Multiple sequence alignment - TraesCS6B01G260900

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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 TraesCS6B01G260900 chr6B 100.000 2186 0 0 1 2186 470923172 470920987 0.000000e+00 4037.0
1 TraesCS6B01G260900 chr6B 95.475 906 36 4 1 904 460379385 460378483 0.000000e+00 1441.0
2 TraesCS6B01G260900 chr6B 93.168 161 10 1 992 1151 645479197 645479357 3.630000e-58 235.0
3 TraesCS6B01G260900 chr6B 98.462 65 1 0 893 957 470955443 470955379 4.930000e-22 115.0
4 TraesCS6B01G260900 chr6B 91.045 67 6 0 1572 1638 14581067 14581001 8.310000e-15 91.6
5 TraesCS6B01G260900 chr7B 98.664 898 9 2 1 898 174743286 174742392 0.000000e+00 1589.0
6 TraesCS6B01G260900 chr7B 96.321 897 28 5 3 896 586572948 586573842 0.000000e+00 1469.0
7 TraesCS6B01G260900 chr7B 96.774 62 0 2 1661 1722 443741456 443741397 3.840000e-18 102.0
8 TraesCS6B01G260900 chr3B 95.982 896 28 5 1 896 741700617 741701504 0.000000e+00 1448.0
9 TraesCS6B01G260900 chr3B 95.429 897 38 2 1 897 82601288 82602181 0.000000e+00 1426.0
10 TraesCS6B01G260900 chr4B 95.768 898 33 3 1 896 1074909 1075803 0.000000e+00 1443.0
11 TraesCS6B01G260900 chr4B 79.882 169 12 13 1574 1723 579456659 579456494 1.070000e-18 104.0
12 TraesCS6B01G260900 chr4B 90.909 66 6 0 1573 1638 119160452 119160387 2.990000e-14 89.8
13 TraesCS6B01G260900 chr4B 90.909 66 6 0 1573 1638 212053411 212053346 2.990000e-14 89.8
14 TraesCS6B01G260900 chr4B 90.909 66 6 0 1573 1638 225477008 225476943 2.990000e-14 89.8
15 TraesCS6B01G260900 chr4B 90.909 66 6 0 1573 1638 249803697 249803762 2.990000e-14 89.8
16 TraesCS6B01G260900 chr4B 90.909 66 6 0 1573 1638 282937045 282936980 2.990000e-14 89.8
17 TraesCS6B01G260900 chr4B 90.909 66 6 0 1573 1638 398043681 398043746 2.990000e-14 89.8
18 TraesCS6B01G260900 chr4B 90.909 66 6 0 1573 1638 450560969 450561034 2.990000e-14 89.8
19 TraesCS6B01G260900 chr4B 87.500 72 7 2 1573 1644 420750952 420750883 5.000000e-12 82.4
20 TraesCS6B01G260900 chr4B 87.500 72 7 2 1573 1644 420753358 420753289 5.000000e-12 82.4
21 TraesCS6B01G260900 chr5B 95.667 900 33 5 1 896 636445088 636445985 0.000000e+00 1441.0
22 TraesCS6B01G260900 chr5B 95.662 899 34 3 1 897 456330382 456331277 0.000000e+00 1439.0
23 TraesCS6B01G260900 chr5B 95.149 907 40 4 1 904 614992166 614991261 0.000000e+00 1428.0
24 TraesCS6B01G260900 chr6D 91.286 700 29 10 907 1578 305608181 305608876 0.000000e+00 926.0
25 TraesCS6B01G260900 chr6D 94.515 474 17 3 1721 2185 305608875 305609348 0.000000e+00 723.0
26 TraesCS6B01G260900 chr6D 84.314 612 62 12 968 1563 428892036 428892629 3.150000e-158 568.0
27 TraesCS6B01G260900 chr6A 90.961 697 29 5 916 1582 439753765 439754457 0.000000e+00 907.0
28 TraesCS6B01G260900 chr6A 90.526 475 28 7 1721 2186 439754458 439754924 1.430000e-171 612.0
29 TraesCS6B01G260900 chr6A 82.915 597 65 22 992 1563 573476764 573477348 9.010000e-139 503.0
30 TraesCS6B01G260900 chr7A 90.511 274 24 1 1299 1570 559984565 559984838 5.740000e-96 361.0
31 TraesCS6B01G260900 chr3D 80.347 173 11 12 1574 1726 482202313 482202482 2.290000e-20 110.0
32 TraesCS6B01G260900 chr3D 96.825 63 0 2 1661 1723 293809775 293809715 1.070000e-18 104.0
33 TraesCS6B01G260900 chr7D 96.774 62 0 2 1661 1722 426733726 426733667 3.840000e-18 102.0
34 TraesCS6B01G260900 chr4A 94.118 68 2 2 1661 1728 101750419 101750484 3.840000e-18 102.0
35 TraesCS6B01G260900 chr2A 80.000 165 11 14 1577 1722 419206816 419206977 3.840000e-18 102.0
36 TraesCS6B01G260900 chr2A 96.774 62 0 2 1661 1722 703708322 703708263 3.840000e-18 102.0
37 TraesCS6B01G260900 chr1D 96.774 62 0 2 1661 1722 459052520 459052579 3.840000e-18 102.0
38 TraesCS6B01G260900 chr2D 90.909 66 6 0 1573 1638 163398900 163398965 2.990000e-14 89.8


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 TraesCS6B01G260900 chr6B 470920987 470923172 2185 True 4037.0 4037 100.0000 1 2186 1 chr6B.!!$R3 2185
1 TraesCS6B01G260900 chr6B 460378483 460379385 902 True 1441.0 1441 95.4750 1 904 1 chr6B.!!$R2 903
2 TraesCS6B01G260900 chr7B 174742392 174743286 894 True 1589.0 1589 98.6640 1 898 1 chr7B.!!$R1 897
3 TraesCS6B01G260900 chr7B 586572948 586573842 894 False 1469.0 1469 96.3210 3 896 1 chr7B.!!$F1 893
4 TraesCS6B01G260900 chr3B 741700617 741701504 887 False 1448.0 1448 95.9820 1 896 1 chr3B.!!$F2 895
5 TraesCS6B01G260900 chr3B 82601288 82602181 893 False 1426.0 1426 95.4290 1 897 1 chr3B.!!$F1 896
6 TraesCS6B01G260900 chr4B 1074909 1075803 894 False 1443.0 1443 95.7680 1 896 1 chr4B.!!$F1 895
7 TraesCS6B01G260900 chr5B 636445088 636445985 897 False 1441.0 1441 95.6670 1 896 1 chr5B.!!$F2 895
8 TraesCS6B01G260900 chr5B 456330382 456331277 895 False 1439.0 1439 95.6620 1 897 1 chr5B.!!$F1 896
9 TraesCS6B01G260900 chr5B 614991261 614992166 905 True 1428.0 1428 95.1490 1 904 1 chr5B.!!$R1 903
10 TraesCS6B01G260900 chr6D 305608181 305609348 1167 False 824.5 926 92.9005 907 2185 2 chr6D.!!$F2 1278
11 TraesCS6B01G260900 chr6D 428892036 428892629 593 False 568.0 568 84.3140 968 1563 1 chr6D.!!$F1 595
12 TraesCS6B01G260900 chr6A 439753765 439754924 1159 False 759.5 907 90.7435 916 2186 2 chr6A.!!$F2 1270
13 TraesCS6B01G260900 chr6A 573476764 573477348 584 False 503.0 503 82.9150 992 1563 1 chr6A.!!$F1 571

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
948 966 0.106469 CGTCATCCTCCTCCTCTCCA 60.106 60.0 0.0 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2026 2121 0.108585 TATCCAATGCTCCTTCCGCC 59.891 55.0 0.0 0.0 0.0 6.13 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
307 311 7.613801 GGGGCCAAAAGGAAATACATAAAATTT 59.386 33.333 4.39 0.00 0.00 1.82
904 922 4.883006 AGGCGTTCTTCTAGTAACTCTAGG 59.117 45.833 0.00 0.00 44.45 3.02
905 923 4.036616 GGCGTTCTTCTAGTAACTCTAGGG 59.963 50.000 0.00 0.00 44.45 3.53
906 924 4.880696 GCGTTCTTCTAGTAACTCTAGGGA 59.119 45.833 0.00 0.34 44.45 4.20
907 925 5.532032 GCGTTCTTCTAGTAACTCTAGGGAT 59.468 44.000 0.00 0.00 44.45 3.85
908 926 6.709846 GCGTTCTTCTAGTAACTCTAGGGATA 59.290 42.308 0.00 0.00 44.45 2.59
909 927 7.307930 GCGTTCTTCTAGTAACTCTAGGGATAC 60.308 44.444 0.00 0.00 44.45 2.24
914 932 6.991938 TCTAGTAACTCTAGGGATACGACTC 58.008 44.000 0.00 0.00 44.45 3.36
921 939 5.219343 TCTAGGGATACGACTCGTCAATA 57.781 43.478 7.52 0.00 41.54 1.90
948 966 0.106469 CGTCATCCTCCTCCTCTCCA 60.106 60.000 0.00 0.00 0.00 3.86
949 967 1.686428 CGTCATCCTCCTCCTCTCCAA 60.686 57.143 0.00 0.00 0.00 3.53
951 969 3.044894 GTCATCCTCCTCCTCTCCAATT 58.955 50.000 0.00 0.00 0.00 2.32
963 981 3.686726 CCTCTCCAATTTCTTCCTCGTTG 59.313 47.826 0.00 0.00 0.00 4.10
964 982 3.674997 TCTCCAATTTCTTCCTCGTTGG 58.325 45.455 0.00 0.00 40.45 3.77
965 983 2.159382 TCCAATTTCTTCCTCGTTGGC 58.841 47.619 0.00 0.00 39.27 4.52
966 984 1.202348 CCAATTTCTTCCTCGTTGGCC 59.798 52.381 0.00 0.00 33.66 5.36
993 1023 1.136057 GCCTTTAAAAGTCGCCAGTCG 60.136 52.381 0.00 0.00 40.15 4.18
1228 1273 0.108138 CGATTTCTCGCCCTTCCTGT 60.108 55.000 0.00 0.00 38.20 4.00
1404 1467 0.974383 TCCGACCCTCTTGTTTCCTC 59.026 55.000 0.00 0.00 0.00 3.71
1412 1475 2.294512 CCTCTTGTTTCCTCTTGTTGCC 59.705 50.000 0.00 0.00 0.00 4.52
1453 1519 3.435566 GATCATTTGTCTCGCTCGTGTA 58.564 45.455 0.00 0.00 0.00 2.90
1503 1581 1.405105 TGTTTGCTTGCTTGTCTCACC 59.595 47.619 0.00 0.00 0.00 4.02
1582 1661 2.364324 TGCACCGATCTGTAATACTCCC 59.636 50.000 0.00 0.00 0.00 4.30
1583 1662 2.628657 GCACCGATCTGTAATACTCCCT 59.371 50.000 0.00 0.00 0.00 4.20
1584 1663 3.305471 GCACCGATCTGTAATACTCCCTC 60.305 52.174 0.00 0.00 0.00 4.30
1585 1664 3.256136 CACCGATCTGTAATACTCCCTCC 59.744 52.174 0.00 0.00 0.00 4.30
1586 1665 2.488545 CCGATCTGTAATACTCCCTCCG 59.511 54.545 0.00 0.00 0.00 4.63
1587 1666 3.147629 CGATCTGTAATACTCCCTCCGT 58.852 50.000 0.00 0.00 0.00 4.69
1588 1667 3.568853 CGATCTGTAATACTCCCTCCGTT 59.431 47.826 0.00 0.00 0.00 4.44
1589 1668 4.320348 CGATCTGTAATACTCCCTCCGTTC 60.320 50.000 0.00 0.00 0.00 3.95
1590 1669 3.294214 TCTGTAATACTCCCTCCGTTCC 58.706 50.000 0.00 0.00 0.00 3.62
1591 1670 3.053095 TCTGTAATACTCCCTCCGTTCCT 60.053 47.826 0.00 0.00 0.00 3.36
1592 1671 4.166725 TCTGTAATACTCCCTCCGTTCCTA 59.833 45.833 0.00 0.00 0.00 2.94
1593 1672 4.870636 TGTAATACTCCCTCCGTTCCTAA 58.129 43.478 0.00 0.00 0.00 2.69
1594 1673 5.271598 TGTAATACTCCCTCCGTTCCTAAA 58.728 41.667 0.00 0.00 0.00 1.85
1595 1674 5.901276 TGTAATACTCCCTCCGTTCCTAAAT 59.099 40.000 0.00 0.00 0.00 1.40
1596 1675 5.970501 AATACTCCCTCCGTTCCTAAATT 57.029 39.130 0.00 0.00 0.00 1.82
1597 1676 7.564660 TGTAATACTCCCTCCGTTCCTAAATTA 59.435 37.037 0.00 0.00 0.00 1.40
1598 1677 7.628501 AATACTCCCTCCGTTCCTAAATTAT 57.371 36.000 0.00 0.00 0.00 1.28
1599 1678 8.731591 AATACTCCCTCCGTTCCTAAATTATA 57.268 34.615 0.00 0.00 0.00 0.98
1600 1679 8.731591 ATACTCCCTCCGTTCCTAAATTATAA 57.268 34.615 0.00 0.00 0.00 0.98
1601 1680 7.063934 ACTCCCTCCGTTCCTAAATTATAAG 57.936 40.000 0.00 0.00 0.00 1.73
1602 1681 6.614496 ACTCCCTCCGTTCCTAAATTATAAGT 59.386 38.462 0.00 0.00 0.00 2.24
1603 1682 7.059202 TCCCTCCGTTCCTAAATTATAAGTC 57.941 40.000 0.00 0.00 0.00 3.01
1604 1683 6.842807 TCCCTCCGTTCCTAAATTATAAGTCT 59.157 38.462 0.00 0.00 0.00 3.24
1605 1684 7.346436 TCCCTCCGTTCCTAAATTATAAGTCTT 59.654 37.037 0.00 0.00 0.00 3.01
1606 1685 7.991460 CCCTCCGTTCCTAAATTATAAGTCTTT 59.009 37.037 0.00 0.00 0.00 2.52
1607 1686 9.043079 CCTCCGTTCCTAAATTATAAGTCTTTC 57.957 37.037 0.00 0.00 0.00 2.62
1608 1687 9.819267 CTCCGTTCCTAAATTATAAGTCTTTCT 57.181 33.333 0.00 0.00 0.00 2.52
1624 1703 8.789767 AAGTCTTTCTAGAGATCCCAATATGA 57.210 34.615 0.00 0.00 0.00 2.15
1625 1704 8.789767 AGTCTTTCTAGAGATCCCAATATGAA 57.210 34.615 0.00 0.00 0.00 2.57
1626 1705 8.646900 AGTCTTTCTAGAGATCCCAATATGAAC 58.353 37.037 0.00 0.00 0.00 3.18
1627 1706 8.646900 GTCTTTCTAGAGATCCCAATATGAACT 58.353 37.037 0.00 0.00 0.00 3.01
1628 1707 9.883293 TCTTTCTAGAGATCCCAATATGAACTA 57.117 33.333 0.00 0.00 0.00 2.24
1629 1708 9.921637 CTTTCTAGAGATCCCAATATGAACTAC 57.078 37.037 0.00 0.00 0.00 2.73
1630 1709 9.434275 TTTCTAGAGATCCCAATATGAACTACA 57.566 33.333 0.00 0.00 0.00 2.74
1631 1710 9.607333 TTCTAGAGATCCCAATATGAACTACAT 57.393 33.333 0.00 0.00 42.39 2.29
1634 1713 7.831753 AGAGATCCCAATATGAACTACATACG 58.168 38.462 0.00 0.00 43.12 3.06
1635 1714 6.936279 AGATCCCAATATGAACTACATACGG 58.064 40.000 0.00 0.00 43.12 4.02
1636 1715 6.724441 AGATCCCAATATGAACTACATACGGA 59.276 38.462 0.00 0.00 43.12 4.69
1637 1716 6.928348 TCCCAATATGAACTACATACGGAT 57.072 37.500 0.00 0.00 43.12 4.18
1638 1717 6.931838 TCCCAATATGAACTACATACGGATC 58.068 40.000 0.00 0.00 43.12 3.36
1639 1718 6.070995 TCCCAATATGAACTACATACGGATCC 60.071 42.308 0.00 0.00 43.12 3.36
1640 1719 5.805486 CCAATATGAACTACATACGGATCCG 59.195 44.000 32.20 32.20 43.12 4.18
1651 1730 3.659850 CGGATCCGTATGCAGTTCA 57.340 52.632 26.35 0.00 34.35 3.18
1652 1731 2.154854 CGGATCCGTATGCAGTTCAT 57.845 50.000 26.35 0.00 39.17 2.57
1653 1732 3.297830 CGGATCCGTATGCAGTTCATA 57.702 47.619 26.35 0.00 36.63 2.15
1654 1733 3.849911 CGGATCCGTATGCAGTTCATAT 58.150 45.455 26.35 0.00 39.63 1.78
1655 1734 4.245660 CGGATCCGTATGCAGTTCATATT 58.754 43.478 26.35 0.00 39.63 1.28
1656 1735 4.091945 CGGATCCGTATGCAGTTCATATTG 59.908 45.833 26.35 0.00 39.63 1.90
1657 1736 4.393062 GGATCCGTATGCAGTTCATATTGG 59.607 45.833 0.00 0.00 39.63 3.16
1658 1737 4.681074 TCCGTATGCAGTTCATATTGGA 57.319 40.909 0.00 3.65 40.10 3.53
1659 1738 5.029807 TCCGTATGCAGTTCATATTGGAA 57.970 39.130 0.00 0.00 39.76 3.53
1660 1739 5.620206 TCCGTATGCAGTTCATATTGGAAT 58.380 37.500 0.00 0.00 39.76 3.01
1661 1740 5.700832 TCCGTATGCAGTTCATATTGGAATC 59.299 40.000 0.00 0.00 39.76 2.52
1662 1741 5.106555 CCGTATGCAGTTCATATTGGAATCC 60.107 44.000 0.00 0.00 39.63 3.01
1663 1742 5.389830 CGTATGCAGTTCATATTGGAATCCG 60.390 44.000 0.00 0.00 39.63 4.18
1664 1743 3.884895 TGCAGTTCATATTGGAATCCGT 58.115 40.909 0.00 0.00 0.00 4.69
1665 1744 5.029807 TGCAGTTCATATTGGAATCCGTA 57.970 39.130 0.00 0.00 0.00 4.02
1666 1745 5.620206 TGCAGTTCATATTGGAATCCGTAT 58.380 37.500 0.00 0.00 0.00 3.06
1667 1746 5.469760 TGCAGTTCATATTGGAATCCGTATG 59.530 40.000 14.60 14.60 0.00 2.39
1668 1747 5.470098 GCAGTTCATATTGGAATCCGTATGT 59.530 40.000 18.03 2.23 31.29 2.29
1669 1748 6.649141 GCAGTTCATATTGGAATCCGTATGTA 59.351 38.462 18.03 10.31 31.29 2.29
1670 1749 7.148573 GCAGTTCATATTGGAATCCGTATGTAG 60.149 40.741 18.03 10.98 31.29 2.74
1671 1750 7.872993 CAGTTCATATTGGAATCCGTATGTAGT 59.127 37.037 18.03 12.02 31.29 2.73
1672 1751 8.429641 AGTTCATATTGGAATCCGTATGTAGTT 58.570 33.333 18.03 6.27 31.29 2.24
1673 1752 8.709646 GTTCATATTGGAATCCGTATGTAGTTC 58.290 37.037 18.03 7.36 31.29 3.01
1674 1753 7.958088 TCATATTGGAATCCGTATGTAGTTCA 58.042 34.615 18.03 2.60 31.29 3.18
1675 1754 8.593679 TCATATTGGAATCCGTATGTAGTTCAT 58.406 33.333 18.03 0.00 40.25 2.57
1676 1755 9.869757 CATATTGGAATCCGTATGTAGTTCATA 57.130 33.333 13.25 0.00 37.91 2.15
1679 1758 8.601845 TTGGAATCCGTATGTAGTTCATATTG 57.398 34.615 0.00 0.00 40.54 1.90
1680 1759 7.158697 TGGAATCCGTATGTAGTTCATATTGG 58.841 38.462 0.00 5.26 40.54 3.16
1681 1760 7.015779 TGGAATCCGTATGTAGTTCATATTGGA 59.984 37.037 12.80 12.80 43.63 3.53
1682 1761 7.876068 GGAATCCGTATGTAGTTCATATTGGAA 59.124 37.037 13.81 3.55 43.20 3.53
1683 1762 9.436957 GAATCCGTATGTAGTTCATATTGGAAT 57.563 33.333 13.81 8.55 43.20 3.01
1684 1763 9.436957 AATCCGTATGTAGTTCATATTGGAATC 57.563 33.333 13.81 0.00 43.20 2.52
1685 1764 8.190326 TCCGTATGTAGTTCATATTGGAATCT 57.810 34.615 9.72 0.00 40.31 2.40
1686 1765 8.304596 TCCGTATGTAGTTCATATTGGAATCTC 58.695 37.037 9.72 0.00 40.31 2.75
1687 1766 8.307483 CCGTATGTAGTTCATATTGGAATCTCT 58.693 37.037 5.56 0.00 40.54 3.10
1716 1795 7.957992 AGACCTATATATTTAGGAACGGAGG 57.042 40.000 21.94 0.00 41.18 4.30
1717 1796 6.896307 AGACCTATATATTTAGGAACGGAGGG 59.104 42.308 21.94 0.00 41.18 4.30
1718 1797 6.808357 ACCTATATATTTAGGAACGGAGGGA 58.192 40.000 21.94 0.00 41.18 4.20
1719 1798 6.896307 ACCTATATATTTAGGAACGGAGGGAG 59.104 42.308 21.94 0.00 41.18 4.30
1881 1962 1.884235 AAGTCCCAGTCTTTCTTGCG 58.116 50.000 0.00 0.00 0.00 4.85
1882 1963 0.759346 AGTCCCAGTCTTTCTTGCGT 59.241 50.000 0.00 0.00 0.00 5.24
1957 2038 1.421646 GGATACCAAGGGGACAGATGG 59.578 57.143 0.00 0.00 38.05 3.51
1958 2039 2.408565 GATACCAAGGGGACAGATGGA 58.591 52.381 0.00 0.00 38.05 3.41
2051 2146 4.684485 CGGAAGGAGCATTGGATAGAAGTT 60.684 45.833 0.00 0.00 0.00 2.66
2061 2156 7.770897 AGCATTGGATAGAAGTTAGTACCAAAG 59.229 37.037 0.00 0.00 38.95 2.77
2077 2172 4.331108 ACCAAAGTTGTTTGTTTTGCCAT 58.669 34.783 0.00 0.00 41.44 4.40
2079 2174 5.352846 ACCAAAGTTGTTTGTTTTGCCATAC 59.647 36.000 0.00 0.00 41.44 2.39
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
904 922 4.808077 TGACTATTGACGAGTCGTATCC 57.192 45.455 19.93 7.06 45.29 2.59
905 923 5.808403 AGTTGACTATTGACGAGTCGTATC 58.192 41.667 19.93 7.86 45.29 2.24
906 924 5.502058 CGAGTTGACTATTGACGAGTCGTAT 60.502 44.000 19.93 12.14 45.29 3.06
907 925 4.201656 CGAGTTGACTATTGACGAGTCGTA 60.202 45.833 19.93 4.03 45.29 3.43
908 926 3.424565 CGAGTTGACTATTGACGAGTCGT 60.425 47.826 20.02 20.02 45.29 4.34
909 927 3.092135 CGAGTTGACTATTGACGAGTCG 58.908 50.000 11.85 11.85 45.29 4.18
914 932 3.791887 GGATGACGAGTTGACTATTGACG 59.208 47.826 0.00 0.00 0.00 4.35
921 939 2.096248 GAGGAGGATGACGAGTTGACT 58.904 52.381 0.00 0.00 0.00 3.41
1091 1121 0.970937 GATGTGGACGTGGGAGAGGA 60.971 60.000 0.00 0.00 0.00 3.71
1099 1129 2.509336 GGGCTCGATGTGGACGTG 60.509 66.667 0.00 0.00 0.00 4.49
1412 1475 2.096980 TCGAACACCATACGAGCTACTG 59.903 50.000 0.00 0.00 0.00 2.74
1453 1519 0.620556 AGCACCCGATCCAAACAGAT 59.379 50.000 0.00 0.00 0.00 2.90
1503 1581 0.381801 AACAAGGCAAGTTCGTGCTG 59.618 50.000 10.07 4.96 44.31 4.41
1582 1661 9.819267 AGAAAGACTTATAATTTAGGAACGGAG 57.181 33.333 0.00 0.00 0.00 4.63
1598 1677 9.883293 TCATATTGGGATCTCTAGAAAGACTTA 57.117 33.333 0.00 0.00 0.00 2.24
1599 1678 8.789767 TCATATTGGGATCTCTAGAAAGACTT 57.210 34.615 0.00 0.00 0.00 3.01
1600 1679 8.646900 GTTCATATTGGGATCTCTAGAAAGACT 58.353 37.037 0.00 0.00 0.00 3.24
1601 1680 8.646900 AGTTCATATTGGGATCTCTAGAAAGAC 58.353 37.037 0.00 0.00 0.00 3.01
1602 1681 8.789767 AGTTCATATTGGGATCTCTAGAAAGA 57.210 34.615 0.00 0.00 0.00 2.52
1603 1682 9.921637 GTAGTTCATATTGGGATCTCTAGAAAG 57.078 37.037 0.00 0.00 0.00 2.62
1604 1683 9.434275 TGTAGTTCATATTGGGATCTCTAGAAA 57.566 33.333 0.00 0.00 0.00 2.52
1605 1684 9.607333 ATGTAGTTCATATTGGGATCTCTAGAA 57.393 33.333 0.00 0.00 34.67 2.10
1608 1687 8.957466 CGTATGTAGTTCATATTGGGATCTCTA 58.043 37.037 0.00 0.00 40.54 2.43
1609 1688 7.093727 CCGTATGTAGTTCATATTGGGATCTCT 60.094 40.741 0.00 0.00 40.54 3.10
1610 1689 7.036220 CCGTATGTAGTTCATATTGGGATCTC 58.964 42.308 0.00 0.00 40.54 2.75
1611 1690 6.724441 TCCGTATGTAGTTCATATTGGGATCT 59.276 38.462 9.58 0.00 40.54 2.75
1612 1691 6.931838 TCCGTATGTAGTTCATATTGGGATC 58.068 40.000 9.58 0.00 40.54 3.36
1613 1692 6.928348 TCCGTATGTAGTTCATATTGGGAT 57.072 37.500 9.58 0.00 40.54 3.85
1614 1693 6.070995 GGATCCGTATGTAGTTCATATTGGGA 60.071 42.308 0.00 9.05 40.54 4.37
1615 1694 6.106673 GGATCCGTATGTAGTTCATATTGGG 58.893 44.000 0.00 5.30 40.54 4.12
1616 1695 5.805486 CGGATCCGTATGTAGTTCATATTGG 59.195 44.000 26.35 5.26 40.54 3.16
1617 1696 6.871044 CGGATCCGTATGTAGTTCATATTG 57.129 41.667 26.35 0.00 40.54 1.90
1633 1712 2.154854 ATGAACTGCATACGGATCCG 57.845 50.000 32.20 32.20 46.03 4.18
1634 1713 4.393062 CCAATATGAACTGCATACGGATCC 59.607 45.833 0.00 0.00 42.01 3.36
1635 1714 5.237815 TCCAATATGAACTGCATACGGATC 58.762 41.667 0.00 0.00 42.01 3.36
1636 1715 5.227569 TCCAATATGAACTGCATACGGAT 57.772 39.130 0.00 0.00 42.01 4.18
1637 1716 4.681074 TCCAATATGAACTGCATACGGA 57.319 40.909 0.00 0.00 42.01 4.69
1638 1717 5.106555 GGATTCCAATATGAACTGCATACGG 60.107 44.000 0.00 0.00 42.01 4.02
1639 1718 5.389830 CGGATTCCAATATGAACTGCATACG 60.390 44.000 3.09 0.00 42.01 3.06
1640 1719 5.470098 ACGGATTCCAATATGAACTGCATAC 59.530 40.000 3.09 0.00 42.01 2.39
1641 1720 5.620206 ACGGATTCCAATATGAACTGCATA 58.380 37.500 3.09 0.00 43.28 3.14
1642 1721 4.464008 ACGGATTCCAATATGAACTGCAT 58.536 39.130 3.09 0.00 41.08 3.96
1643 1722 3.884895 ACGGATTCCAATATGAACTGCA 58.115 40.909 3.09 0.00 0.00 4.41
1644 1723 5.470098 ACATACGGATTCCAATATGAACTGC 59.530 40.000 22.19 0.00 30.95 4.40
1645 1724 7.872993 ACTACATACGGATTCCAATATGAACTG 59.127 37.037 22.19 14.02 30.95 3.16
1646 1725 7.963532 ACTACATACGGATTCCAATATGAACT 58.036 34.615 22.19 9.37 30.95 3.01
1647 1726 8.603242 AACTACATACGGATTCCAATATGAAC 57.397 34.615 22.19 0.00 30.95 3.18
1648 1727 8.425703 TGAACTACATACGGATTCCAATATGAA 58.574 33.333 22.19 5.97 30.95 2.57
1649 1728 7.958088 TGAACTACATACGGATTCCAATATGA 58.042 34.615 22.19 10.75 30.95 2.15
1650 1729 8.777865 ATGAACTACATACGGATTCCAATATG 57.222 34.615 16.94 16.94 37.46 1.78
1653 1732 9.219603 CAATATGAACTACATACGGATTCCAAT 57.780 33.333 3.09 0.00 43.12 3.16
1654 1733 7.659799 CCAATATGAACTACATACGGATTCCAA 59.340 37.037 3.09 0.00 43.12 3.53
1655 1734 7.015779 TCCAATATGAACTACATACGGATTCCA 59.984 37.037 3.09 0.00 43.12 3.53
1656 1735 7.383687 TCCAATATGAACTACATACGGATTCC 58.616 38.462 0.00 0.00 43.12 3.01
1657 1736 8.827177 TTCCAATATGAACTACATACGGATTC 57.173 34.615 0.00 0.00 43.12 2.52
1658 1737 9.436957 GATTCCAATATGAACTACATACGGATT 57.563 33.333 0.00 0.00 43.12 3.01
1659 1738 8.816894 AGATTCCAATATGAACTACATACGGAT 58.183 33.333 0.00 0.00 43.12 4.18
1660 1739 8.190326 AGATTCCAATATGAACTACATACGGA 57.810 34.615 0.00 0.00 43.12 4.69
1661 1740 8.307483 AGAGATTCCAATATGAACTACATACGG 58.693 37.037 0.00 0.00 43.12 4.02
1690 1769 8.813951 CCTCCGTTCCTAAATATATAGGTCTTT 58.186 37.037 2.15 0.00 42.63 2.52
1691 1770 7.399478 CCCTCCGTTCCTAAATATATAGGTCTT 59.601 40.741 2.15 0.00 42.63 3.01
1692 1771 6.896307 CCCTCCGTTCCTAAATATATAGGTCT 59.104 42.308 2.15 0.00 42.63 3.85
1693 1772 6.894103 TCCCTCCGTTCCTAAATATATAGGTC 59.106 42.308 2.15 0.00 42.63 3.85
1694 1773 6.808357 TCCCTCCGTTCCTAAATATATAGGT 58.192 40.000 2.15 0.00 42.63 3.08
1695 1774 6.896307 ACTCCCTCCGTTCCTAAATATATAGG 59.104 42.308 0.00 0.00 43.29 2.57
1696 1775 7.957992 ACTCCCTCCGTTCCTAAATATATAG 57.042 40.000 0.00 0.00 0.00 1.31
1698 1777 8.912614 AATACTCCCTCCGTTCCTAAATATAT 57.087 34.615 0.00 0.00 0.00 0.86
1700 1779 8.912614 ATAATACTCCCTCCGTTCCTAAATAT 57.087 34.615 0.00 0.00 0.00 1.28
1701 1780 8.731591 AATAATACTCCCTCCGTTCCTAAATA 57.268 34.615 0.00 0.00 0.00 1.40
1702 1781 7.513091 AGAATAATACTCCCTCCGTTCCTAAAT 59.487 37.037 0.00 0.00 0.00 1.40
1703 1782 6.842807 AGAATAATACTCCCTCCGTTCCTAAA 59.157 38.462 0.00 0.00 0.00 1.85
1704 1783 6.379579 AGAATAATACTCCCTCCGTTCCTAA 58.620 40.000 0.00 0.00 0.00 2.69
1705 1784 5.961897 AGAATAATACTCCCTCCGTTCCTA 58.038 41.667 0.00 0.00 0.00 2.94
1706 1785 4.817286 AGAATAATACTCCCTCCGTTCCT 58.183 43.478 0.00 0.00 0.00 3.36
1707 1786 4.021280 GGAGAATAATACTCCCTCCGTTCC 60.021 50.000 0.00 0.00 45.64 3.62
1708 1787 5.136816 GGAGAATAATACTCCCTCCGTTC 57.863 47.826 0.00 0.00 45.64 3.95
1717 1796 9.495572 CCACAATAAGAAGGGAGAATAATACTC 57.504 37.037 0.00 0.00 0.00 2.59
1718 1797 9.004231 ACCACAATAAGAAGGGAGAATAATACT 57.996 33.333 0.00 0.00 0.00 2.12
1719 1798 9.274206 GACCACAATAAGAAGGGAGAATAATAC 57.726 37.037 0.00 0.00 0.00 1.89
1776 1857 2.160205 TCTAGTCCACTGACGTTGAGG 58.840 52.381 0.00 0.00 46.51 3.86
1974 2062 7.066163 TGCTTCCACACATGTATAATTGAGAAG 59.934 37.037 0.00 5.24 0.00 2.85
2022 2117 1.477558 CCAATGCTCCTTCCGCCTAAT 60.478 52.381 0.00 0.00 0.00 1.73
2026 2121 0.108585 TATCCAATGCTCCTTCCGCC 59.891 55.000 0.00 0.00 0.00 6.13
2051 2146 6.100668 GGCAAAACAAACAACTTTGGTACTA 58.899 36.000 0.00 0.00 36.19 1.82
2061 2156 4.025813 CAGCTGTATGGCAAAACAAACAAC 60.026 41.667 5.25 0.00 34.17 3.32
2077 2172 7.386059 TCTTAAAGATTGACATCACAGCTGTA 58.614 34.615 21.20 8.74 0.00 2.74
2079 2174 6.732531 TCTTAAAGATTGACATCACAGCTG 57.267 37.500 13.48 13.48 0.00 4.24


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

AutoCloner maintained by Alex Coulton.