Multiple sequence alignment - TraesCS5A01G033900

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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 TraesCS5A01G033900 chr5A 100.000 2222 0 0 1 2222 30658908 30661129 0.000000e+00 4104.0
1 TraesCS5A01G033900 chr5A 88.054 519 40 9 998 1495 30679234 30679751 1.470000e-166 595.0
2 TraesCS5A01G033900 chr5A 90.367 218 19 2 1010 1226 30634388 30634604 3.610000e-73 285.0
3 TraesCS5A01G033900 chr5A 79.018 224 23 13 711 914 30673663 30673882 4.980000e-27 132.0
4 TraesCS5A01G033900 chr5A 97.917 48 1 0 1827 1874 30660687 30660734 1.410000e-12 84.2
5 TraesCS5A01G033900 chr5A 97.917 48 1 0 1780 1827 30660734 30660781 1.410000e-12 84.2
6 TraesCS5A01G033900 chr5A 100.000 43 0 0 1582 1624 30660447 30660489 1.830000e-11 80.5
7 TraesCS5A01G033900 chr5A 100.000 43 0 0 1540 1582 30660489 30660531 1.830000e-11 80.5
8 TraesCS5A01G033900 chr5D 95.438 1600 37 12 3 1582 42085904 42087487 0.000000e+00 2518.0
9 TraesCS5A01G033900 chr5D 84.653 821 55 31 711 1495 42205524 42206309 0.000000e+00 752.0
10 TraesCS5A01G033900 chr5D 92.342 222 17 0 1582 1803 42087445 42087666 1.280000e-82 316.0
11 TraesCS5A01G033900 chr5D 88.991 218 22 2 1010 1226 41933942 41933726 3.640000e-68 268.0
12 TraesCS5A01G033900 chr5D 96.992 133 3 1 2060 2191 42088244 42088376 2.870000e-54 222.0
13 TraesCS5A01G033900 chr5D 91.071 112 8 2 1700 1810 42134836 42134946 1.370000e-32 150.0
14 TraesCS5A01G033900 chr5B 91.033 881 41 18 709 1582 36891104 36891953 0.000000e+00 1155.0
15 TraesCS5A01G033900 chr5B 83.597 695 58 28 711 1382 37046375 37047036 3.160000e-168 601.0
16 TraesCS5A01G033900 chr5B 91.803 244 19 1 1582 1824 36891911 36892154 2.730000e-89 339.0
17 TraesCS5A01G033900 chr5B 95.146 206 9 1 1987 2191 36892421 36892626 7.650000e-85 324.0
18 TraesCS5A01G033900 chr5B 89.686 223 20 3 1005 1226 36602512 36602292 4.670000e-72 281.0
19 TraesCS5A01G033900 chr5B 80.263 380 37 23 648 997 37033640 37034011 3.660000e-63 252.0
20 TraesCS5A01G033900 chr5B 92.683 123 8 1 75 196 36873016 36873138 2.270000e-40 176.0
21 TraesCS5A01G033900 chr5B 89.286 112 10 2 1700 1810 36983201 36983311 2.980000e-29 139.0
22 TraesCS5A01G033900 chr3A 83.810 210 32 2 1016 1224 433427628 433427836 4.840000e-47 198.0
23 TraesCS5A01G033900 chr3A 81.579 76 14 0 377 452 335477868 335477943 1.840000e-06 63.9
24 TraesCS5A01G033900 chr7A 92.308 78 6 0 1 78 20953775 20953698 6.490000e-21 111.0
25 TraesCS5A01G033900 chr7A 91.781 73 6 0 2 74 589824669 589824741 3.900000e-18 102.0
26 TraesCS5A01G033900 chr3B 90.789 76 7 0 2 77 597820916 597820991 3.900000e-18 102.0
27 TraesCS5A01G033900 chr3B 81.579 76 14 0 377 452 305527789 305527714 1.840000e-06 63.9
28 TraesCS5A01G033900 chr7D 90.541 74 7 0 1 74 618495412 618495485 5.050000e-17 99.0
29 TraesCS5A01G033900 chr3D 90.541 74 7 0 1 74 474460694 474460767 5.050000e-17 99.0
30 TraesCS5A01G033900 chr3D 90.411 73 7 0 5 77 454907144 454907216 1.820000e-16 97.1
31 TraesCS5A01G033900 chr3D 81.579 76 14 0 377 452 254103166 254103091 1.840000e-06 63.9
32 TraesCS5A01G033900 chr1B 91.549 71 5 1 2 72 56998313 56998382 1.820000e-16 97.1
33 TraesCS5A01G033900 chr1A 90.541 74 6 1 2 74 23450036 23450109 1.820000e-16 97.1
34 TraesCS5A01G033900 chr2A 80.263 76 15 0 377 452 132860640 132860715 8.570000e-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 TraesCS5A01G033900 chr5A 30658908 30661129 2221 False 886.680000 4104 99.166800 1 2222 5 chr5A.!!$F4 2221
1 TraesCS5A01G033900 chr5A 30679234 30679751 517 False 595.000000 595 88.054000 998 1495 1 chr5A.!!$F3 497
2 TraesCS5A01G033900 chr5D 42085904 42088376 2472 False 1018.666667 2518 94.924000 3 2191 3 chr5D.!!$F3 2188
3 TraesCS5A01G033900 chr5D 42205524 42206309 785 False 752.000000 752 84.653000 711 1495 1 chr5D.!!$F2 784
4 TraesCS5A01G033900 chr5B 36891104 36892626 1522 False 606.000000 1155 92.660667 709 2191 3 chr5B.!!$F5 1482
5 TraesCS5A01G033900 chr5B 37046375 37047036 661 False 601.000000 601 83.597000 711 1382 1 chr5B.!!$F4 671

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
140 145 0.038526 CGCGAGTTCTGTACCAAGGT 60.039 55.0 0.0 0.0 0.0 3.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1582 1657 1.113788 TTGCCCTATGATGCAAAGGC 58.886 50.0 0.0 0.0 43.94 4.35 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
140 145 0.038526 CGCGAGTTCTGTACCAAGGT 60.039 55.000 0.00 0.00 0.00 3.50
141 146 1.429463 GCGAGTTCTGTACCAAGGTG 58.571 55.000 1.07 0.00 0.00 4.00
142 147 1.429463 CGAGTTCTGTACCAAGGTGC 58.571 55.000 1.07 0.47 0.00 5.01
200 205 3.464720 TGAGGGGTGGATAATTTGCAA 57.535 42.857 0.00 0.00 0.00 4.08
268 274 6.949578 ACTATACGCGCTTAAAACTTGTTA 57.050 33.333 5.73 0.00 0.00 2.41
273 279 4.965762 ACGCGCTTAAAACTTGTTAAACTC 59.034 37.500 5.73 0.00 0.00 3.01
337 343 6.810888 ATTGTTGAGTGTGATTTTTGTTCG 57.189 33.333 0.00 0.00 0.00 3.95
347 353 2.147436 TTTTTGTTCGAGGGCATTGC 57.853 45.000 0.00 0.00 0.00 3.56
583 602 2.613506 CCGAACGTTTGGGACCAGC 61.614 63.158 24.79 0.00 0.00 4.85
612 631 2.281762 GCCGACTGCACGAAATAAGTAG 59.718 50.000 0.00 0.00 40.77 2.57
613 632 3.508762 CCGACTGCACGAAATAAGTAGT 58.491 45.455 0.00 0.00 35.09 2.73
614 633 4.665212 CCGACTGCACGAAATAAGTAGTA 58.335 43.478 0.00 0.00 35.09 1.82
668 687 4.853468 TGGACAGAATAATACCTTGCCA 57.147 40.909 0.00 0.00 0.00 4.92
939 974 1.814394 GTCCACCATAACCGGAAAACC 59.186 52.381 9.46 0.00 0.00 3.27
1231 1270 4.290722 CCATCCCCATCTAATCCTAAGCTT 59.709 45.833 3.48 3.48 0.00 3.74
1238 1277 7.070571 CCCCATCTAATCCTAAGCTTATCCTAG 59.929 44.444 6.64 6.24 0.00 3.02
1277 1328 2.105134 TGTTGTAACCTGGTCATTCCGT 59.895 45.455 0.00 0.00 39.52 4.69
1513 1585 8.930760 CAATATTATTCTCGTCTCCCATCTTTC 58.069 37.037 0.00 0.00 0.00 2.62
1557 1632 2.811307 TGCCTTTGCATCATAGGGC 58.189 52.632 2.42 2.42 44.23 5.19
1558 1633 0.033306 TGCCTTTGCATCATAGGGCA 60.033 50.000 7.79 7.79 44.23 5.36
1563 1638 2.824689 TTGCATCATAGGGCAAAGGA 57.175 45.000 0.00 0.00 46.11 3.36
1564 1639 2.824689 TGCATCATAGGGCAAAGGAA 57.175 45.000 0.00 0.00 37.03 3.36
1565 1640 2.658285 TGCATCATAGGGCAAAGGAAG 58.342 47.619 0.00 0.00 37.03 3.46
1566 1641 2.025037 TGCATCATAGGGCAAAGGAAGT 60.025 45.455 0.00 0.00 37.03 3.01
1567 1642 3.201930 TGCATCATAGGGCAAAGGAAGTA 59.798 43.478 0.00 0.00 37.03 2.24
1568 1643 4.141181 TGCATCATAGGGCAAAGGAAGTAT 60.141 41.667 0.00 0.00 37.03 2.12
1569 1644 4.829492 GCATCATAGGGCAAAGGAAGTATT 59.171 41.667 0.00 0.00 0.00 1.89
1570 1645 6.003950 GCATCATAGGGCAAAGGAAGTATTA 58.996 40.000 0.00 0.00 0.00 0.98
1571 1646 6.072452 GCATCATAGGGCAAAGGAAGTATTAC 60.072 42.308 0.00 0.00 0.00 1.89
1572 1647 6.569127 TCATAGGGCAAAGGAAGTATTACA 57.431 37.500 0.00 0.00 0.00 2.41
1573 1648 6.591935 TCATAGGGCAAAGGAAGTATTACAG 58.408 40.000 0.00 0.00 0.00 2.74
1574 1649 6.385759 TCATAGGGCAAAGGAAGTATTACAGA 59.614 38.462 0.00 0.00 0.00 3.41
1575 1650 5.514500 AGGGCAAAGGAAGTATTACAGAA 57.486 39.130 0.00 0.00 0.00 3.02
1576 1651 6.079712 AGGGCAAAGGAAGTATTACAGAAT 57.920 37.500 0.00 0.00 0.00 2.40
1577 1652 7.208064 AGGGCAAAGGAAGTATTACAGAATA 57.792 36.000 0.00 0.00 0.00 1.75
1578 1653 7.054751 AGGGCAAAGGAAGTATTACAGAATAC 58.945 38.462 0.00 0.48 45.37 1.89
1579 1654 6.826741 GGGCAAAGGAAGTATTACAGAATACA 59.173 38.462 9.76 0.00 46.80 2.29
1580 1655 7.502561 GGGCAAAGGAAGTATTACAGAATACAT 59.497 37.037 9.76 0.00 46.80 2.29
1581 1656 8.903820 GGCAAAGGAAGTATTACAGAATACATT 58.096 33.333 9.76 2.82 46.80 2.71
1582 1657 9.722056 GCAAAGGAAGTATTACAGAATACATTG 57.278 33.333 9.76 7.67 46.80 2.82
1583 1658 9.722056 CAAAGGAAGTATTACAGAATACATTGC 57.278 33.333 9.76 6.88 46.80 3.56
1584 1659 8.451908 AAGGAAGTATTACAGAATACATTGCC 57.548 34.615 9.76 5.76 46.80 4.52
1585 1660 7.806180 AGGAAGTATTACAGAATACATTGCCT 58.194 34.615 9.76 7.41 46.80 4.75
1586 1661 8.275040 AGGAAGTATTACAGAATACATTGCCTT 58.725 33.333 9.76 0.00 46.80 4.35
1587 1662 8.903820 GGAAGTATTACAGAATACATTGCCTTT 58.096 33.333 9.76 0.00 46.80 3.11
1588 1663 9.722056 GAAGTATTACAGAATACATTGCCTTTG 57.278 33.333 9.76 0.00 46.80 2.77
1589 1664 7.707104 AGTATTACAGAATACATTGCCTTTGC 58.293 34.615 9.76 0.00 46.80 3.68
1590 1665 7.339212 AGTATTACAGAATACATTGCCTTTGCA 59.661 33.333 9.76 0.00 46.80 4.08
1591 1666 8.137437 GTATTACAGAATACATTGCCTTTGCAT 58.863 33.333 0.00 0.00 45.19 3.96
1653 1728 5.448089 CCAAAACACCCACGTATAATAGCAC 60.448 44.000 0.00 0.00 0.00 4.40
1678 1753 7.878127 ACTACTGTTGAGTATATTTGTGTTGCT 59.122 33.333 0.00 0.00 34.05 3.91
1684 1759 9.490663 GTTGAGTATATTTGTGTTGCTTGTATC 57.509 33.333 0.00 0.00 0.00 2.24
1699 1774 5.163311 TGCTTGTATCATGTATACTGTGGCT 60.163 40.000 4.17 0.00 41.05 4.75
1703 1778 5.598417 TGTATCATGTATACTGTGGCTCACT 59.402 40.000 4.17 0.00 41.05 3.41
1705 1780 5.420725 TCATGTATACTGTGGCTCACTTT 57.579 39.130 4.17 0.00 35.11 2.66
1738 1813 1.002087 AGTTGAGGTTAAGGTCCTGCG 59.998 52.381 0.00 0.00 35.20 5.18
1762 1837 6.602179 GTGTACTTATATATACGTGCACCGA 58.398 40.000 26.46 0.00 40.01 4.69
1778 1854 2.418628 CACCGACACCCATCAATACAAC 59.581 50.000 0.00 0.00 0.00 3.32
1803 1879 9.455847 ACGAATATTGTATTACTAAACCGTCTC 57.544 33.333 0.00 0.00 0.00 3.36
1804 1880 9.674824 CGAATATTGTATTACTAAACCGTCTCT 57.325 33.333 0.00 0.00 0.00 3.10
1809 1885 8.565896 TTGTATTACTAAACCGTCTCTCTACA 57.434 34.615 0.00 0.00 0.00 2.74
1810 1886 8.743085 TGTATTACTAAACCGTCTCTCTACAT 57.257 34.615 0.00 0.00 0.00 2.29
1811 1887 8.618677 TGTATTACTAAACCGTCTCTCTACATG 58.381 37.037 0.00 0.00 0.00 3.21
1812 1888 4.985538 ACTAAACCGTCTCTCTACATGG 57.014 45.455 0.00 0.00 0.00 3.66
1813 1889 4.342359 ACTAAACCGTCTCTCTACATGGT 58.658 43.478 0.00 0.00 0.00 3.55
1814 1890 5.503927 ACTAAACCGTCTCTCTACATGGTA 58.496 41.667 0.00 0.00 0.00 3.25
1815 1891 6.127793 ACTAAACCGTCTCTCTACATGGTAT 58.872 40.000 0.00 0.00 0.00 2.73
1816 1892 5.517322 AAACCGTCTCTCTACATGGTATC 57.483 43.478 0.00 0.00 0.00 2.24
1817 1893 4.166246 ACCGTCTCTCTACATGGTATCA 57.834 45.455 0.00 0.00 0.00 2.15
1818 1894 4.730966 ACCGTCTCTCTACATGGTATCAT 58.269 43.478 0.00 0.00 0.00 2.45
1819 1895 4.762765 ACCGTCTCTCTACATGGTATCATC 59.237 45.833 0.00 0.00 0.00 2.92
1820 1896 4.762251 CCGTCTCTCTACATGGTATCATCA 59.238 45.833 0.00 0.00 0.00 3.07
1821 1897 5.417266 CCGTCTCTCTACATGGTATCATCAT 59.583 44.000 0.00 0.00 0.00 2.45
1822 1898 6.071672 CCGTCTCTCTACATGGTATCATCATT 60.072 42.308 0.00 0.00 0.00 2.57
1823 1899 7.374272 CGTCTCTCTACATGGTATCATCATTT 58.626 38.462 0.00 0.00 0.00 2.32
1824 1900 8.515414 CGTCTCTCTACATGGTATCATCATTTA 58.485 37.037 0.00 0.00 0.00 1.40
1825 1901 9.853555 GTCTCTCTACATGGTATCATCATTTAG 57.146 37.037 0.00 0.00 0.00 1.85
1826 1902 9.029368 TCTCTCTACATGGTATCATCATTTAGG 57.971 37.037 0.00 0.00 30.23 2.69
1827 1903 8.956446 TCTCTACATGGTATCATCATTTAGGA 57.044 34.615 0.00 0.00 30.23 2.94
1828 1904 9.379770 TCTCTACATGGTATCATCATTTAGGAA 57.620 33.333 0.00 0.00 30.23 3.36
1867 1943 6.241645 ACCGTCTCTCTACATGATATCATCA 58.758 40.000 15.49 5.87 44.55 3.07
1881 1957 7.307131 TGATATCATCATTTAGGTCTCTGCA 57.693 36.000 0.00 0.00 33.59 4.41
1968 2075 4.760047 CCTTCCCCCGTCACGCTG 62.760 72.222 0.00 0.00 0.00 5.18
2045 2272 3.023949 GCCTCCTGATCGTGCCACT 62.024 63.158 0.00 0.00 0.00 4.00
2160 2558 1.372307 CACCGAAACCCTAACCCGT 59.628 57.895 0.00 0.00 0.00 5.28
2193 2591 4.191950 CGCCGCGCCAATGGAAAT 62.192 61.111 2.05 0.00 0.00 2.17
2194 2592 2.829206 CGCCGCGCCAATGGAAATA 61.829 57.895 2.05 0.00 0.00 1.40
2195 2593 1.435515 GCCGCGCCAATGGAAATAA 59.564 52.632 2.05 0.00 0.00 1.40
2196 2594 0.179124 GCCGCGCCAATGGAAATAAA 60.179 50.000 2.05 0.00 0.00 1.40
2197 2595 1.537990 GCCGCGCCAATGGAAATAAAT 60.538 47.619 2.05 0.00 0.00 1.40
2198 2596 2.287909 GCCGCGCCAATGGAAATAAATA 60.288 45.455 2.05 0.00 0.00 1.40
2199 2597 3.613910 GCCGCGCCAATGGAAATAAATAT 60.614 43.478 2.05 0.00 0.00 1.28
2200 2598 4.380023 GCCGCGCCAATGGAAATAAATATA 60.380 41.667 2.05 0.00 0.00 0.86
2201 2599 5.704888 CCGCGCCAATGGAAATAAATATAA 58.295 37.500 2.05 0.00 0.00 0.98
2202 2600 5.799936 CCGCGCCAATGGAAATAAATATAAG 59.200 40.000 2.05 0.00 0.00 1.73
2203 2601 5.799936 CGCGCCAATGGAAATAAATATAAGG 59.200 40.000 2.05 0.00 0.00 2.69
2204 2602 6.348950 CGCGCCAATGGAAATAAATATAAGGA 60.349 38.462 2.05 0.00 0.00 3.36
2205 2603 7.375053 GCGCCAATGGAAATAAATATAAGGAA 58.625 34.615 2.05 0.00 0.00 3.36
2206 2604 7.870445 GCGCCAATGGAAATAAATATAAGGAAA 59.130 33.333 2.05 0.00 0.00 3.13
2207 2605 9.927668 CGCCAATGGAAATAAATATAAGGAAAT 57.072 29.630 2.05 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 7.106439 TGAACAATACCGCCATTTGAAATAT 57.894 32.000 0.00 0.00 0.00 1.28
129 134 3.788766 GCGCGCACCTTGGTACAG 61.789 66.667 29.10 0.00 42.39 2.74
140 145 0.675208 TTCCTTTCCTAATGCGCGCA 60.675 50.000 38.27 38.27 0.00 6.09
141 146 0.450184 TTTCCTTTCCTAATGCGCGC 59.550 50.000 27.26 27.26 0.00 6.86
142 147 2.911819 TTTTCCTTTCCTAATGCGCG 57.088 45.000 0.00 0.00 0.00 6.86
268 274 2.779755 TACGATGTGGCCATGAGTTT 57.220 45.000 9.72 0.00 0.00 2.66
273 279 2.761392 CACAATACGATGTGGCCATG 57.239 50.000 9.72 2.22 45.47 3.66
337 343 0.390209 ACGCAATTTGCAATGCCCTC 60.390 50.000 20.56 0.00 45.36 4.30
347 353 0.600782 AAGCCAAGGCACGCAATTTG 60.601 50.000 14.40 0.00 44.88 2.32
630 649 7.009179 TCTGTCCAAATCACTTTACAGAGAT 57.991 36.000 0.00 0.00 36.06 2.75
668 687 9.774742 GCGAAAGAAATACTATTTGATGAAGTT 57.225 29.630 0.00 0.00 0.00 2.66
1231 1270 6.547396 ACAGGAAGGGATTAGACTAGGATA 57.453 41.667 0.00 0.00 0.00 2.59
1238 1277 5.990668 ACAACATACAGGAAGGGATTAGAC 58.009 41.667 0.00 0.00 0.00 2.59
1277 1328 3.742385 TCAATCATGCACACAACTCAGA 58.258 40.909 0.00 0.00 0.00 3.27
1556 1631 9.722056 CAATGTATTCTGTAATACTTCCTTTGC 57.278 33.333 9.09 0.00 45.22 3.68
1557 1632 9.722056 GCAATGTATTCTGTAATACTTCCTTTG 57.278 33.333 9.09 6.83 45.22 2.77
1558 1633 8.903820 GGCAATGTATTCTGTAATACTTCCTTT 58.096 33.333 9.09 0.00 45.22 3.11
1559 1634 8.275040 AGGCAATGTATTCTGTAATACTTCCTT 58.725 33.333 9.09 0.00 45.22 3.36
1560 1635 7.806180 AGGCAATGTATTCTGTAATACTTCCT 58.194 34.615 9.09 7.26 45.22 3.36
1561 1636 8.451908 AAGGCAATGTATTCTGTAATACTTCC 57.548 34.615 9.09 5.67 45.22 3.46
1562 1637 9.722056 CAAAGGCAATGTATTCTGTAATACTTC 57.278 33.333 9.09 0.00 45.22 3.01
1563 1638 8.190784 GCAAAGGCAATGTATTCTGTAATACTT 58.809 33.333 9.09 1.63 42.58 2.24
1564 1639 7.707104 GCAAAGGCAATGTATTCTGTAATACT 58.293 34.615 9.09 0.00 42.58 2.12
1565 1640 7.914537 GCAAAGGCAATGTATTCTGTAATAC 57.085 36.000 0.00 0.00 42.52 1.89
1582 1657 1.113788 TTGCCCTATGATGCAAAGGC 58.886 50.000 0.00 0.00 43.94 4.35
1586 1661 2.824689 TCCTTTGCCCTATGATGCAA 57.175 45.000 0.00 0.00 45.12 4.08
1587 1662 2.025037 ACTTCCTTTGCCCTATGATGCA 60.025 45.455 0.00 0.00 35.27 3.96
1588 1663 2.659428 ACTTCCTTTGCCCTATGATGC 58.341 47.619 0.00 0.00 0.00 3.91
1589 1664 6.998074 TGTAATACTTCCTTTGCCCTATGATG 59.002 38.462 0.00 0.00 0.00 3.07
1590 1665 7.072454 TCTGTAATACTTCCTTTGCCCTATGAT 59.928 37.037 0.00 0.00 0.00 2.45
1591 1666 6.385759 TCTGTAATACTTCCTTTGCCCTATGA 59.614 38.462 0.00 0.00 0.00 2.15
1592 1667 6.591935 TCTGTAATACTTCCTTTGCCCTATG 58.408 40.000 0.00 0.00 0.00 2.23
1593 1668 6.824958 TCTGTAATACTTCCTTTGCCCTAT 57.175 37.500 0.00 0.00 0.00 2.57
1594 1669 6.630203 TTCTGTAATACTTCCTTTGCCCTA 57.370 37.500 0.00 0.00 0.00 3.53
1595 1670 5.514500 TTCTGTAATACTTCCTTTGCCCT 57.486 39.130 0.00 0.00 0.00 5.19
1596 1671 6.826741 TGTATTCTGTAATACTTCCTTTGCCC 59.173 38.462 9.09 0.00 45.22 5.36
1597 1672 7.859325 TGTATTCTGTAATACTTCCTTTGCC 57.141 36.000 9.09 0.00 45.22 4.52
1653 1728 8.256611 AGCAACACAAATATACTCAACAGTAG 57.743 34.615 0.00 0.00 38.56 2.57
1678 1753 6.098266 AGTGAGCCACAGTATACATGATACAA 59.902 38.462 5.50 0.00 37.60 2.41
1684 1759 5.423015 AGAAAGTGAGCCACAGTATACATG 58.577 41.667 5.50 3.00 36.74 3.21
1692 1767 3.667497 TGACTAGAAAGTGAGCCACAG 57.333 47.619 0.00 0.00 35.56 3.66
1699 1774 8.687242 CCTCAACTATACATGACTAGAAAGTGA 58.313 37.037 0.00 3.98 35.56 3.41
1705 1780 9.132923 CCTTAACCTCAACTATACATGACTAGA 57.867 37.037 0.00 0.00 0.00 2.43
1738 1813 6.521133 GTCGGTGCACGTATATATAAGTACAC 59.479 42.308 23.44 23.44 44.69 2.90
1762 1837 6.601613 ACAATATTCGTTGTATTGATGGGTGT 59.398 34.615 17.52 0.00 40.35 4.16
1778 1854 9.674824 AGAGACGGTTTAGTAATACAATATTCG 57.325 33.333 0.00 0.00 0.00 3.34
1791 1867 4.342359 ACCATGTAGAGAGACGGTTTAGT 58.658 43.478 0.00 0.00 0.00 2.24
1793 1869 6.124340 TGATACCATGTAGAGAGACGGTTTA 58.876 40.000 0.00 0.00 0.00 2.01
1824 1900 9.978044 GAGACGGTTTAGTAATACAATATTCCT 57.022 33.333 0.00 0.00 0.00 3.36
1825 1901 9.978044 AGAGACGGTTTAGTAATACAATATTCC 57.022 33.333 0.00 0.00 0.00 3.01
1830 1906 9.182214 TGTAGAGAGACGGTTTAGTAATACAAT 57.818 33.333 0.00 0.00 0.00 2.71
1831 1907 8.565896 TGTAGAGAGACGGTTTAGTAATACAA 57.434 34.615 0.00 0.00 0.00 2.41
1832 1908 8.618677 CATGTAGAGAGACGGTTTAGTAATACA 58.381 37.037 0.00 0.00 0.00 2.29
1833 1909 8.834465 TCATGTAGAGAGACGGTTTAGTAATAC 58.166 37.037 0.00 0.00 0.00 1.89
1834 1910 8.969260 TCATGTAGAGAGACGGTTTAGTAATA 57.031 34.615 0.00 0.00 0.00 0.98
1835 1911 7.876936 TCATGTAGAGAGACGGTTTAGTAAT 57.123 36.000 0.00 0.00 0.00 1.89
1836 1912 7.876936 ATCATGTAGAGAGACGGTTTAGTAA 57.123 36.000 0.00 0.00 0.00 2.24
1837 1913 9.217278 GATATCATGTAGAGAGACGGTTTAGTA 57.783 37.037 0.00 0.00 0.00 1.82
1838 1914 7.720074 TGATATCATGTAGAGAGACGGTTTAGT 59.280 37.037 0.00 0.00 0.00 2.24
1839 1915 8.100508 TGATATCATGTAGAGAGACGGTTTAG 57.899 38.462 0.00 0.00 0.00 1.85
1840 1916 8.637196 ATGATATCATGTAGAGAGACGGTTTA 57.363 34.615 17.51 0.00 34.83 2.01
1841 1917 6.961360 TGATATCATGTAGAGAGACGGTTT 57.039 37.500 0.00 0.00 0.00 3.27
1842 1918 6.717084 TGATGATATCATGTAGAGAGACGGTT 59.283 38.462 22.86 0.00 36.57 4.44
1843 1919 6.241645 TGATGATATCATGTAGAGAGACGGT 58.758 40.000 22.86 0.00 36.57 4.83
1844 1920 6.749923 TGATGATATCATGTAGAGAGACGG 57.250 41.667 22.86 0.00 36.57 4.79
1867 1943 3.725634 ACCCTAGTGCAGAGACCTAAAT 58.274 45.455 0.00 0.00 0.00 1.40
1871 1947 1.562783 GAACCCTAGTGCAGAGACCT 58.437 55.000 0.00 0.00 0.00 3.85
1920 2011 4.329545 GGGGTGAGGCAGCGACAA 62.330 66.667 0.00 0.00 32.08 3.18
1951 2058 4.760047 CAGCGTGACGGGGGAAGG 62.760 72.222 7.25 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.