Multiple sequence alignment - TraesCS7A01G437400

Loading Multiple Alignment...

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 TraesCS7A01G437400 chr7A 100.000 2995 0 0 1 2995 632188741 632185747 0.000000e+00 5531.0
1 TraesCS7A01G437400 chr7A 86.493 1651 139 42 34 1664 630672276 630670690 0.000000e+00 1736.0
2 TraesCS7A01G437400 chr7A 84.751 1764 156 48 34 1752 631651801 631653496 0.000000e+00 1663.0
3 TraesCS7A01G437400 chr7A 87.677 917 67 24 1 905 632266474 632265592 0.000000e+00 1026.0
4 TraesCS7A01G437400 chr7A 88.712 753 47 10 1 753 617551272 617551986 0.000000e+00 885.0
5 TraesCS7A01G437400 chr7A 80.486 1071 126 40 807 1811 625642373 625641320 0.000000e+00 743.0
6 TraesCS7A01G437400 chr7A 80.419 812 88 29 806 1561 625675156 625674360 1.210000e-153 553.0
7 TraesCS7A01G437400 chr7A 80.153 393 46 14 1576 1952 631878102 631878478 6.370000e-67 265.0
8 TraesCS7A01G437400 chr7A 81.447 318 28 18 785 1072 617551985 617552301 6.460000e-57 231.0
9 TraesCS7A01G437400 chr7A 85.646 209 24 4 686 894 631877824 631878026 6.500000e-52 215.0
10 TraesCS7A01G437400 chr7A 83.511 188 14 7 1638 1811 625674343 625674159 3.090000e-35 159.0
11 TraesCS7A01G437400 chr7D 84.295 1802 157 56 1 1746 530430050 530431781 0.000000e+00 1644.0
12 TraesCS7A01G437400 chr7D 91.183 862 61 7 1 850 548561453 548560595 0.000000e+00 1157.0
13 TraesCS7A01G437400 chr7D 91.367 695 37 9 33 719 548325596 548324917 0.000000e+00 929.0
14 TraesCS7A01G437400 chr7D 80.766 1071 123 34 807 1811 543731612 543730559 0.000000e+00 760.0
15 TraesCS7A01G437400 chr7D 84.944 797 59 29 1 749 573969858 573969075 0.000000e+00 750.0
16 TraesCS7A01G437400 chr7D 86.271 590 54 15 1222 1811 548324514 548323952 1.530000e-172 616.0
17 TraesCS7A01G437400 chr7D 80.417 863 97 39 846 1659 548551106 548550267 2.570000e-165 592.0
18 TraesCS7A01G437400 chr7D 80.263 380 49 20 804 1169 548324890 548324523 2.290000e-66 263.0
19 TraesCS7A01G437400 chr7D 83.058 242 24 6 1576 1811 548067990 548068220 1.410000e-48 204.0
20 TraesCS7A01G437400 chr7D 83.234 167 11 5 1659 1811 548351397 548351234 1.450000e-28 137.0
21 TraesCS7A01G437400 chr7D 96.154 52 2 0 733 784 548324921 548324870 5.320000e-13 86.1
22 TraesCS7A01G437400 chr7D 100.000 29 0 0 2967 2995 548323833 548323805 2.000000e-03 54.7
23 TraesCS7A01G437400 chr2A 98.674 905 12 0 2033 2937 147504488 147505392 0.000000e+00 1605.0
24 TraesCS7A01G437400 chr2A 97.596 915 20 2 2033 2946 118878888 118877975 0.000000e+00 1567.0
25 TraesCS7A01G437400 chr4A 98.450 903 14 0 2033 2935 550727259 550728161 0.000000e+00 1591.0
26 TraesCS7A01G437400 chr4A 92.683 123 9 0 776 898 141908873 141908995 8.530000e-41 178.0
27 TraesCS7A01G437400 chr4A 85.333 150 3 6 1887 2023 141909619 141909762 1.450000e-28 137.0
28 TraesCS7A01G437400 chr4A 91.525 59 4 1 2938 2995 141909774 141909832 2.470000e-11 80.5
29 TraesCS7A01G437400 chr3B 98.343 905 15 0 2033 2937 403744117 403745021 0.000000e+00 1589.0
30 TraesCS7A01G437400 chr2B 98.136 912 16 1 2033 2943 288108880 288109791 0.000000e+00 1589.0
31 TraesCS7A01G437400 chr2B 97.682 906 19 2 2033 2937 101392637 101393541 0.000000e+00 1555.0
32 TraesCS7A01G437400 chr2B 88.344 163 12 4 1110 1272 113273165 113273320 3.940000e-44 189.0
33 TraesCS7A01G437400 chr2B 87.730 163 13 4 1110 1272 678386998 678387153 1.830000e-42 183.0
34 TraesCS7A01G437400 chr1A 97.800 909 19 1 2033 2941 446068753 446069660 0.000000e+00 1567.0
35 TraesCS7A01G437400 chr4B 97.680 905 21 0 2033 2937 558637842 558638746 0.000000e+00 1555.0
36 TraesCS7A01G437400 chr4B 97.569 905 22 0 2033 2937 574306131 574305227 0.000000e+00 1550.0
37 TraesCS7A01G437400 chr7B 91.090 752 50 11 1 749 591566779 591566042 0.000000e+00 1002.0
38 TraesCS7A01G437400 chr7B 91.180 737 38 13 1 734 591600488 591599776 0.000000e+00 976.0
39 TraesCS7A01G437400 chr7B 90.676 740 42 13 1 737 591685005 591684290 0.000000e+00 959.0
40 TraesCS7A01G437400 chr7B 91.051 704 49 10 34 737 591056317 591057006 0.000000e+00 939.0
41 TraesCS7A01G437400 chr7B 83.499 1109 75 38 967 2023 591565886 591564834 0.000000e+00 935.0
42 TraesCS7A01G437400 chr7B 85.261 882 78 31 1 871 569439109 569439949 0.000000e+00 861.0
43 TraesCS7A01G437400 chr7B 82.709 908 75 32 1127 2023 591684225 591683389 0.000000e+00 732.0
44 TraesCS7A01G437400 chr7B 83.409 657 48 24 967 1575 569440092 569440735 1.210000e-153 553.0
45 TraesCS7A01G437400 chr7B 78.966 832 86 33 780 1575 569481717 569482495 4.490000e-133 484.0
46 TraesCS7A01G437400 chr7B 88.235 153 12 4 967 1113 591057055 591057207 8.530000e-41 178.0
47 TraesCS7A01G437400 chr7B 90.196 102 10 0 804 905 587615212 587615111 1.870000e-27 134.0
48 TraesCS7A01G437400 chr7B 95.000 60 3 0 1110 1169 591057228 591057287 8.840000e-16 95.3
49 TraesCS7A01G437400 chr7B 97.826 46 1 0 2950 2995 591564122 591564077 2.470000e-11 80.5
50 TraesCS7A01G437400 chr7B 100.000 28 0 0 2967 2994 591683313 591683286 5.000000e-03 52.8
51 TraesCS7A01G437400 chrUn 91.055 749 50 11 1 746 355334639 355335373 0.000000e+00 996.0
52 TraesCS7A01G437400 chrUn 90.676 740 42 13 1 737 337590171 337590886 0.000000e+00 959.0
53 TraesCS7A01G437400 chrUn 85.006 807 67 23 967 1752 355335532 355336305 0.000000e+00 771.0
54 TraesCS7A01G437400 chrUn 82.709 908 75 32 1127 2023 337590951 337591787 0.000000e+00 732.0
55 TraesCS7A01G437400 chrUn 100.000 28 0 0 2967 2994 337591863 337591890 5.000000e-03 52.8
56 TraesCS7A01G437400 chr6B 81.846 997 109 45 807 1752 694681168 694680193 0.000000e+00 773.0
57 TraesCS7A01G437400 chr1D 80.971 1009 111 41 804 1752 110905375 110904388 0.000000e+00 725.0


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 TraesCS7A01G437400 chr7A 632185747 632188741 2994 True 5531.000000 5531 100.000000 1 2995 1 chr7A.!!$R3 2994
1 TraesCS7A01G437400 chr7A 630670690 630672276 1586 True 1736.000000 1736 86.493000 34 1664 1 chr7A.!!$R2 1630
2 TraesCS7A01G437400 chr7A 631651801 631653496 1695 False 1663.000000 1663 84.751000 34 1752 1 chr7A.!!$F1 1718
3 TraesCS7A01G437400 chr7A 632265592 632266474 882 True 1026.000000 1026 87.677000 1 905 1 chr7A.!!$R4 904
4 TraesCS7A01G437400 chr7A 625641320 625642373 1053 True 743.000000 743 80.486000 807 1811 1 chr7A.!!$R1 1004
5 TraesCS7A01G437400 chr7A 617551272 617552301 1029 False 558.000000 885 85.079500 1 1072 2 chr7A.!!$F2 1071
6 TraesCS7A01G437400 chr7A 625674159 625675156 997 True 356.000000 553 81.965000 806 1811 2 chr7A.!!$R5 1005
7 TraesCS7A01G437400 chr7A 631877824 631878478 654 False 240.000000 265 82.899500 686 1952 2 chr7A.!!$F3 1266
8 TraesCS7A01G437400 chr7D 530430050 530431781 1731 False 1644.000000 1644 84.295000 1 1746 1 chr7D.!!$F1 1745
9 TraesCS7A01G437400 chr7D 548560595 548561453 858 True 1157.000000 1157 91.183000 1 850 1 chr7D.!!$R4 849
10 TraesCS7A01G437400 chr7D 543730559 543731612 1053 True 760.000000 760 80.766000 807 1811 1 chr7D.!!$R1 1004
11 TraesCS7A01G437400 chr7D 573969075 573969858 783 True 750.000000 750 84.944000 1 749 1 chr7D.!!$R5 748
12 TraesCS7A01G437400 chr7D 548550267 548551106 839 True 592.000000 592 80.417000 846 1659 1 chr7D.!!$R3 813
13 TraesCS7A01G437400 chr7D 548323805 548325596 1791 True 389.760000 929 90.811000 33 2995 5 chr7D.!!$R6 2962
14 TraesCS7A01G437400 chr2A 147504488 147505392 904 False 1605.000000 1605 98.674000 2033 2937 1 chr2A.!!$F1 904
15 TraesCS7A01G437400 chr2A 118877975 118878888 913 True 1567.000000 1567 97.596000 2033 2946 1 chr2A.!!$R1 913
16 TraesCS7A01G437400 chr4A 550727259 550728161 902 False 1591.000000 1591 98.450000 2033 2935 1 chr4A.!!$F1 902
17 TraesCS7A01G437400 chr3B 403744117 403745021 904 False 1589.000000 1589 98.343000 2033 2937 1 chr3B.!!$F1 904
18 TraesCS7A01G437400 chr2B 288108880 288109791 911 False 1589.000000 1589 98.136000 2033 2943 1 chr2B.!!$F3 910
19 TraesCS7A01G437400 chr2B 101392637 101393541 904 False 1555.000000 1555 97.682000 2033 2937 1 chr2B.!!$F1 904
20 TraesCS7A01G437400 chr1A 446068753 446069660 907 False 1567.000000 1567 97.800000 2033 2941 1 chr1A.!!$F1 908
21 TraesCS7A01G437400 chr4B 558637842 558638746 904 False 1555.000000 1555 97.680000 2033 2937 1 chr4B.!!$F1 904
22 TraesCS7A01G437400 chr4B 574305227 574306131 904 True 1550.000000 1550 97.569000 2033 2937 1 chr4B.!!$R1 904
23 TraesCS7A01G437400 chr7B 591599776 591600488 712 True 976.000000 976 91.180000 1 734 1 chr7B.!!$R2 733
24 TraesCS7A01G437400 chr7B 569439109 569440735 1626 False 707.000000 861 84.335000 1 1575 2 chr7B.!!$F2 1574
25 TraesCS7A01G437400 chr7B 591564077 591566779 2702 True 672.500000 1002 90.805000 1 2995 3 chr7B.!!$R3 2994
26 TraesCS7A01G437400 chr7B 591683286 591685005 1719 True 581.266667 959 91.128333 1 2994 3 chr7B.!!$R4 2993
27 TraesCS7A01G437400 chr7B 569481717 569482495 778 False 484.000000 484 78.966000 780 1575 1 chr7B.!!$F1 795
28 TraesCS7A01G437400 chr7B 591056317 591057287 970 False 404.100000 939 91.428667 34 1169 3 chr7B.!!$F3 1135
29 TraesCS7A01G437400 chrUn 355334639 355336305 1666 False 883.500000 996 88.030500 1 1752 2 chrUn.!!$F2 1751
30 TraesCS7A01G437400 chrUn 337590171 337591890 1719 False 581.266667 959 91.128333 1 2994 3 chrUn.!!$F1 2993
31 TraesCS7A01G437400 chr6B 694680193 694681168 975 True 773.000000 773 81.846000 807 1752 1 chr6B.!!$R1 945
32 TraesCS7A01G437400 chr1D 110904388 110905375 987 True 725.000000 725 80.971000 804 1752 1 chr1D.!!$R1 948

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
251 297 0.538516 CCCGGTGTTGATGGAACCAA 60.539 55.0 0.0 0.0 33.3 3.67 F
1331 1635 0.541392 AGGCGTGGTGAAGATATGCA 59.459 50.0 0.0 0.0 0.0 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1570 1903 0.036164 GCGTGGATGCCATACCCATA 59.964 55.0 0.0 0.0 35.28 2.74 R
2947 3648 2.164422 GCTCACCCAACAAAGGCTAATC 59.836 50.0 0.0 0.0 0.00 1.75 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
19 20 1.006571 TTCGTCTTCACGTCAGGGC 60.007 57.895 0.00 0.00 46.76 5.19
87 115 1.645455 CTTCTTCATCGGCATGGCG 59.355 57.895 33.54 33.54 0.00 5.69
88 116 1.078497 TTCTTCATCGGCATGGCGT 60.078 52.632 36.29 22.99 0.00 5.68
89 117 1.089481 TTCTTCATCGGCATGGCGTC 61.089 55.000 36.29 0.00 0.00 5.19
90 118 2.874694 CTTCATCGGCATGGCGTCG 61.875 63.158 36.29 27.98 0.00 5.12
91 119 3.657448 TTCATCGGCATGGCGTCGT 62.657 57.895 36.29 22.58 0.00 4.34
92 120 3.630148 CATCGGCATGGCGTCGTC 61.630 66.667 36.29 0.00 0.00 4.20
93 121 4.891727 ATCGGCATGGCGTCGTCC 62.892 66.667 36.29 7.37 0.00 4.79
96 124 3.499737 GGCATGGCGTCGTCCTTG 61.500 66.667 2.41 13.54 35.18 3.61
107 141 0.679505 TCGTCCTTGGTGACCTTGAG 59.320 55.000 2.11 0.00 31.35 3.02
251 297 0.538516 CCCGGTGTTGATGGAACCAA 60.539 55.000 0.00 0.00 33.30 3.67
641 735 3.066814 GGCCGTACTCCAGTCGGT 61.067 66.667 14.84 0.00 45.11 4.69
708 822 1.136565 CGATTGAACGGCGGCAAAT 59.863 52.632 18.57 11.29 0.00 2.32
771 902 2.611505 ATTCACGGCCACCCCATGA 61.612 57.895 2.24 0.00 0.00 3.07
778 909 3.646715 CCACCCCATGACCACCGT 61.647 66.667 0.00 0.00 0.00 4.83
921 1091 2.432628 ACTACAAGCTGACGCGCC 60.433 61.111 5.73 0.00 42.32 6.53
922 1092 3.188786 CTACAAGCTGACGCGCCC 61.189 66.667 5.73 0.00 42.32 6.13
923 1093 3.932580 CTACAAGCTGACGCGCCCA 62.933 63.158 5.73 3.35 42.32 5.36
945 1115 3.052082 CTCCACCGCAACCTGCTG 61.052 66.667 0.00 0.00 42.25 4.41
1170 1429 4.379243 CTCGGCCACGTTCTGCCT 62.379 66.667 16.07 0.00 45.71 4.75
1171 1430 3.883744 CTCGGCCACGTTCTGCCTT 62.884 63.158 16.07 0.00 45.71 4.35
1172 1431 3.423154 CGGCCACGTTCTGCCTTC 61.423 66.667 16.07 0.00 45.71 3.46
1173 1432 2.032681 GGCCACGTTCTGCCTTCT 59.967 61.111 12.14 0.00 44.46 2.85
1174 1433 2.328099 GGCCACGTTCTGCCTTCTG 61.328 63.158 12.14 0.00 44.46 3.02
1175 1434 2.970974 GCCACGTTCTGCCTTCTGC 61.971 63.158 0.00 0.00 41.77 4.26
1331 1635 0.541392 AGGCGTGGTGAAGATATGCA 59.459 50.000 0.00 0.00 0.00 3.96
1351 1660 4.697756 CTCGGGCTGGCCGTTTCA 62.698 66.667 36.53 20.14 36.85 2.69
1438 1763 3.474570 CTCCTGGGGAAGCCGGAG 61.475 72.222 5.05 0.00 37.33 4.63
1483 1816 4.827087 CTCCGCTGCGTCATGGCT 62.827 66.667 21.59 0.00 0.00 4.75
1574 1907 3.251817 CTCGGTAGCACGTGTATGG 57.748 57.895 18.38 3.52 34.94 2.74
1689 2035 2.354305 GCGTGACGTGTTCGAGGT 60.354 61.111 6.91 0.00 40.62 3.85
1690 2036 1.947642 GCGTGACGTGTTCGAGGTT 60.948 57.895 6.91 0.00 40.62 3.50
1691 2037 1.485032 GCGTGACGTGTTCGAGGTTT 61.485 55.000 6.91 0.00 40.62 3.27
1811 2180 0.670546 CGTGCTCGACCACCATTCTT 60.671 55.000 1.00 0.00 39.71 2.52
1812 2181 0.798776 GTGCTCGACCACCATTCTTG 59.201 55.000 0.00 0.00 0.00 3.02
1821 2190 3.204827 CCATTCTTGGGAGCCGCG 61.205 66.667 0.00 0.00 39.56 6.46
1822 2191 2.436646 CATTCTTGGGAGCCGCGT 60.437 61.111 4.92 0.00 0.00 6.01
1882 2264 0.608640 ACTTTACTGCCAGGGACGAG 59.391 55.000 0.00 0.00 0.00 4.18
1887 2269 3.701604 CTGCCAGGGACGAGCGTAC 62.702 68.421 0.00 0.00 34.01 3.67
1892 2274 2.968206 GGGACGAGCGTACCTTGT 59.032 61.111 16.74 4.45 45.54 3.16
1893 2275 2.183409 GGGACGAGCGTACCTTGTA 58.817 57.895 16.74 0.00 45.54 2.41
1924 2309 5.983475 CTTGAAAAGTGTACAGAGCTTGAG 58.017 41.667 0.00 0.00 39.70 3.02
1926 2311 4.811024 TGAAAAGTGTACAGAGCTTGAGTG 59.189 41.667 0.00 0.00 0.00 3.51
1927 2312 3.393089 AAGTGTACAGAGCTTGAGTGG 57.607 47.619 0.00 0.00 0.00 4.00
1928 2313 2.598565 AGTGTACAGAGCTTGAGTGGA 58.401 47.619 0.00 0.00 0.00 4.02
1969 2354 4.085357 TGAGTTGGTTTGACATAGTGCT 57.915 40.909 0.00 0.00 0.00 4.40
1971 2356 4.994852 TGAGTTGGTTTGACATAGTGCTAC 59.005 41.667 0.00 0.00 0.00 3.58
2019 2417 1.213013 GACACGCGACATGGAGAGT 59.787 57.895 15.93 0.00 0.00 3.24
2028 2426 2.366533 GACATGGAGAGTCGACCAGTA 58.633 52.381 13.01 0.00 39.62 2.74
2029 2427 2.093106 ACATGGAGAGTCGACCAGTAC 58.907 52.381 13.01 0.00 39.62 2.73
2030 2428 2.092323 CATGGAGAGTCGACCAGTACA 58.908 52.381 13.01 4.22 39.62 2.90
2103 2501 4.591321 TCCATGGATTTCTGTTAAGGCT 57.409 40.909 11.44 0.00 0.00 4.58
2110 2508 6.957631 TGGATTTCTGTTAAGGCTATCTTCA 58.042 36.000 0.00 0.00 36.93 3.02
2143 2541 5.937111 ACTTGTACCAACACTTTCACCTAT 58.063 37.500 0.00 0.00 34.61 2.57
2150 2548 5.891551 ACCAACACTTTCACCTATCTTTGTT 59.108 36.000 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 115 0.391597 TCAAGGTCACCAAGGACGAC 59.608 55.000 0.00 0.00 38.70 4.34
88 116 0.679505 CTCAAGGTCACCAAGGACGA 59.320 55.000 0.00 0.00 38.70 4.20
89 117 0.320771 CCTCAAGGTCACCAAGGACG 60.321 60.000 0.00 0.00 38.70 4.79
90 118 1.056660 TCCTCAAGGTCACCAAGGAC 58.943 55.000 8.25 0.00 37.06 3.85
91 119 1.056660 GTCCTCAAGGTCACCAAGGA 58.943 55.000 8.25 8.25 36.34 3.36
92 120 0.320771 CGTCCTCAAGGTCACCAAGG 60.321 60.000 0.00 0.00 36.34 3.61
93 121 0.393077 ACGTCCTCAAGGTCACCAAG 59.607 55.000 0.00 0.00 36.34 3.61
94 122 0.391597 GACGTCCTCAAGGTCACCAA 59.608 55.000 3.51 0.00 41.43 3.67
95 123 1.802337 CGACGTCCTCAAGGTCACCA 61.802 60.000 10.58 0.00 41.80 4.17
96 124 1.080705 CGACGTCCTCAAGGTCACC 60.081 63.158 10.58 0.00 41.80 4.02
237 280 2.862541 CTGAGGTTGGTTCCATCAACA 58.137 47.619 8.82 0.00 44.38 3.33
251 297 1.022451 GTCTCTCGAGACGCTGAGGT 61.022 60.000 12.08 0.00 46.93 3.85
375 421 1.185315 CAGACCAATTTTCCCGCCAT 58.815 50.000 0.00 0.00 0.00 4.40
494 540 4.559229 CGATCGCAGGAGCTCGCA 62.559 66.667 7.83 0.00 39.10 5.10
771 902 4.602259 CTGGTGCGTGACGGTGGT 62.602 66.667 7.25 0.00 0.00 4.16
798 929 2.313427 GGTGGCCATGGGGTTCCTA 61.313 63.158 9.72 0.00 36.17 2.94
799 930 3.672503 GGTGGCCATGGGGTTCCT 61.673 66.667 9.72 0.00 36.17 3.36
1188 1482 1.228894 TCCTCCTCAGTGAACGGCT 60.229 57.895 0.00 0.00 0.00 5.52
1245 1543 4.862092 CGCGCTCGTGCATCCTCT 62.862 66.667 5.56 0.00 39.64 3.69
1312 1616 0.541392 TGCATATCTTCACCACGCCT 59.459 50.000 0.00 0.00 0.00 5.52
1469 1802 3.561213 CTCAGCCATGACGCAGCG 61.561 66.667 14.82 14.82 0.00 5.18
1570 1903 0.036164 GCGTGGATGCCATACCCATA 59.964 55.000 0.00 0.00 35.28 2.74
1571 1904 1.228245 GCGTGGATGCCATACCCAT 60.228 57.895 0.00 0.00 35.28 4.00
1572 1905 2.191908 GCGTGGATGCCATACCCA 59.808 61.111 0.00 0.00 35.28 4.51
1811 2180 1.895020 ATCTTTGTACGCGGCTCCCA 61.895 55.000 12.47 0.00 0.00 4.37
1812 2181 1.153429 ATCTTTGTACGCGGCTCCC 60.153 57.895 12.47 0.00 0.00 4.30
1813 2182 0.459585 TCATCTTTGTACGCGGCTCC 60.460 55.000 12.47 0.00 0.00 4.70
1814 2183 1.571919 ATCATCTTTGTACGCGGCTC 58.428 50.000 12.47 0.12 0.00 4.70
1815 2184 2.024176 AATCATCTTTGTACGCGGCT 57.976 45.000 12.47 0.00 0.00 5.52
1816 2185 2.825086 AAATCATCTTTGTACGCGGC 57.175 45.000 12.47 3.05 0.00 6.53
1817 2186 7.272515 ACAAAATAAAATCATCTTTGTACGCGG 59.727 33.333 12.47 0.00 38.19 6.46
1818 2187 8.157159 ACAAAATAAAATCATCTTTGTACGCG 57.843 30.769 3.53 3.53 38.19 6.01
1854 2236 3.432252 CCTGGCAGTAAAGTAAACTCGTG 59.568 47.826 14.43 0.00 0.00 4.35
1882 2264 1.737793 AGCATGCTTTACAAGGTACGC 59.262 47.619 16.30 0.00 0.00 4.42
1885 2267 6.040391 ACTTTTCAAGCATGCTTTACAAGGTA 59.960 34.615 29.97 14.02 33.42 3.08
1887 2269 5.176223 CACTTTTCAAGCATGCTTTACAAGG 59.824 40.000 29.97 23.71 33.42 3.61
1888 2270 5.750067 ACACTTTTCAAGCATGCTTTACAAG 59.250 36.000 30.07 28.35 33.42 3.16
1889 2271 5.659463 ACACTTTTCAAGCATGCTTTACAA 58.341 33.333 30.07 19.68 33.42 2.41
1890 2272 5.261209 ACACTTTTCAAGCATGCTTTACA 57.739 34.783 30.07 13.31 33.42 2.41
1891 2273 6.205784 TGTACACTTTTCAAGCATGCTTTAC 58.794 36.000 30.07 24.11 33.42 2.01
1892 2274 6.262049 TCTGTACACTTTTCAAGCATGCTTTA 59.738 34.615 30.07 20.24 33.42 1.85
1893 2275 5.067674 TCTGTACACTTTTCAAGCATGCTTT 59.932 36.000 30.07 15.48 33.42 3.51
1924 2309 6.509418 TTTACAATTCCATTACAGCTCCAC 57.491 37.500 0.00 0.00 0.00 4.02
1926 2311 7.067494 ACTCATTTACAATTCCATTACAGCTCC 59.933 37.037 0.00 0.00 0.00 4.70
1927 2312 7.989826 ACTCATTTACAATTCCATTACAGCTC 58.010 34.615 0.00 0.00 0.00 4.09
1928 2313 7.944729 ACTCATTTACAATTCCATTACAGCT 57.055 32.000 0.00 0.00 0.00 4.24
1969 2354 4.081862 GTGTACTGGTCTGCAGTATTGGTA 60.082 45.833 14.67 9.00 37.46 3.25
1971 2356 3.262420 GTGTACTGGTCTGCAGTATTGG 58.738 50.000 14.67 4.44 37.46 3.16
2019 2417 2.095567 GCTAGAAACGTGTACTGGTCGA 60.096 50.000 0.00 0.00 0.00 4.20
2023 2421 2.412089 GCAAGCTAGAAACGTGTACTGG 59.588 50.000 0.00 0.00 0.00 4.00
2025 2423 3.243771 ACTGCAAGCTAGAAACGTGTACT 60.244 43.478 0.00 0.00 37.60 2.73
2028 2426 2.135933 GACTGCAAGCTAGAAACGTGT 58.864 47.619 0.00 0.00 37.60 4.49
2029 2427 2.408050 AGACTGCAAGCTAGAAACGTG 58.592 47.619 0.00 0.00 37.60 4.49
2030 2428 2.821991 AGACTGCAAGCTAGAAACGT 57.178 45.000 0.00 0.00 37.60 3.99
2143 2541 5.070770 TCAAAAGCTTGAGCAAACAAAGA 57.929 34.783 0.00 0.00 45.16 2.52
2945 3646 4.019174 CTCACCCAACAAAGGCTAATCAT 58.981 43.478 0.00 0.00 0.00 2.45
2946 3647 3.420893 CTCACCCAACAAAGGCTAATCA 58.579 45.455 0.00 0.00 0.00 2.57
2947 3648 2.164422 GCTCACCCAACAAAGGCTAATC 59.836 50.000 0.00 0.00 0.00 1.75
2948 3649 2.171003 GCTCACCCAACAAAGGCTAAT 58.829 47.619 0.00 0.00 0.00 1.73


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

AutoCloner maintained by Alex Coulton.