Multiple sequence alignment - TraesCS7D01G025900

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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 TraesCS7D01G025900 chr7D 100.000 2216 0 0 1 2216 12420705 12422920 0.000000e+00 4093.0
1 TraesCS7D01G025900 chr7D 88.054 812 87 9 769 1575 599922065 599922871 0.000000e+00 953.0
2 TraesCS7D01G025900 chr7D 89.164 646 45 12 1 634 8728995 8729627 0.000000e+00 782.0
3 TraesCS7D01G025900 chr7A 92.478 811 56 5 769 1575 42711439 42710630 0.000000e+00 1155.0
4 TraesCS7D01G025900 chr7A 90.764 812 70 4 769 1575 78562347 78563158 0.000000e+00 1079.0
5 TraesCS7D01G025900 chr7A 89.115 689 50 14 94 768 9509356 9508679 0.000000e+00 833.0
6 TraesCS7D01G025900 chr7A 84.704 778 80 20 1 766 496885011 496885761 0.000000e+00 741.0
7 TraesCS7D01G025900 chr7A 89.047 493 32 9 1580 2068 12011165 12011639 1.890000e-165 592.0
8 TraesCS7D01G025900 chr7A 86.957 529 46 17 1 524 724485673 724486183 6.860000e-160 573.0
9 TraesCS7D01G025900 chr7A 94.167 120 7 0 2097 2216 12011636 12011755 1.350000e-42 183.0
10 TraesCS7D01G025900 chr7A 92.982 57 3 1 707 762 622347205 622347149 5.070000e-12 82.4
11 TraesCS7D01G025900 chr2D 90.968 775 43 13 1 765 466803095 466802338 0.000000e+00 1018.0
12 TraesCS7D01G025900 chr5B 88.078 822 81 13 769 1575 415647213 415648032 0.000000e+00 959.0
13 TraesCS7D01G025900 chr5B 96.429 56 2 0 707 762 545128420 545128475 2.340000e-15 93.5
14 TraesCS7D01G025900 chr3A 87.745 816 92 7 769 1578 170479196 170478383 0.000000e+00 946.0
15 TraesCS7D01G025900 chr3A 87.424 819 89 8 769 1574 709154483 709155300 0.000000e+00 929.0
16 TraesCS7D01G025900 chr4A 87.407 810 94 6 769 1576 556711210 556710407 0.000000e+00 924.0
17 TraesCS7D01G025900 chr6B 88.378 783 65 13 1 768 602847973 602848744 0.000000e+00 918.0
18 TraesCS7D01G025900 chr5A 86.617 807 101 7 769 1573 59632039 59631238 0.000000e+00 885.0
19 TraesCS7D01G025900 chr1B 87.612 783 70 14 1 768 673547941 673548711 0.000000e+00 883.0
20 TraesCS7D01G025900 chr3D 95.479 553 11 6 1 548 491997976 491997433 0.000000e+00 870.0
21 TraesCS7D01G025900 chr3D 96.552 174 6 0 595 768 491997432 491997259 2.780000e-74 289.0
22 TraesCS7D01G025900 chr4B 86.084 812 97 13 769 1573 94770378 94769576 0.000000e+00 859.0
23 TraesCS7D01G025900 chr4B 91.117 394 19 3 1 392 559646284 559646663 9.070000e-144 520.0
24 TraesCS7D01G025900 chr4B 90.909 55 4 1 708 762 489291351 489291298 3.050000e-09 73.1
25 TraesCS7D01G025900 chr7B 86.768 786 70 14 1 769 21310679 21311447 0.000000e+00 845.0
26 TraesCS7D01G025900 chr1A 84.994 813 102 8 769 1575 577834717 577833919 0.000000e+00 808.0
27 TraesCS7D01G025900 chr2B 89.474 57 4 2 706 761 100026624 100026569 1.100000e-08 71.3


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 TraesCS7D01G025900 chr7D 12420705 12422920 2215 False 4093.0 4093 100.0000 1 2216 1 chr7D.!!$F2 2215
1 TraesCS7D01G025900 chr7D 599922065 599922871 806 False 953.0 953 88.0540 769 1575 1 chr7D.!!$F3 806
2 TraesCS7D01G025900 chr7D 8728995 8729627 632 False 782.0 782 89.1640 1 634 1 chr7D.!!$F1 633
3 TraesCS7D01G025900 chr7A 42710630 42711439 809 True 1155.0 1155 92.4780 769 1575 1 chr7A.!!$R2 806
4 TraesCS7D01G025900 chr7A 78562347 78563158 811 False 1079.0 1079 90.7640 769 1575 1 chr7A.!!$F1 806
5 TraesCS7D01G025900 chr7A 9508679 9509356 677 True 833.0 833 89.1150 94 768 1 chr7A.!!$R1 674
6 TraesCS7D01G025900 chr7A 496885011 496885761 750 False 741.0 741 84.7040 1 766 1 chr7A.!!$F2 765
7 TraesCS7D01G025900 chr7A 724485673 724486183 510 False 573.0 573 86.9570 1 524 1 chr7A.!!$F3 523
8 TraesCS7D01G025900 chr7A 12011165 12011755 590 False 387.5 592 91.6070 1580 2216 2 chr7A.!!$F4 636
9 TraesCS7D01G025900 chr2D 466802338 466803095 757 True 1018.0 1018 90.9680 1 765 1 chr2D.!!$R1 764
10 TraesCS7D01G025900 chr5B 415647213 415648032 819 False 959.0 959 88.0780 769 1575 1 chr5B.!!$F1 806
11 TraesCS7D01G025900 chr3A 170478383 170479196 813 True 946.0 946 87.7450 769 1578 1 chr3A.!!$R1 809
12 TraesCS7D01G025900 chr3A 709154483 709155300 817 False 929.0 929 87.4240 769 1574 1 chr3A.!!$F1 805
13 TraesCS7D01G025900 chr4A 556710407 556711210 803 True 924.0 924 87.4070 769 1576 1 chr4A.!!$R1 807
14 TraesCS7D01G025900 chr6B 602847973 602848744 771 False 918.0 918 88.3780 1 768 1 chr6B.!!$F1 767
15 TraesCS7D01G025900 chr5A 59631238 59632039 801 True 885.0 885 86.6170 769 1573 1 chr5A.!!$R1 804
16 TraesCS7D01G025900 chr1B 673547941 673548711 770 False 883.0 883 87.6120 1 768 1 chr1B.!!$F1 767
17 TraesCS7D01G025900 chr3D 491997259 491997976 717 True 579.5 870 96.0155 1 768 2 chr3D.!!$R1 767
18 TraesCS7D01G025900 chr4B 94769576 94770378 802 True 859.0 859 86.0840 769 1573 1 chr4B.!!$R1 804
19 TraesCS7D01G025900 chr7B 21310679 21311447 768 False 845.0 845 86.7680 1 769 1 chr7B.!!$F1 768
20 TraesCS7D01G025900 chr1A 577833919 577834717 798 True 808.0 808 84.9940 769 1575 1 chr1A.!!$R1 806

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
560 594 1.276421 ACAGTCTGGGTTCGAATCCTG 59.724 52.381 27.18 25.65 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1706 1777 0.109153 CGGATCCTGCATGGGAATGA 59.891 55.0 10.75 0.0 39.02 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
479 506 8.912787 AGCGTTATATATTCGGATAAGAAGTG 57.087 34.615 10.45 0.00 33.19 3.16
560 594 1.276421 ACAGTCTGGGTTCGAATCCTG 59.724 52.381 27.18 25.65 0.00 3.86
686 725 5.193936 GTCTACGCTAATGTACAGTCGTAC 58.806 45.833 11.68 4.57 46.94 3.67
735 774 8.719596 TCAAAGGTCTATATTGCCCTTTATACA 58.280 33.333 11.08 0.00 43.61 2.29
1014 1055 1.139520 GGCCATGTGGATTTGTCGC 59.860 57.895 0.00 0.00 37.39 5.19
1247 1291 0.674581 TGATTCTGCCTTCACCTGCG 60.675 55.000 0.00 0.00 0.00 5.18
1324 1383 2.501492 GGCTTTGCCTGATGCTCAT 58.499 52.632 0.73 0.00 46.69 2.90
1375 1437 4.492611 ACTACCTTCGGATTTCTCGTTTC 58.507 43.478 0.00 0.00 0.00 2.78
1549 1614 7.747155 TCCGTTATGTCAAAGTAATGGAAAA 57.253 32.000 3.95 0.00 40.96 2.29
1595 1662 5.499139 AATAATTTGGTCGCCATGTAGTG 57.501 39.130 0.00 0.00 31.53 2.74
1600 1667 1.206132 TGGTCGCCATGTAGTGTTAGG 59.794 52.381 0.00 0.00 0.00 2.69
1604 1671 4.497300 GTCGCCATGTAGTGTTAGGTTTA 58.503 43.478 0.00 0.00 0.00 2.01
1615 1682 7.611079 TGTAGTGTTAGGTTTACTGTTTTTGGT 59.389 33.333 0.00 0.00 0.00 3.67
1617 1684 5.967088 GTGTTAGGTTTACTGTTTTTGGTCG 59.033 40.000 0.00 0.00 0.00 4.79
1624 1691 3.685836 ACTGTTTTTGGTCGCAAGTAC 57.314 42.857 0.00 0.00 39.48 2.73
1633 1700 3.971150 TGGTCGCAAGTACCAAAATTTG 58.029 40.909 0.00 0.00 42.05 2.32
1634 1701 3.381908 TGGTCGCAAGTACCAAAATTTGT 59.618 39.130 4.92 0.00 42.05 2.83
1635 1702 4.142138 TGGTCGCAAGTACCAAAATTTGTT 60.142 37.500 4.92 0.00 42.05 2.83
1637 1704 4.208253 GTCGCAAGTACCAAAATTTGTTGG 59.792 41.667 7.27 7.27 45.96 3.77
1675 1746 5.618056 TTTTGCTCTGCTGTTGAAGATAG 57.382 39.130 0.00 0.00 0.00 2.08
1740 1811 2.628657 GGATCCGTACCTAGCATTGACT 59.371 50.000 0.00 0.00 0.00 3.41
1741 1812 3.825014 GGATCCGTACCTAGCATTGACTA 59.175 47.826 0.00 0.00 0.00 2.59
1743 1814 4.160642 TCCGTACCTAGCATTGACTAGA 57.839 45.455 13.41 0.00 41.92 2.43
1744 1815 4.726583 TCCGTACCTAGCATTGACTAGAT 58.273 43.478 13.41 3.17 41.92 1.98
1746 1817 4.082679 CCGTACCTAGCATTGACTAGATCC 60.083 50.000 13.41 0.00 41.92 3.36
1747 1818 4.519350 CGTACCTAGCATTGACTAGATCCA 59.481 45.833 13.41 0.00 41.92 3.41
1748 1819 5.184096 CGTACCTAGCATTGACTAGATCCAT 59.816 44.000 13.41 0.00 41.92 3.41
1749 1820 6.294787 CGTACCTAGCATTGACTAGATCCATT 60.295 42.308 13.41 0.00 41.92 3.16
1750 1821 5.862845 ACCTAGCATTGACTAGATCCATTG 58.137 41.667 13.41 0.11 41.92 2.82
1751 1822 4.694509 CCTAGCATTGACTAGATCCATTGC 59.305 45.833 13.41 16.08 41.92 3.56
1752 1823 4.434545 AGCATTGACTAGATCCATTGCT 57.565 40.909 18.53 18.53 41.97 3.91
1753 1824 4.387598 AGCATTGACTAGATCCATTGCTC 58.612 43.478 18.53 0.00 42.67 4.26
1754 1825 4.102838 AGCATTGACTAGATCCATTGCTCT 59.897 41.667 18.53 7.26 42.67 4.09
1755 1826 4.213694 GCATTGACTAGATCCATTGCTCTG 59.786 45.833 16.33 0.00 36.97 3.35
1756 1827 3.465742 TGACTAGATCCATTGCTCTGC 57.534 47.619 0.00 0.00 0.00 4.26
1757 1828 3.036819 TGACTAGATCCATTGCTCTGCT 58.963 45.455 0.00 0.00 0.00 4.24
1758 1829 3.069300 TGACTAGATCCATTGCTCTGCTC 59.931 47.826 0.00 0.00 0.00 4.26
1759 1830 3.036819 ACTAGATCCATTGCTCTGCTCA 58.963 45.455 0.00 0.00 0.00 4.26
1760 1831 3.647113 ACTAGATCCATTGCTCTGCTCAT 59.353 43.478 0.00 0.00 0.00 2.90
1761 1832 2.852449 AGATCCATTGCTCTGCTCATG 58.148 47.619 0.00 0.00 0.00 3.07
1762 1833 2.438392 AGATCCATTGCTCTGCTCATGA 59.562 45.455 0.00 0.00 0.00 3.07
1763 1834 2.793288 TCCATTGCTCTGCTCATGAA 57.207 45.000 0.00 0.00 0.00 2.57
1772 1843 2.425312 CTCTGCTCATGAACCTAGTCGT 59.575 50.000 0.00 0.00 0.00 4.34
1781 1852 0.324943 AACCTAGTCGTGCCATTGCT 59.675 50.000 0.00 0.00 38.71 3.91
1832 1903 1.973812 GCTCAAGGTGAAGGGTGCC 60.974 63.158 0.00 0.00 0.00 5.01
1853 1924 3.447586 CCACAAGAACTAGATCCGAGGAA 59.552 47.826 0.00 0.00 0.00 3.36
1878 1949 1.266178 TTTGAGCGATCTGGTCCTGA 58.734 50.000 0.90 0.28 44.62 3.86
1884 1955 1.957177 GCGATCTGGTCCTGAGATACA 59.043 52.381 4.63 0.00 29.97 2.29
1916 1987 2.264794 CTCGCAGGCGTTTACCCT 59.735 61.111 13.83 0.00 40.74 4.34
1998 2069 1.583451 CGCATCAAAATCACCCGCG 60.583 57.895 0.00 0.00 34.89 6.46
2068 2139 1.541310 AACGATGGCCTGGAAGTCGA 61.541 55.000 17.67 0.00 36.28 4.20
2069 2140 1.227089 CGATGGCCTGGAAGTCGAG 60.227 63.158 3.32 0.00 34.46 4.04
2071 2142 1.965754 GATGGCCTGGAAGTCGAGCT 61.966 60.000 3.32 0.00 0.00 4.09
2072 2143 2.125350 GGCCTGGAAGTCGAGCTG 60.125 66.667 0.00 0.00 0.00 4.24
2073 2144 2.817396 GCCTGGAAGTCGAGCTGC 60.817 66.667 0.00 0.00 0.00 5.25
2074 2145 2.977178 CCTGGAAGTCGAGCTGCT 59.023 61.111 0.00 0.00 0.00 4.24
2075 2146 1.294780 CCTGGAAGTCGAGCTGCTT 59.705 57.895 2.53 0.00 0.00 3.91
2076 2147 1.018226 CCTGGAAGTCGAGCTGCTTG 61.018 60.000 10.76 10.76 0.00 4.01
2077 2148 0.037882 CTGGAAGTCGAGCTGCTTGA 60.038 55.000 15.54 15.54 0.00 3.02
2078 2149 0.319900 TGGAAGTCGAGCTGCTTGAC 60.320 55.000 33.09 33.09 43.25 3.18
2081 2152 4.177229 GTCGAGCTGCTTGACTCC 57.823 61.111 32.90 14.66 40.63 3.85
2082 2153 1.290324 GTCGAGCTGCTTGACTCCA 59.710 57.895 32.90 6.92 40.63 3.86
2083 2154 0.735632 GTCGAGCTGCTTGACTCCAG 60.736 60.000 32.90 7.60 40.63 3.86
2084 2155 0.895559 TCGAGCTGCTTGACTCCAGA 60.896 55.000 15.54 0.00 0.00 3.86
2085 2156 0.735632 CGAGCTGCTTGACTCCAGAC 60.736 60.000 11.59 0.00 0.00 3.51
2086 2157 0.319728 GAGCTGCTTGACTCCAGACA 59.680 55.000 2.53 0.00 0.00 3.41
2087 2158 0.982704 AGCTGCTTGACTCCAGACAT 59.017 50.000 0.00 0.00 0.00 3.06
2088 2159 1.085091 GCTGCTTGACTCCAGACATG 58.915 55.000 0.00 0.00 0.00 3.21
2089 2160 1.338484 GCTGCTTGACTCCAGACATGA 60.338 52.381 0.00 0.00 0.00 3.07
2090 2161 2.344950 CTGCTTGACTCCAGACATGAC 58.655 52.381 0.00 0.00 0.00 3.06
2091 2162 1.693606 TGCTTGACTCCAGACATGACA 59.306 47.619 0.00 0.00 0.00 3.58
2092 2163 2.289257 TGCTTGACTCCAGACATGACAG 60.289 50.000 0.00 0.00 0.00 3.51
2093 2164 2.934364 GCTTGACTCCAGACATGACAGG 60.934 54.545 0.00 0.00 0.00 4.00
2094 2165 1.269958 TGACTCCAGACATGACAGGG 58.730 55.000 0.00 0.00 0.00 4.45
2095 2166 1.270907 GACTCCAGACATGACAGGGT 58.729 55.000 0.00 0.00 0.00 4.34
2096 2167 0.979665 ACTCCAGACATGACAGGGTG 59.020 55.000 0.00 3.20 0.00 4.61
2097 2168 0.979665 CTCCAGACATGACAGGGTGT 59.020 55.000 0.00 0.00 0.00 4.16
2098 2169 1.349026 CTCCAGACATGACAGGGTGTT 59.651 52.381 0.00 0.00 0.00 3.32
2099 2170 1.072173 TCCAGACATGACAGGGTGTTG 59.928 52.381 0.00 0.00 0.00 3.33
2100 2171 0.877071 CAGACATGACAGGGTGTTGC 59.123 55.000 0.00 0.00 0.00 4.17
2101 2172 0.250901 AGACATGACAGGGTGTTGCC 60.251 55.000 0.00 0.00 0.00 4.52
2162 2233 2.201022 CCCGGTCTACATCGAGGGG 61.201 68.421 0.69 0.00 35.36 4.79
2192 2263 2.344878 TTTCCGTGGTGGCATGTCCA 62.345 55.000 4.93 4.93 44.18 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
255 265 5.529581 TTCCCAAACTCATGTCCTTTTTC 57.470 39.130 0.00 0.00 0.00 2.29
404 425 4.584327 TTTTCTTCAGTTTAGCCCTTGC 57.416 40.909 0.00 0.00 37.95 4.01
464 491 5.693769 TCTTTCCCACTTCTTATCCGAAT 57.306 39.130 0.00 0.00 0.00 3.34
465 492 5.488341 CTTCTTTCCCACTTCTTATCCGAA 58.512 41.667 0.00 0.00 0.00 4.30
479 506 3.256631 TCTTGCAATTGAGCTTCTTTCCC 59.743 43.478 10.34 0.00 34.99 3.97
634 673 5.746990 ACAGTGTTAGTTGCTCCTTAGAT 57.253 39.130 0.00 0.00 0.00 1.98
792 832 3.845781 TTCTGACAGAAGGAGCACTTT 57.154 42.857 13.99 0.00 40.21 2.66
1014 1055 1.094785 ATTCGAAAGTGGCCCGATTG 58.905 50.000 0.00 0.00 32.07 2.67
1247 1291 4.160626 AGGAATGTAGTAGCAACAGGAGAC 59.839 45.833 0.00 0.00 0.00 3.36
1324 1383 1.607225 AAGGGGGAATGGCTCACATA 58.393 50.000 0.00 0.00 39.40 2.29
1375 1437 2.366916 CCACCTATCCTAACCAGAGCAG 59.633 54.545 0.00 0.00 0.00 4.24
1577 1644 2.489938 ACACTACATGGCGACCAAAT 57.510 45.000 0.00 0.00 36.95 2.32
1578 1645 2.264005 AACACTACATGGCGACCAAA 57.736 45.000 0.00 0.00 36.95 3.28
1588 1655 8.626526 CCAAAAACAGTAAACCTAACACTACAT 58.373 33.333 0.00 0.00 0.00 2.29
1589 1656 7.611079 ACCAAAAACAGTAAACCTAACACTACA 59.389 33.333 0.00 0.00 0.00 2.74
1595 1662 4.971830 GCGACCAAAAACAGTAAACCTAAC 59.028 41.667 0.00 0.00 0.00 2.34
1600 1667 4.417506 ACTTGCGACCAAAAACAGTAAAC 58.582 39.130 0.00 0.00 0.00 2.01
1604 1671 2.356695 GGTACTTGCGACCAAAAACAGT 59.643 45.455 0.00 0.00 36.91 3.55
1615 1682 4.363999 CCAACAAATTTTGGTACTTGCGA 58.636 39.130 13.42 0.00 41.18 5.10
1627 1694 5.006386 TGAAACTTGCCAACCAACAAATTT 58.994 33.333 0.00 0.00 0.00 1.82
1633 1700 5.559427 AAAAATGAAACTTGCCAACCAAC 57.441 34.783 0.00 0.00 0.00 3.77
1706 1777 0.109153 CGGATCCTGCATGGGAATGA 59.891 55.000 10.75 0.00 39.02 2.57
1740 1811 3.644738 TCATGAGCAGAGCAATGGATCTA 59.355 43.478 0.00 0.00 37.78 1.98
1741 1812 2.438392 TCATGAGCAGAGCAATGGATCT 59.562 45.455 0.00 0.00 41.32 2.75
1743 1814 2.950309 GTTCATGAGCAGAGCAATGGAT 59.050 45.455 4.47 0.00 0.00 3.41
1744 1815 2.362736 GTTCATGAGCAGAGCAATGGA 58.637 47.619 4.47 0.00 0.00 3.41
1746 1817 2.366533 AGGTTCATGAGCAGAGCAATG 58.633 47.619 11.93 0.00 0.00 2.82
1747 1818 2.803030 AGGTTCATGAGCAGAGCAAT 57.197 45.000 11.93 0.00 0.00 3.56
1748 1819 2.568956 ACTAGGTTCATGAGCAGAGCAA 59.431 45.455 11.93 0.00 0.00 3.91
1749 1820 2.167281 GACTAGGTTCATGAGCAGAGCA 59.833 50.000 11.93 0.00 0.00 4.26
1750 1821 2.797792 CGACTAGGTTCATGAGCAGAGC 60.798 54.545 11.93 0.00 0.00 4.09
1751 1822 2.425312 ACGACTAGGTTCATGAGCAGAG 59.575 50.000 11.93 9.68 0.00 3.35
1752 1823 2.164422 CACGACTAGGTTCATGAGCAGA 59.836 50.000 11.93 0.00 0.00 4.26
1753 1824 2.534298 CACGACTAGGTTCATGAGCAG 58.466 52.381 11.93 3.78 0.00 4.24
1754 1825 1.404181 GCACGACTAGGTTCATGAGCA 60.404 52.381 11.93 0.00 0.00 4.26
1755 1826 1.281899 GCACGACTAGGTTCATGAGC 58.718 55.000 0.04 0.04 0.00 4.26
1756 1827 1.204704 TGGCACGACTAGGTTCATGAG 59.795 52.381 0.00 0.00 0.00 2.90
1757 1828 1.262417 TGGCACGACTAGGTTCATGA 58.738 50.000 0.00 0.00 0.00 3.07
1758 1829 2.315925 ATGGCACGACTAGGTTCATG 57.684 50.000 0.00 0.00 0.00 3.07
1759 1830 2.632377 CAATGGCACGACTAGGTTCAT 58.368 47.619 0.00 0.00 0.00 2.57
1760 1831 1.943968 GCAATGGCACGACTAGGTTCA 60.944 52.381 0.00 0.00 40.72 3.18
1761 1832 0.727398 GCAATGGCACGACTAGGTTC 59.273 55.000 0.00 0.00 40.72 3.62
1762 1833 0.324943 AGCAATGGCACGACTAGGTT 59.675 50.000 0.00 0.00 44.61 3.50
1763 1834 0.391661 CAGCAATGGCACGACTAGGT 60.392 55.000 0.00 0.00 44.61 3.08
1772 1843 1.672030 CCTCGACACAGCAATGGCA 60.672 57.895 0.00 0.00 44.61 4.92
1781 1852 1.348064 ATGAAAGGTCCCTCGACACA 58.652 50.000 0.00 0.00 41.13 3.72
1821 1892 0.668535 GTTCTTGTGGCACCCTTCAC 59.331 55.000 16.26 1.78 34.71 3.18
1832 1903 4.720649 TTCCTCGGATCTAGTTCTTGTG 57.279 45.455 0.97 0.00 0.00 3.33
1853 1924 3.431486 GGACCAGATCGCTCAAATCTCTT 60.431 47.826 0.00 0.00 31.05 2.85
1878 1949 4.742012 AGACATAATCCCGTCCTGTATCT 58.258 43.478 0.00 0.00 32.33 1.98
1884 1955 0.674534 GCGAGACATAATCCCGTCCT 59.325 55.000 0.00 0.00 32.33 3.85
1889 1960 0.946221 CGCCTGCGAGACATAATCCC 60.946 60.000 5.43 0.00 42.83 3.85
1916 1987 0.321034 CAAGTGTGCTGAGCCTGCTA 60.321 55.000 0.23 0.00 0.00 3.49
2001 2072 2.046700 GAAACCATCCGGCCACGA 60.047 61.111 2.24 0.00 44.60 4.35
2020 2091 3.414700 CGGCAGTGAACACGCCTC 61.415 66.667 25.01 10.81 43.60 4.70
2044 2115 3.818787 CCAGGCCATCGTTGCTGC 61.819 66.667 5.01 0.00 0.00 5.25
2068 2139 0.982704 ATGTCTGGAGTCAAGCAGCT 59.017 50.000 0.00 0.00 0.00 4.24
2069 2140 1.085091 CATGTCTGGAGTCAAGCAGC 58.915 55.000 0.00 0.00 0.00 5.25
2071 2142 1.693606 TGTCATGTCTGGAGTCAAGCA 59.306 47.619 0.00 0.00 0.00 3.91
2072 2143 2.344950 CTGTCATGTCTGGAGTCAAGC 58.655 52.381 0.00 0.00 0.00 4.01
2073 2144 2.354503 CCCTGTCATGTCTGGAGTCAAG 60.355 54.545 15.64 0.00 0.00 3.02
2074 2145 1.625315 CCCTGTCATGTCTGGAGTCAA 59.375 52.381 15.64 0.00 0.00 3.18
2075 2146 1.269958 CCCTGTCATGTCTGGAGTCA 58.730 55.000 15.64 0.00 0.00 3.41
2076 2147 1.066573 CACCCTGTCATGTCTGGAGTC 60.067 57.143 15.64 0.00 0.00 3.36
2077 2148 0.979665 CACCCTGTCATGTCTGGAGT 59.020 55.000 15.64 9.74 0.00 3.85
2078 2149 0.979665 ACACCCTGTCATGTCTGGAG 59.020 55.000 15.64 10.65 0.00 3.86
2079 2150 1.072173 CAACACCCTGTCATGTCTGGA 59.928 52.381 15.64 0.00 0.00 3.86
2080 2151 1.527034 CAACACCCTGTCATGTCTGG 58.473 55.000 8.57 8.57 0.00 3.86
2081 2152 0.877071 GCAACACCCTGTCATGTCTG 59.123 55.000 0.00 0.00 0.00 3.51
2082 2153 0.250901 GGCAACACCCTGTCATGTCT 60.251 55.000 0.00 0.00 0.00 3.41
2083 2154 2.257353 GGCAACACCCTGTCATGTC 58.743 57.895 0.00 0.00 0.00 3.06
2084 2155 4.500265 GGCAACACCCTGTCATGT 57.500 55.556 0.00 0.00 0.00 3.21
2094 2165 4.681978 AGAGTCGGCGGGCAACAC 62.682 66.667 7.21 0.00 39.74 3.32
2095 2166 4.680237 CAGAGTCGGCGGGCAACA 62.680 66.667 7.21 0.00 39.74 3.33
2145 2216 0.539901 ATCCCCTCGATGTAGACCGG 60.540 60.000 0.00 0.00 0.00 5.28
2162 2233 0.804989 CCACGGAAACCTTGAGCATC 59.195 55.000 0.00 0.00 0.00 3.91
2192 2263 1.405272 AACCCCGTTCCTCGTCAACT 61.405 55.000 0.00 0.00 37.94 3.16


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

AutoCloner maintained by Alex Coulton.