Multiple sequence alignment - TraesCS7A01G461900

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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 TraesCS7A01G461900 chr7A 100.000 5432 0 0 1 5432 658138445 658133014 0.000000e+00 10032.0
1 TraesCS7A01G461900 chr7A 97.265 3985 99 7 1455 5432 576958287 576962268 0.000000e+00 6746.0
2 TraesCS7A01G461900 chr7A 98.805 1423 16 1 1 1423 576956872 576958293 0.000000e+00 2532.0
3 TraesCS7A01G461900 chr7A 93.559 1211 76 2 3670 4879 279058886 279060095 0.000000e+00 1803.0
4 TraesCS7A01G461900 chr7A 89.078 705 64 6 1075 1772 60439379 60440077 0.000000e+00 863.0
5 TraesCS7A01G461900 chr7A 96.484 256 9 0 5175 5430 213847656 213847911 1.810000e-114 424.0
6 TraesCS7A01G461900 chr7A 95.146 206 10 0 4977 5182 700523339 700523134 5.250000e-85 326.0
7 TraesCS7A01G461900 chr5D 95.707 2050 74 3 1 2037 489101800 489099752 0.000000e+00 3286.0
8 TraesCS7A01G461900 chr5D 92.677 874 41 10 2801 3671 489099759 489098906 0.000000e+00 1238.0
9 TraesCS7A01G461900 chr5D 84.516 155 21 2 3520 3671 395830365 395830211 3.390000e-32 150.0
10 TraesCS7A01G461900 chr3A 94.918 1830 85 6 1 1828 355265984 355264161 0.000000e+00 2857.0
11 TraesCS7A01G461900 chr3A 94.921 1654 75 7 1 1650 54460238 54458590 0.000000e+00 2580.0
12 TraesCS7A01G461900 chr3A 94.246 782 26 10 2034 2801 749182948 749183724 0.000000e+00 1177.0
13 TraesCS7A01G461900 chr3A 88.889 711 66 7 1075 1778 297589556 297588852 0.000000e+00 863.0
14 TraesCS7A01G461900 chr3A 93.578 545 32 2 2801 3344 54451136 54450594 0.000000e+00 809.0
15 TraesCS7A01G461900 chr3A 93.578 545 31 3 2801 3344 355264003 355263462 0.000000e+00 809.0
16 TraesCS7A01G461900 chr3A 79.011 748 120 25 2041 2772 668552267 668552993 1.370000e-130 477.0
17 TraesCS7A01G461900 chr3A 94.313 211 10 2 4973 5182 421435983 421435774 6.790000e-84 322.0
18 TraesCS7A01G461900 chr3A 95.522 201 9 0 4980 5180 481318470 481318270 6.790000e-84 322.0
19 TraesCS7A01G461900 chr3A 91.163 215 15 3 3294 3505 54450599 54450386 6.880000e-74 289.0
20 TraesCS7A01G461900 chr3A 90.698 215 16 4 3294 3505 355263467 355263254 3.200000e-72 283.0
21 TraesCS7A01G461900 chr3A 97.351 151 3 1 1887 2037 355264145 355263996 6.980000e-64 255.0
22 TraesCS7A01G461900 chr3A 92.715 151 2 2 1887 2037 54451270 54451129 5.510000e-50 209.0
23 TraesCS7A01G461900 chr3A 97.959 98 2 0 4885 4982 555453432 555453529 2.600000e-38 171.0
24 TraesCS7A01G461900 chr7D 97.299 1296 33 2 743 2037 561194907 561196201 0.000000e+00 2198.0
25 TraesCS7A01G461900 chr7D 92.000 875 38 9 2801 3670 561196194 561197041 0.000000e+00 1199.0
26 TraesCS7A01G461900 chr7D 94.220 744 19 2 1 743 561192934 561193654 0.000000e+00 1114.0
27 TraesCS7A01G461900 chr7D 81.395 129 21 3 3264 3390 158952924 158953051 9.630000e-18 102.0
28 TraesCS7A01G461900 chr4A 94.572 1216 60 4 3670 4884 168457325 168458535 0.000000e+00 1875.0
29 TraesCS7A01G461900 chr4A 96.875 256 8 0 5175 5430 201334810 201334555 3.890000e-116 429.0
30 TraesCS7A01G461900 chr4A 91.156 294 23 3 5140 5432 544812347 544812056 3.940000e-106 396.0
31 TraesCS7A01G461900 chr6A 94.408 1216 61 4 3670 4884 336740651 336739442 0.000000e+00 1862.0
32 TraesCS7A01G461900 chr6A 94.248 1217 65 4 3669 4884 323434668 323435880 0.000000e+00 1855.0
33 TraesCS7A01G461900 chr6A 89.045 712 64 6 1075 1778 516896958 516896253 0.000000e+00 870.0
34 TraesCS7A01G461900 chr6A 89.030 711 65 6 1075 1778 555001435 555000731 0.000000e+00 869.0
35 TraesCS7A01G461900 chr6A 96.512 258 9 0 5175 5432 453955161 453954904 1.400000e-115 427.0
36 TraesCS7A01G461900 chr2A 93.339 1216 76 3 3670 4884 360373511 360374722 0.000000e+00 1792.0
37 TraesCS7A01G461900 chr2A 96.512 258 9 0 5175 5432 148190506 148190249 1.400000e-115 427.0
38 TraesCS7A01G461900 chr2A 97.475 198 4 1 4977 5174 2483702 2483898 2.420000e-88 337.0
39 TraesCS7A01G461900 chr2A 96.020 201 8 0 4974 5174 197262931 197263131 1.460000e-85 327.0
40 TraesCS7A01G461900 chr2A 96.020 201 8 0 4980 5180 643642759 643642959 1.460000e-85 327.0
41 TraesCS7A01G461900 chr2A 93.897 213 12 1 4973 5184 370702480 370702692 2.440000e-83 320.0
42 TraesCS7A01G461900 chr2D 93.394 1211 77 3 3670 4879 282385274 282384066 0.000000e+00 1790.0
43 TraesCS7A01G461900 chr2D 93.033 1220 82 3 3670 4889 15794175 15792959 0.000000e+00 1779.0
44 TraesCS7A01G461900 chr3D 93.186 1218 78 5 3670 4884 133782710 133783925 0.000000e+00 1784.0
45 TraesCS7A01G461900 chr3D 82.096 687 94 14 2038 2717 607551011 607551675 1.320000e-155 560.0
46 TraesCS7A01G461900 chr6B 97.313 1042 27 1 1 1042 480665597 480666637 0.000000e+00 1768.0
47 TraesCS7A01G461900 chr6B 83.863 787 62 39 2033 2797 64190256 64189513 0.000000e+00 689.0
48 TraesCS7A01G461900 chr6B 85.616 146 20 1 3520 3664 366783730 366783875 9.420000e-33 152.0
49 TraesCS7A01G461900 chr4B 92.410 975 67 5 1068 2037 272039326 272040298 0.000000e+00 1384.0
50 TraesCS7A01G461900 chr4B 88.673 874 78 10 2801 3670 272040291 272041147 0.000000e+00 1046.0
51 TraesCS7A01G461900 chr4B 91.678 769 37 9 248 1015 272038490 272039232 0.000000e+00 1040.0
52 TraesCS7A01G461900 chr4B 97.959 98 2 0 4885 4982 665701241 665701144 2.600000e-38 171.0
53 TraesCS7A01G461900 chr4B 96.040 101 4 0 4882 4982 121693375 121693275 1.210000e-36 165.0
54 TraesCS7A01G461900 chr4B 97.917 48 0 1 1020 1067 272039277 272039231 1.250000e-11 82.4
55 TraesCS7A01G461900 chr2B 96.384 719 26 0 1 719 104798331 104797613 0.000000e+00 1184.0
56 TraesCS7A01G461900 chr2B 95.967 719 29 0 1 719 599848843 599848125 0.000000e+00 1168.0
57 TraesCS7A01G461900 chr2B 78.808 755 113 28 2044 2772 692172006 692171273 1.070000e-126 464.0
58 TraesCS7A01G461900 chr2B 87.372 293 25 10 2518 2800 681943866 681944156 5.250000e-85 326.0
59 TraesCS7A01G461900 chr5B 92.049 742 39 12 2076 2800 711991971 711991233 0.000000e+00 1026.0
60 TraesCS7A01G461900 chr5B 79.172 773 120 29 2044 2800 32130267 32129520 1.050000e-136 497.0
61 TraesCS7A01G461900 chr1B 97.441 547 13 1 560 1106 198557997 198558542 0.000000e+00 931.0
62 TraesCS7A01G461900 chr1B 96.161 521 20 0 1 521 198557478 198557998 0.000000e+00 852.0
63 TraesCS7A01G461900 chr3B 90.443 429 34 4 2039 2461 654083705 654084132 4.750000e-155 558.0
64 TraesCS7A01G461900 chr3B 91.831 355 16 8 2458 2801 654093626 654093978 2.940000e-132 483.0
65 TraesCS7A01G461900 chr3B 83.137 510 77 7 2161 2665 147659063 147658558 1.780000e-124 457.0
66 TraesCS7A01G461900 chr4D 81.805 687 90 15 2041 2715 150460938 150461601 1.330000e-150 544.0
67 TraesCS7A01G461900 chr5A 96.512 258 9 0 5175 5432 146876948 146877205 1.400000e-115 427.0
68 TraesCS7A01G461900 chr5A 96.512 258 9 0 5175 5432 477523908 477524165 1.400000e-115 427.0
69 TraesCS7A01G461900 chr5A 89.686 223 18 4 799 1018 513371118 513370898 4.140000e-71 279.0
70 TraesCS7A01G461900 chr1A 96.484 256 9 0 5175 5430 433921649 433921394 1.810000e-114 424.0
71 TraesCS7A01G461900 chr1A 92.694 219 14 2 4959 5176 20098285 20098502 1.140000e-81 315.0
72 TraesCS7A01G461900 chr1A 86.667 165 17 2 3520 3680 502509415 502509252 1.550000e-40 178.0
73 TraesCS7A01G461900 chrUn 96.939 98 3 0 4885 4982 196599771 196599674 1.210000e-36 165.0
74 TraesCS7A01G461900 chrUn 96.939 98 3 0 4885 4982 273809040 273808943 1.210000e-36 165.0
75 TraesCS7A01G461900 chrUn 82.812 128 21 1 3264 3390 250542765 250542638 4.450000e-21 113.0
76 TraesCS7A01G461900 chrUn 82.812 128 21 1 3264 3390 261956850 261956723 4.450000e-21 113.0
77 TraesCS7A01G461900 chr7B 96.078 102 3 1 4882 4982 372816386 372816487 1.210000e-36 165.0
78 TraesCS7A01G461900 chr6D 96.939 98 3 0 4885 4982 262989991 262989894 1.210000e-36 165.0
79 TraesCS7A01G461900 chr6D 96.939 98 3 0 4885 4982 276544719 276544622 1.210000e-36 165.0


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 TraesCS7A01G461900 chr7A 658133014 658138445 5431 True 10032.000000 10032 100.000000 1 5432 1 chr7A.!!$R1 5431
1 TraesCS7A01G461900 chr7A 576956872 576962268 5396 False 4639.000000 6746 98.035000 1 5432 2 chr7A.!!$F4 5431
2 TraesCS7A01G461900 chr7A 279058886 279060095 1209 False 1803.000000 1803 93.559000 3670 4879 1 chr7A.!!$F3 1209
3 TraesCS7A01G461900 chr7A 60439379 60440077 698 False 863.000000 863 89.078000 1075 1772 1 chr7A.!!$F1 697
4 TraesCS7A01G461900 chr5D 489098906 489101800 2894 True 2262.000000 3286 94.192000 1 3671 2 chr5D.!!$R2 3670
5 TraesCS7A01G461900 chr3A 54458590 54460238 1648 True 2580.000000 2580 94.921000 1 1650 1 chr3A.!!$R1 1649
6 TraesCS7A01G461900 chr3A 749182948 749183724 776 False 1177.000000 1177 94.246000 2034 2801 1 chr3A.!!$F3 767
7 TraesCS7A01G461900 chr3A 355263254 355265984 2730 True 1051.000000 2857 94.136250 1 3505 4 chr3A.!!$R6 3504
8 TraesCS7A01G461900 chr3A 297588852 297589556 704 True 863.000000 863 88.889000 1075 1778 1 chr3A.!!$R2 703
9 TraesCS7A01G461900 chr3A 668552267 668552993 726 False 477.000000 477 79.011000 2041 2772 1 chr3A.!!$F2 731
10 TraesCS7A01G461900 chr3A 54450386 54451270 884 True 435.666667 809 92.485333 1887 3505 3 chr3A.!!$R5 1618
11 TraesCS7A01G461900 chr7D 561192934 561197041 4107 False 1503.666667 2198 94.506333 1 3670 3 chr7D.!!$F2 3669
12 TraesCS7A01G461900 chr4A 168457325 168458535 1210 False 1875.000000 1875 94.572000 3670 4884 1 chr4A.!!$F1 1214
13 TraesCS7A01G461900 chr6A 336739442 336740651 1209 True 1862.000000 1862 94.408000 3670 4884 1 chr6A.!!$R1 1214
14 TraesCS7A01G461900 chr6A 323434668 323435880 1212 False 1855.000000 1855 94.248000 3669 4884 1 chr6A.!!$F1 1215
15 TraesCS7A01G461900 chr6A 516896253 516896958 705 True 870.000000 870 89.045000 1075 1778 1 chr6A.!!$R3 703
16 TraesCS7A01G461900 chr6A 555000731 555001435 704 True 869.000000 869 89.030000 1075 1778 1 chr6A.!!$R4 703
17 TraesCS7A01G461900 chr2A 360373511 360374722 1211 False 1792.000000 1792 93.339000 3670 4884 1 chr2A.!!$F3 1214
18 TraesCS7A01G461900 chr2D 282384066 282385274 1208 True 1790.000000 1790 93.394000 3670 4879 1 chr2D.!!$R2 1209
19 TraesCS7A01G461900 chr2D 15792959 15794175 1216 True 1779.000000 1779 93.033000 3670 4889 1 chr2D.!!$R1 1219
20 TraesCS7A01G461900 chr3D 133782710 133783925 1215 False 1784.000000 1784 93.186000 3670 4884 1 chr3D.!!$F1 1214
21 TraesCS7A01G461900 chr3D 607551011 607551675 664 False 560.000000 560 82.096000 2038 2717 1 chr3D.!!$F2 679
22 TraesCS7A01G461900 chr6B 480665597 480666637 1040 False 1768.000000 1768 97.313000 1 1042 1 chr6B.!!$F2 1041
23 TraesCS7A01G461900 chr6B 64189513 64190256 743 True 689.000000 689 83.863000 2033 2797 1 chr6B.!!$R1 764
24 TraesCS7A01G461900 chr4B 272038490 272041147 2657 False 1156.666667 1384 90.920333 248 3670 3 chr4B.!!$F1 3422
25 TraesCS7A01G461900 chr2B 104797613 104798331 718 True 1184.000000 1184 96.384000 1 719 1 chr2B.!!$R1 718
26 TraesCS7A01G461900 chr2B 599848125 599848843 718 True 1168.000000 1168 95.967000 1 719 1 chr2B.!!$R2 718
27 TraesCS7A01G461900 chr2B 692171273 692172006 733 True 464.000000 464 78.808000 2044 2772 1 chr2B.!!$R3 728
28 TraesCS7A01G461900 chr5B 711991233 711991971 738 True 1026.000000 1026 92.049000 2076 2800 1 chr5B.!!$R2 724
29 TraesCS7A01G461900 chr5B 32129520 32130267 747 True 497.000000 497 79.172000 2044 2800 1 chr5B.!!$R1 756
30 TraesCS7A01G461900 chr1B 198557478 198558542 1064 False 891.500000 931 96.801000 1 1106 2 chr1B.!!$F1 1105
31 TraesCS7A01G461900 chr3B 147658558 147659063 505 True 457.000000 457 83.137000 2161 2665 1 chr3B.!!$R1 504
32 TraesCS7A01G461900 chr4D 150460938 150461601 663 False 544.000000 544 81.805000 2041 2715 1 chr4D.!!$F1 674

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
281 283 2.554142 CAAAGGTCGAGCTATGCATCA 58.446 47.619 18.94 0.0 0.00 3.07 F
1278 2606 6.480981 TCAAGGAAGGTAGAAAACTTGTTACG 59.519 38.462 0.00 0.0 37.27 3.18 F
1878 3218 0.478072 ACACAGCATCCAGTTCCCAA 59.522 50.000 0.00 0.0 0.00 4.12 F
3077 4480 0.250793 ACCCGTGATAACGCCATCAA 59.749 50.000 0.00 0.0 36.71 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1798 3138 4.095632 GCTGCATAAAGAAAAGAGGAGGAC 59.904 45.833 0.0 0.0 0.00 3.85 R
2733 4133 2.224185 TGTCGTTGCTACTTCATGTGGT 60.224 45.455 0.0 0.0 0.00 4.16 R
3865 5380 1.065345 TCAAACCTTCAACCACGTCCA 60.065 47.619 0.0 0.0 0.00 4.02 R
4879 6396 0.037590 CCCCTTCAATCCCGTTGTCA 59.962 55.000 0.0 0.0 38.95 3.58 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
132 133 4.858850 TGAGATATTTGTTGGGCATCACT 58.141 39.130 0.00 0.00 0.00 3.41
281 283 2.554142 CAAAGGTCGAGCTATGCATCA 58.446 47.619 18.94 0.00 0.00 3.07
1278 2606 6.480981 TCAAGGAAGGTAGAAAACTTGTTACG 59.519 38.462 0.00 0.00 37.27 3.18
1582 2918 7.235399 ACCTCAAAAATAAGGTCATGGTGAATT 59.765 33.333 0.00 0.00 42.28 2.17
1878 3218 0.478072 ACACAGCATCCAGTTCCCAA 59.522 50.000 0.00 0.00 0.00 4.12
2158 3508 7.554118 AGCCATGCAATGTATGGTATAGTATTC 59.446 37.037 26.80 10.48 44.81 1.75
2245 3597 2.914695 AGTTGTGCCCGTAAACTACA 57.085 45.000 0.00 0.00 32.48 2.74
2365 3737 6.626302 TCTAATTTTTATGGCAAAGTTCGGG 58.374 36.000 0.00 0.00 0.00 5.14
2733 4133 2.910319 AGAAGTACCATACAGGGCACAA 59.090 45.455 0.00 0.00 43.89 3.33
3077 4480 0.250793 ACCCGTGATAACGCCATCAA 59.749 50.000 0.00 0.00 36.71 2.57
3079 4482 1.946768 CCCGTGATAACGCCATCAAAT 59.053 47.619 0.00 0.00 36.71 2.32
3080 4483 2.357637 CCCGTGATAACGCCATCAAATT 59.642 45.455 0.00 0.00 36.71 1.82
3567 5067 9.547753 AAAGCGACAATACTGTAATCTCATTAT 57.452 29.630 0.00 0.00 35.30 1.28
3570 5070 7.201359 GCGACAATACTGTAATCTCATTATCGG 60.201 40.741 2.77 0.00 35.30 4.18
3591 5105 6.210796 TCGGTGTTTATCGGAACTACATATG 58.789 40.000 0.00 0.00 0.00 1.78
3598 5112 8.918658 GTTTATCGGAACTACATATGCGAAATA 58.081 33.333 1.58 0.00 42.55 1.40
3865 5380 0.035056 CGGCCTTGAAGGTTGGATCT 60.035 55.000 13.58 0.00 37.80 2.75
3870 5385 2.350522 CTTGAAGGTTGGATCTGGACG 58.649 52.381 0.00 0.00 0.00 4.79
3996 5511 6.712276 CCCTTTATAAAGAGGGCGAATATCT 58.288 40.000 23.95 0.00 45.72 1.98
4177 5693 1.339342 GCAATGGCAAGCAGGGAAAAT 60.339 47.619 10.00 0.00 40.72 1.82
4198 5715 1.217882 GTTCGTAATGATCGGGCCAG 58.782 55.000 4.39 0.00 0.00 4.85
4412 5929 2.158682 TGAAGCTTGGTTCAGGTGCTAA 60.159 45.455 2.10 0.00 32.54 3.09
4628 6145 3.899360 CCCTCCGGTGTCTATATAAACCA 59.101 47.826 0.00 0.00 32.69 3.67
4682 6199 5.480073 CAGAATCATAGGCTAGCTTCTAGGT 59.520 44.000 15.72 0.00 0.00 3.08
4773 6290 3.504375 ACGTAGGGTATTACCTCCATCC 58.496 50.000 12.54 0.00 42.09 3.51
4828 6345 1.972660 GCCTCCTGTTACCATCCGCT 61.973 60.000 0.00 0.00 0.00 5.52
4879 6396 0.953960 GATCCGCCGGTTTTGACACT 60.954 55.000 1.63 0.00 0.00 3.55
4944 6461 6.979465 TGGTTGGGTTTTACCTTAATAAACG 58.021 36.000 0.00 0.00 38.64 3.60
4956 6473 9.703892 TTACCTTAATAAACGTTAGTAGTTGCA 57.296 29.630 0.00 0.00 31.43 4.08
5085 6602 8.503196 CGGACATTTAATCAATTAATCGGATGA 58.497 33.333 9.97 0.00 32.78 2.92
5177 6694 4.082026 GGATGAATTCTTGAACAGGGGTTG 60.082 45.833 7.05 0.00 37.36 3.77
5207 6724 7.496920 TCATAAGTGCATAGAATTCCAAGTCAG 59.503 37.037 0.65 0.00 0.00 3.51
5247 6764 3.181423 TGGCCTCTCCCACATAAAACTTT 60.181 43.478 3.32 0.00 0.00 2.66
5313 6830 2.414612 ACTCCTACCACCACTTTTCCA 58.585 47.619 0.00 0.00 0.00 3.53
5401 6918 8.811994 GCTCTTTATATCCTCTCAAACCTATCT 58.188 37.037 0.00 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
132 133 0.823356 GCCTTTGCTGGTGTTCCTCA 60.823 55.000 0.00 0.00 34.23 3.86
281 283 0.251354 AGTTGACTCAGATGGCGCAT 59.749 50.000 10.83 0.00 0.00 4.73
674 678 1.698506 ACCAAAAGGCGGTTCAATCA 58.301 45.000 0.00 0.00 30.53 2.57
1278 2606 6.034161 TGAAGCTACTGAACCTTACCTTAC 57.966 41.667 0.00 0.00 0.00 2.34
1602 2938 6.045695 ACAGAAGGAGCATACTATCTAGGGTA 59.954 42.308 0.00 0.00 0.00 3.69
1797 3137 5.241403 TGCATAAAGAAAAGAGGAGGACA 57.759 39.130 0.00 0.00 0.00 4.02
1798 3138 4.095632 GCTGCATAAAGAAAAGAGGAGGAC 59.904 45.833 0.00 0.00 0.00 3.85
1959 3301 7.178274 TGGCTAAAATCCATTTTCTAGAGCAAA 59.822 33.333 14.70 0.00 38.45 3.68
1960 3302 6.663093 TGGCTAAAATCCATTTTCTAGAGCAA 59.337 34.615 14.70 5.43 38.45 3.91
2303 3672 3.257469 TGATTTTTGCTTTGTGGTGCA 57.743 38.095 0.00 0.00 37.42 4.57
2365 3737 5.983118 CCAAAGAACTTTGTTAACATGGTCC 59.017 40.000 20.78 6.58 46.19 4.46
2733 4133 2.224185 TGTCGTTGCTACTTCATGTGGT 60.224 45.455 0.00 0.00 0.00 4.16
3127 4532 5.545063 TGATCTCTGTAGTGTTGAACCAA 57.455 39.130 0.00 0.00 0.00 3.67
3425 4924 1.463056 CTCGAGCGCAAACATTAACCA 59.537 47.619 11.47 0.00 0.00 3.67
3567 5067 4.724074 ATGTAGTTCCGATAAACACCGA 57.276 40.909 0.00 0.00 0.00 4.69
3570 5070 5.688621 TCGCATATGTAGTTCCGATAAACAC 59.311 40.000 4.29 0.00 0.00 3.32
3651 5166 3.241067 TGACTAGTACAAATGCCCGTC 57.759 47.619 0.00 0.00 0.00 4.79
3865 5380 1.065345 TCAAACCTTCAACCACGTCCA 60.065 47.619 0.00 0.00 0.00 4.02
3870 5385 2.427095 AGTGCTTCAAACCTTCAACCAC 59.573 45.455 0.00 0.00 0.00 4.16
4177 5693 0.179067 GGCCCGATCATTACGAACCA 60.179 55.000 0.00 0.00 0.00 3.67
4198 5715 2.412870 TCACAACATGACATCACGACC 58.587 47.619 0.00 0.00 29.99 4.79
4397 5914 2.290896 CCCTCATTAGCACCTGAACCAA 60.291 50.000 0.00 0.00 0.00 3.67
4628 6145 3.684408 ATCCTACGGACTAAACCCTCT 57.316 47.619 0.00 0.00 32.98 3.69
4648 6165 7.442364 GCTAGCCTATGATTCTGATTGTTGTTA 59.558 37.037 2.29 0.00 0.00 2.41
4660 6177 5.993748 ACCTAGAAGCTAGCCTATGATTC 57.006 43.478 12.13 7.57 0.00 2.52
4773 6290 4.101448 CCAGGTTCGGGCCCTCTG 62.101 72.222 22.43 19.97 0.00 3.35
4828 6345 0.675083 TCCCGAACTGTGCGTCTAAA 59.325 50.000 7.51 0.00 0.00 1.85
4879 6396 0.037590 CCCCTTCAATCCCGTTGTCA 59.962 55.000 0.00 0.00 38.95 3.58
4910 6427 5.889289 GGTAAAACCCAACCATAGCATTAGA 59.111 40.000 0.00 0.00 35.73 2.10
4944 6461 3.686726 AGCAAGCATCTGCAACTACTAAC 59.313 43.478 4.79 0.00 45.18 2.34
4956 6473 6.359804 TGATTGGAACTATTAGCAAGCATCT 58.640 36.000 0.00 0.00 0.00 2.90
5085 6602 4.269363 CGAGTAGCCGATAAACCGAAAAAT 59.731 41.667 0.00 0.00 0.00 1.82
5134 6651 7.391620 TCATCCGATTAACCAGTTAACTTTCT 58.608 34.615 5.07 0.00 37.80 2.52
5136 6653 7.989416 TTCATCCGATTAACCAGTTAACTTT 57.011 32.000 5.07 1.35 37.80 2.66
5177 6694 6.973843 TGGAATTCTATGCACTTATGATTGC 58.026 36.000 5.23 0.00 39.33 3.56
5207 6724 1.590932 CACTGCTAGCATGTCATCCC 58.409 55.000 19.72 0.00 0.00 3.85
5247 6764 6.149129 TGACTACGTTACTAGACCGATAGA 57.851 41.667 0.00 0.00 39.76 1.98
5313 6830 7.490000 AGCAATAAAGTTAGTATAGCGAGTGT 58.510 34.615 0.00 0.00 0.00 3.55
5372 6889 6.156949 AGGTTTGAGAGGATATAAAGAGCACA 59.843 38.462 0.00 0.00 0.00 4.57
5386 6903 3.444034 TGTGACGAGATAGGTTTGAGAGG 59.556 47.826 0.00 0.00 0.00 3.69
5401 6918 4.581824 AGAAGTACTTTGTAGGTGTGACGA 59.418 41.667 10.02 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.