Multiple sequence alignment - TraesCS6D01G179900

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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 TraesCS6D01G179900 chr6D 100.000 2249 0 0 1 2249 196357615 196359863 0.000000e+00 4154
1 TraesCS6D01G179900 chr2A 96.661 1647 49 3 1 1642 65084521 65086166 0.000000e+00 2732
2 TraesCS6D01G179900 chr2A 96.218 1507 51 3 141 1642 94221952 94223457 0.000000e+00 2462
3 TraesCS6D01G179900 chr2A 96.907 194 3 3 2057 2249 94223813 94224004 2.790000e-84 322
4 TraesCS6D01G179900 chr6A 96.357 1647 54 3 1 1642 508000567 508002212 0.000000e+00 2704
5 TraesCS6D01G179900 chr6A 96.392 1081 37 1 1 1081 349779534 349780612 0.000000e+00 1779
6 TraesCS6D01G179900 chr6A 99.077 325 3 0 1765 2089 518953309 518953633 3.220000e-163 584
7 TraesCS6D01G179900 chr6A 98.462 325 4 1 1765 2089 349780736 349781059 2.510000e-159 571
8 TraesCS6D01G179900 chr6A 96.825 189 3 3 2057 2244 518953667 518953853 1.680000e-81 313
9 TraesCS6D01G179900 chr6A 95.876 194 5 3 2057 2249 508002568 508002759 6.030000e-81 311
10 TraesCS6D01G179900 chr6A 99.237 131 1 0 1512 1642 349780608 349780738 1.040000e-58 237
11 TraesCS6D01G179900 chr6A 99.231 130 1 0 1513 1642 518953182 518953311 3.730000e-58 235
12 TraesCS6D01G179900 chr6A 96.377 138 4 1 1637 1774 542709345 542709481 2.250000e-55 226
13 TraesCS6D01G179900 chr6A 94.483 145 8 0 1630 1774 494467139 494467283 8.080000e-55 224
14 TraesCS6D01G179900 chr3A 96.355 1646 53 4 1 1642 50435225 50436867 0.000000e+00 2700
15 TraesCS6D01G179900 chr3A 96.108 1079 40 2 1 1079 657439404 657440480 0.000000e+00 1759
16 TraesCS6D01G179900 chr3A 96.907 194 3 3 2057 2249 50437216 50437407 2.790000e-84 322
17 TraesCS6D01G179900 chr3A 95.876 194 5 3 2057 2249 657453244 657453435 6.030000e-81 311
18 TraesCS6D01G179900 chr1A 95.261 1646 57 8 1 1641 527084309 527082680 0.000000e+00 2588
19 TraesCS6D01G179900 chr1A 98.758 322 4 0 1768 2089 527082678 527082357 6.970000e-160 573
20 TraesCS6D01G179900 chr1A 96.350 137 5 0 1630 1766 487490714 487490850 2.250000e-55 226
21 TraesCS6D01G179900 chr7A 96.848 1269 35 2 378 1642 724636562 724637829 0.000000e+00 2117
22 TraesCS6D01G179900 chr7A 89.428 804 50 23 871 1641 576383542 576382741 0.000000e+00 981
23 TraesCS6D01G179900 chr7A 97.320 485 13 0 1765 2249 724637827 724638311 0.000000e+00 824
24 TraesCS6D01G179900 chr7A 96.278 403 10 2 1243 1641 658723159 658723560 0.000000e+00 656
25 TraesCS6D01G179900 chr7A 95.285 403 15 1 1243 1641 728377229 728376827 8.760000e-179 636
26 TraesCS6D01G179900 chr5A 97.131 1220 30 2 428 1642 554347662 554348881 0.000000e+00 2054
27 TraesCS6D01G179900 chr5A 96.272 751 24 1 896 1642 560882915 560882165 0.000000e+00 1229
28 TraesCS6D01G179900 chr5A 99.385 325 2 0 1765 2089 554348879 554349203 6.920000e-165 590
29 TraesCS6D01G179900 chr5A 97.423 194 2 3 2057 2249 554349237 554349428 5.990000e-86 327
30 TraesCS6D01G179900 chr5A 96.392 194 4 3 2057 2249 560881809 560881618 1.300000e-82 316
31 TraesCS6D01G179900 chr6B 95.594 749 25 4 901 1642 131761702 131760955 0.000000e+00 1194
32 TraesCS6D01G179900 chr6B 94.203 414 20 2 1233 1642 670368731 670369144 1.470000e-176 628
33 TraesCS6D01G179900 chr6B 97.538 325 8 0 1765 2089 131760957 131760633 7.020000e-155 556
34 TraesCS6D01G179900 chr6B 96.377 138 5 0 1505 1642 70513533 70513670 6.250000e-56 228
35 TraesCS6D01G179900 chr1B 94.357 443 20 2 1204 1642 552389898 552389457 0.000000e+00 675
36 TraesCS6D01G179900 chr1B 97.846 325 7 0 1765 2089 552389459 552389135 1.510000e-156 562
37 TraesCS6D01G179900 chr1B 96.377 138 5 0 1505 1642 127646180 127646317 6.250000e-56 228
38 TraesCS6D01G179900 chr1B 98.438 128 2 0 1640 1767 683748086 683747959 2.250000e-55 226
39 TraesCS6D01G179900 chr1B 93.431 137 9 0 1505 1641 78425516 78425380 1.050000e-48 204
40 TraesCS6D01G179900 chr1B 92.754 138 9 1 1505 1642 78445596 78445460 4.900000e-47 198
41 TraesCS6D01G179900 chr3B 98.769 325 4 0 1765 2089 61519372 61519696 1.500000e-161 579
42 TraesCS6D01G179900 chr3B 97.222 252 3 1 1395 1642 61519123 61519374 7.430000e-115 424
43 TraesCS6D01G179900 chr3B 96.392 194 4 3 2057 2249 61519730 61519921 1.300000e-82 316
44 TraesCS6D01G179900 chr2D 98.462 325 5 0 1765 2089 464801410 464801086 6.970000e-160 573
45 TraesCS6D01G179900 chr2D 96.516 287 6 1 1360 1642 464801694 464801408 2.610000e-129 472
46 TraesCS6D01G179900 chr2B 84.527 349 45 5 1243 1588 44428907 44428565 9.950000e-89 337
47 TraesCS6D01G179900 chr1D 99.231 130 1 0 1639 1768 475911817 475911946 3.730000e-58 235
48 TraesCS6D01G179900 chr3D 97.727 132 3 0 1636 1767 283321255 283321124 6.250000e-56 228
49 TraesCS6D01G179900 chr3D 96.970 132 4 0 1636 1767 454698732 454698863 2.910000e-54 222
50 TraesCS6D01G179900 chrUn 95.070 142 7 0 1633 1774 128516411 128516270 8.080000e-55 224
51 TraesCS6D01G179900 chr7D 93.750 144 7 2 1640 1782 598598595 598598453 4.860000e-52 215
52 TraesCS6D01G179900 chr4B 99.057 106 1 0 1537 1642 267075874 267075979 8.200000e-45 191


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 TraesCS6D01G179900 chr6D 196357615 196359863 2248 False 4154.000000 4154 100.000000 1 2249 1 chr6D.!!$F1 2248
1 TraesCS6D01G179900 chr2A 65084521 65086166 1645 False 2732.000000 2732 96.661000 1 1642 1 chr2A.!!$F1 1641
2 TraesCS6D01G179900 chr2A 94221952 94224004 2052 False 1392.000000 2462 96.562500 141 2249 2 chr2A.!!$F2 2108
3 TraesCS6D01G179900 chr6A 508000567 508002759 2192 False 1507.500000 2704 96.116500 1 2249 2 chr6A.!!$F4 2248
4 TraesCS6D01G179900 chr6A 349779534 349781059 1525 False 862.333333 1779 98.030333 1 2089 3 chr6A.!!$F3 2088
5 TraesCS6D01G179900 chr6A 518953182 518953853 671 False 377.333333 584 98.377667 1513 2244 3 chr6A.!!$F5 731
6 TraesCS6D01G179900 chr3A 657439404 657440480 1076 False 1759.000000 1759 96.108000 1 1079 1 chr3A.!!$F1 1078
7 TraesCS6D01G179900 chr3A 50435225 50437407 2182 False 1511.000000 2700 96.631000 1 2249 2 chr3A.!!$F3 2248
8 TraesCS6D01G179900 chr1A 527082357 527084309 1952 True 1580.500000 2588 97.009500 1 2089 2 chr1A.!!$R1 2088
9 TraesCS6D01G179900 chr7A 724636562 724638311 1749 False 1470.500000 2117 97.084000 378 2249 2 chr7A.!!$F2 1871
10 TraesCS6D01G179900 chr7A 576382741 576383542 801 True 981.000000 981 89.428000 871 1641 1 chr7A.!!$R1 770
11 TraesCS6D01G179900 chr5A 554347662 554349428 1766 False 990.333333 2054 97.979667 428 2249 3 chr5A.!!$F1 1821
12 TraesCS6D01G179900 chr5A 560881618 560882915 1297 True 772.500000 1229 96.332000 896 2249 2 chr5A.!!$R1 1353
13 TraesCS6D01G179900 chr6B 131760633 131761702 1069 True 875.000000 1194 96.566000 901 2089 2 chr6B.!!$R1 1188
14 TraesCS6D01G179900 chr1B 552389135 552389898 763 True 618.500000 675 96.101500 1204 2089 2 chr1B.!!$R4 885
15 TraesCS6D01G179900 chr3B 61519123 61519921 798 False 439.666667 579 97.461000 1395 2249 3 chr3B.!!$F1 854
16 TraesCS6D01G179900 chr2D 464801086 464801694 608 True 522.500000 573 97.489000 1360 2089 2 chr2D.!!$R1 729

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
592 597 2.086869 ACGTGCCATGGAAATTCTGAG 58.913 47.619 18.4 0.0 0.0 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1754 1796 0.615331 TACAGACGTACTCCCTCCGT 59.385 55.0 0.0 0.0 37.56 4.69 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
37 38 6.424812 GCCATGCCCAATGAATTAGTTAAATC 59.575 38.462 0.00 0.00 38.72 2.17
39 40 8.859090 CCATGCCCAATGAATTAGTTAAATCTA 58.141 33.333 0.00 0.00 38.72 1.98
248 249 3.914966 CAGATACTAGAATGCTTACCGCG 59.085 47.826 0.00 0.00 43.27 6.46
592 597 2.086869 ACGTGCCATGGAAATTCTGAG 58.913 47.619 18.40 0.00 0.00 3.35
754 759 9.048446 CCATTTGATATGGAAAATTGAACATCC 57.952 33.333 0.00 0.00 41.64 3.51
915 920 4.879545 TCCCAGTTCTATTTCGTATTTGGC 59.120 41.667 0.00 0.00 0.00 4.52
1149 1158 1.675310 CTCAGGGTGGCGCATTGAA 60.675 57.895 10.83 0.00 0.00 2.69
1529 1571 8.664798 CATTCACAAGTCGGAACAAGATAAATA 58.335 33.333 0.00 0.00 0.00 1.40
1649 1691 7.893658 AGTAATGTTATTACATACTCCCTCCG 58.106 38.462 12.63 0.00 44.14 4.63
1650 1692 6.742559 AATGTTATTACATACTCCCTCCGT 57.257 37.500 0.00 0.00 44.14 4.69
1651 1693 5.779529 TGTTATTACATACTCCCTCCGTC 57.220 43.478 0.00 0.00 0.00 4.79
1652 1694 4.586001 TGTTATTACATACTCCCTCCGTCC 59.414 45.833 0.00 0.00 0.00 4.79
1653 1695 2.077687 TTACATACTCCCTCCGTCCC 57.922 55.000 0.00 0.00 0.00 4.46
1654 1696 0.928505 TACATACTCCCTCCGTCCCA 59.071 55.000 0.00 0.00 0.00 4.37
1655 1697 0.042131 ACATACTCCCTCCGTCCCAA 59.958 55.000 0.00 0.00 0.00 4.12
1656 1698 1.200519 CATACTCCCTCCGTCCCAAA 58.799 55.000 0.00 0.00 0.00 3.28
1657 1699 1.557832 CATACTCCCTCCGTCCCAAAA 59.442 52.381 0.00 0.00 0.00 2.44
1658 1700 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
1659 1701 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
1660 1702 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
1661 1703 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
1662 1704 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
1663 1705 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
1664 1706 2.514803 CCTCCGTCCCAAAATTCTTGT 58.485 47.619 0.00 0.00 0.00 3.16
1665 1707 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
1666 1708 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
1667 1709 3.821033 CTCCGTCCCAAAATTCTTGTCTT 59.179 43.478 0.00 0.00 0.00 3.01
1668 1710 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
1669 1711 5.001232 TCCGTCCCAAAATTCTTGTCTTAG 58.999 41.667 0.00 0.00 0.00 2.18
1670 1712 5.001232 CCGTCCCAAAATTCTTGTCTTAGA 58.999 41.667 0.00 0.00 0.00 2.10
1671 1713 5.648092 CCGTCCCAAAATTCTTGTCTTAGAT 59.352 40.000 0.00 0.00 0.00 1.98
1672 1714 6.151144 CCGTCCCAAAATTCTTGTCTTAGATT 59.849 38.462 0.00 0.00 0.00 2.40
1673 1715 7.309194 CCGTCCCAAAATTCTTGTCTTAGATTT 60.309 37.037 0.00 0.00 0.00 2.17
1674 1716 7.538678 CGTCCCAAAATTCTTGTCTTAGATTTG 59.461 37.037 0.00 0.00 29.84 2.32
1675 1717 8.360390 GTCCCAAAATTCTTGTCTTAGATTTGT 58.640 33.333 0.00 0.00 28.79 2.83
1676 1718 8.576442 TCCCAAAATTCTTGTCTTAGATTTGTC 58.424 33.333 0.00 0.00 28.79 3.18
1677 1719 8.579863 CCCAAAATTCTTGTCTTAGATTTGTCT 58.420 33.333 0.00 0.00 28.79 3.41
1684 1726 9.569167 TTCTTGTCTTAGATTTGTCTACATACG 57.431 33.333 0.00 0.00 0.00 3.06
1685 1727 8.188799 TCTTGTCTTAGATTTGTCTACATACGG 58.811 37.037 0.00 0.00 0.00 4.02
1686 1728 7.634671 TGTCTTAGATTTGTCTACATACGGA 57.365 36.000 0.00 0.00 0.00 4.69
1687 1729 8.234136 TGTCTTAGATTTGTCTACATACGGAT 57.766 34.615 0.00 0.00 0.00 4.18
1688 1730 8.135529 TGTCTTAGATTTGTCTACATACGGATG 58.864 37.037 5.94 5.94 39.16 3.51
1690 1732 9.346005 TCTTAGATTTGTCTACATACGGATGTA 57.654 33.333 19.32 19.32 44.77 2.29
1693 1735 8.410673 AGATTTGTCTACATACGGATGTATCT 57.589 34.615 20.64 16.58 45.42 1.98
1694 1736 9.516546 AGATTTGTCTACATACGGATGTATCTA 57.483 33.333 20.64 11.01 45.42 1.98
1708 1750 9.970395 ACGGATGTATCTAATATTAAAACGTGA 57.030 29.630 0.00 0.00 0.00 4.35
1721 1763 4.921470 AAAACGTGACTTGATACATCCG 57.079 40.909 0.00 0.00 0.00 4.18
1722 1764 3.587797 AACGTGACTTGATACATCCGT 57.412 42.857 0.00 0.00 0.00 4.69
1723 1765 4.707030 AACGTGACTTGATACATCCGTA 57.293 40.909 0.00 0.00 0.00 4.02
1724 1766 4.913335 ACGTGACTTGATACATCCGTAT 57.087 40.909 0.00 0.00 41.16 3.06
1740 1782 8.693120 ACATCCGTATCTAGACAAATCTAAGA 57.307 34.615 0.00 0.00 36.98 2.10
1741 1783 8.569641 ACATCCGTATCTAGACAAATCTAAGAC 58.430 37.037 0.00 0.00 36.98 3.01
1742 1784 8.568794 CATCCGTATCTAGACAAATCTAAGACA 58.431 37.037 0.00 0.00 36.98 3.41
1743 1785 8.515695 TCCGTATCTAGACAAATCTAAGACAA 57.484 34.615 0.00 0.00 36.98 3.18
1744 1786 8.622157 TCCGTATCTAGACAAATCTAAGACAAG 58.378 37.037 0.00 0.00 36.98 3.16
1745 1787 8.622157 CCGTATCTAGACAAATCTAAGACAAGA 58.378 37.037 0.00 0.00 36.98 3.02
1753 1795 8.579863 AGACAAATCTAAGACAAGAATTTTGGG 58.420 33.333 0.00 0.00 33.04 4.12
1754 1796 8.477419 ACAAATCTAAGACAAGAATTTTGGGA 57.523 30.769 0.00 0.00 33.04 4.37
1755 1797 8.360390 ACAAATCTAAGACAAGAATTTTGGGAC 58.640 33.333 0.00 0.00 33.04 4.46
1756 1798 6.743575 ATCTAAGACAAGAATTTTGGGACG 57.256 37.500 5.68 0.00 0.00 4.79
1757 1799 5.001232 TCTAAGACAAGAATTTTGGGACGG 58.999 41.667 0.00 0.00 0.00 4.79
1758 1800 3.502123 AGACAAGAATTTTGGGACGGA 57.498 42.857 0.00 0.00 0.00 4.69
1759 1801 3.412386 AGACAAGAATTTTGGGACGGAG 58.588 45.455 0.00 0.00 0.00 4.63
1760 1802 2.488153 GACAAGAATTTTGGGACGGAGG 59.512 50.000 0.00 0.00 0.00 4.30
1761 1803 1.818674 CAAGAATTTTGGGACGGAGGG 59.181 52.381 0.00 0.00 0.00 4.30
1762 1804 1.368374 AGAATTTTGGGACGGAGGGA 58.632 50.000 0.00 0.00 0.00 4.20
1763 1805 1.282157 AGAATTTTGGGACGGAGGGAG 59.718 52.381 0.00 0.00 0.00 4.30
1764 1806 1.004394 GAATTTTGGGACGGAGGGAGT 59.996 52.381 0.00 0.00 0.00 3.85
1765 1807 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
1766 1808 0.978907 TTTTGGGACGGAGGGAGTAC 59.021 55.000 0.00 0.00 0.00 2.73
2179 2292 9.071276 GATTATGCTTCCTCTCCATTTATTCAA 57.929 33.333 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 8.972127 TCTCTACTCTTTTCTACTAACATGCAT 58.028 33.333 0.00 0.0 0.00 3.96
248 249 8.438676 AGCTAATTAACTCACATATTCACACC 57.561 34.615 0.00 0.0 0.00 4.16
298 301 7.356089 TGCTCTTATATTTCTTTACGGAGGA 57.644 36.000 0.00 0.0 0.00 3.71
350 353 7.434492 TCCCTCTGTAAAGAAATATAAGAGCG 58.566 38.462 0.00 0.0 0.00 5.03
714 719 8.781196 CCATATCAAATGGATAAGTTCAGTCTG 58.219 37.037 0.00 0.0 41.66 3.51
754 759 3.287867 ACCCATGGCAATCTGACTTAG 57.712 47.619 6.09 0.0 0.00 2.18
915 920 1.069823 AGCAATCCATCAGACTAGCGG 59.930 52.381 0.00 0.0 0.00 5.52
1529 1571 6.488683 TGATCTCAAATTCGTAAACCCACTTT 59.511 34.615 0.00 0.0 0.00 2.66
1642 1684 1.368374 AGAATTTTGGGACGGAGGGA 58.632 50.000 0.00 0.0 0.00 4.20
1643 1685 1.818674 CAAGAATTTTGGGACGGAGGG 59.181 52.381 0.00 0.0 0.00 4.30
1644 1686 2.488153 GACAAGAATTTTGGGACGGAGG 59.512 50.000 0.00 0.0 0.00 4.30
1645 1687 3.412386 AGACAAGAATTTTGGGACGGAG 58.588 45.455 0.00 0.0 0.00 4.63
1646 1688 3.502123 AGACAAGAATTTTGGGACGGA 57.498 42.857 0.00 0.0 0.00 4.69
1647 1689 5.001232 TCTAAGACAAGAATTTTGGGACGG 58.999 41.667 0.00 0.0 0.00 4.79
1648 1690 6.743575 ATCTAAGACAAGAATTTTGGGACG 57.256 37.500 5.68 0.0 0.00 4.79
1649 1691 8.360390 ACAAATCTAAGACAAGAATTTTGGGAC 58.640 33.333 0.00 0.0 33.04 4.46
1650 1692 8.477419 ACAAATCTAAGACAAGAATTTTGGGA 57.523 30.769 0.00 0.0 33.04 4.37
1651 1693 8.579863 AGACAAATCTAAGACAAGAATTTTGGG 58.420 33.333 0.00 0.0 33.04 4.12
1658 1700 9.569167 CGTATGTAGACAAATCTAAGACAAGAA 57.431 33.333 0.00 0.0 39.20 2.52
1659 1701 8.188799 CCGTATGTAGACAAATCTAAGACAAGA 58.811 37.037 0.00 0.0 39.20 3.02
1660 1702 8.188799 TCCGTATGTAGACAAATCTAAGACAAG 58.811 37.037 0.00 0.0 39.20 3.16
1661 1703 8.058667 TCCGTATGTAGACAAATCTAAGACAA 57.941 34.615 0.00 0.0 39.20 3.18
1662 1704 7.634671 TCCGTATGTAGACAAATCTAAGACA 57.365 36.000 0.00 0.0 39.20 3.41
1663 1705 8.136165 ACATCCGTATGTAGACAAATCTAAGAC 58.864 37.037 0.00 0.0 44.66 3.01
1664 1706 8.234136 ACATCCGTATGTAGACAAATCTAAGA 57.766 34.615 0.00 0.0 44.66 2.10
1682 1724 9.970395 TCACGTTTTAATATTAGATACATCCGT 57.030 29.630 0.00 0.0 0.00 4.69
1695 1737 8.761497 CGGATGTATCAAGTCACGTTTTAATAT 58.239 33.333 0.00 0.0 0.00 1.28
1696 1738 7.760794 ACGGATGTATCAAGTCACGTTTTAATA 59.239 33.333 0.00 0.0 0.00 0.98
1697 1739 6.592607 ACGGATGTATCAAGTCACGTTTTAAT 59.407 34.615 0.00 0.0 0.00 1.40
1698 1740 5.927689 ACGGATGTATCAAGTCACGTTTTAA 59.072 36.000 0.00 0.0 0.00 1.52
1699 1741 5.472148 ACGGATGTATCAAGTCACGTTTTA 58.528 37.500 0.00 0.0 0.00 1.52
1700 1742 4.312443 ACGGATGTATCAAGTCACGTTTT 58.688 39.130 0.00 0.0 0.00 2.43
1701 1743 3.921677 ACGGATGTATCAAGTCACGTTT 58.078 40.909 0.00 0.0 0.00 3.60
1702 1744 3.587797 ACGGATGTATCAAGTCACGTT 57.412 42.857 0.00 0.0 0.00 3.99
1703 1745 4.913335 ATACGGATGTATCAAGTCACGT 57.087 40.909 0.00 0.0 36.56 4.49
1714 1756 9.788889 TCTTAGATTTGTCTAGATACGGATGTA 57.211 33.333 0.00 0.0 34.45 2.29
1715 1757 8.569641 GTCTTAGATTTGTCTAGATACGGATGT 58.430 37.037 0.00 0.0 0.00 3.06
1716 1758 8.568794 TGTCTTAGATTTGTCTAGATACGGATG 58.431 37.037 0.00 0.0 0.00 3.51
1717 1759 8.693120 TGTCTTAGATTTGTCTAGATACGGAT 57.307 34.615 0.00 0.0 0.00 4.18
1718 1760 8.515695 TTGTCTTAGATTTGTCTAGATACGGA 57.484 34.615 0.00 0.0 0.00 4.69
1719 1761 8.622157 TCTTGTCTTAGATTTGTCTAGATACGG 58.378 37.037 0.00 0.0 0.00 4.02
1727 1769 8.579863 CCCAAAATTCTTGTCTTAGATTTGTCT 58.420 33.333 0.00 0.0 28.79 3.41
1728 1770 8.576442 TCCCAAAATTCTTGTCTTAGATTTGTC 58.424 33.333 0.00 0.0 28.79 3.18
1729 1771 8.360390 GTCCCAAAATTCTTGTCTTAGATTTGT 58.640 33.333 0.00 0.0 28.79 2.83
1730 1772 7.538678 CGTCCCAAAATTCTTGTCTTAGATTTG 59.461 37.037 0.00 0.0 29.84 2.32
1731 1773 7.309194 CCGTCCCAAAATTCTTGTCTTAGATTT 60.309 37.037 0.00 0.0 0.00 2.17
1732 1774 6.151144 CCGTCCCAAAATTCTTGTCTTAGATT 59.849 38.462 0.00 0.0 0.00 2.40
1733 1775 5.648092 CCGTCCCAAAATTCTTGTCTTAGAT 59.352 40.000 0.00 0.0 0.00 1.98
1734 1776 5.001232 CCGTCCCAAAATTCTTGTCTTAGA 58.999 41.667 0.00 0.0 0.00 2.10
1735 1777 5.001232 TCCGTCCCAAAATTCTTGTCTTAG 58.999 41.667 0.00 0.0 0.00 2.18
1736 1778 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.0 0.00 2.10
1737 1779 3.821033 CTCCGTCCCAAAATTCTTGTCTT 59.179 43.478 0.00 0.0 0.00 3.01
1738 1780 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.0 0.00 3.41
1739 1781 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.0 0.00 3.18
1740 1782 2.514803 CCTCCGTCCCAAAATTCTTGT 58.485 47.619 0.00 0.0 0.00 3.16
1741 1783 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.0 0.00 3.02
1742 1784 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.0 0.00 2.52
1743 1785 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.0 0.00 2.40
1744 1786 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.0 0.00 2.17
1745 1787 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.0 0.00 1.82
1746 1788 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.0 0.00 1.82
1747 1789 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.0 0.00 2.44
1748 1790 1.252904 CGTACTCCCTCCGTCCCAAA 61.253 60.000 0.00 0.0 0.00 3.28
1749 1791 1.679977 CGTACTCCCTCCGTCCCAA 60.680 63.158 0.00 0.0 0.00 4.12
1750 1792 2.044650 CGTACTCCCTCCGTCCCA 60.045 66.667 0.00 0.0 0.00 4.37
1751 1793 2.044551 ACGTACTCCCTCCGTCCC 60.045 66.667 0.00 0.0 0.00 4.46
1752 1794 3.507290 GACGTACTCCCTCCGTCC 58.493 66.667 0.00 0.0 43.77 4.79
1754 1796 0.615331 TACAGACGTACTCCCTCCGT 59.385 55.000 0.00 0.0 37.56 4.69
1755 1797 1.012841 GTACAGACGTACTCCCTCCG 58.987 60.000 0.00 0.0 43.97 4.63
1764 1806 4.859304 AACCATCAACAGTACAGACGTA 57.141 40.909 0.00 0.0 0.00 3.57
1765 1807 3.746045 AACCATCAACAGTACAGACGT 57.254 42.857 0.00 0.0 0.00 4.34
1766 1808 4.806330 AGTAACCATCAACAGTACAGACG 58.194 43.478 0.00 0.0 0.00 4.18
2179 2292 7.975608 AGCATCAGCAAGGCATATAGATATAT 58.024 34.615 0.00 0.0 45.49 0.86


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

AutoCloner maintained by Alex Coulton.