Multiple sequence alignment - TraesCS7D01G504700

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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 TraesCS7D01G504700 chr7D 100.000 4246 0 0 1 4246 610649380 610653625 0.000000e+00 7841.0
1 TraesCS7D01G504700 chr7D 92.667 1500 108 2 2742 4240 608104504 608103006 0.000000e+00 2159.0
2 TraesCS7D01G504700 chr7D 88.307 1719 179 13 2068 3770 608116431 608114719 0.000000e+00 2041.0
3 TraesCS7D01G504700 chr7D 86.165 1742 197 18 2068 3770 600282152 600283888 0.000000e+00 1842.0
4 TraesCS7D01G504700 chr7D 96.686 694 19 2 1 692 608117394 608116703 0.000000e+00 1151.0
5 TraesCS7D01G504700 chr7D 91.691 674 41 3 1394 2052 547261951 547261278 0.000000e+00 920.0
6 TraesCS7D01G504700 chr7D 85.615 577 46 29 1044 1605 547262347 547261793 4.760000e-159 571.0
7 TraesCS7D01G504700 chr7D 93.571 280 11 5 766 1043 608116696 608116422 1.100000e-110 411.0
8 TraesCS7D01G504700 chr7D 90.498 221 18 3 1043 1261 188362646 188362865 5.370000e-74 289.0
9 TraesCS7D01G504700 chr7D 90.338 207 18 2 302 506 608119846 608119640 1.950000e-68 270.0
10 TraesCS7D01G504700 chr7D 87.892 223 25 1 302 522 610629573 610629795 1.170000e-65 261.0
11 TraesCS7D01G504700 chrUn 94.235 1509 75 4 2742 4240 77780520 77782026 0.000000e+00 2294.0
12 TraesCS7D01G504700 chrUn 85.510 1470 194 7 2068 3528 77772862 77774321 0.000000e+00 1517.0
13 TraesCS7D01G504700 chr7B 94.109 1409 73 2 2847 4246 695493866 695492459 0.000000e+00 2134.0
14 TraesCS7D01G504700 chr7B 88.778 1711 180 10 2068 3777 695502276 695500577 0.000000e+00 2085.0
15 TraesCS7D01G504700 chr7B 84.201 1747 240 22 2068 3799 697615772 697614047 0.000000e+00 1664.0
16 TraesCS7D01G504700 chr7B 84.244 1720 243 22 2068 3778 697422863 697424563 0.000000e+00 1650.0
17 TraesCS7D01G504700 chr7B 91.770 1130 89 2 3039 4168 694226934 694228059 0.000000e+00 1568.0
18 TraesCS7D01G504700 chr7B 84.084 1244 183 10 2068 3306 685048592 685049825 0.000000e+00 1186.0
19 TraesCS7D01G504700 chr7B 95.410 719 22 6 272 987 695278023 695278733 0.000000e+00 1134.0
20 TraesCS7D01G504700 chr7B 92.784 776 54 2 3472 4246 697537389 697538163 0.000000e+00 1122.0
21 TraesCS7D01G504700 chr7B 91.952 671 44 3 2068 2738 695278756 695279416 0.000000e+00 931.0
22 TraesCS7D01G504700 chr7B 91.483 681 48 2 2068 2738 698245495 698244815 0.000000e+00 928.0
23 TraesCS7D01G504700 chr7B 96.044 455 13 3 434 885 695503182 695502730 0.000000e+00 736.0
24 TraesCS7D01G504700 chr7B 95.445 461 15 3 3791 4245 695287435 695287895 0.000000e+00 730.0
25 TraesCS7D01G504700 chr7B 95.150 433 12 3 272 704 698487308 698486885 0.000000e+00 675.0
26 TraesCS7D01G504700 chr7B 96.232 345 13 0 3902 4246 698231912 698231568 2.220000e-157 566.0
27 TraesCS7D01G504700 chr7B 91.597 357 26 3 1043 1397 451356938 451356584 1.370000e-134 490.0
28 TraesCS7D01G504700 chr7B 81.011 653 81 25 1422 2052 451356485 451355854 2.970000e-131 479.0
29 TraesCS7D01G504700 chr7B 95.956 272 11 0 1 272 695277685 695277956 3.900000e-120 442.0
30 TraesCS7D01G504700 chr7B 94.485 272 15 0 1 272 698487646 698487375 1.830000e-113 420.0
31 TraesCS7D01G504700 chr7B 87.719 342 36 5 1044 1382 180049665 180050003 1.110000e-105 394.0
32 TraesCS7D01G504700 chr7B 88.768 276 30 1 3972 4246 694267298 694267573 1.890000e-88 337.0
33 TraesCS7D01G504700 chr7B 91.781 219 16 1 1043 1261 11954615 11954831 1.920000e-78 303.0
34 TraesCS7D01G504700 chr7B 89.474 228 22 2 47 274 698964313 698964088 1.930000e-73 287.0
35 TraesCS7D01G504700 chr7B 89.035 228 23 2 47 274 693429605 693429380 8.990000e-72 281.0
36 TraesCS7D01G504700 chr7B 89.252 214 22 1 3755 3967 685221738 685221525 2.520000e-67 267.0
37 TraesCS7D01G504700 chr7B 93.103 174 11 1 692 864 698245867 698245694 1.960000e-63 254.0
38 TraesCS7D01G504700 chr7B 86.547 223 27 2 302 522 698489647 698489426 4.240000e-60 243.0
39 TraesCS7D01G504700 chr7B 97.778 135 3 0 302 436 695503475 695503341 2.550000e-57 233.0
40 TraesCS7D01G504700 chr7B 87.692 195 18 3 85 274 694826452 694826645 5.530000e-54 222.0
41 TraesCS7D01G504700 chr7B 87.065 201 12 5 852 1043 698245681 698245486 9.250000e-52 215.0
42 TraesCS7D01G504700 chr7B 96.078 102 4 0 942 1043 695502368 695502267 2.630000e-37 167.0
43 TraesCS7D01G504700 chr7B 88.095 126 4 6 926 1043 697120353 697120231 5.720000e-29 139.0
44 TraesCS7D01G504700 chr7B 92.857 84 6 0 83 166 698491658 698491575 5.770000e-24 122.0
45 TraesCS7D01G504700 chr7B 82.727 110 11 7 1511 1617 451356447 451356343 1.630000e-14 91.6
46 TraesCS7D01G504700 chr7A 84.678 1586 218 18 2315 3889 700028797 700030368 0.000000e+00 1559.0
47 TraesCS7D01G504700 chr7A 85.361 1496 198 17 2068 3560 700160721 700159244 0.000000e+00 1530.0
48 TraesCS7D01G504700 chr7A 89.098 266 27 2 3972 4237 700030457 700030720 3.160000e-86 329.0
49 TraesCS7D01G504700 chr2B 84.674 1057 90 38 1043 2052 93713729 93712698 0.000000e+00 989.0
50 TraesCS7D01G504700 chr2B 84.248 565 57 10 1508 2043 713968819 713969380 4.870000e-144 521.0
51 TraesCS7D01G504700 chr5D 92.943 666 33 3 1398 2049 58233729 58234394 0.000000e+00 957.0
52 TraesCS7D01G504700 chr5D 83.959 586 51 27 1044 1605 58233316 58233882 4.870000e-144 521.0
53 TraesCS7D01G504700 chr5D 92.308 91 2 4 1457 1542 58233839 58233929 1.600000e-24 124.0
54 TraesCS7D01G504700 chr6A 90.208 674 48 6 1394 2049 17039102 17039775 0.000000e+00 863.0
55 TraesCS7D01G504700 chr6A 94.068 354 18 3 1043 1395 97968731 97969082 6.250000e-148 534.0
56 TraesCS7D01G504700 chr6A 87.569 362 28 6 1508 1854 97969222 97969581 1.840000e-108 403.0
57 TraesCS7D01G504700 chr6A 94.737 95 5 0 1410 1504 97969175 97969269 9.510000e-32 148.0
58 TraesCS7D01G504700 chr6B 84.912 570 58 10 1511 2052 120806477 120805908 6.200000e-153 551.0
59 TraesCS7D01G504700 chr6B 89.891 366 22 4 1044 1396 120806982 120806619 1.390000e-124 457.0
60 TraesCS7D01G504700 chr4A 92.982 342 23 1 1044 1384 614547210 614547551 8.200000e-137 497.0
61 TraesCS7D01G504700 chr4A 80.060 667 85 28 1410 2049 614547663 614548308 6.470000e-123 451.0
62 TraesCS7D01G504700 chr4A 90.698 43 3 1 2332 2373 662103515 662103557 5.930000e-04 56.5
63 TraesCS7D01G504700 chr1A 84.109 516 58 13 1470 1964 98281902 98282414 1.070000e-130 477.0
64 TraesCS7D01G504700 chr1A 89.143 350 33 5 1044 1391 98281418 98281764 8.430000e-117 431.0
65 TraesCS7D01G504700 chr1A 86.047 86 9 2 1410 1492 12415995 12415910 5.850000e-14 89.8
66 TraesCS7D01G504700 chr3B 89.736 341 28 6 1046 1384 128953748 128953413 3.030000e-116 429.0
67 TraesCS7D01G504700 chr5B 78.082 657 77 38 1410 2049 646351041 646351647 1.880000e-93 353.0
68 TraesCS7D01G504700 chr3D 79.670 182 31 6 1893 2071 517743450 517743628 4.460000e-25 126.0


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 TraesCS7D01G504700 chr7D 610649380 610653625 4245 False 7841.000000 7841 100.000000 1 4246 1 chr7D.!!$F4 4245
1 TraesCS7D01G504700 chr7D 608103006 608104504 1498 True 2159.000000 2159 92.667000 2742 4240 1 chr7D.!!$R1 1498
2 TraesCS7D01G504700 chr7D 600282152 600283888 1736 False 1842.000000 1842 86.165000 2068 3770 1 chr7D.!!$F2 1702
3 TraesCS7D01G504700 chr7D 608114719 608119846 5127 True 968.250000 2041 92.225500 1 3770 4 chr7D.!!$R3 3769
4 TraesCS7D01G504700 chr7D 547261278 547262347 1069 True 745.500000 920 88.653000 1044 2052 2 chr7D.!!$R2 1008
5 TraesCS7D01G504700 chrUn 77780520 77782026 1506 False 2294.000000 2294 94.235000 2742 4240 1 chrUn.!!$F2 1498
6 TraesCS7D01G504700 chrUn 77772862 77774321 1459 False 1517.000000 1517 85.510000 2068 3528 1 chrUn.!!$F1 1460
7 TraesCS7D01G504700 chr7B 695492459 695493866 1407 True 2134.000000 2134 94.109000 2847 4246 1 chr7B.!!$R3 1399
8 TraesCS7D01G504700 chr7B 697614047 697615772 1725 True 1664.000000 1664 84.201000 2068 3799 1 chr7B.!!$R5 1731
9 TraesCS7D01G504700 chr7B 697422863 697424563 1700 False 1650.000000 1650 84.244000 2068 3778 1 chr7B.!!$F8 1710
10 TraesCS7D01G504700 chr7B 694226934 694228059 1125 False 1568.000000 1568 91.770000 3039 4168 1 chr7B.!!$F4 1129
11 TraesCS7D01G504700 chr7B 685048592 685049825 1233 False 1186.000000 1186 84.084000 2068 3306 1 chr7B.!!$F3 1238
12 TraesCS7D01G504700 chr7B 697537389 697538163 774 False 1122.000000 1122 92.784000 3472 4246 1 chr7B.!!$F9 774
13 TraesCS7D01G504700 chr7B 695277685 695279416 1731 False 835.666667 1134 94.439333 1 2738 3 chr7B.!!$F10 2737
14 TraesCS7D01G504700 chr7B 695500577 695503475 2898 True 805.250000 2085 94.669500 302 3777 4 chr7B.!!$R9 3475
15 TraesCS7D01G504700 chr7B 698244815 698245867 1052 True 465.666667 928 90.550333 692 2738 3 chr7B.!!$R10 2046
16 TraesCS7D01G504700 chr7B 698486885 698491658 4773 True 365.000000 675 92.259750 1 704 4 chr7B.!!$R11 703
17 TraesCS7D01G504700 chr7B 451355854 451356938 1084 True 353.533333 490 85.111667 1043 2052 3 chr7B.!!$R8 1009
18 TraesCS7D01G504700 chr7A 700159244 700160721 1477 True 1530.000000 1530 85.361000 2068 3560 1 chr7A.!!$R1 1492
19 TraesCS7D01G504700 chr7A 700028797 700030720 1923 False 944.000000 1559 86.888000 2315 4237 2 chr7A.!!$F1 1922
20 TraesCS7D01G504700 chr2B 93712698 93713729 1031 True 989.000000 989 84.674000 1043 2052 1 chr2B.!!$R1 1009
21 TraesCS7D01G504700 chr2B 713968819 713969380 561 False 521.000000 521 84.248000 1508 2043 1 chr2B.!!$F1 535
22 TraesCS7D01G504700 chr5D 58233316 58234394 1078 False 534.000000 957 89.736667 1044 2049 3 chr5D.!!$F1 1005
23 TraesCS7D01G504700 chr6A 17039102 17039775 673 False 863.000000 863 90.208000 1394 2049 1 chr6A.!!$F1 655
24 TraesCS7D01G504700 chr6A 97968731 97969581 850 False 361.666667 534 92.124667 1043 1854 3 chr6A.!!$F2 811
25 TraesCS7D01G504700 chr6B 120805908 120806982 1074 True 504.000000 551 87.401500 1044 2052 2 chr6B.!!$R1 1008
26 TraesCS7D01G504700 chr4A 614547210 614548308 1098 False 474.000000 497 86.521000 1044 2049 2 chr4A.!!$F2 1005
27 TraesCS7D01G504700 chr1A 98281418 98282414 996 False 454.000000 477 86.626000 1044 1964 2 chr1A.!!$F1 920
28 TraesCS7D01G504700 chr5B 646351041 646351647 606 False 353.000000 353 78.082000 1410 2049 1 chr5B.!!$F1 639

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
836 5564 0.178987 TTTTTCCTGGCCCGCTACAA 60.179 50.0 0.00 0.0 0.00 2.41 F
1038 6129 0.186386 AGATCCCGGACTACCTCCTG 59.814 60.0 0.73 0.0 36.80 3.86 F
1397 6537 0.814010 CCCTTGAGGATAAACCGCCG 60.814 60.0 0.00 0.0 44.74 6.46 F
2645 8024 1.341606 CTGCGTTCGTCTTCTCTTCC 58.658 55.0 0.00 0.0 0.00 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2645 8024 0.039256 CTTGCCATTGTCCCGTGTTG 60.039 55.000 0.0 0.0 0.0 3.33 R
2996 8394 2.775911 TTGTCTTCTCCATCTGCCAG 57.224 50.000 0.0 0.0 0.0 4.85 R
3188 8610 7.225538 GGGAAGTTGATATATGAATATGCCTCG 59.774 40.741 0.0 0.0 0.0 4.63 R
4047 9545 1.681166 GCAGGACAGAGGCACATGAAT 60.681 52.381 0.0 0.0 0.0 2.57 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
98 4592 4.440880 TGGGCATGCAACTATAATTTTGC 58.559 39.130 21.36 5.76 46.88 3.68
424 4985 3.770666 ACATAGAGACGTCCAATGAACG 58.229 45.455 22.14 0.00 45.37 3.95
633 5357 4.811557 AGTGTCCTTTCTCTGACTTTTTCG 59.188 41.667 0.00 0.00 32.67 3.46
647 5371 3.752747 ACTTTTTCGTGGTTTATACGGGG 59.247 43.478 0.00 0.00 41.58 5.73
648 5372 2.399916 TTTCGTGGTTTATACGGGGG 57.600 50.000 0.00 0.00 41.58 5.40
809 5536 5.243426 TCACTTTCCACTTTAAACACTGC 57.757 39.130 0.00 0.00 0.00 4.40
836 5564 0.178987 TTTTTCCTGGCCCGCTACAA 60.179 50.000 0.00 0.00 0.00 2.41
842 5570 2.359975 GGCCCGCTACAAGTTGCT 60.360 61.111 1.81 0.00 0.00 3.91
866 5619 4.392754 GTCTTGCCAAATAAAGCCCATTTG 59.607 41.667 7.82 7.82 41.16 2.32
1035 6126 3.039452 GGAGATCCCGGACTACCTC 57.961 63.158 0.73 1.73 0.00 3.85
1036 6127 0.540133 GGAGATCCCGGACTACCTCC 60.540 65.000 0.73 7.79 34.21 4.30
1037 6128 0.479378 GAGATCCCGGACTACCTCCT 59.521 60.000 0.73 0.00 36.80 3.69
1038 6129 0.186386 AGATCCCGGACTACCTCCTG 59.814 60.000 0.73 0.00 36.80 3.86
1039 6130 0.828343 GATCCCGGACTACCTCCTGG 60.828 65.000 0.73 0.00 43.50 4.45
1040 6131 2.948801 ATCCCGGACTACCTCCTGGC 62.949 65.000 0.73 0.00 42.16 4.85
1041 6132 3.155167 CCGGACTACCTCCTGGCC 61.155 72.222 0.00 0.00 36.80 5.36
1331 6438 7.563724 ACAGACAACCCCTATAAGTTTTCTA 57.436 36.000 0.00 0.00 32.65 2.10
1391 6531 3.902218 CAATCAGGCCCTTGAGGATAAA 58.098 45.455 0.00 0.00 38.24 1.40
1397 6537 0.814010 CCCTTGAGGATAAACCGCCG 60.814 60.000 0.00 0.00 44.74 6.46
1763 7088 4.824166 TCTTAGCGCGCGACGGAC 62.824 66.667 37.18 15.96 43.93 4.79
1948 7288 8.364142 CCTGACCTGTCATAAAATGGTTTAAAA 58.636 33.333 0.00 0.00 39.13 1.52
1951 7291 7.149307 ACCTGTCATAAAATGGTTTAAAACGG 58.851 34.615 0.00 0.00 32.98 4.44
1969 7309 3.011119 ACGGTAGCAACAAGTGTTTTGA 58.989 40.909 0.00 0.00 35.83 2.69
2058 7401 4.801330 AAAACCCTAGCCAGTTTTATGC 57.199 40.909 12.24 0.00 42.72 3.14
2059 7402 3.739401 AACCCTAGCCAGTTTTATGCT 57.261 42.857 0.00 0.00 39.10 3.79
2060 7403 4.855298 AACCCTAGCCAGTTTTATGCTA 57.145 40.909 0.00 0.00 36.57 3.49
2061 7404 5.388599 AACCCTAGCCAGTTTTATGCTAT 57.611 39.130 0.00 0.00 37.01 2.97
2062 7405 5.388599 ACCCTAGCCAGTTTTATGCTATT 57.611 39.130 0.00 0.00 37.01 1.73
2063 7406 5.766590 ACCCTAGCCAGTTTTATGCTATTT 58.233 37.500 0.00 0.00 37.01 1.40
2064 7407 6.906848 ACCCTAGCCAGTTTTATGCTATTTA 58.093 36.000 0.00 0.00 37.01 1.40
2065 7408 6.771267 ACCCTAGCCAGTTTTATGCTATTTAC 59.229 38.462 0.00 0.00 37.01 2.01
2066 7409 6.998673 CCCTAGCCAGTTTTATGCTATTTACT 59.001 38.462 0.00 0.00 37.01 2.24
2081 7424 1.403814 TTACTCTCCTGGCCGAGATG 58.596 55.000 10.40 7.80 38.22 2.90
2120 7463 2.504244 GAAGACCTCGTCCGTGCG 60.504 66.667 0.00 0.00 32.18 5.34
2154 7497 2.049475 CTCCTTCTACCGACTCGCCG 62.049 65.000 0.00 0.00 0.00 6.46
2183 7526 1.517832 CTTCCTCCGCAGATTCCGT 59.482 57.895 0.00 0.00 0.00 4.69
2260 7603 4.431131 CATGCCGCCTCACCCCTT 62.431 66.667 0.00 0.00 0.00 3.95
2415 7767 2.359975 CCCTTGCACCGGTCTTCC 60.360 66.667 2.59 0.00 0.00 3.46
2475 7837 3.612247 CTGCTTCCCCCGGTGACTG 62.612 68.421 0.00 0.00 0.00 3.51
2553 7923 1.612442 CCCTTCCTCGTTCCCCTCA 60.612 63.158 0.00 0.00 0.00 3.86
2568 7938 2.283894 TCAGCGAGGAGGAGGCAA 60.284 61.111 0.00 0.00 0.00 4.52
2590 7969 1.443407 CGGGAGAGACGGCATTCAT 59.557 57.895 0.00 0.00 0.00 2.57
2645 8024 1.341606 CTGCGTTCGTCTTCTCTTCC 58.658 55.000 0.00 0.00 0.00 3.46
2957 8355 6.058553 TGTGAAACTCCATCTGATCTCATT 57.941 37.500 0.00 0.00 38.04 2.57
2996 8394 1.536943 AAGGCGAGAGTCCCAGTCAC 61.537 60.000 0.00 0.00 35.23 3.67
3103 8504 4.555689 AGGAGAGAAGCCTCATGTCTATT 58.444 43.478 0.00 0.00 41.87 1.73
3111 8533 8.674263 AGAAGCCTCATGTCTATTTAATGAAG 57.326 34.615 0.00 0.00 30.28 3.02
3324 8747 6.882610 TGACTTGTCTATTGCTTCATGTTT 57.117 33.333 2.35 0.00 0.00 2.83
3350 8773 8.947055 ATTATGGCAATTGGTAATTCTTGTTC 57.053 30.769 7.72 0.00 0.00 3.18
3352 8775 4.279671 TGGCAATTGGTAATTCTTGTTCGT 59.720 37.500 7.72 0.00 0.00 3.85
3519 8962 3.657398 ATGCATGAGTCCTGATGGAAA 57.343 42.857 0.00 0.00 45.18 3.13
3648 9092 6.514947 TGTTTCACCTGGAGAAAATTCATTG 58.485 36.000 18.77 0.00 36.80 2.82
3674 9119 6.681777 AGTCAAAGATTGCTCATTTTGTACC 58.318 36.000 0.00 0.00 33.46 3.34
3892 9350 6.404074 GGTTGTGCTCTGAATATCCAAGAAAG 60.404 42.308 0.00 0.00 0.00 2.62
4012 9510 3.733443 ATGAACTCCTGCAAAACCAAC 57.267 42.857 0.00 0.00 0.00 3.77
4065 9563 5.894298 TTATATTCATGTGCCTCTGTCCT 57.106 39.130 0.00 0.00 0.00 3.85
4086 9584 4.437239 CTGCAGTGTATCCCAACTTCTAG 58.563 47.826 5.25 0.00 0.00 2.43
4148 9646 5.405797 TGTTTCAGATTCAGTCGAGATCAG 58.594 41.667 0.00 0.00 0.00 2.90
4222 9720 8.205512 GTCCCAAAAATTTGTTCCTTTAAGGTA 58.794 33.333 11.13 0.00 35.09 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
424 4985 7.727017 ACGTAAAAATCATCTACGAGTTTGAC 58.273 34.615 7.76 0.00 40.61 3.18
633 5357 1.314730 CATGCCCCCGTATAAACCAC 58.685 55.000 0.00 0.00 0.00 4.16
647 5371 1.003839 TCTCCGTCCAACACATGCC 60.004 57.895 0.00 0.00 0.00 4.40
648 5372 0.602638 TGTCTCCGTCCAACACATGC 60.603 55.000 0.00 0.00 0.00 4.06
755 5481 6.820656 TCCAAACTAAACTACACCGTTGTTTA 59.179 34.615 11.49 11.49 40.54 2.01
836 5564 4.797275 GCTTTATTTGGCAAGACAGCAACT 60.797 41.667 14.09 0.00 35.83 3.16
842 5570 2.603021 TGGGCTTTATTTGGCAAGACA 58.397 42.857 0.00 0.00 28.37 3.41
866 5619 4.379339 TTGTTTTCTGTTTGTGCTACCC 57.621 40.909 0.00 0.00 0.00 3.69
893 5646 2.743928 GCGTGCTGGGAAGAGGTG 60.744 66.667 0.00 0.00 0.00 4.00
895 5648 2.435586 CTGCGTGCTGGGAAGAGG 60.436 66.667 0.00 0.00 0.00 3.69
896 5649 3.123620 GCTGCGTGCTGGGAAGAG 61.124 66.667 0.89 0.00 38.95 2.85
897 5650 3.889134 CTGCTGCGTGCTGGGAAGA 62.889 63.158 0.00 0.00 43.37 2.87
898 5651 2.786539 TACTGCTGCGTGCTGGGAAG 62.787 60.000 11.68 0.39 43.66 3.46
899 5652 2.878089 TACTGCTGCGTGCTGGGAA 61.878 57.895 11.68 0.00 43.66 3.97
900 5653 3.310307 TACTGCTGCGTGCTGGGA 61.310 61.111 11.68 0.00 43.66 4.37
901 5654 3.121030 GTACTGCTGCGTGCTGGG 61.121 66.667 11.68 2.29 43.66 4.45
902 5655 2.357396 TGTACTGCTGCGTGCTGG 60.357 61.111 11.68 4.25 43.66 4.85
903 5656 1.349982 CTCTGTACTGCTGCGTGCTG 61.350 60.000 11.95 11.39 44.70 4.41
1035 6126 0.468226 TGCTATTTACTCCGGCCAGG 59.532 55.000 2.24 5.27 42.97 4.45
1036 6127 2.550830 ATGCTATTTACTCCGGCCAG 57.449 50.000 2.24 0.00 0.00 4.85
1037 6128 4.425180 TTTATGCTATTTACTCCGGCCA 57.575 40.909 2.24 0.00 0.00 5.36
1038 6129 4.820173 AGTTTTATGCTATTTACTCCGGCC 59.180 41.667 0.00 0.00 0.00 6.13
1039 6130 6.704937 AGTAGTTTTATGCTATTTACTCCGGC 59.295 38.462 0.00 0.00 0.00 6.13
1040 6131 9.189723 GTAGTAGTTTTATGCTATTTACTCCGG 57.810 37.037 0.00 0.00 0.00 5.14
1041 6132 9.962783 AGTAGTAGTTTTATGCTATTTACTCCG 57.037 33.333 0.00 0.00 0.00 4.63
1397 6537 3.752339 CGCCTCCTTTTGCCTGGC 61.752 66.667 12.87 12.87 40.14 4.85
1612 6921 1.003718 AGCGCTAAAAGAACGGGCT 60.004 52.632 8.99 0.00 41.33 5.19
1681 7004 4.334118 ACAGGAGCACATGCCGCA 62.334 61.111 10.09 0.00 43.38 5.69
1924 7264 7.863375 CGTTTTAAACCATTTTATGACAGGTCA 59.137 33.333 4.37 4.37 44.59 4.02
1948 7288 3.011119 TCAAAACACTTGTTGCTACCGT 58.989 40.909 0.00 0.00 38.44 4.83
1951 7291 6.944557 AAAACTCAAAACACTTGTTGCTAC 57.055 33.333 0.00 0.00 38.44 3.58
1981 7322 9.851837 GATAACTATCAATTGAGCGGTCGGCTA 62.852 44.444 14.54 0.00 41.40 3.93
2049 7392 6.768381 GCCAGGAGAGTAAATAGCATAAAACT 59.232 38.462 0.00 0.00 0.00 2.66
2052 7395 5.621193 GGCCAGGAGAGTAAATAGCATAAA 58.379 41.667 0.00 0.00 0.00 1.40
2053 7396 4.262463 CGGCCAGGAGAGTAAATAGCATAA 60.262 45.833 2.24 0.00 0.00 1.90
2054 7397 3.258372 CGGCCAGGAGAGTAAATAGCATA 59.742 47.826 2.24 0.00 0.00 3.14
2055 7398 2.037772 CGGCCAGGAGAGTAAATAGCAT 59.962 50.000 2.24 0.00 0.00 3.79
2056 7399 1.412710 CGGCCAGGAGAGTAAATAGCA 59.587 52.381 2.24 0.00 0.00 3.49
2057 7400 1.687123 TCGGCCAGGAGAGTAAATAGC 59.313 52.381 2.24 0.00 0.00 2.97
2058 7401 3.223435 TCTCGGCCAGGAGAGTAAATAG 58.777 50.000 2.24 0.00 38.12 1.73
2059 7402 3.308035 TCTCGGCCAGGAGAGTAAATA 57.692 47.619 2.24 0.00 38.12 1.40
2060 7403 2.160721 TCTCGGCCAGGAGAGTAAAT 57.839 50.000 2.24 0.00 38.12 1.40
2061 7404 1.757118 CATCTCGGCCAGGAGAGTAAA 59.243 52.381 14.65 0.00 45.59 2.01
2062 7405 1.342076 ACATCTCGGCCAGGAGAGTAA 60.342 52.381 14.65 0.00 45.59 2.24
2063 7406 0.259065 ACATCTCGGCCAGGAGAGTA 59.741 55.000 14.65 0.00 45.59 2.59
2064 7407 0.616111 AACATCTCGGCCAGGAGAGT 60.616 55.000 14.65 10.29 45.59 3.24
2065 7408 0.103937 GAACATCTCGGCCAGGAGAG 59.896 60.000 14.65 7.64 45.59 3.20
2066 7409 1.330655 GGAACATCTCGGCCAGGAGA 61.331 60.000 12.15 12.15 46.37 3.71
2124 7467 4.070552 GAAGGAGACGCAGGCGGT 62.071 66.667 18.63 4.49 44.69 5.68
2154 7497 2.490685 GAGGAAGGAGTCGTCGCC 59.509 66.667 0.00 0.00 31.82 5.54
2155 7498 2.490685 GGAGGAAGGAGTCGTCGC 59.509 66.667 0.00 0.00 41.25 5.19
2183 7526 1.663379 CTGATGGTACGTGGAGGCGA 61.663 60.000 0.00 0.00 35.59 5.54
2397 7749 3.056328 GAAGACCGGTGCAAGGGC 61.056 66.667 14.63 10.50 41.68 5.19
2415 7767 1.869574 CGCACACCGTGAGATCTCG 60.870 63.158 17.76 7.52 35.44 4.04
2462 7814 4.289101 TCGTCAGTCACCGGGGGA 62.289 66.667 2.42 0.00 0.00 4.81
2475 7837 2.278013 CGAAGCGGCTAGGTCGTC 60.278 66.667 13.00 1.27 31.29 4.20
2553 7923 2.604686 TGTTGCCTCCTCCTCGCT 60.605 61.111 0.00 0.00 0.00 4.93
2590 7969 0.405198 ATGTGCCACCAAGATCACCA 59.595 50.000 0.00 0.00 0.00 4.17
2645 8024 0.039256 CTTGCCATTGTCCCGTGTTG 60.039 55.000 0.00 0.00 0.00 3.33
2996 8394 2.775911 TTGTCTTCTCCATCTGCCAG 57.224 50.000 0.00 0.00 0.00 4.85
3045 8443 9.088512 CAAGTACCTCTGTGTTATATCTTTGAC 57.911 37.037 0.00 0.00 0.00 3.18
3054 8452 7.597743 CGTTAAGAACAAGTACCTCTGTGTTAT 59.402 37.037 0.00 0.00 34.44 1.89
3111 8533 7.775120 ACATCCATTGAGAAATATCCAACAAC 58.225 34.615 0.00 0.00 0.00 3.32
3188 8610 7.225538 GGGAAGTTGATATATGAATATGCCTCG 59.774 40.741 0.00 0.00 0.00 4.63
3350 8773 9.940166 AACAGGAAATTAAACAGTACTAAAACG 57.060 29.630 0.00 0.00 0.00 3.60
3519 8962 7.833285 AATAATGACCTGGTGTTTTTAGTGT 57.167 32.000 2.82 0.00 0.00 3.55
3565 9008 7.069085 CCTTCCACATTTATCTTGACCATCATT 59.931 37.037 0.00 0.00 0.00 2.57
3566 9009 6.548622 CCTTCCACATTTATCTTGACCATCAT 59.451 38.462 0.00 0.00 0.00 2.45
3586 9029 9.642343 AACTGGATATAAAGTTTTATCCCTTCC 57.358 33.333 21.51 10.13 42.12 3.46
3648 9092 7.327032 GGTACAAAATGAGCAATCTTTGACTTC 59.673 37.037 0.00 0.00 33.84 3.01
3674 9119 8.703604 TCCTTACATCTATCAAAAGAAGAACG 57.296 34.615 0.00 0.00 0.00 3.95
3802 9260 7.361286 GCAATAAATAAAATTTTCCGTTGCCCA 60.361 33.333 6.72 0.00 31.94 5.36
3892 9350 7.496920 TCAGTCAATCATCTCAACCAATATGAC 59.503 37.037 0.00 0.00 35.03 3.06
4047 9545 1.681166 GCAGGACAGAGGCACATGAAT 60.681 52.381 0.00 0.00 0.00 2.57
4065 9563 3.838317 ACTAGAAGTTGGGATACACTGCA 59.162 43.478 0.00 0.00 39.74 4.41
4086 9584 2.675348 GGTTCAGTGAGCTTAGCATCAC 59.325 50.000 20.83 20.83 44.97 3.06
4118 9616 4.143030 CGACTGAATCTGAAACATGTGACC 60.143 45.833 0.00 0.00 0.00 4.02
4148 9646 3.933332 GACGGGGCAGAATAGCATAATAC 59.067 47.826 0.00 0.00 35.83 1.89


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

AutoCloner maintained by Alex Coulton.