Multiple sequence alignment - TraesCS4D01G116700

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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 TraesCS4D01G116700 chr4D 100.000 3811 0 0 1 3811 97604252 97608062 0.000000e+00 7038.0
1 TraesCS4D01G116700 chr4D 97.770 2825 41 2 990 3811 97508603 97511408 0.000000e+00 4848.0
2 TraesCS4D01G116700 chr4D 84.865 1784 183 56 2066 3811 97761011 97759277 0.000000e+00 1718.0
3 TraesCS4D01G116700 chr4D 97.796 953 13 2 1 946 97717681 97718632 0.000000e+00 1637.0
4 TraesCS4D01G116700 chr4D 93.185 763 25 8 937 1694 97720561 97721301 0.000000e+00 1096.0
5 TraesCS4D01G116700 chr4D 88.842 717 49 14 990 1700 97957915 97958606 0.000000e+00 852.0
6 TraesCS4D01G116700 chr4D 81.858 452 26 22 99 504 97956908 97957349 2.840000e-86 329.0
7 TraesCS4D01G116700 chr4D 95.205 146 5 2 852 997 97508429 97508572 2.960000e-56 230.0
8 TraesCS4D01G116700 chr4D 83.884 242 16 9 744 979 97957629 97957853 3.860000e-50 209.0
9 TraesCS4D01G116700 chr4D 83.796 216 17 9 624 825 97508225 97508436 5.030000e-44 189.0
10 TraesCS4D01G116700 chr4A 92.455 1776 85 22 2040 3811 478339132 478337402 0.000000e+00 2492.0
11 TraesCS4D01G116700 chr4A 89.505 1010 36 20 8 1000 478303728 478302772 0.000000e+00 1214.0
12 TraesCS4D01G116700 chr4A 92.281 868 25 9 990 1826 478340051 478339195 0.000000e+00 1194.0
13 TraesCS4D01G116700 chr4A 94.708 718 19 10 990 1701 478302748 478302044 0.000000e+00 1098.0
14 TraesCS4D01G116700 chr4A 88.608 790 76 8 2313 3089 478301062 478300274 0.000000e+00 948.0
15 TraesCS4D01G116700 chr4A 88.671 715 47 16 996 1702 478219710 478219022 0.000000e+00 841.0
16 TraesCS4D01G116700 chr4A 85.786 401 22 18 624 1000 478340464 478340075 3.570000e-105 392.0
17 TraesCS4D01G116700 chr4A 83.619 409 34 17 121 504 478220687 478220287 1.680000e-93 353.0
18 TraesCS4D01G116700 chr4A 81.074 391 22 16 1942 2325 478301936 478301591 8.120000e-67 265.0
19 TraesCS4D01G116700 chr4A 84.553 246 15 7 743 982 478220000 478219772 4.960000e-54 222.0
20 TraesCS4D01G116700 chr4A 94.545 55 2 1 1987 2041 478339165 478339112 2.440000e-12 84.2
21 TraesCS4D01G116700 chr4B 92.382 1667 89 14 2170 3811 139516125 139517778 0.000000e+00 2340.0
22 TraesCS4D01G116700 chr4B 85.919 1186 111 26 1933 3096 139473086 139474237 0.000000e+00 1214.0
23 TraesCS4D01G116700 chr4B 84.928 1254 125 32 1933 3164 139399942 139401153 0.000000e+00 1210.0
24 TraesCS4D01G116700 chr4B 90.102 687 53 9 2066 2746 139531997 139532674 0.000000e+00 878.0
25 TraesCS4D01G116700 chr4B 94.085 541 16 10 451 988 139471694 139472221 0.000000e+00 808.0
26 TraesCS4D01G116700 chr4B 93.900 541 17 10 451 988 139510142 139510669 0.000000e+00 802.0
27 TraesCS4D01G116700 chr4B 96.614 443 15 0 990 1432 139472266 139472708 0.000000e+00 736.0
28 TraesCS4D01G116700 chr4B 96.614 443 15 0 990 1432 139510714 139511156 0.000000e+00 736.0
29 TraesCS4D01G116700 chr4B 96.197 447 13 1 990 1432 139399117 139399563 0.000000e+00 728.0
30 TraesCS4D01G116700 chr4B 89.801 402 41 0 2412 2813 139545947 139546348 2.030000e-142 516.0
31 TraesCS4D01G116700 chr4B 92.795 347 13 6 110 453 139509559 139509896 3.420000e-135 492.0
32 TraesCS4D01G116700 chr4B 92.507 347 14 6 110 453 139471111 139471448 1.590000e-133 486.0
33 TraesCS4D01G116700 chr4B 87.239 431 28 18 578 988 139398649 139399072 2.070000e-127 466.0
34 TraesCS4D01G116700 chr4B 90.544 349 11 5 1497 1826 139399593 139399938 3.490000e-120 442.0
35 TraesCS4D01G116700 chr4B 90.544 349 11 5 1497 1826 139472737 139473082 3.490000e-120 442.0
36 TraesCS4D01G116700 chr4B 90.663 332 9 5 1497 1809 139511185 139511513 4.550000e-114 422.0
37 TraesCS4D01G116700 chr4B 85.049 408 28 14 323 700 139528807 139529211 5.970000e-103 385.0
38 TraesCS4D01G116700 chr4B 80.838 501 62 20 3156 3642 139449616 139450096 2.800000e-96 363.0
39 TraesCS4D01G116700 chr4B 80.838 501 62 20 3156 3642 139491937 139492417 2.800000e-96 363.0
40 TraesCS4D01G116700 chr4B 80.517 503 61 19 3156 3642 139418030 139418511 6.060000e-93 351.0
41 TraesCS4D01G116700 chr4B 95.413 218 5 3 1481 1698 139511770 139511982 3.650000e-90 342.0
42 TraesCS4D01G116700 chr4B 93.846 195 10 2 22 215 139531194 139531387 3.720000e-75 292.0
43 TraesCS4D01G116700 chr4B 92.857 112 8 0 1930 2041 139515793 139515904 3.050000e-36 163.0
44 TraesCS4D01G116700 chrUn 92.507 347 14 6 110 453 403948094 403947757 1.590000e-133 486.0
45 TraesCS4D01G116700 chrUn 92.507 347 14 6 110 453 460039660 460039323 1.590000e-133 486.0
46 TraesCS4D01G116700 chrUn 80.838 501 62 20 3156 3642 298309652 298309172 2.800000e-96 363.0
47 TraesCS4D01G116700 chrUn 80.119 503 63 19 3156 3642 202752959 202753440 1.310000e-89 340.0
48 TraesCS4D01G116700 chr7D 82.407 108 14 3 1827 1930 79629940 79629834 5.240000e-14 89.8
49 TraesCS4D01G116700 chr7D 83.117 77 10 1 1840 1913 507845021 507844945 2.460000e-07 67.6
50 TraesCS4D01G116700 chr6A 81.915 94 12 4 1842 1931 72861361 72861269 1.470000e-09 75.0
51 TraesCS4D01G116700 chr5D 94.872 39 2 0 1827 1865 432876125 432876163 1.140000e-05 62.1


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 TraesCS4D01G116700 chr4D 97604252 97608062 3810 False 7038.000000 7038 100.000000 1 3811 1 chr4D.!!$F1 3810
1 TraesCS4D01G116700 chr4D 97508225 97511408 3183 False 1755.666667 4848 92.257000 624 3811 3 chr4D.!!$F2 3187
2 TraesCS4D01G116700 chr4D 97759277 97761011 1734 True 1718.000000 1718 84.865000 2066 3811 1 chr4D.!!$R1 1745
3 TraesCS4D01G116700 chr4D 97717681 97721301 3620 False 1366.500000 1637 95.490500 1 1694 2 chr4D.!!$F3 1693
4 TraesCS4D01G116700 chr4D 97956908 97958606 1698 False 463.333333 852 84.861333 99 1700 3 chr4D.!!$F4 1601
5 TraesCS4D01G116700 chr4A 478337402 478340464 3062 True 1040.550000 2492 91.266750 624 3811 4 chr4A.!!$R3 3187
6 TraesCS4D01G116700 chr4A 478300274 478303728 3454 True 881.250000 1214 88.473750 8 3089 4 chr4A.!!$R2 3081
7 TraesCS4D01G116700 chr4A 478219022 478220687 1665 True 472.000000 841 85.614333 121 1702 3 chr4A.!!$R1 1581
8 TraesCS4D01G116700 chr4B 139509559 139517778 8219 False 756.714286 2340 93.517714 110 3811 7 chr4B.!!$F7 3701
9 TraesCS4D01G116700 chr4B 139471111 139474237 3126 False 737.200000 1214 91.933800 110 3096 5 chr4B.!!$F6 2986
10 TraesCS4D01G116700 chr4B 139398649 139401153 2504 False 711.500000 1210 89.727000 578 3164 4 chr4B.!!$F5 2586
11 TraesCS4D01G116700 chr4B 139528807 139532674 3867 False 518.333333 878 89.665667 22 2746 3 chr4B.!!$F8 2724

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
1725 5677 5.220191 GCAAAATAAACCGTACGTACATCGA 60.22 40.0 24.5 6.65 42.86 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2964 12182 0.889994 GCCTGTGCATCCATGTTCAA 59.11 50.0 0.0 0.0 37.47 2.69 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
1725 5677 5.220191 GCAAAATAAACCGTACGTACATCGA 60.220 40.000 24.50 6.65 42.86 3.59
1733 5685 6.486253 ACCGTACGTACATCGATACATAAT 57.514 37.500 24.50 0.00 42.86 1.28
1734 5686 6.537566 ACCGTACGTACATCGATACATAATC 58.462 40.000 24.50 0.00 42.86 1.75
1735 5687 5.961843 CCGTACGTACATCGATACATAATCC 59.038 44.000 24.50 0.00 42.86 3.01
1736 5688 5.961843 CGTACGTACATCGATACATAATCCC 59.038 44.000 24.50 0.00 42.86 3.85
1737 5689 5.970317 ACGTACATCGATACATAATCCCA 57.030 39.130 0.00 0.00 42.86 4.37
1738 5690 6.335471 ACGTACATCGATACATAATCCCAA 57.665 37.500 0.00 0.00 42.86 4.12
1739 5691 6.751157 ACGTACATCGATACATAATCCCAAA 58.249 36.000 0.00 0.00 42.86 3.28
1740 5692 7.383687 ACGTACATCGATACATAATCCCAAAT 58.616 34.615 0.00 0.00 42.86 2.32
1741 5693 7.544566 ACGTACATCGATACATAATCCCAAATC 59.455 37.037 0.00 0.00 42.86 2.17
1742 5694 7.544217 CGTACATCGATACATAATCCCAAATCA 59.456 37.037 0.00 0.00 42.86 2.57
1743 5695 9.214957 GTACATCGATACATAATCCCAAATCAA 57.785 33.333 0.00 0.00 0.00 2.57
1744 5696 8.099364 ACATCGATACATAATCCCAAATCAAC 57.901 34.615 0.00 0.00 0.00 3.18
1745 5697 7.174946 ACATCGATACATAATCCCAAATCAACC 59.825 37.037 0.00 0.00 0.00 3.77
1746 5698 6.596621 TCGATACATAATCCCAAATCAACCA 58.403 36.000 0.00 0.00 0.00 3.67
1747 5699 6.485313 TCGATACATAATCCCAAATCAACCAC 59.515 38.462 0.00 0.00 0.00 4.16
1748 5700 6.486657 CGATACATAATCCCAAATCAACCACT 59.513 38.462 0.00 0.00 0.00 4.00
1749 5701 5.920193 ACATAATCCCAAATCAACCACTG 57.080 39.130 0.00 0.00 0.00 3.66
1750 5702 5.579047 ACATAATCCCAAATCAACCACTGA 58.421 37.500 0.00 0.00 38.81 3.41
1751 5703 5.418840 ACATAATCCCAAATCAACCACTGAC 59.581 40.000 0.00 0.00 36.69 3.51
1752 5704 3.524095 ATCCCAAATCAACCACTGACA 57.476 42.857 0.00 0.00 36.69 3.58
1753 5705 3.524095 TCCCAAATCAACCACTGACAT 57.476 42.857 0.00 0.00 36.69 3.06
1754 5706 3.420893 TCCCAAATCAACCACTGACATC 58.579 45.455 0.00 0.00 36.69 3.06
1755 5707 3.074390 TCCCAAATCAACCACTGACATCT 59.926 43.478 0.00 0.00 36.69 2.90
1756 5708 3.828451 CCCAAATCAACCACTGACATCTT 59.172 43.478 0.00 0.00 36.69 2.40
1757 5709 4.082571 CCCAAATCAACCACTGACATCTTC 60.083 45.833 0.00 0.00 36.69 2.87
1758 5710 4.082571 CCAAATCAACCACTGACATCTTCC 60.083 45.833 0.00 0.00 36.69 3.46
1759 5711 4.371624 AATCAACCACTGACATCTTCCA 57.628 40.909 0.00 0.00 36.69 3.53
1760 5712 4.581309 ATCAACCACTGACATCTTCCAT 57.419 40.909 0.00 0.00 36.69 3.41
1761 5713 3.942829 TCAACCACTGACATCTTCCATC 58.057 45.455 0.00 0.00 0.00 3.51
1762 5714 3.327464 TCAACCACTGACATCTTCCATCA 59.673 43.478 0.00 0.00 0.00 3.07
1763 5715 4.074259 CAACCACTGACATCTTCCATCAA 58.926 43.478 0.00 0.00 0.00 2.57
1764 5716 3.679389 ACCACTGACATCTTCCATCAAC 58.321 45.455 0.00 0.00 0.00 3.18
1765 5717 3.012518 CCACTGACATCTTCCATCAACC 58.987 50.000 0.00 0.00 0.00 3.77
1766 5718 3.307975 CCACTGACATCTTCCATCAACCT 60.308 47.826 0.00 0.00 0.00 3.50
1767 5719 4.330250 CACTGACATCTTCCATCAACCTT 58.670 43.478 0.00 0.00 0.00 3.50
1768 5720 4.394300 CACTGACATCTTCCATCAACCTTC 59.606 45.833 0.00 0.00 0.00 3.46
1769 5721 4.288105 ACTGACATCTTCCATCAACCTTCT 59.712 41.667 0.00 0.00 0.00 2.85
1770 5722 5.222007 ACTGACATCTTCCATCAACCTTCTT 60.222 40.000 0.00 0.00 0.00 2.52
1771 5723 5.248640 TGACATCTTCCATCAACCTTCTTC 58.751 41.667 0.00 0.00 0.00 2.87
1772 5724 5.013495 TGACATCTTCCATCAACCTTCTTCT 59.987 40.000 0.00 0.00 0.00 2.85
1773 5725 6.213397 TGACATCTTCCATCAACCTTCTTCTA 59.787 38.462 0.00 0.00 0.00 2.10
1774 5726 6.410540 ACATCTTCCATCAACCTTCTTCTAC 58.589 40.000 0.00 0.00 0.00 2.59
1775 5727 5.073311 TCTTCCATCAACCTTCTTCTACG 57.927 43.478 0.00 0.00 0.00 3.51
1776 5728 4.527038 TCTTCCATCAACCTTCTTCTACGT 59.473 41.667 0.00 0.00 0.00 3.57
1777 5729 5.713389 TCTTCCATCAACCTTCTTCTACGTA 59.287 40.000 0.00 0.00 0.00 3.57
1778 5730 5.320549 TCCATCAACCTTCTTCTACGTAC 57.679 43.478 0.00 0.00 0.00 3.67
1779 5731 5.014858 TCCATCAACCTTCTTCTACGTACT 58.985 41.667 0.00 0.00 0.00 2.73
1780 5732 5.479375 TCCATCAACCTTCTTCTACGTACTT 59.521 40.000 0.00 0.00 0.00 2.24
1781 5733 6.014840 TCCATCAACCTTCTTCTACGTACTTT 60.015 38.462 0.00 0.00 0.00 2.66
1782 5734 7.177216 TCCATCAACCTTCTTCTACGTACTTTA 59.823 37.037 0.00 0.00 0.00 1.85
1868 10129 7.915293 TTAATTGTCACTGAAACGGATGTAT 57.085 32.000 0.00 0.00 0.00 2.29
1872 10133 6.275494 TGTCACTGAAACGGATGTATCTTA 57.725 37.500 0.00 0.00 0.00 2.10
1899 10163 8.604035 ACGTATTTTGCTAGATACATCTGTTTG 58.396 33.333 8.98 0.00 37.76 2.93
1903 10167 4.363138 TGCTAGATACATCTGTTTGAGCG 58.637 43.478 1.88 0.00 36.68 5.03
1914 10178 7.134815 ACATCTGTTTGAGCGATAATTAATGC 58.865 34.615 4.58 4.58 0.00 3.56
1916 10180 5.522097 TCTGTTTGAGCGATAATTAATGCGA 59.478 36.000 9.08 0.00 0.00 5.10
1938 10202 0.391263 GGGAGGGAGTAGTTTGCACG 60.391 60.000 0.00 0.00 0.00 5.34
1961 10225 5.577835 GCCGAAGCAACATAATTTGTCATA 58.422 37.500 0.00 0.00 37.68 2.15
2041 10547 6.173339 TCAGACTGTTAATTCCTCAATGGAC 58.827 40.000 1.59 0.00 46.14 4.02
2042 10548 6.013379 TCAGACTGTTAATTCCTCAATGGACT 60.013 38.462 1.59 0.00 46.14 3.85
2043 10549 6.093219 CAGACTGTTAATTCCTCAATGGACTG 59.907 42.308 0.00 0.00 46.14 3.51
2044 10550 5.880901 ACTGTTAATTCCTCAATGGACTGT 58.119 37.500 0.00 0.00 46.14 3.55
2045 10551 6.306987 ACTGTTAATTCCTCAATGGACTGTT 58.693 36.000 0.00 0.00 46.14 3.16
2046 10552 7.458397 ACTGTTAATTCCTCAATGGACTGTTA 58.542 34.615 0.00 0.00 46.14 2.41
2047 10553 7.942341 ACTGTTAATTCCTCAATGGACTGTTAA 59.058 33.333 0.00 0.00 46.14 2.01
2048 10554 8.877864 TGTTAATTCCTCAATGGACTGTTAAT 57.122 30.769 0.00 0.00 46.14 1.40
2049 10555 9.308000 TGTTAATTCCTCAATGGACTGTTAATT 57.692 29.630 0.00 0.00 46.14 1.40
2050 10556 9.788960 GTTAATTCCTCAATGGACTGTTAATTC 57.211 33.333 0.00 0.00 46.14 2.17
2051 10557 7.410120 AATTCCTCAATGGACTGTTAATTCC 57.590 36.000 0.00 0.00 46.14 3.01
2052 10558 5.779241 TCCTCAATGGACTGTTAATTCCT 57.221 39.130 3.26 0.00 40.56 3.36
2053 10559 5.745227 TCCTCAATGGACTGTTAATTCCTC 58.255 41.667 3.26 0.00 40.56 3.71
2054 10560 5.250543 TCCTCAATGGACTGTTAATTCCTCA 59.749 40.000 3.26 0.00 40.56 3.86
2055 10561 5.945784 CCTCAATGGACTGTTAATTCCTCAA 59.054 40.000 3.26 0.00 38.35 3.02
2056 10562 6.604795 CCTCAATGGACTGTTAATTCCTCAAT 59.395 38.462 3.26 0.00 38.35 2.57
2057 10563 7.395190 TCAATGGACTGTTAATTCCTCAATG 57.605 36.000 3.26 0.00 32.55 2.82
2058 10564 6.377996 TCAATGGACTGTTAATTCCTCAATGG 59.622 38.462 3.26 0.00 32.55 3.16
2059 10565 5.512942 TGGACTGTTAATTCCTCAATGGA 57.487 39.130 3.26 0.00 44.51 3.41
2128 10776 4.018960 ACTCATAGCCACATTTTGACTCCT 60.019 41.667 0.00 0.00 0.00 3.69
2131 10779 6.115446 TCATAGCCACATTTTGACTCCTAAG 58.885 40.000 0.00 0.00 0.00 2.18
2132 10780 3.084786 AGCCACATTTTGACTCCTAAGC 58.915 45.455 0.00 0.00 0.00 3.09
2133 10781 3.084786 GCCACATTTTGACTCCTAAGCT 58.915 45.455 0.00 0.00 0.00 3.74
2341 11534 7.703058 ACTAATTAGGAAAGTTGGTCAATGG 57.297 36.000 16.73 0.00 0.00 3.16
2558 11758 2.904866 GGCGACAACAACCTGGCA 60.905 61.111 0.00 0.00 0.00 4.92
2908 12126 6.532302 TCGTTTGTTTCCTTTTCTTTTAAGGC 59.468 34.615 0.00 0.00 41.59 4.35
2964 12182 3.433343 TGTGGCATGTTCATGGAAGAAT 58.567 40.909 13.55 0.00 0.00 2.40
2980 12198 4.082081 GGAAGAATTGAACATGGATGCACA 60.082 41.667 0.00 0.00 0.00 4.57
3666 12907 3.555966 AGGAGAAAACCCAACTCAACAG 58.444 45.455 0.00 0.00 33.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
845 1463 6.767524 AGCTACTAGTCTGCCATCATATAC 57.232 41.667 14.69 0.0 0.00 1.47
896 1604 7.935210 CCGGTATTTATAGGAAGAAAAGGCTAA 59.065 37.037 0.00 0.0 0.00 3.09
1725 5677 7.285401 GTCAGTGGTTGATTTGGGATTATGTAT 59.715 37.037 0.00 0.0 38.29 2.29
1733 5685 3.074390 AGATGTCAGTGGTTGATTTGGGA 59.926 43.478 0.00 0.0 38.29 4.37
1734 5686 3.424703 AGATGTCAGTGGTTGATTTGGG 58.575 45.455 0.00 0.0 38.29 4.12
1735 5687 4.082571 GGAAGATGTCAGTGGTTGATTTGG 60.083 45.833 0.00 0.0 38.29 3.28
1736 5688 4.520111 TGGAAGATGTCAGTGGTTGATTTG 59.480 41.667 0.00 0.0 38.29 2.32
1737 5689 4.728772 TGGAAGATGTCAGTGGTTGATTT 58.271 39.130 0.00 0.0 38.29 2.17
1738 5690 4.371624 TGGAAGATGTCAGTGGTTGATT 57.628 40.909 0.00 0.0 38.29 2.57
1739 5691 4.019051 TGATGGAAGATGTCAGTGGTTGAT 60.019 41.667 0.00 0.0 38.29 2.57
1740 5692 3.327464 TGATGGAAGATGTCAGTGGTTGA 59.673 43.478 0.00 0.0 0.00 3.18
1741 5693 3.678289 TGATGGAAGATGTCAGTGGTTG 58.322 45.455 0.00 0.0 0.00 3.77
1742 5694 4.074970 GTTGATGGAAGATGTCAGTGGTT 58.925 43.478 0.00 0.0 0.00 3.67
1743 5695 3.560025 GGTTGATGGAAGATGTCAGTGGT 60.560 47.826 0.00 0.0 0.00 4.16
1744 5696 3.012518 GGTTGATGGAAGATGTCAGTGG 58.987 50.000 0.00 0.0 0.00 4.00
1745 5697 3.947868 AGGTTGATGGAAGATGTCAGTG 58.052 45.455 0.00 0.0 0.00 3.66
1746 5698 4.288105 AGAAGGTTGATGGAAGATGTCAGT 59.712 41.667 0.00 0.0 0.00 3.41
1747 5699 4.841422 AGAAGGTTGATGGAAGATGTCAG 58.159 43.478 0.00 0.0 0.00 3.51
1748 5700 4.916041 AGAAGGTTGATGGAAGATGTCA 57.084 40.909 0.00 0.0 0.00 3.58
1749 5701 5.495640 AGAAGAAGGTTGATGGAAGATGTC 58.504 41.667 0.00 0.0 0.00 3.06
1750 5702 5.511386 AGAAGAAGGTTGATGGAAGATGT 57.489 39.130 0.00 0.0 0.00 3.06
1751 5703 5.521735 CGTAGAAGAAGGTTGATGGAAGATG 59.478 44.000 0.00 0.0 0.00 2.90
1752 5704 5.187967 ACGTAGAAGAAGGTTGATGGAAGAT 59.812 40.000 0.00 0.0 0.00 2.40
1753 5705 4.527038 ACGTAGAAGAAGGTTGATGGAAGA 59.473 41.667 0.00 0.0 0.00 2.87
1754 5706 4.822026 ACGTAGAAGAAGGTTGATGGAAG 58.178 43.478 0.00 0.0 0.00 3.46
1755 5707 4.884668 ACGTAGAAGAAGGTTGATGGAA 57.115 40.909 0.00 0.0 0.00 3.53
1756 5708 5.014858 AGTACGTAGAAGAAGGTTGATGGA 58.985 41.667 0.00 0.0 0.00 3.41
1757 5709 5.326200 AGTACGTAGAAGAAGGTTGATGG 57.674 43.478 0.00 0.0 0.00 3.51
1758 5710 8.928270 ATAAAGTACGTAGAAGAAGGTTGATG 57.072 34.615 0.00 0.0 0.00 3.07
1759 5711 9.939802 AAATAAAGTACGTAGAAGAAGGTTGAT 57.060 29.630 0.00 0.0 0.00 2.57
1760 5712 9.768662 AAAATAAAGTACGTAGAAGAAGGTTGA 57.231 29.630 0.00 0.0 0.00 3.18
1762 5714 9.768662 TGAAAATAAAGTACGTAGAAGAAGGTT 57.231 29.630 0.00 0.0 0.00 3.50
1763 5715 9.939802 ATGAAAATAAAGTACGTAGAAGAAGGT 57.060 29.630 0.00 0.0 0.00 3.50
1801 10062 7.048512 ACAAAATTATACTACCTGAGAGTGCC 58.951 38.462 0.00 0.0 0.00 5.01
1872 10133 8.718102 AACAGATGTATCTAGCAAAATACGTT 57.282 30.769 0.00 0.0 34.85 3.99
1899 10163 3.614616 CCCTCTCGCATTAATTATCGCTC 59.385 47.826 5.42 0.0 0.00 5.03
1903 10167 4.223032 TCCCTCCCTCTCGCATTAATTATC 59.777 45.833 0.00 0.0 0.00 1.75
1914 10178 1.751924 CAAACTACTCCCTCCCTCTCG 59.248 57.143 0.00 0.0 0.00 4.04
1916 10180 1.203313 TGCAAACTACTCCCTCCCTCT 60.203 52.381 0.00 0.0 0.00 3.69
1938 10202 3.832276 TGACAAATTATGTTGCTTCGGC 58.168 40.909 0.00 0.0 44.12 5.54
2049 10555 1.112113 GCTACCGACTCCATTGAGGA 58.888 55.000 0.00 0.0 46.75 3.71
2050 10556 1.115467 AGCTACCGACTCCATTGAGG 58.885 55.000 0.00 0.0 43.29 3.86
2051 10557 2.969628 AAGCTACCGACTCCATTGAG 57.030 50.000 0.00 0.0 44.62 3.02
2052 10558 3.695830 AAAAGCTACCGACTCCATTGA 57.304 42.857 0.00 0.0 0.00 2.57
2053 10559 4.201822 GCTAAAAAGCTACCGACTCCATTG 60.202 45.833 0.00 0.0 0.00 2.82
2054 10560 3.939592 GCTAAAAAGCTACCGACTCCATT 59.060 43.478 0.00 0.0 0.00 3.16
2055 10561 3.532542 GCTAAAAAGCTACCGACTCCAT 58.467 45.455 0.00 0.0 0.00 3.41
2056 10562 2.354403 GGCTAAAAAGCTACCGACTCCA 60.354 50.000 0.00 0.0 34.73 3.86
2057 10563 2.277969 GGCTAAAAAGCTACCGACTCC 58.722 52.381 0.00 0.0 34.73 3.85
2058 10564 1.925185 CGGCTAAAAAGCTACCGACTC 59.075 52.381 0.00 0.0 46.71 3.36
2059 10565 2.005560 GCGGCTAAAAAGCTACCGACT 61.006 52.381 3.58 0.0 46.71 4.18
2104 10752 4.333926 GGAGTCAAAATGTGGCTATGAGTC 59.666 45.833 0.00 0.0 44.27 3.36
2128 10776 9.448438 TCTTATGTAGAATTTTTGAGCAGCTTA 57.552 29.630 0.00 0.0 0.00 3.09
2131 10779 7.530010 TGTCTTATGTAGAATTTTTGAGCAGC 58.470 34.615 0.00 0.0 33.81 5.25
2181 10832 9.081204 TGTAACTCATCACCTGTAAAGTAGTAA 57.919 33.333 0.00 0.0 0.00 2.24
2558 11758 1.003718 GGTTTGCAGGTCTAGCGGT 60.004 57.895 0.00 0.0 33.85 5.68
2597 11797 5.733620 TCTGGACGAGGTTTTTGTAGTAT 57.266 39.130 0.00 0.0 0.00 2.12
2780 11980 5.289510 ACCCTCCTACAGTTCATCCTAATT 58.710 41.667 0.00 0.0 0.00 1.40
2964 12182 0.889994 GCCTGTGCATCCATGTTCAA 59.110 50.000 0.00 0.0 37.47 2.69
2980 12198 4.081476 ACTTTGCTCTTTGTTCTTTTGCCT 60.081 37.500 0.00 0.0 0.00 4.75


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

AutoCloner maintained by Alex Coulton.