Multiple sequence alignment - TraesCS7D01G328700

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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 TraesCS7D01G328700 chr7D 100.000 2834 0 0 1 2834 420414235 420417068 0.000000e+00 5234.0
1 TraesCS7D01G328700 chr7B 88.882 1736 60 55 51 1755 436602400 436604033 0.000000e+00 2013.0
2 TraesCS7D01G328700 chr7B 92.857 1078 31 23 1784 2834 436604131 436605189 0.000000e+00 1522.0
3 TraesCS7D01G328700 chr7B 95.238 42 2 0 1 42 436602365 436602406 1.820000e-07 67.6
4 TraesCS7D01G328700 chr7A 84.611 1709 96 67 7 1670 512585295 512583709 0.000000e+00 1544.0
5 TraesCS7D01G328700 chr7A 83.146 1068 86 47 1835 2834 512583320 512582279 0.000000e+00 889.0


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 TraesCS7D01G328700 chr7D 420414235 420417068 2833 False 5234.000000 5234 100.000000 1 2834 1 chr7D.!!$F1 2833
1 TraesCS7D01G328700 chr7B 436602365 436605189 2824 False 1200.866667 2013 92.325667 1 2834 3 chr7B.!!$F1 2833
2 TraesCS7D01G328700 chr7A 512582279 512585295 3016 True 1216.500000 1544 83.878500 7 2834 2 chr7A.!!$R1 2827

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
700 758 0.105224 CACCGAACCACAGTACCACA 59.895 55.0 0.0 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2273 2632 0.031449 ATGCGTGGTTTTTGTTCGGG 59.969 50.0 0.0 0.0 0.0 5.14 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
75 76 3.998672 ACCGCCACGTACCACCTG 61.999 66.667 0.00 0.00 0.00 4.00
77 78 4.373116 CGCCACGTACCACCTGCT 62.373 66.667 0.00 0.00 0.00 4.24
114 115 2.437895 TCGACGGAGGCGTCATCT 60.438 61.111 8.91 0.00 38.68 2.90
128 132 3.187227 GCGTCATCTTTGCCGATATGATT 59.813 43.478 0.00 0.00 31.49 2.57
129 133 4.705492 CGTCATCTTTGCCGATATGATTG 58.295 43.478 0.00 0.00 31.49 2.67
130 134 4.448732 CGTCATCTTTGCCGATATGATTGA 59.551 41.667 0.00 0.00 31.49 2.57
131 135 5.121298 CGTCATCTTTGCCGATATGATTGAT 59.879 40.000 0.00 0.00 31.49 2.57
132 136 6.311200 CGTCATCTTTGCCGATATGATTGATA 59.689 38.462 0.00 0.00 31.49 2.15
133 137 7.010830 CGTCATCTTTGCCGATATGATTGATAT 59.989 37.037 0.00 0.00 31.49 1.63
134 138 8.333908 GTCATCTTTGCCGATATGATTGATATC 58.666 37.037 0.00 0.00 39.75 1.63
135 139 8.042515 TCATCTTTGCCGATATGATTGATATCA 58.957 33.333 0.00 0.00 42.28 2.15
154 158 7.825761 TGATATCATATGATCAGCGTCCAAATT 59.174 33.333 21.42 0.00 36.05 1.82
224 236 0.586319 CGTTGGCATCAAACGACAGT 59.414 50.000 3.45 0.00 34.28 3.55
252 264 1.328680 CCAGATTTGATCGAACCTGCG 59.671 52.381 11.28 2.00 0.00 5.18
328 340 1.164411 TTGGTGCATGATCGGTTGAC 58.836 50.000 0.00 0.00 0.00 3.18
653 711 1.537990 GGCAAAAGCGAAGGCAAAAGA 60.538 47.619 0.00 0.00 43.41 2.52
693 751 3.345808 CCACGCACCGAACCACAG 61.346 66.667 0.00 0.00 0.00 3.66
694 752 2.587753 CACGCACCGAACCACAGT 60.588 61.111 0.00 0.00 0.00 3.55
695 753 1.300311 CACGCACCGAACCACAGTA 60.300 57.895 0.00 0.00 0.00 2.74
696 754 1.300388 ACGCACCGAACCACAGTAC 60.300 57.895 0.00 0.00 0.00 2.73
700 758 0.105224 CACCGAACCACAGTACCACA 59.895 55.000 0.00 0.00 0.00 4.17
701 759 0.105408 ACCGAACCACAGTACCACAC 59.895 55.000 0.00 0.00 0.00 3.82
702 760 0.601841 CCGAACCACAGTACCACACC 60.602 60.000 0.00 0.00 0.00 4.16
703 761 0.601841 CGAACCACAGTACCACACCC 60.602 60.000 0.00 0.00 0.00 4.61
704 762 0.470766 GAACCACAGTACCACACCCA 59.529 55.000 0.00 0.00 0.00 4.51
793 852 3.521796 GCATTCCTTGCCCTCCGC 61.522 66.667 0.00 0.00 46.15 5.54
835 894 4.326766 CGCACCAACCCAACGCTG 62.327 66.667 0.00 0.00 0.00 5.18
836 895 3.977244 GCACCAACCCAACGCTGG 61.977 66.667 0.00 0.00 43.10 4.85
968 1033 2.027100 ACTTACCAAAGCTACTCTGCCC 60.027 50.000 0.00 0.00 36.05 5.36
1106 1175 0.996762 GAGAGGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
1107 1176 0.998945 AGAGGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
1108 1177 2.123033 GGGAGGAGGAGGAGGAGC 60.123 72.222 0.00 0.00 0.00 4.70
1152 1221 1.263342 TGCTGCAGGAGGAAGAGGAG 61.263 60.000 17.12 0.00 0.00 3.69
1153 1222 1.970352 GCTGCAGGAGGAAGAGGAGG 61.970 65.000 17.12 0.00 0.00 4.30
1154 1223 0.325110 CTGCAGGAGGAAGAGGAGGA 60.325 60.000 5.57 0.00 0.00 3.71
1166 1235 2.123033 GGAGGAGGAGGAGGAGGC 60.123 72.222 0.00 0.00 0.00 4.70
1398 1476 4.874977 GCCGACGCCACCTAGCTC 62.875 72.222 0.00 0.00 0.00 4.09
1399 1477 4.208686 CCGACGCCACCTAGCTCC 62.209 72.222 0.00 0.00 0.00 4.70
1400 1478 3.141488 CGACGCCACCTAGCTCCT 61.141 66.667 0.00 0.00 0.00 3.69
1405 1483 1.153549 GCCACCTAGCTCCTCAACG 60.154 63.158 0.00 0.00 0.00 4.10
1444 1522 0.951525 TCCGCTCTCGATCGATCTCC 60.952 60.000 19.78 6.69 38.10 3.71
1454 1532 4.541648 CGATCTCCCCTCCCCGGT 62.542 72.222 0.00 0.00 0.00 5.28
1489 1567 2.699321 CAGAGCTTGATCTCCTCCATGA 59.301 50.000 0.00 0.00 33.66 3.07
1494 1576 3.306225 GCTTGATCTCCTCCATGAGCTAG 60.306 52.174 0.00 0.00 32.22 3.42
1521 1603 1.404391 TCTTGCTTAGATCCGTCCGTC 59.596 52.381 0.00 0.00 0.00 4.79
1522 1604 1.405821 CTTGCTTAGATCCGTCCGTCT 59.594 52.381 0.00 0.00 0.00 4.18
1523 1605 1.022735 TGCTTAGATCCGTCCGTCTC 58.977 55.000 0.00 0.00 0.00 3.36
1524 1606 1.310904 GCTTAGATCCGTCCGTCTCT 58.689 55.000 0.00 0.00 0.00 3.10
1525 1607 1.002251 GCTTAGATCCGTCCGTCTCTG 60.002 57.143 0.00 0.00 0.00 3.35
1526 1608 2.290464 CTTAGATCCGTCCGTCTCTGT 58.710 52.381 0.00 0.00 0.00 3.41
1527 1609 1.664873 TAGATCCGTCCGTCTCTGTG 58.335 55.000 0.00 0.00 0.00 3.66
1528 1610 1.226717 GATCCGTCCGTCTCTGTGC 60.227 63.158 0.00 0.00 0.00 4.57
1529 1611 1.934220 GATCCGTCCGTCTCTGTGCA 61.934 60.000 0.00 0.00 0.00 4.57
1530 1612 1.323271 ATCCGTCCGTCTCTGTGCAT 61.323 55.000 0.00 0.00 0.00 3.96
1531 1613 1.807165 CCGTCCGTCTCTGTGCATG 60.807 63.158 0.00 0.00 0.00 4.06
1534 1616 0.737715 GTCCGTCTCTGTGCATGGTC 60.738 60.000 0.00 0.00 0.00 4.02
1588 1670 6.884280 TTTTCTGTTTCTCTCCAAAGGATC 57.116 37.500 0.00 0.00 0.00 3.36
1589 1671 4.559862 TCTGTTTCTCTCCAAAGGATCC 57.440 45.455 2.48 2.48 0.00 3.36
1592 1674 4.592942 TGTTTCTCTCCAAAGGATCCATG 58.407 43.478 15.82 12.39 0.00 3.66
1593 1675 4.289410 TGTTTCTCTCCAAAGGATCCATGA 59.711 41.667 15.82 3.50 0.00 3.07
1638 1727 4.094476 ACACCAACTGTACTATGTAGCCT 58.906 43.478 0.00 0.00 0.00 4.58
1658 1750 4.382147 GCCTGTTAGAGCAGTAGTAGCTTT 60.382 45.833 0.00 0.00 43.58 3.51
1659 1751 5.725362 CCTGTTAGAGCAGTAGTAGCTTTT 58.275 41.667 0.00 0.00 43.58 2.27
1710 1821 2.903547 TTTTGCTCCGTCCGCTTGC 61.904 57.895 0.00 0.00 0.00 4.01
1720 1843 1.208259 GTCCGCTTGCTTTGGTTTTG 58.792 50.000 0.00 0.00 0.00 2.44
1746 1869 6.640907 CCTTTCTGGTGTTGTTTGTAAATAGC 59.359 38.462 0.00 0.00 0.00 2.97
1750 1873 4.335874 TGGTGTTGTTTGTAAATAGCGTGT 59.664 37.500 0.00 0.00 0.00 4.49
1751 1874 4.673311 GGTGTTGTTTGTAAATAGCGTGTG 59.327 41.667 0.00 0.00 0.00 3.82
1752 1875 4.673311 GTGTTGTTTGTAAATAGCGTGTGG 59.327 41.667 0.00 0.00 0.00 4.17
1753 1876 3.546002 TGTTTGTAAATAGCGTGTGGC 57.454 42.857 0.00 0.00 44.05 5.01
1756 1879 1.444836 TGTAAATAGCGTGTGGCCAC 58.555 50.000 29.67 29.67 45.17 5.01
1759 1959 1.165270 AAATAGCGTGTGGCCACTTC 58.835 50.000 34.75 25.14 45.17 3.01
1772 1972 2.746277 ACTTCGGTGGCGCAATCC 60.746 61.111 10.83 7.23 0.00 3.01
1782 1982 0.892063 GGCGCAATCCACCCTTTTTA 59.108 50.000 10.83 0.00 0.00 1.52
1811 2011 6.156748 TGTATACATCCACATTCGCTACTT 57.843 37.500 0.08 0.00 0.00 2.24
1840 2158 5.699097 TTTCCCGCATATTAAATACTGGC 57.301 39.130 0.00 0.00 0.00 4.85
1873 2191 3.667497 TTGTGAGTGGTGAAGCTCTAG 57.333 47.619 0.00 0.00 33.22 2.43
1874 2192 1.273606 TGTGAGTGGTGAAGCTCTAGC 59.726 52.381 0.00 0.00 42.49 3.42
1944 2265 1.653151 GGAGCAGGGTTAAAGTAGCG 58.347 55.000 0.00 0.00 0.00 4.26
1953 2276 2.551032 GGTTAAAGTAGCGCCAAAGTGT 59.449 45.455 2.29 0.00 0.00 3.55
1961 2288 1.544246 AGCGCCAAAGTGTTATTTCCC 59.456 47.619 2.29 0.00 0.00 3.97
2068 2406 3.769300 GTCAATTCTTGGCCCAGGTTAAT 59.231 43.478 3.59 0.00 0.00 1.40
2095 2438 2.124736 CCGGTCGATGCATGGGTT 60.125 61.111 2.46 0.00 0.00 4.11
2097 2440 0.462937 CCGGTCGATGCATGGGTTAA 60.463 55.000 2.46 0.00 0.00 2.01
2098 2441 0.655733 CGGTCGATGCATGGGTTAAC 59.344 55.000 2.46 0.00 0.00 2.01
2099 2442 1.745232 GGTCGATGCATGGGTTAACA 58.255 50.000 2.46 0.00 0.00 2.41
2110 2458 7.328277 TGCATGGGTTAACATACTAACAATC 57.672 36.000 8.10 0.00 34.10 2.67
2111 2459 6.037720 TGCATGGGTTAACATACTAACAATCG 59.962 38.462 8.10 0.00 34.10 3.34
2273 2632 3.897325 TGACTAATCGATCCACGTATGC 58.103 45.455 0.00 0.00 43.13 3.14
2276 2635 0.319555 AATCGATCCACGTATGCCCG 60.320 55.000 0.00 0.00 43.13 6.13
2279 2638 1.213094 CGATCCACGTATGCCCGAAC 61.213 60.000 0.00 0.00 37.22 3.95
2280 2639 0.179094 GATCCACGTATGCCCGAACA 60.179 55.000 0.00 0.00 0.00 3.18
2295 2654 2.217620 CCGAACAAAAACCACGCATTTC 59.782 45.455 0.00 0.00 0.00 2.17
2296 2655 2.854777 CGAACAAAAACCACGCATTTCA 59.145 40.909 0.00 0.00 0.00 2.69
2297 2656 3.489047 CGAACAAAAACCACGCATTTCAT 59.511 39.130 0.00 0.00 0.00 2.57
2298 2657 4.374906 CGAACAAAAACCACGCATTTCATC 60.375 41.667 0.00 0.00 0.00 2.92
2300 2659 3.181471 ACAAAAACCACGCATTTCATCCA 60.181 39.130 0.00 0.00 0.00 3.41
2301 2660 3.959535 AAAACCACGCATTTCATCCAT 57.040 38.095 0.00 0.00 0.00 3.41
2302 2661 2.945447 AACCACGCATTTCATCCATG 57.055 45.000 0.00 0.00 0.00 3.66
2312 2671 4.219944 GCATTTCATCCATGCATCACCTAT 59.780 41.667 0.00 0.00 45.50 2.57
2341 2700 5.293569 CCAACTAGTTTGCCCGTTAGATAAG 59.706 44.000 5.07 0.00 33.34 1.73
2344 2703 7.174107 ACTAGTTTGCCCGTTAGATAAGTAA 57.826 36.000 0.00 0.00 0.00 2.24
2429 2793 3.690628 CGGGTAAAATACGGTCCAAATGT 59.309 43.478 0.00 0.00 0.00 2.71
2491 2855 1.751927 CTTGAGCCATGAGCCCACC 60.752 63.158 0.00 0.00 45.47 4.61
2554 2922 4.175489 ATGGTCGTCGACGGCTCG 62.175 66.667 37.51 14.21 44.45 5.03
2559 2927 3.792047 CGTCGACGGCTCGTGGTA 61.792 66.667 29.70 0.00 41.37 3.25
2591 2964 4.215827 ACTCTAGTCGTGGTTGTTGTAGAG 59.784 45.833 0.00 0.00 38.55 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
72 73 2.889503 GTCGCTAGCAGCAGCAGG 60.890 66.667 16.45 0.00 42.58 4.85
75 76 2.889503 CAGGTCGCTAGCAGCAGC 60.890 66.667 16.45 7.44 42.58 5.25
77 78 3.694538 TGCAGGTCGCTAGCAGCA 61.695 61.111 16.45 12.91 42.58 4.41
128 132 5.920193 TGGACGCTGATCATATGATATCA 57.080 39.130 18.19 12.74 34.37 2.15
129 133 7.783090 ATTTGGACGCTGATCATATGATATC 57.217 36.000 18.19 8.66 34.37 1.63
130 134 9.842775 ATAATTTGGACGCTGATCATATGATAT 57.157 29.630 18.19 0.00 34.37 1.63
131 135 9.101655 CATAATTTGGACGCTGATCATATGATA 57.898 33.333 18.19 6.47 34.37 2.15
132 136 7.609146 ACATAATTTGGACGCTGATCATATGAT 59.391 33.333 18.21 18.21 37.51 2.45
133 137 6.936335 ACATAATTTGGACGCTGATCATATGA 59.064 34.615 8.10 8.10 0.00 2.15
134 138 7.019418 CACATAATTTGGACGCTGATCATATG 58.981 38.462 0.00 0.00 0.00 1.78
135 139 6.149973 CCACATAATTTGGACGCTGATCATAT 59.850 38.462 0.00 0.00 36.02 1.78
136 140 5.469760 CCACATAATTTGGACGCTGATCATA 59.530 40.000 0.00 0.00 36.02 2.15
137 141 4.276678 CCACATAATTTGGACGCTGATCAT 59.723 41.667 0.00 0.00 36.02 2.45
138 142 3.627123 CCACATAATTTGGACGCTGATCA 59.373 43.478 0.00 0.00 36.02 2.92
139 143 3.548818 GCCACATAATTTGGACGCTGATC 60.549 47.826 0.00 0.00 36.02 2.92
180 192 6.418523 GGTTTGTGGTAAAGGTTTATGTTTCG 59.581 38.462 0.00 0.00 0.00 3.46
224 236 5.453339 GGTTCGATCAAATCTGGATACTGGA 60.453 44.000 0.00 0.00 35.97 3.86
328 340 2.279517 GTATCTGCCGGGCTGTCG 60.280 66.667 21.46 6.23 0.00 4.35
373 398 4.129737 CCGCGACCACAGATCGGT 62.130 66.667 8.23 0.00 39.99 4.69
653 711 2.033757 CAACAGCAGGCAGAGGCT 59.966 61.111 0.00 0.00 42.06 4.58
690 748 0.179468 GTGTGTGGGTGTGGTACTGT 59.821 55.000 0.00 0.00 0.00 3.55
691 749 0.179234 TGTGTGTGGGTGTGGTACTG 59.821 55.000 0.00 0.00 0.00 2.74
693 751 0.466543 TCTGTGTGTGGGTGTGGTAC 59.533 55.000 0.00 0.00 0.00 3.34
694 752 0.756294 CTCTGTGTGTGGGTGTGGTA 59.244 55.000 0.00 0.00 0.00 3.25
695 753 1.526887 CTCTGTGTGTGGGTGTGGT 59.473 57.895 0.00 0.00 0.00 4.16
696 754 1.227943 CCTCTGTGTGTGGGTGTGG 60.228 63.158 0.00 0.00 0.00 4.17
700 758 3.941188 CGGCCTCTGTGTGTGGGT 61.941 66.667 0.00 0.00 0.00 4.51
702 760 4.624364 TGCGGCCTCTGTGTGTGG 62.624 66.667 0.00 0.00 0.00 4.17
703 761 3.349006 GTGCGGCCTCTGTGTGTG 61.349 66.667 0.00 0.00 0.00 3.82
704 762 4.626081 GGTGCGGCCTCTGTGTGT 62.626 66.667 0.00 0.00 0.00 3.72
1420 1498 2.328639 GATCGAGAGCGGACGGAC 59.671 66.667 0.00 0.00 38.28 4.79
1421 1499 2.990830 ATCGATCGAGAGCGGACGGA 62.991 60.000 23.84 0.00 41.05 4.69
1425 1503 0.951525 GGAGATCGATCGAGAGCGGA 60.952 60.000 23.84 0.00 41.05 5.54
1429 1507 1.448985 GAGGGGAGATCGATCGAGAG 58.551 60.000 23.84 0.00 0.00 3.20
1434 1512 1.979693 CGGGGAGGGGAGATCGATC 60.980 68.421 17.91 17.91 0.00 3.69
1435 1513 2.118513 CGGGGAGGGGAGATCGAT 59.881 66.667 0.00 0.00 0.00 3.59
1460 1538 1.948138 ATCAAGCTCTGATCGCGCG 60.948 57.895 26.76 26.76 41.13 6.86
1461 1539 4.024698 ATCAAGCTCTGATCGCGC 57.975 55.556 0.00 0.00 41.13 6.86
1489 1567 6.462347 GGATCTAAGCAAGAAAGCTACTAGCT 60.462 42.308 4.60 4.60 44.95 3.32
1494 1576 4.434520 ACGGATCTAAGCAAGAAAGCTAC 58.565 43.478 0.00 0.00 45.89 3.58
1508 1590 1.664873 CACAGAGACGGACGGATCTA 58.335 55.000 0.00 0.00 0.00 1.98
1521 1603 0.034767 ACCATGGACCATGCACAGAG 60.035 55.000 26.56 15.16 40.20 3.35
1522 1604 0.322726 CACCATGGACCATGCACAGA 60.323 55.000 26.56 0.00 40.20 3.41
1523 1605 0.609957 ACACCATGGACCATGCACAG 60.610 55.000 26.56 16.16 40.20 3.66
1524 1606 0.894642 CACACCATGGACCATGCACA 60.895 55.000 26.56 0.00 40.20 4.57
1525 1607 0.608856 TCACACCATGGACCATGCAC 60.609 55.000 26.56 0.00 40.20 4.57
1526 1608 0.332293 ATCACACCATGGACCATGCA 59.668 50.000 26.56 9.31 40.20 3.96
1527 1609 1.027357 GATCACACCATGGACCATGC 58.973 55.000 26.56 9.28 40.20 4.06
1528 1610 1.064537 TGGATCACACCATGGACCATG 60.065 52.381 25.27 25.27 41.10 3.66
1529 1611 1.297968 TGGATCACACCATGGACCAT 58.702 50.000 21.47 0.00 34.77 3.55
1530 1612 2.784371 TGGATCACACCATGGACCA 58.216 52.632 21.47 13.92 34.77 4.02
1589 1671 3.438087 CCTAACTCAAGCACCACTTCATG 59.562 47.826 0.00 0.00 36.04 3.07
1592 1674 3.402628 TCCTAACTCAAGCACCACTTC 57.597 47.619 0.00 0.00 36.04 3.01
1593 1675 3.327757 TCATCCTAACTCAAGCACCACTT 59.672 43.478 0.00 0.00 40.05 3.16
1638 1727 6.340962 TCAAAAGCTACTACTGCTCTAACA 57.659 37.500 0.00 0.00 40.22 2.41
1658 1750 6.114187 AGTACATCACCAGTGAGAAATCAA 57.886 37.500 6.63 0.00 43.61 2.57
1659 1751 5.622233 CGAGTACATCACCAGTGAGAAATCA 60.622 44.000 6.63 0.00 43.61 2.57
1710 1821 3.197265 CACCAGAAAGGCAAAACCAAAG 58.803 45.455 0.00 0.00 43.14 2.77
1720 1843 2.959507 ACAAACAACACCAGAAAGGC 57.040 45.000 0.00 0.00 43.14 4.35
1756 1879 2.745884 TGGATTGCGCCACCGAAG 60.746 61.111 4.18 0.00 36.29 3.79
1767 1967 5.924356 ACAAGGTTTAAAAAGGGTGGATTG 58.076 37.500 0.00 0.00 0.00 2.67
1772 1972 8.248253 GGATGTATACAAGGTTTAAAAAGGGTG 58.752 37.037 10.14 0.00 0.00 4.61
1782 1982 5.065988 GCGAATGTGGATGTATACAAGGTTT 59.934 40.000 10.14 0.00 0.00 3.27
1840 2158 4.083324 ACCACTCACAAACTTAATCATGCG 60.083 41.667 0.00 0.00 0.00 4.73
1873 2191 2.953466 TACACTGTCGGAATGTAGGC 57.047 50.000 0.00 0.00 0.00 3.93
1874 2192 3.123804 GCATACACTGTCGGAATGTAGG 58.876 50.000 5.92 5.92 34.55 3.18
1944 2265 1.271102 TGCGGGAAATAACACTTTGGC 59.729 47.619 0.00 0.00 0.00 4.52
1982 2309 5.334569 GCTATATAGCGGCTCTATAGCACTC 60.335 48.000 36.93 21.57 42.97 3.51
2001 2328 7.961326 TCCATGAGAATATGCTACAGCTATA 57.039 36.000 2.44 0.18 42.66 1.31
2060 2398 1.389555 GGCGGGAGGAAATTAACCTG 58.610 55.000 8.55 0.00 37.93 4.00
2093 2436 5.051240 CCGCCTCGATTGTTAGTATGTTAAC 60.051 44.000 0.00 0.00 34.78 2.01
2095 2438 4.098349 ACCGCCTCGATTGTTAGTATGTTA 59.902 41.667 0.00 0.00 0.00 2.41
2097 2440 2.429610 ACCGCCTCGATTGTTAGTATGT 59.570 45.455 0.00 0.00 0.00 2.29
2098 2441 3.050619 GACCGCCTCGATTGTTAGTATG 58.949 50.000 0.00 0.00 0.00 2.39
2099 2442 2.691526 TGACCGCCTCGATTGTTAGTAT 59.308 45.455 0.00 0.00 0.00 2.12
2110 2458 1.569493 CACAAGTTTGACCGCCTCG 59.431 57.895 0.00 0.00 0.00 4.63
2111 2459 1.282875 GCACAAGTTTGACCGCCTC 59.717 57.895 0.00 0.00 0.00 4.70
2273 2632 0.031449 ATGCGTGGTTTTTGTTCGGG 59.969 50.000 0.00 0.00 0.00 5.14
2276 2635 4.084589 GGATGAAATGCGTGGTTTTTGTTC 60.085 41.667 0.00 0.00 0.00 3.18
2279 2638 3.388308 TGGATGAAATGCGTGGTTTTTG 58.612 40.909 0.00 0.00 37.56 2.44
2280 2639 3.742433 TGGATGAAATGCGTGGTTTTT 57.258 38.095 0.00 0.00 37.56 1.94
2295 2654 4.022589 GGAAACATAGGTGATGCATGGATG 60.023 45.833 2.46 2.72 39.39 3.51
2296 2655 4.147321 GGAAACATAGGTGATGCATGGAT 58.853 43.478 2.46 0.00 39.39 3.41
2297 2656 3.053768 TGGAAACATAGGTGATGCATGGA 60.054 43.478 2.46 0.00 39.39 3.41
2298 2657 3.289836 TGGAAACATAGGTGATGCATGG 58.710 45.455 2.46 0.00 39.39 3.66
2391 2754 2.431454 CCGGATCATGACCACCCGA 61.431 63.158 21.73 0.00 42.49 5.14
2451 2815 4.081309 AGGCTCGGCTTTTGTACATACTTA 60.081 41.667 0.00 0.00 0.00 2.24
2491 2855 7.461182 TTTATCACCCCATTTACTTTGACTG 57.539 36.000 0.00 0.00 0.00 3.51
2559 2927 3.257393 CCACGACTAGAGTACGTACTGT 58.743 50.000 31.91 28.85 38.47 3.55
2591 2964 3.067721 AGTAGAATCGTACGCTGCTTC 57.932 47.619 11.24 10.43 0.00 3.86
2632 3005 2.657237 CTCCTTCGGTCGTTGGCT 59.343 61.111 0.00 0.00 0.00 4.75


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

AutoCloner maintained by Alex Coulton.