167 GCTAGCTAGCTACGAAGGTTTTTC 59.732 45.833 33.71 3.53 45.62 2.29
1427 1551 4.538746 AGCTAGCTACGAAGGTTTTTCT 57.461 40.909 17.69 0.00 34.60 2.52
1428 1552 5.656213 AGCTAGCTACGAAGGTTTTTCTA 57.344 39.130 17.69 0.00 34.60 2.10
1429 1553 6.223351 AGCTAGCTACGAAGGTTTTTCTAT 57.777 37.500 17.69 0.00 34.60 1.98
1430 1554 7.344095 AGCTAGCTACGAAGGTTTTTCTATA 57.656 36.000 17.69 0.00 34.60 1.31
1431 1555 7.953752 AGCTAGCTACGAAGGTTTTTCTATAT 58.046 34.615 17.69 0.00 34.60 0.86
1563 1700 2.143122 GTGTGAAACTGAGGATTGCGA 58.857 47.619 0.00 0.00 38.04 5.10
1630 1771 9.265901 CATGTATAATATTGCTCTGGGTATAGC 57.734 37.037 0.00 0.00 39.25 2.97
1637 1778 3.643237 TGCTCTGGGTATAGCTAGTTGT 58.357 45.455 14.09 0.00 39.53 3.32
1638 1779 3.384789 TGCTCTGGGTATAGCTAGTTGTG 59.615 47.826 14.09 5.85 39.53 3.33
1639 1780 3.385111 GCTCTGGGTATAGCTAGTTGTGT 59.615 47.826 14.09 0.00 35.80 3.72
1640 1781 4.141914 GCTCTGGGTATAGCTAGTTGTGTT 60.142 45.833 14.09 0.00 35.80 3.32
1641 1782 5.627040 GCTCTGGGTATAGCTAGTTGTGTTT 60.627 44.000 14.09 0.00 35.80 2.83
1642 1783 5.974108 TCTGGGTATAGCTAGTTGTGTTTC 58.026 41.667 14.09 0.00 0.00 2.78
1643 1784 5.482526 TCTGGGTATAGCTAGTTGTGTTTCA 59.517 40.000 14.09 0.00 0.00 2.69
1644 1785 6.014070 TCTGGGTATAGCTAGTTGTGTTTCAA 60.014 38.462 14.09 0.00 0.00 2.69
1645 1786 6.535540 TGGGTATAGCTAGTTGTGTTTCAAA 58.464 36.000 0.00 0.00 37.81 2.69
1649 1790 4.292977 AGCTAGTTGTGTTTCAAAGTGC 57.707 40.909 0.00 0.00 37.81 4.40
1650 1791 3.694072 AGCTAGTTGTGTTTCAAAGTGCA 59.306 39.130 0.00 0.00 37.81 4.57
1651 1792 4.037690 GCTAGTTGTGTTTCAAAGTGCAG 58.962 43.478 0.00 0.00 37.81 4.41
1652 1793 2.879826 AGTTGTGTTTCAAAGTGCAGC 58.120 42.857 0.00 0.00 37.81 5.25
1654 1795 2.992543 GTTGTGTTTCAAAGTGCAGCAA 59.007 40.909 0.00 0.00 37.81 3.91
1655 1796 3.309961 TGTGTTTCAAAGTGCAGCAAA 57.690 38.095 0.00 0.00 0.00 3.68
1656 1797 3.657634 TGTGTTTCAAAGTGCAGCAAAA 58.342 36.364 0.00 0.00 0.00 2.44
1657 1798 3.431572 TGTGTTTCAAAGTGCAGCAAAAC 59.568 39.130 11.27 11.27 0.00 2.43
1658 1799 3.431572 GTGTTTCAAAGTGCAGCAAAACA 59.568 39.130 15.37 15.37 35.07 2.83
1659 1800 4.093261 GTGTTTCAAAGTGCAGCAAAACAT 59.907 37.500 20.11 0.00 38.44 2.71
1660 1801 5.290643 GTGTTTCAAAGTGCAGCAAAACATA 59.709 36.000 20.11 1.91 38.44 2.29
1678 1878 8.820933 CAAAACATATGTGACCTATCTGTACTG 58.179 37.037 9.63 0.00 0.00 2.74
1743 1950 0.688087 CCAGACCCCCTACTCCTGTC 60.688 65.000 0.00 0.00 0.00 3.51
1744 1951 0.688087 CAGACCCCCTACTCCTGTCC 60.688 65.000 0.00 0.00 0.00 4.02
1746 1953 2.363361 CCCCCTACTCCTGTCCGT 59.637 66.667 0.00 0.00 0.00 4.69
1750 1957 2.490217 CTACTCCTGTCCGTGCGG 59.510 66.667 3.94 3.94 0.00 5.69
1825 2033 1.668151 GGGTTGTCTCGCACACCTC 60.668 63.158 0.00 0.00 33.41 3.85
1863 2071 3.942748 GTGGGGCGTGTTAGAATATTTCA 59.057 43.478 0.00 0.00 0.00 2.69
1869 2077 6.456988 GGGCGTGTTAGAATATTTCAAGACAG 60.457 42.308 9.46 5.29 0.00 3.51
1873 2081 8.926710 CGTGTTAGAATATTTCAAGACAGAAGT 58.073 33.333 9.46 0.00 0.00 3.01
1883 2091 6.419484 TTCAAGACAGAAGTTGATCTACCA 57.581 37.500 3.54 0.00 32.79 3.25
1885 2093 6.826668 TCAAGACAGAAGTTGATCTACCAAA 58.173 36.000 3.54 0.00 0.00 3.28
1892 2100 9.793259 ACAGAAGTTGATCTACCAAAGATTAAA 57.207 29.630 3.54 0.00 45.35 1.52
1934 2142 8.691727 CGATCGAGATTTGTTAACGAGATTTAT 58.308 33.333 10.26 0.00 36.49 1.40
1987 4501 2.324541 GGGTGCTCCTCTCTGTGATAT 58.675 52.381 4.53 0.00 0.00 1.63
1988 4502 2.703007 GGGTGCTCCTCTCTGTGATATT 59.297 50.000 4.53 0.00 0.00 1.28
1990 4504 3.133721 GGTGCTCCTCTCTGTGATATTGT 59.866 47.826 0.00 0.00 0.00 2.71
2016 4530 3.535629 CTGCACACCGGCCTCTCAA 62.536 63.158 0.00 0.00 0.00 3.02
2031 4545 0.390866 CTCAAGAGCCGACACATGCT 60.391 55.000 0.00 0.00 41.42 3.79
2056 4571 0.106894 TTCCCGTGTGCACATGTGTA 59.893 50.000 31.61 20.04 0.00 2.90
2058 4573 0.237235 CCCGTGTGCACATGTGTAAC 59.763 55.000 31.61 22.86 37.35 2.50
2154 4671 3.383825 ACACGGCTCTATACCCTGTTTAG 59.616 47.826 0.00 0.00 0.00 1.85
2156 4673 2.963782 CGGCTCTATACCCTGTTTAGGT 59.036 50.000 0.00 0.00 42.96 3.08
2243 4765 8.950210 ACAAATTCACATTGTCGAATATTCTCT 58.050 29.630 13.45 0.00 36.28 3.10
2244 4766 9.430838 CAAATTCACATTGTCGAATATTCTCTC 57.569 33.333 13.45 4.58 31.65 3.20
2245 4767 8.954950 AATTCACATTGTCGAATATTCTCTCT 57.045 30.769 13.45 0.00 31.65 3.10
2258 4780 9.534565 CGAATATTCTCTCTCACCTTAAATTCA 57.465 33.333 13.45 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.472276 GAAGATGCCGTCGCGTACTG 61.472 60.000 5.77 0.74 38.08 2.74
1 2 1.226603 GAAGATGCCGTCGCGTACT 60.227 57.895 5.77 0.00 38.08 2.73
2 3 2.565394 CGAAGATGCCGTCGCGTAC 61.565 63.158 5.77 1.94 37.46 3.67
4 5 2.531927 TTACGAAGATGCCGTCGCGT 62.532 55.000 5.77 11.45 45.79 6.01
5 6 1.407721 TTTACGAAGATGCCGTCGCG 61.408 55.000 0.00 0.00 45.79 5.87
6 7 0.024619 GTTTACGAAGATGCCGTCGC 59.975 55.000 0.00 0.00 45.79 5.19
7 8 1.625616 AGTTTACGAAGATGCCGTCG 58.374 50.000 0.00 0.00 46.93 5.12
10 11 3.160777 ACCTAGTTTACGAAGATGCCG 57.839 47.619 0.00 0.00 0.00 5.69
13 14 6.866770 TGTTCAGAACCTAGTTTACGAAGATG 59.133 38.462 10.93 0.00 0.00 2.90
47 48 5.815581 AGGGAGCTCATTGTATTTGTGTAA 58.184 37.500 17.19 0.00 0.00 2.41
48 49 5.428253 GAGGGAGCTCATTGTATTTGTGTA 58.572 41.667 17.19 0.00 0.00 2.90
49 50 4.265073 GAGGGAGCTCATTGTATTTGTGT 58.735 43.478 17.19 0.00 0.00 3.72
58 59 2.203126 GGGCGAGGGAGCTCATTG 60.203 66.667 17.19 8.50 37.60 2.82
59 60 2.688666 TGGGCGAGGGAGCTCATT 60.689 61.111 17.19 1.94 43.63 2.57
79 80 6.582677 TTTCCACTGAGTCACAAAAGAAAA 57.417 33.333 0.00 0.00 0.00 2.29
82 83 5.496556 TCTTTTCCACTGAGTCACAAAAGA 58.503 37.500 14.34 14.34 31.88 2.52
83 84 5.731686 GCTCTTTTCCACTGAGTCACAAAAG 60.732 44.000 11.33 11.33 0.00 2.27
91 92 2.334023 AGGAGCTCTTTTCCACTGAGT 58.666 47.619 14.64 0.00 37.18 3.41
95 96 4.020662 CAGTCTTAGGAGCTCTTTTCCACT 60.021 45.833 14.64 6.34 37.18 4.00
98 99 3.369997 CCCAGTCTTAGGAGCTCTTTTCC 60.370 52.174 14.64 0.00 34.83 3.13
116 117 3.191581 CAGAGTAGTGTATATCGCCCCAG 59.808 52.174 0.00 0.00 0.00 4.45
143 155 1.873903 GCCGAGCTGTGTGAGAGAAAA 60.874 52.381 0.00 0.00 0.00 2.29
152 164 1.001378 GTCAATTTTGCCGAGCTGTGT 60.001 47.619 0.00 0.00 0.00 3.72
156 168 2.161855 TGATGTCAATTTTGCCGAGCT 58.838 42.857 0.00 0.00 0.00 4.09
161 173 4.168760 GTGTAGCTGATGTCAATTTTGCC 58.831 43.478 0.00 0.00 0.00 4.52
309 321 1.203087 TCCAGGACTTTGTAGGGACGA 60.203 52.381 0.00 0.00 0.00 4.20
346 364 2.231478 CAGCTTTCTTGTCGAGGACCTA 59.769 50.000 0.00 0.00 0.00 3.08
407 426 0.108709 TTATGGGCGTGGTACGTGAC 60.109 55.000 0.00 0.00 44.73 3.67
408 427 0.607112 TTTATGGGCGTGGTACGTGA 59.393 50.000 0.00 0.00 44.73 4.35
409 428 0.722848 GTTTATGGGCGTGGTACGTG 59.277 55.000 0.00 0.00 44.73 4.49
410 429 0.391528 GGTTTATGGGCGTGGTACGT 60.392 55.000 0.00 0.00 44.73 3.57
411 430 1.091197 GGGTTTATGGGCGTGGTACG 61.091 60.000 0.00 0.00 45.88 3.67
412 431 0.253894 AGGGTTTATGGGCGTGGTAC 59.746 55.000 0.00 0.00 0.00 3.34
413 432 0.542805 GAGGGTTTATGGGCGTGGTA 59.457 55.000 0.00 0.00 0.00 3.25
423 442 0.248289 CGGGTGTGACGAGGGTTTAT 59.752 55.000 0.00 0.00 0.00 1.40
435 454 0.455815 TGATCGATCTGACGGGTGTG 59.544 55.000 25.02 0.00 0.00 3.82
518 571 4.678743 AGGCCCGCCTTTTGGACC 62.679 66.667 1.26 0.00 45.70 4.46
629 682 4.374702 GTTGACAGCCGCGTGCAG 62.375 66.667 19.30 14.50 44.83 4.41
630 683 4.908687 AGTTGACAGCCGCGTGCA 62.909 61.111 19.30 6.15 44.83 4.57
639 699 1.656441 GTGCCTTGGCAGTTGACAG 59.344 57.895 15.31 0.00 32.66 3.51
823 925 1.416049 CGCGCCATCGGAAATATCG 59.584 57.895 0.00 0.00 35.95 2.92
857 959 2.258726 CCTTTAATAGCGCCGGGCC 61.259 63.158 14.55 6.41 45.17 5.80
885 987 1.514087 CTAGGTAACGAAGCGGGCA 59.486 57.895 0.00 0.00 46.39 5.36
898 1000 0.323908 AAGGTCTGAGCTCGCTAGGT 60.324 55.000 10.15 0.00 35.73 3.08
987 1094 2.372264 GTCTCCATGTACGTCCACCTA 58.628 52.381 0.00 0.00 0.00 3.08
1338 1462 0.105039 CTCCCAGGTCCATCGTAAGC 59.895 60.000 0.00 0.00 37.18 3.09
1365 1489 9.676861 TGCATATACGGATAATAGTACAGTAGT 57.323 33.333 0.00 0.00 0.00 2.73
1374 1498 8.012809 GTCGATCTCTGCATATACGGATAATAG 58.987 40.741 0.00 0.00 0.00 1.73
1477 1614 3.004171 ACGCGTCCAAATTAGCATACAA 58.996 40.909 5.58 0.00 0.00 2.41
1627 1768 4.878971 TGCACTTTGAAACACAACTAGCTA 59.121 37.500 0.00 0.00 38.29 3.32
1630 1771 4.037690 GCTGCACTTTGAAACACAACTAG 58.962 43.478 0.00 0.00 38.29 2.57
1637 1778 3.657634 TGTTTTGCTGCACTTTGAAACA 58.342 36.364 19.84 19.84 35.40 2.83
1638 1779 4.863152 ATGTTTTGCTGCACTTTGAAAC 57.137 36.364 16.10 16.10 0.00 2.78
1639 1780 6.018913 CACATATGTTTTGCTGCACTTTGAAA 60.019 34.615 5.37 0.00 0.00 2.69
1640 1781 5.462729 CACATATGTTTTGCTGCACTTTGAA 59.537 36.000 5.37 0.00 0.00 2.69
1641 1782 4.983538 CACATATGTTTTGCTGCACTTTGA 59.016 37.500 5.37 0.00 0.00 2.69
1642 1783 4.983538 TCACATATGTTTTGCTGCACTTTG 59.016 37.500 5.37 0.00 0.00 2.77
1643 1784 4.984161 GTCACATATGTTTTGCTGCACTTT 59.016 37.500 5.37 0.00 0.00 2.66
1644 1785 4.549458 GTCACATATGTTTTGCTGCACTT 58.451 39.130 5.37 0.00 0.00 3.16
1645 1786 3.057315 GGTCACATATGTTTTGCTGCACT 60.057 43.478 5.37 0.00 0.00 4.40
1649 1790 6.317140 ACAGATAGGTCACATATGTTTTGCTG 59.683 38.462 5.37 9.75 0.00 4.41
1650 1791 6.418101 ACAGATAGGTCACATATGTTTTGCT 58.582 36.000 5.37 0.00 0.00 3.91
1651 1792 6.683974 ACAGATAGGTCACATATGTTTTGC 57.316 37.500 5.37 0.00 0.00 3.68
1652 1793 8.820933 CAGTACAGATAGGTCACATATGTTTTG 58.179 37.037 5.37 0.00 30.85 2.44
1654 1795 7.125811 ACCAGTACAGATAGGTCACATATGTTT 59.874 37.037 5.37 0.00 30.85 2.83
1655 1796 6.611642 ACCAGTACAGATAGGTCACATATGTT 59.388 38.462 5.37 0.00 30.85 2.71
1656 1797 6.136857 ACCAGTACAGATAGGTCACATATGT 58.863 40.000 1.41 1.41 32.84 2.29
1657 1798 6.656632 ACCAGTACAGATAGGTCACATATG 57.343 41.667 0.00 0.00 0.00 1.78
1658 1799 8.958060 AATACCAGTACAGATAGGTCACATAT 57.042 34.615 0.00 0.00 35.62 1.78
1659 1800 8.002459 TGAATACCAGTACAGATAGGTCACATA 58.998 37.037 0.00 0.00 35.62 2.29
1660 1801 6.839134 TGAATACCAGTACAGATAGGTCACAT 59.161 38.462 0.00 0.00 35.62 3.21
1721 1921 0.929734 AGGAGTAGGGGGTCTGGCTA 60.930 60.000 0.00 0.00 0.00 3.93
1727 1927 1.757340 CGGACAGGAGTAGGGGGTC 60.757 68.421 0.00 0.00 0.00 4.46
1750 1957 2.018515 TGTTTTTCTGTTCGGGGTGTC 58.981 47.619 0.00 0.00 0.00 3.67
1752 1959 2.621055 TGATGTTTTTCTGTTCGGGGTG 59.379 45.455 0.00 0.00 0.00 4.61
1754 1961 2.030274 GGTGATGTTTTTCTGTTCGGGG 60.030 50.000 0.00 0.00 0.00 5.73
1808 2016 0.531974 TTGAGGTGTGCGAGACAACC 60.532 55.000 0.00 0.00 44.23 3.77
1809 2017 1.003866 GTTTGAGGTGTGCGAGACAAC 60.004 52.381 0.00 0.00 43.38 3.32
1825 2033 2.026641 CCCACATATGAGCTGGGTTTG 58.973 52.381 17.91 0.51 40.04 2.93
1863 2071 7.067496 TCTTTGGTAGATCAACTTCTGTCTT 57.933 36.000 0.00 0.00 0.00 3.01
1873 2081 9.638239 GCAATTGTTTAATCTTTGGTAGATCAA 57.362 29.630 7.40 0.00 42.90 2.57
1883 2091 6.401367 GCGCTTCATGCAATTGTTTAATCTTT 60.401 34.615 7.40 0.00 43.06 2.52
1885 2093 4.563976 GCGCTTCATGCAATTGTTTAATCT 59.436 37.500 7.40 0.00 43.06 2.40
1892 2100 0.452987 ATCGCGCTTCATGCAATTGT 59.547 45.000 5.56 0.00 43.06 2.71
1934 2142 6.489700 TGTTCCAAAGATTAGCTGATGTTTGA 59.510 34.615 30.79 19.11 40.67 2.69
1987 4501 1.870402 CGGTGTGCAGTATTGTCACAA 59.130 47.619 13.92 0.00 40.45 3.33
1988 4502 1.507562 CGGTGTGCAGTATTGTCACA 58.492 50.000 10.04 10.04 38.28 3.58
1990 4504 0.953471 GCCGGTGTGCAGTATTGTCA 60.953 55.000 1.90 0.00 0.00 3.58
2016 4530 2.435586 GCAGCATGTGTCGGCTCT 60.436 61.111 0.00 0.00 38.56 4.09
2042 4556 3.963665 ACATTGTTACACATGTGCACAC 58.036 40.909 24.37 18.54 29.83 3.82
2056 4571 6.318648 ACGATGTAATCTATGCCAACATTGTT 59.681 34.615 0.00 0.00 40.58 2.83
2058 4573 6.138088 CACGATGTAATCTATGCCAACATTG 58.862 40.000 0.00 0.00 42.58 2.82
2059 4574 5.822519 ACACGATGTAATCTATGCCAACATT 59.177 36.000 0.00 0.00 42.58 2.71
2171 4688 7.601508 GTGTATAAGGTAGGTTACATATGCACC 59.398 40.741 14.43 14.43 38.33 5.01
2243 4765 5.508567 TGCATGGATGAATTTAAGGTGAGA 58.491 37.500 0.00 0.00 0.00 3.27
2244 4766 5.840243 TGCATGGATGAATTTAAGGTGAG 57.160 39.130 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.