Multiple sequence alignment - TraesCS5B01G226000

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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 TraesCS5B01G226000 chr5B 100.000 2282 0 0 1 2282 402735148 402732867 0.000000e+00 4215.0
1 TraesCS5B01G226000 chr5B 96.923 260 1 1 1 253 411514820 411514561 1.620000e-116 429.0
2 TraesCS5B01G226000 chr5D 94.780 1590 42 8 1 1564 342695533 342693959 0.000000e+00 2438.0
3 TraesCS5B01G226000 chr5D 92.857 280 10 3 1961 2235 342693153 342692879 4.570000e-107 398.0
4 TraesCS5B01G226000 chr5D 81.346 327 26 22 1582 1906 342693882 342693589 1.360000e-57 233.0
5 TraesCS5B01G226000 chr5D 100.000 28 0 0 2255 2282 342692880 342692853 4.000000e-03 52.8
6 TraesCS5B01G226000 chr5A 94.021 1589 67 7 1 1564 443720678 443719093 0.000000e+00 2383.0
7 TraesCS5B01G226000 chr5A 87.005 631 28 21 1589 2204 443719010 443718419 0.000000e+00 662.0
8 TraesCS5B01G226000 chr5A 100.000 35 0 0 2248 2282 443718413 443718379 5.260000e-07 65.8
9 TraesCS5B01G226000 chr2D 95.238 42 2 0 1167 1208 388481840 388481799 1.460000e-07 67.6
10 TraesCS5B01G226000 chr2A 95.238 42 2 0 1167 1208 524953128 524953087 1.460000e-07 67.6
11 TraesCS5B01G226000 chr1D 91.304 46 4 0 1171 1216 74929951 74929906 1.890000e-06 63.9
12 TraesCS5B01G226000 chr1A 91.304 46 4 0 1171 1216 75256107 75256062 1.890000e-06 63.9
13 TraesCS5B01G226000 chr3D 97.059 34 1 0 1175 1208 305622397 305622430 8.800000e-05 58.4
14 TraesCS5B01G226000 chr3A 97.059 34 1 0 1175 1208 423671887 423671920 8.800000e-05 58.4
15 TraesCS5B01G226000 chr1B 89.130 46 5 0 1171 1216 118488484 118488439 8.800000e-05 58.4


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 TraesCS5B01G226000 chr5B 402732867 402735148 2281 True 4215.000000 4215 100.000000 1 2282 1 chr5B.!!$R1 2281
1 TraesCS5B01G226000 chr5D 342692853 342695533 2680 True 780.450000 2438 92.245750 1 2282 4 chr5D.!!$R1 2281
2 TraesCS5B01G226000 chr5A 443718379 443720678 2299 True 1036.933333 2383 93.675333 1 2282 3 chr5A.!!$R1 2281

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
364 403 2.689658 TCCCCTATCACATTCGGTCAT 58.31 47.619 0.0 0.0 0.0 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2244 2764 0.037326 ACGACAATGGCGATCTGTGT 60.037 50.0 18.23 0.0 0.0 3.72 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
217 246 8.391075 ACATCCTATACCGTTATTTTTCCATG 57.609 34.615 0.00 0.00 0.00 3.66
233 262 3.632333 TCCATGACGAGTCACTAATCCT 58.368 45.455 8.20 0.00 43.11 3.24
356 395 5.888161 CACTTTAGCTTTTCCCCTATCACAT 59.112 40.000 0.00 0.00 0.00 3.21
364 403 2.689658 TCCCCTATCACATTCGGTCAT 58.310 47.619 0.00 0.00 0.00 3.06
1119 1160 2.822637 CGGGGGCTATGCTGTGGAT 61.823 63.158 0.00 0.00 0.00 3.41
1276 1317 1.729484 TCGTCGTCTTCAAGCAGCG 60.729 57.895 0.00 0.00 0.00 5.18
1306 1347 3.764466 CCGCTGCCGTTCTCCTCT 61.764 66.667 0.00 0.00 0.00 3.69
1307 1348 2.507992 CGCTGCCGTTCTCCTCTG 60.508 66.667 0.00 0.00 0.00 3.35
1344 1388 0.098200 CCGCTGTTGCATCATGTCTG 59.902 55.000 0.00 0.00 39.64 3.51
1367 1411 4.262678 GCTCTAGGACCCCTATGATTGTTC 60.263 50.000 0.00 0.00 35.36 3.18
1368 1412 4.890988 TCTAGGACCCCTATGATTGTTCA 58.109 43.478 0.00 0.00 35.36 3.18
1448 1492 2.650322 GGTGTCTTGTTTGTTCCCTCA 58.350 47.619 0.00 0.00 0.00 3.86
1461 1505 4.843728 TGTTCCCTCATCCTGATTGTAAC 58.156 43.478 0.00 0.00 0.00 2.50
1474 1518 2.008242 TTGTAACCCCATGCAAGCTT 57.992 45.000 0.00 0.00 0.00 3.74
1508 1552 9.461312 CTATCTATCTACCTATTGCTTCTCTGT 57.539 37.037 0.00 0.00 0.00 3.41
1519 1563 6.922247 ATTGCTTCTCTGTATCTGTCAATG 57.078 37.500 0.00 0.00 0.00 2.82
1524 1568 3.713248 TCTCTGTATCTGTCAATGGCCAT 59.287 43.478 14.09 14.09 0.00 4.40
1525 1569 3.812262 TCTGTATCTGTCAATGGCCATG 58.188 45.455 21.63 13.71 0.00 3.66
1527 1571 2.241941 TGTATCTGTCAATGGCCATGGT 59.758 45.455 21.63 4.82 0.00 3.55
1564 1608 4.766891 TCTGGCTCCAAACTTTTTCCTATG 59.233 41.667 0.00 0.00 0.00 2.23
1565 1609 3.831911 TGGCTCCAAACTTTTTCCTATGG 59.168 43.478 0.00 0.00 0.00 2.74
1566 1610 4.086457 GGCTCCAAACTTTTTCCTATGGA 58.914 43.478 0.00 0.00 35.74 3.41
1567 1611 4.711846 GGCTCCAAACTTTTTCCTATGGAT 59.288 41.667 0.00 0.00 36.45 3.41
1568 1612 5.891551 GGCTCCAAACTTTTTCCTATGGATA 59.108 40.000 0.00 0.00 36.45 2.59
1569 1613 6.183360 GGCTCCAAACTTTTTCCTATGGATAC 60.183 42.308 0.00 0.00 36.45 2.24
1570 1614 6.603599 GCTCCAAACTTTTTCCTATGGATACT 59.396 38.462 0.00 0.00 36.45 2.12
1571 1615 7.415653 GCTCCAAACTTTTTCCTATGGATACTG 60.416 40.741 0.00 0.00 36.45 2.74
1572 1616 6.377146 TCCAAACTTTTTCCTATGGATACTGC 59.623 38.462 0.00 0.00 32.28 4.40
1574 1618 6.759497 AACTTTTTCCTATGGATACTGCAC 57.241 37.500 0.00 0.00 37.61 4.57
1578 1622 2.329267 TCCTATGGATACTGCACCTGG 58.671 52.381 0.00 0.00 37.61 4.45
1579 1623 1.271054 CCTATGGATACTGCACCTGGC 60.271 57.143 0.00 0.00 45.13 4.85
1584 1687 3.520696 TGGATACTGCACCTGGCTATAT 58.479 45.455 0.00 0.00 45.15 0.86
1587 1690 5.129320 TGGATACTGCACCTGGCTATATATG 59.871 44.000 0.00 0.00 45.15 1.78
1615 1718 2.322161 CTTTTTGTCAGCTCATTGCCG 58.678 47.619 0.00 0.00 44.23 5.69
1689 1805 2.575532 TCCAGGCAAACTCAAGTTCAG 58.424 47.619 0.00 0.00 37.25 3.02
1690 1806 1.610522 CCAGGCAAACTCAAGTTCAGG 59.389 52.381 0.00 0.00 37.25 3.86
1691 1807 1.000938 CAGGCAAACTCAAGTTCAGGC 60.001 52.381 11.46 11.46 37.25 4.85
1692 1808 0.040067 GGCAAACTCAAGTTCAGGCG 60.040 55.000 0.00 0.00 37.25 5.52
1693 1809 0.661483 GCAAACTCAAGTTCAGGCGC 60.661 55.000 0.00 0.00 37.25 6.53
1694 1810 0.662619 CAAACTCAAGTTCAGGCGCA 59.337 50.000 10.83 0.00 37.25 6.09
1695 1811 0.663153 AAACTCAAGTTCAGGCGCAC 59.337 50.000 10.83 0.00 37.25 5.34
1696 1812 0.463654 AACTCAAGTTCAGGCGCACA 60.464 50.000 10.83 0.00 31.64 4.57
1697 1813 0.882042 ACTCAAGTTCAGGCGCACAG 60.882 55.000 10.83 0.00 0.00 3.66
1720 1836 6.204075 GCATACGTAAAATGCTACTCTGAG 57.796 41.667 13.32 2.45 45.05 3.35
1721 1837 5.749109 GCATACGTAAAATGCTACTCTGAGT 59.251 40.000 15.57 15.57 45.05 3.41
1722 1838 6.255887 GCATACGTAAAATGCTACTCTGAGTT 59.744 38.462 16.53 0.00 45.05 3.01
1723 1839 7.515371 GCATACGTAAAATGCTACTCTGAGTTC 60.515 40.741 16.53 8.98 45.05 3.01
1724 1840 5.779922 ACGTAAAATGCTACTCTGAGTTCA 58.220 37.500 16.53 14.17 0.00 3.18
1733 1849 5.047943 TGCTACTCTGAGTTCAACCTTAGTC 60.048 44.000 16.53 2.41 0.00 2.59
1740 1856 5.751586 TGAGTTCAACCTTAGTCCAAAACT 58.248 37.500 0.00 0.00 42.33 2.66
1743 1859 6.655930 AGTTCAACCTTAGTCCAAAACTACA 58.344 36.000 0.00 0.00 40.23 2.74
1761 1877 7.972832 AACTACAACACTTATTTTGGATCGA 57.027 32.000 0.00 0.00 0.00 3.59
1765 1881 4.965119 ACACTTATTTTGGATCGAAGGC 57.035 40.909 0.00 0.00 0.00 4.35
1815 1934 3.038280 TCTCAAGTGTTTCCTCAGTGGA 58.962 45.455 0.00 0.00 44.51 4.02
1819 1938 4.136796 CAAGTGTTTCCTCAGTGGATGAA 58.863 43.478 0.00 0.00 45.68 2.57
1835 1969 4.811024 TGGATGAAATGTTCTAGATCGTGC 59.189 41.667 0.00 0.00 0.00 5.34
1836 1970 5.053145 GGATGAAATGTTCTAGATCGTGCT 58.947 41.667 0.00 0.00 0.00 4.40
1837 1971 5.050499 GGATGAAATGTTCTAGATCGTGCTG 60.050 44.000 0.00 0.00 0.00 4.41
1839 1973 5.237815 TGAAATGTTCTAGATCGTGCTGTT 58.762 37.500 0.00 0.00 0.00 3.16
1840 1974 5.348724 TGAAATGTTCTAGATCGTGCTGTTC 59.651 40.000 0.00 0.00 0.00 3.18
1842 1976 5.836821 ATGTTCTAGATCGTGCTGTTCTA 57.163 39.130 0.00 0.00 0.00 2.10
1843 1977 5.236655 TGTTCTAGATCGTGCTGTTCTAG 57.763 43.478 13.86 13.86 43.74 2.43
1844 1978 4.941873 TGTTCTAGATCGTGCTGTTCTAGA 59.058 41.667 16.66 16.66 46.78 2.43
1908 2042 6.990798 TGCACAATACATCCTGATTTTGAAA 58.009 32.000 0.00 0.00 0.00 2.69
1936 2070 8.414003 CAATTGAATGGAGATCATCAAATCACT 58.586 33.333 0.00 0.00 34.44 3.41
2113 2633 5.461032 ACACACTATGAATAGCTCTAGCC 57.539 43.478 0.00 0.00 43.38 3.93
2114 2634 4.895889 ACACACTATGAATAGCTCTAGCCA 59.104 41.667 0.00 0.00 43.38 4.75
2155 2675 5.582950 TTTCATCTTCCTCTCCTTTTCCA 57.417 39.130 0.00 0.00 0.00 3.53
2162 2682 3.260205 TCCTCTCCTTTTCCATGGAACT 58.740 45.455 27.04 0.00 33.41 3.01
2169 2689 3.568538 CTTTTCCATGGAACTGCTTTCG 58.431 45.455 27.04 5.56 34.67 3.46
2217 2737 1.132262 ACTCGTGCAACAACTGTTTGG 59.868 47.619 0.00 0.00 37.00 3.28
2218 2738 0.453793 TCGTGCAACAACTGTTTGGG 59.546 50.000 0.00 0.00 37.00 4.12
2230 2750 0.690192 TGTTTGGGAGAGCCGATGAA 59.310 50.000 0.00 0.00 33.83 2.57
2232 2752 0.035439 TTTGGGAGAGCCGATGAACC 60.035 55.000 0.00 0.00 33.83 3.62
2233 2753 1.910580 TTGGGAGAGCCGATGAACCC 61.911 60.000 0.00 0.00 37.99 4.11
2234 2754 2.506472 GGAGAGCCGATGAACCCC 59.494 66.667 0.00 0.00 0.00 4.95
2235 2755 2.506472 GAGAGCCGATGAACCCCC 59.494 66.667 0.00 0.00 0.00 5.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
233 262 6.094719 CACGCAACTATGTACTTACCACTAA 58.905 40.000 0.00 0.00 0.00 2.24
249 278 4.829064 TCTTTTAATCAAGCACGCAACT 57.171 36.364 0.00 0.00 0.00 3.16
291 327 5.698104 AGAAGGGATCACAATCATGCAATA 58.302 37.500 0.00 0.00 33.21 1.90
356 395 5.127491 ACTCCTAAACAACAAATGACCGAA 58.873 37.500 0.00 0.00 0.00 4.30
880 921 0.178301 CTTCCCCTCCTTCGCCTAAC 59.822 60.000 0.00 0.00 0.00 2.34
1101 1142 2.822637 ATCCACAGCATAGCCCCCG 61.823 63.158 0.00 0.00 0.00 5.73
1113 1154 2.934932 TCCCTGCAGCCATCCACA 60.935 61.111 8.66 0.00 0.00 4.17
1119 1160 1.300963 GATGAACTCCCTGCAGCCA 59.699 57.895 8.66 0.00 0.00 4.75
1297 1338 1.271102 AGCTTGACGACAGAGGAGAAC 59.729 52.381 0.00 0.00 0.00 3.01
1301 1342 1.181741 AGCAGCTTGACGACAGAGGA 61.182 55.000 0.00 0.00 0.00 3.71
1326 1367 0.522705 GCAGACATGATGCAACAGCG 60.523 55.000 18.54 0.00 43.31 5.18
1344 1388 3.243724 ACAATCATAGGGGTCCTAGAGC 58.756 50.000 0.00 0.00 39.70 4.09
1448 1492 2.244510 TGCATGGGGTTACAATCAGGAT 59.755 45.455 0.00 0.00 0.00 3.24
1461 1505 4.147321 AGATAACATAAGCTTGCATGGGG 58.853 43.478 9.86 0.00 0.00 4.96
1508 1552 3.053768 TGAACCATGGCCATTGACAGATA 60.054 43.478 22.99 0.00 0.00 1.98
1524 1568 2.290260 CCAGAGCAGTTACCATGAACCA 60.290 50.000 0.00 0.00 0.00 3.67
1525 1569 2.359900 CCAGAGCAGTTACCATGAACC 58.640 52.381 0.00 0.00 0.00 3.62
1527 1571 1.630369 AGCCAGAGCAGTTACCATGAA 59.370 47.619 0.00 0.00 43.56 2.57
1533 1577 1.807142 GTTTGGAGCCAGAGCAGTTAC 59.193 52.381 0.00 0.00 43.56 2.50
1534 1578 1.699634 AGTTTGGAGCCAGAGCAGTTA 59.300 47.619 0.00 0.00 43.56 2.24
1564 1608 5.129485 ACATATATAGCCAGGTGCAGTATCC 59.871 44.000 0.00 0.00 44.83 2.59
1565 1609 6.045318 CACATATATAGCCAGGTGCAGTATC 58.955 44.000 0.00 0.00 44.83 2.24
1566 1610 5.485353 ACACATATATAGCCAGGTGCAGTAT 59.515 40.000 0.00 0.00 44.83 2.12
1567 1611 4.838423 ACACATATATAGCCAGGTGCAGTA 59.162 41.667 0.00 0.00 44.83 2.74
1568 1612 3.648067 ACACATATATAGCCAGGTGCAGT 59.352 43.478 0.00 0.00 44.83 4.40
1569 1613 4.277515 ACACATATATAGCCAGGTGCAG 57.722 45.455 0.00 0.00 44.83 4.41
1570 1614 4.705110 AACACATATATAGCCAGGTGCA 57.295 40.909 0.00 0.00 44.83 4.57
1571 1615 5.048713 GGAAAACACATATATAGCCAGGTGC 60.049 44.000 0.00 0.00 41.71 5.01
1572 1616 6.299141 AGGAAAACACATATATAGCCAGGTG 58.701 40.000 0.00 0.00 0.00 4.00
1574 1618 7.823745 AAAGGAAAACACATATATAGCCAGG 57.176 36.000 0.00 0.00 0.00 4.45
1584 1687 6.096141 TGAGCTGACAAAAAGGAAAACACATA 59.904 34.615 0.00 0.00 0.00 2.29
1587 1690 4.743493 TGAGCTGACAAAAAGGAAAACAC 58.257 39.130 0.00 0.00 0.00 3.32
1615 1718 4.084328 CGAAGTTCAGATGACACAAACCTC 60.084 45.833 3.32 0.00 0.00 3.85
1689 1805 0.444651 TTTTACGTATGCTGTGCGCC 59.555 50.000 4.18 0.00 39.75 6.53
1690 1806 2.101125 CATTTTACGTATGCTGTGCGC 58.899 47.619 0.00 0.00 39.75 6.09
1691 1807 2.101125 GCATTTTACGTATGCTGTGCG 58.899 47.619 13.32 0.00 43.86 5.34
1697 1813 5.749109 ACTCAGAGTAGCATTTTACGTATGC 59.251 40.000 12.81 12.81 46.78 3.14
1698 1814 7.488150 TGAACTCAGAGTAGCATTTTACGTATG 59.512 37.037 2.64 0.00 0.00 2.39
1699 1815 7.544622 TGAACTCAGAGTAGCATTTTACGTAT 58.455 34.615 2.64 0.00 0.00 3.06
1700 1816 6.916440 TGAACTCAGAGTAGCATTTTACGTA 58.084 36.000 2.64 0.00 0.00 3.57
1701 1817 5.779922 TGAACTCAGAGTAGCATTTTACGT 58.220 37.500 2.64 0.00 0.00 3.57
1702 1818 6.401153 GGTTGAACTCAGAGTAGCATTTTACG 60.401 42.308 2.64 0.00 0.00 3.18
1703 1819 6.651225 AGGTTGAACTCAGAGTAGCATTTTAC 59.349 38.462 2.64 1.19 0.00 2.01
1704 1820 6.769512 AGGTTGAACTCAGAGTAGCATTTTA 58.230 36.000 2.64 0.00 0.00 1.52
1705 1821 5.625150 AGGTTGAACTCAGAGTAGCATTTT 58.375 37.500 2.64 0.00 0.00 1.82
1706 1822 5.234466 AGGTTGAACTCAGAGTAGCATTT 57.766 39.130 2.64 0.00 0.00 2.32
1707 1823 4.899352 AGGTTGAACTCAGAGTAGCATT 57.101 40.909 2.64 0.00 0.00 3.56
1708 1824 4.899352 AAGGTTGAACTCAGAGTAGCAT 57.101 40.909 2.64 0.00 0.00 3.79
1709 1825 4.833380 ACTAAGGTTGAACTCAGAGTAGCA 59.167 41.667 2.64 2.65 0.00 3.49
1710 1826 5.394224 ACTAAGGTTGAACTCAGAGTAGC 57.606 43.478 2.64 0.00 0.00 3.58
1711 1827 5.477291 TGGACTAAGGTTGAACTCAGAGTAG 59.523 44.000 2.64 0.00 0.00 2.57
1712 1828 5.391256 TGGACTAAGGTTGAACTCAGAGTA 58.609 41.667 2.64 0.00 0.00 2.59
1713 1829 4.223953 TGGACTAAGGTTGAACTCAGAGT 58.776 43.478 0.00 0.00 0.00 3.24
1714 1830 4.873746 TGGACTAAGGTTGAACTCAGAG 57.126 45.455 0.00 0.00 0.00 3.35
1715 1831 5.623956 TTTGGACTAAGGTTGAACTCAGA 57.376 39.130 0.00 0.00 0.00 3.27
1716 1832 5.823045 AGTTTTGGACTAAGGTTGAACTCAG 59.177 40.000 0.00 0.00 36.65 3.35
1717 1833 5.751586 AGTTTTGGACTAAGGTTGAACTCA 58.248 37.500 0.00 0.00 36.65 3.41
1718 1834 6.764560 TGTAGTTTTGGACTAAGGTTGAACTC 59.235 38.462 0.00 0.00 42.31 3.01
1719 1835 6.655930 TGTAGTTTTGGACTAAGGTTGAACT 58.344 36.000 0.00 0.00 42.31 3.01
1720 1836 6.930667 TGTAGTTTTGGACTAAGGTTGAAC 57.069 37.500 0.00 0.00 42.31 3.18
1721 1837 6.885376 TGTTGTAGTTTTGGACTAAGGTTGAA 59.115 34.615 0.00 0.00 42.31 2.69
1722 1838 6.316890 GTGTTGTAGTTTTGGACTAAGGTTGA 59.683 38.462 0.00 0.00 42.31 3.18
1723 1839 6.317893 AGTGTTGTAGTTTTGGACTAAGGTTG 59.682 38.462 0.00 0.00 42.31 3.77
1724 1840 6.420638 AGTGTTGTAGTTTTGGACTAAGGTT 58.579 36.000 0.00 0.00 42.31 3.50
1740 1856 6.128117 GCCTTCGATCCAAAATAAGTGTTGTA 60.128 38.462 0.00 0.00 0.00 2.41
1743 1859 4.764823 TGCCTTCGATCCAAAATAAGTGTT 59.235 37.500 0.00 0.00 0.00 3.32
1761 1877 4.019321 TGAAATGGAGTTAGCTACTGCCTT 60.019 41.667 0.00 0.00 43.99 4.35
1765 1881 5.220739 GCATGTGAAATGGAGTTAGCTACTG 60.221 44.000 0.00 0.00 37.17 2.74
1815 1934 5.423015 ACAGCACGATCTAGAACATTTCAT 58.577 37.500 0.00 0.00 0.00 2.57
1819 1938 5.078411 AGAACAGCACGATCTAGAACATT 57.922 39.130 0.00 0.00 0.00 2.71
1835 1969 3.560481 CAGAGGCATGCAATCTAGAACAG 59.440 47.826 21.36 5.42 0.00 3.16
1836 1970 3.054875 ACAGAGGCATGCAATCTAGAACA 60.055 43.478 21.36 0.00 0.00 3.18
1837 1971 3.539604 ACAGAGGCATGCAATCTAGAAC 58.460 45.455 21.36 0.00 0.00 3.01
1839 1973 2.103771 GGACAGAGGCATGCAATCTAGA 59.896 50.000 21.36 0.00 0.00 2.43
1840 1974 2.104451 AGGACAGAGGCATGCAATCTAG 59.896 50.000 21.36 16.75 0.00 2.43
1842 1976 0.917533 AGGACAGAGGCATGCAATCT 59.082 50.000 21.36 18.61 0.00 2.40
1843 1977 1.022735 CAGGACAGAGGCATGCAATC 58.977 55.000 21.36 16.55 0.00 2.67
1844 1978 0.622136 TCAGGACAGAGGCATGCAAT 59.378 50.000 21.36 7.26 0.00 3.56
1845 1979 0.401356 TTCAGGACAGAGGCATGCAA 59.599 50.000 21.36 0.00 0.00 4.08
1908 2042 7.343574 TGATTTGATGATCTCCATTCAATTGGT 59.656 33.333 5.42 0.00 38.01 3.67
1936 2070 1.082954 AGGCTAGCTTTCCTCCCCA 59.917 57.895 15.72 0.00 0.00 4.96
2155 2675 1.523758 GGACACGAAAGCAGTTCCAT 58.476 50.000 0.00 0.00 31.99 3.41
2195 2715 0.732571 AACAGTTGTTGCACGAGTGG 59.267 50.000 5.32 0.00 37.27 4.00
2198 2718 1.533756 CCCAAACAGTTGTTGCACGAG 60.534 52.381 0.00 0.00 38.44 4.18
2217 2737 2.506472 GGGGTTCATCGGCTCTCC 59.494 66.667 0.00 0.00 0.00 3.71
2218 2738 2.506472 GGGGGTTCATCGGCTCTC 59.494 66.667 0.00 0.00 0.00 3.20
2232 2752 4.722700 CTGTGTCAAGGCCGGGGG 62.723 72.222 2.18 0.00 0.00 5.40
2233 2753 2.876368 GATCTGTGTCAAGGCCGGGG 62.876 65.000 2.18 0.00 0.00 5.73
2234 2754 1.450312 GATCTGTGTCAAGGCCGGG 60.450 63.158 2.18 0.00 0.00 5.73
2235 2755 1.811266 CGATCTGTGTCAAGGCCGG 60.811 63.158 0.00 0.00 0.00 6.13
2236 2756 2.456119 GCGATCTGTGTCAAGGCCG 61.456 63.158 0.00 0.00 0.00 6.13
2237 2757 2.109126 GGCGATCTGTGTCAAGGCC 61.109 63.158 0.00 0.00 0.00 5.19
2238 2758 0.745845 ATGGCGATCTGTGTCAAGGC 60.746 55.000 0.00 0.00 0.00 4.35
2239 2759 1.399440 CAATGGCGATCTGTGTCAAGG 59.601 52.381 0.00 0.00 0.00 3.61
2240 2760 2.079158 ACAATGGCGATCTGTGTCAAG 58.921 47.619 0.00 0.00 0.00 3.02
2241 2761 2.076100 GACAATGGCGATCTGTGTCAA 58.924 47.619 7.03 0.00 38.74 3.18
2242 2762 1.725641 GACAATGGCGATCTGTGTCA 58.274 50.000 7.03 0.00 38.74 3.58
2243 2763 0.647410 CGACAATGGCGATCTGTGTC 59.353 55.000 0.22 2.81 36.17 3.67
2244 2764 0.037326 ACGACAATGGCGATCTGTGT 60.037 50.000 18.23 0.00 0.00 3.72
2245 2765 0.647410 GACGACAATGGCGATCTGTG 59.353 55.000 18.23 0.00 0.00 3.66
2246 2766 0.802222 CGACGACAATGGCGATCTGT 60.802 55.000 18.23 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.