Multiple sequence alignment - TraesCS3D01G400700

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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 TraesCS3D01G400700 chr3D 100.000 4797 0 0 1 4797 515680808 515676012 0.000000e+00 8859.0
1 TraesCS3D01G400700 chr3D 86.006 636 60 16 1378 1990 22919590 22920219 0.000000e+00 654.0
2 TraesCS3D01G400700 chr3D 90.476 189 18 0 1111 1299 22919374 22919562 2.870000e-62 250.0
3 TraesCS3D01G400700 chr3D 97.297 37 1 0 3458 3494 515677314 515677278 4.010000e-06 63.9
4 TraesCS3D01G400700 chr3D 97.297 37 1 0 3495 3531 515677351 515677315 4.010000e-06 63.9
5 TraesCS3D01G400700 chr3A 95.399 2608 83 12 871 3456 649942930 649940338 0.000000e+00 4117.0
6 TraesCS3D01G400700 chr3A 86.364 880 57 34 3946 4797 649939778 649938934 0.000000e+00 902.0
7 TraesCS3D01G400700 chr3A 82.022 267 22 8 3623 3887 649940282 649940040 2.260000e-48 204.0
8 TraesCS3D01G400700 chr3B 90.038 2399 145 42 2447 4797 678173253 678170901 0.000000e+00 3020.0
9 TraesCS3D01G400700 chr3B 91.796 1414 88 12 871 2278 678175792 678174401 0.000000e+00 1943.0
10 TraesCS3D01G400700 chr3B 96.117 103 4 0 4695 4797 23382152 23382254 8.260000e-38 169.0
11 TraesCS3D01G400700 chr3B 92.391 92 7 0 3537 3628 749148527 749148618 1.080000e-26 132.0
12 TraesCS3D01G400700 chr3B 100.000 44 0 0 828 871 678176106 678176063 1.110000e-11 82.4
13 TraesCS3D01G400700 chr3B 100.000 37 0 0 3495 3531 678172249 678172213 8.610000e-08 69.4
14 TraesCS3D01G400700 chr3B 97.297 37 1 0 3458 3494 678172212 678172176 4.010000e-06 63.9
15 TraesCS3D01G400700 chr6D 97.954 782 16 0 39 820 266413754 266414535 0.000000e+00 1356.0
16 TraesCS3D01G400700 chr6D 97.579 661 15 1 1 660 266413098 266413758 0.000000e+00 1131.0
17 TraesCS3D01G400700 chr6D 86.740 181 11 6 1812 1990 472404656 472404825 6.340000e-44 189.0
18 TraesCS3D01G400700 chr6B 91.397 802 69 0 1 802 665742759 665741958 0.000000e+00 1099.0
19 TraesCS3D01G400700 chr6B 85.888 822 107 7 1 819 262421873 262421058 0.000000e+00 867.0
20 TraesCS3D01G400700 chr1B 90.268 822 63 7 1 819 624050928 624050121 0.000000e+00 1059.0
21 TraesCS3D01G400700 chr7B 85.888 822 107 7 1 819 92920372 92919557 0.000000e+00 867.0
22 TraesCS3D01G400700 chr2B 85.679 817 109 8 4 817 399946127 399945316 0.000000e+00 854.0
23 TraesCS3D01G400700 chr5B 85.452 818 114 5 4 819 670784654 670783840 0.000000e+00 846.0
24 TraesCS3D01G400700 chr2D 84.300 586 81 10 1 581 75738398 75738977 3.240000e-156 562.0
25 TraesCS3D01G400700 chr7D 76.534 831 167 25 1 819 478184292 478183478 3.430000e-116 429.0
26 TraesCS3D01G400700 chr7D 87.500 192 22 2 1110 1300 22382042 22382232 2.250000e-53 220.0
27 TraesCS3D01G400700 chr1A 89.552 268 24 4 1726 1990 2825227 2825493 2.140000e-88 337.0
28 TraesCS3D01G400700 chr1A 90.058 171 17 0 1129 1299 236713653 236713483 6.250000e-54 222.0
29 TraesCS3D01G400700 chr4D 86.923 130 15 2 1110 1238 306378727 306378855 1.390000e-30 145.0
30 TraesCS3D01G400700 chr4D 94.318 88 5 0 3541 3628 497036287 497036374 8.370000e-28 135.0
31 TraesCS3D01G400700 chr2A 95.506 89 4 0 3541 3629 572446254 572446342 5.000000e-30 143.0
32 TraesCS3D01G400700 chr1D 95.402 87 4 0 3541 3627 115990007 115989921 6.470000e-29 139.0
33 TraesCS3D01G400700 chr5D 94.253 87 5 0 3540 3626 82181490 82181576 3.010000e-27 134.0
34 TraesCS3D01G400700 chr5D 94.253 87 5 0 3541 3627 104973015 104972929 3.010000e-27 134.0
35 TraesCS3D01G400700 chr5D 90.141 71 3 3 1169 1238 483519243 483519310 6.610000e-14 89.8
36 TraesCS3D01G400700 chr4A 93.333 90 5 1 3540 3629 427133142 427133054 1.080000e-26 132.0
37 TraesCS3D01G400700 chr5A 91.579 95 6 2 3541 3634 40096850 40096757 3.900000e-26 130.0
38 TraesCS3D01G400700 chr4B 88.571 70 6 1 1169 1238 525543749 525543682 3.080000e-12 84.2


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 TraesCS3D01G400700 chr3D 515676012 515680808 4796 True 2995.60 8859 98.198000 1 4797 3 chr3D.!!$R1 4796
1 TraesCS3D01G400700 chr3D 22919374 22920219 845 False 452.00 654 88.241000 1111 1990 2 chr3D.!!$F1 879
2 TraesCS3D01G400700 chr3A 649938934 649942930 3996 True 1741.00 4117 87.928333 871 4797 3 chr3A.!!$R1 3926
3 TraesCS3D01G400700 chr3B 678170901 678176106 5205 True 1035.74 3020 95.826200 828 4797 5 chr3B.!!$R1 3969
4 TraesCS3D01G400700 chr6D 266413098 266414535 1437 False 1243.50 1356 97.766500 1 820 2 chr6D.!!$F2 819
5 TraesCS3D01G400700 chr6B 665741958 665742759 801 True 1099.00 1099 91.397000 1 802 1 chr6B.!!$R2 801
6 TraesCS3D01G400700 chr6B 262421058 262421873 815 True 867.00 867 85.888000 1 819 1 chr6B.!!$R1 818
7 TraesCS3D01G400700 chr1B 624050121 624050928 807 True 1059.00 1059 90.268000 1 819 1 chr1B.!!$R1 818
8 TraesCS3D01G400700 chr7B 92919557 92920372 815 True 867.00 867 85.888000 1 819 1 chr7B.!!$R1 818
9 TraesCS3D01G400700 chr2B 399945316 399946127 811 True 854.00 854 85.679000 4 817 1 chr2B.!!$R1 813
10 TraesCS3D01G400700 chr5B 670783840 670784654 814 True 846.00 846 85.452000 4 819 1 chr5B.!!$R1 815
11 TraesCS3D01G400700 chr2D 75738398 75738977 579 False 562.00 562 84.300000 1 581 1 chr2D.!!$F1 580
12 TraesCS3D01G400700 chr7D 478183478 478184292 814 True 429.00 429 76.534000 1 819 1 chr7D.!!$R1 818

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
825 1454 0.036306 AAACCTAGGGGAAGCACACG 59.964 55.000 14.81 0.0 36.25 4.49 F
953 1855 0.251653 ACTAGCCTCACTCCCGAACA 60.252 55.000 0.00 0.0 0.00 3.18 F
982 1884 1.098129 GCGATTTTGCCTCCTCCTCC 61.098 60.000 0.00 0.0 0.00 4.30 F
1589 2513 1.219393 GCCTCTGTAGTCTGTGCCC 59.781 63.158 0.00 0.0 0.00 5.36 F
1625 2549 1.987770 GCTGACCGAAATGTTGCATTG 59.012 47.619 0.00 0.0 0.00 2.82 F
3256 5193 2.287909 CGTAGGAGCATTCCAGCTAGAC 60.288 54.545 0.00 0.0 46.75 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1830 2754 0.392193 CTCCTTGCAGCTTCCGACAT 60.392 55.000 0.00 0.0 0.00 3.06 R
2364 3323 0.878416 GTTACATTCCAGTGCGGCAA 59.122 50.000 3.23 0.0 33.14 4.52 R
2612 4528 2.457598 CTCTGTAACTACTGCCCCAGA 58.542 52.381 0.00 0.0 35.18 3.86 R
3256 5193 1.897398 GCTTGGGCACTTACACGTCG 61.897 60.000 0.00 0.0 38.54 5.12 R
3365 5302 3.550437 AGGACATACAAGTCATCAGCC 57.450 47.619 0.00 0.0 40.29 4.85 R
4085 6245 0.382636 GCGCGGTACATATTCAACGC 60.383 55.000 8.83 5.8 43.15 4.84 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
731 1357 1.412710 GATAGGTTGATCTCACCGGCA 59.587 52.381 0.00 0.00 0.00 5.69
822 1451 2.711978 CCTAAACCTAGGGGAAGCAC 57.288 55.000 14.81 0.00 41.15 4.40
823 1452 1.913419 CCTAAACCTAGGGGAAGCACA 59.087 52.381 14.81 0.00 41.15 4.57
824 1453 2.355818 CCTAAACCTAGGGGAAGCACAC 60.356 54.545 14.81 0.00 41.15 3.82
825 1454 0.036306 AAACCTAGGGGAAGCACACG 59.964 55.000 14.81 0.00 36.25 4.49
826 1455 1.838073 AACCTAGGGGAAGCACACGG 61.838 60.000 14.81 0.00 36.25 4.94
902 1802 3.003173 TCGGCCCACAGAGGAAGG 61.003 66.667 0.00 0.00 41.22 3.46
953 1855 0.251653 ACTAGCCTCACTCCCGAACA 60.252 55.000 0.00 0.00 0.00 3.18
982 1884 1.098129 GCGATTTTGCCTCCTCCTCC 61.098 60.000 0.00 0.00 0.00 4.30
1028 1930 2.202570 CCGCCGTACAAGTCCGAG 60.203 66.667 0.00 0.00 0.00 4.63
1065 1968 2.754658 CTCCCCGTCCGTGCTAGT 60.755 66.667 0.00 0.00 0.00 2.57
1424 2327 3.414700 CTTGACGACCTGTGCGGC 61.415 66.667 0.00 0.00 37.28 6.53
1447 2350 2.766400 CCAGGAGGAGACGCTCGAC 61.766 68.421 0.00 0.00 36.89 4.20
1568 2478 1.339438 TGCAGAAGGTCAGGCTGAATC 60.339 52.381 20.62 17.08 0.00 2.52
1589 2513 1.219393 GCCTCTGTAGTCTGTGCCC 59.781 63.158 0.00 0.00 0.00 5.36
1605 2529 2.260869 CCCCGCAGTGGTTCAGTTG 61.261 63.158 0.00 0.00 35.15 3.16
1625 2549 1.987770 GCTGACCGAAATGTTGCATTG 59.012 47.619 0.00 0.00 0.00 2.82
1628 2552 3.637432 TGACCGAAATGTTGCATTGTTC 58.363 40.909 0.00 0.00 0.00 3.18
1679 2603 7.468141 TGTCTGTAGATTGAGAAGTACATGT 57.532 36.000 2.69 2.69 0.00 3.21
1809 2733 3.491447 GCTTGTTTTGTGGCTGAAGTGAT 60.491 43.478 0.00 0.00 0.00 3.06
1867 2791 3.975312 AGGAGATCATGGAGAAGCATCTT 59.025 43.478 0.00 0.00 35.54 2.40
2000 2926 9.760660 GCATGTTTCTTTGTCATACTTTACTAG 57.239 33.333 0.00 0.00 0.00 2.57
2044 2970 6.233905 TCAGCCATTACATAAGCTACTCAA 57.766 37.500 0.00 0.00 33.33 3.02
2167 3096 3.942829 TCAGGGCATAACTGACAAAGAG 58.057 45.455 0.00 0.00 39.87 2.85
2189 3125 3.306019 GGCACCTACAAGTTGATTTTGGG 60.306 47.826 10.54 0.74 0.00 4.12
2281 3217 9.342308 CATTTGGTGATATATAGTTCAGTTGGT 57.658 33.333 0.00 0.00 0.00 3.67
2353 3312 7.554835 TGGAGCAGTAAAAACAGTTTTCTAAGA 59.445 33.333 11.77 0.00 38.01 2.10
2454 3835 6.502136 AGCAGCTTATCTTGAAGGTTTTAC 57.498 37.500 0.00 0.00 34.99 2.01
2504 4420 5.625197 GCTTGAAATCCCTGTATGCAATGTT 60.625 40.000 0.00 0.00 0.00 2.71
2524 4440 9.811995 CAATGTTGATTTATTGGAATCATCACT 57.188 29.630 11.41 1.81 43.22 3.41
2537 4453 4.774660 ATCATCACTCTTGGCTTCATCT 57.225 40.909 0.00 0.00 0.00 2.90
2612 4528 3.457380 ACTGCACATCATGATAGGGAAGT 59.543 43.478 8.15 11.01 0.00 3.01
2899 4818 7.121168 CAGTAATAACCAACAACTGACATGGAT 59.879 37.037 0.00 0.00 39.93 3.41
2921 4840 5.939764 TGTTATGGAGCTGATTCAGTAGT 57.060 39.130 14.90 0.73 33.43 2.73
2922 4841 5.907207 TGTTATGGAGCTGATTCAGTAGTC 58.093 41.667 14.90 9.26 33.43 2.59
2923 4842 5.422012 TGTTATGGAGCTGATTCAGTAGTCA 59.578 40.000 14.90 8.94 33.43 3.41
2924 4843 4.669206 ATGGAGCTGATTCAGTAGTCAG 57.331 45.455 14.90 0.00 43.62 3.51
2925 4844 3.435275 TGGAGCTGATTCAGTAGTCAGT 58.565 45.455 14.90 0.00 42.91 3.41
2926 4845 4.600062 TGGAGCTGATTCAGTAGTCAGTA 58.400 43.478 14.90 0.00 42.91 2.74
2927 4846 4.399618 TGGAGCTGATTCAGTAGTCAGTAC 59.600 45.833 14.90 0.00 42.91 2.73
2928 4847 4.642885 GGAGCTGATTCAGTAGTCAGTACT 59.357 45.833 14.90 0.00 43.31 2.73
2989 4912 3.457610 ACTTTTCAACAAGTGCCATGG 57.542 42.857 7.63 7.63 35.57 3.66
3042 4965 6.070897 TGTCCAATGTTAACAACAGATGTG 57.929 37.500 13.23 2.80 45.95 3.21
3142 5079 8.575589 AGAAATGTGTTTGTAGCATGTAATCAA 58.424 29.630 0.00 0.00 0.00 2.57
3256 5193 2.287909 CGTAGGAGCATTCCAGCTAGAC 60.288 54.545 0.00 0.00 46.75 2.59
3365 5302 2.616510 GGAGGAAGTTGTGGATCTGGTG 60.617 54.545 0.00 0.00 0.00 4.17
3375 5312 0.835941 GGATCTGGTGGCTGATGACT 59.164 55.000 0.00 0.00 0.00 3.41
3448 5385 5.841957 ATTGACCTTATTTGATGTGAGCC 57.158 39.130 0.00 0.00 0.00 4.70
3449 5386 4.299586 TGACCTTATTTGATGTGAGCCA 57.700 40.909 0.00 0.00 0.00 4.75
3573 5510 5.699458 CGTCCCATAATATAGGAGCGTTTTT 59.301 40.000 0.00 0.00 0.00 1.94
3612 5549 8.126700 GTGTCAAAAACGGTCTTATATTATGGG 58.873 37.037 0.00 0.00 0.00 4.00
3674 5611 5.354792 ACTCTAGAACGACCAGTTATGAGAC 59.645 44.000 0.00 0.00 44.35 3.36
4044 6204 0.677288 AACGGTCGACAGGATGAACA 59.323 50.000 19.84 0.00 39.69 3.18
4085 6245 4.024048 AGCTGGTCGTGTACAAAAGAATTG 60.024 41.667 0.00 0.00 0.00 2.32
4104 6264 0.382636 GCGTTGAATATGTACCGCGC 60.383 55.000 0.00 0.00 36.97 6.86
4110 6270 3.462982 TGAATATGTACCGCGCTCAAAT 58.537 40.909 5.56 0.00 0.00 2.32
4111 6271 3.247411 TGAATATGTACCGCGCTCAAATG 59.753 43.478 5.56 0.00 0.00 2.32
4171 6338 2.281484 GCGAAGGGTGGCAACTCA 60.281 61.111 0.97 0.00 37.61 3.41
4173 6340 2.317609 CGAAGGGTGGCAACTCACG 61.318 63.158 0.97 1.83 38.90 4.35
4201 6368 0.241749 CAAGGCTCAAGCAATCGCAA 59.758 50.000 4.13 0.00 44.36 4.85
4262 6444 2.983592 CGTTTCCACTGGCACCCC 60.984 66.667 0.00 0.00 0.00 4.95
4266 6448 3.783362 TTCCACTGGCACCCCAACG 62.783 63.158 0.00 0.00 41.58 4.10
4347 6529 2.202690 TACAACGCGGCCATCTCG 60.203 61.111 12.47 2.53 0.00 4.04
4441 6623 1.676967 GACGAGTACACCCTCCCGT 60.677 63.158 0.00 0.00 0.00 5.28
4644 6826 1.687493 CTGGACCTCCCTCCTCACC 60.687 68.421 0.00 0.00 35.38 4.02
4688 6870 3.710722 CTCGGCCCTGCAGGTCTT 61.711 66.667 30.63 0.00 38.54 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
240 863 4.141018 AGGGGTTACTTTCAACATCAAGGT 60.141 41.667 0.00 0.00 0.00 3.50
820 1449 2.513666 AGTGTGTGTGGCCGTGTG 60.514 61.111 0.00 0.00 0.00 3.82
821 1450 2.203015 GAGTGTGTGTGGCCGTGT 60.203 61.111 0.00 0.00 0.00 4.49
822 1451 2.972505 GGAGTGTGTGTGGCCGTG 60.973 66.667 0.00 0.00 0.00 4.94
823 1452 3.161450 AGGAGTGTGTGTGGCCGT 61.161 61.111 0.00 0.00 0.00 5.68
824 1453 2.357517 GAGGAGTGTGTGTGGCCG 60.358 66.667 0.00 0.00 0.00 6.13
825 1454 0.179018 AAAGAGGAGTGTGTGTGGCC 60.179 55.000 0.00 0.00 0.00 5.36
826 1455 1.604278 GAAAAGAGGAGTGTGTGTGGC 59.396 52.381 0.00 0.00 0.00 5.01
953 1855 0.033366 GCAAAATCGCAGGGGTTTGT 59.967 50.000 0.00 0.00 34.24 2.83
1343 2246 0.739112 GAGGCAGTGAAGCGAGAAGG 60.739 60.000 0.00 0.00 34.64 3.46
1344 2247 0.246086 AGAGGCAGTGAAGCGAGAAG 59.754 55.000 0.00 0.00 34.64 2.85
1389 2292 6.073602 TCGTCAAGAATCAGAAACATTCAGTG 60.074 38.462 0.00 0.00 33.34 3.66
1424 2327 1.446272 GCGTCTCCTCCTGGTTTCG 60.446 63.158 0.00 0.00 34.23 3.46
1447 2350 1.469126 CGCCGTTATCCGTGAAGTCG 61.469 60.000 0.00 0.00 33.66 4.18
1572 2482 1.901085 GGGGCACAGACTACAGAGG 59.099 63.158 0.00 0.00 0.00 3.69
1589 2513 1.893808 AGCAACTGAACCACTGCGG 60.894 57.895 0.00 0.00 39.80 5.69
1605 2529 1.987770 CAATGCAACATTTCGGTCAGC 59.012 47.619 0.00 0.00 0.00 4.26
1625 2549 2.695359 TGAGGTCAGGTAATTGCGAAC 58.305 47.619 0.00 0.00 0.00 3.95
1628 2552 1.860950 CGATGAGGTCAGGTAATTGCG 59.139 52.381 0.00 0.00 0.00 4.85
1637 2561 1.082679 CAGCAGCACGATGAGGTCAG 61.083 60.000 0.00 0.00 30.38 3.51
1679 2603 0.617935 TCAGAATTGGCGATGTGGGA 59.382 50.000 0.00 0.00 0.00 4.37
1761 2685 2.370849 ACAACCACTAGACGGTCCAATT 59.629 45.455 4.14 0.00 34.99 2.32
1830 2754 0.392193 CTCCTTGCAGCTTCCGACAT 60.392 55.000 0.00 0.00 0.00 3.06
2000 2926 8.552034 GGCTGAATCTATAAACAACTGATGTAC 58.448 37.037 0.00 0.00 42.99 2.90
2019 2945 6.830912 TGAGTAGCTTATGTAATGGCTGAAT 58.169 36.000 0.00 0.00 37.32 2.57
2155 3084 2.438021 TGTAGGTGCCTCTTTGTCAGTT 59.562 45.455 0.00 0.00 0.00 3.16
2165 3094 4.321230 CCAAAATCAACTTGTAGGTGCCTC 60.321 45.833 0.00 0.00 31.59 4.70
2167 3096 3.306019 CCCAAAATCAACTTGTAGGTGCC 60.306 47.826 0.00 0.00 31.59 5.01
2364 3323 0.878416 GTTACATTCCAGTGCGGCAA 59.122 50.000 3.23 0.00 33.14 4.52
2454 3835 3.933332 GGTAGGAGACAAGAAACGAATGG 59.067 47.826 0.00 0.00 0.00 3.16
2504 4420 7.201848 GCCAAGAGTGATGATTCCAATAAATCA 60.202 37.037 2.13 2.13 46.60 2.57
2524 4440 9.733556 TTATTTAAGTACAAGATGAAGCCAAGA 57.266 29.630 0.00 0.00 0.00 3.02
2612 4528 2.457598 CTCTGTAACTACTGCCCCAGA 58.542 52.381 0.00 0.00 35.18 3.86
2899 4818 5.422012 TGACTACTGAATCAGCTCCATAACA 59.578 40.000 10.62 0.00 34.37 2.41
2925 4844 9.175312 GCTAATGCCTATATACAGTACTGAGTA 57.825 37.037 29.30 19.36 0.00 2.59
2926 4845 7.148222 CGCTAATGCCTATATACAGTACTGAGT 60.148 40.741 29.30 17.92 35.36 3.41
2927 4846 7.065923 TCGCTAATGCCTATATACAGTACTGAG 59.934 40.741 29.30 14.88 35.36 3.35
2928 4847 6.882678 TCGCTAATGCCTATATACAGTACTGA 59.117 38.462 29.30 13.09 35.36 3.41
3080 5003 6.090358 CAGCAAATCAGCAACAAAAAGGATAG 59.910 38.462 0.00 0.00 36.85 2.08
3081 5004 5.927689 CAGCAAATCAGCAACAAAAAGGATA 59.072 36.000 0.00 0.00 36.85 2.59
3082 5005 4.753107 CAGCAAATCAGCAACAAAAAGGAT 59.247 37.500 0.00 0.00 36.85 3.24
3256 5193 1.897398 GCTTGGGCACTTACACGTCG 61.897 60.000 0.00 0.00 38.54 5.12
3365 5302 3.550437 AGGACATACAAGTCATCAGCC 57.450 47.619 0.00 0.00 40.29 4.85
3422 5359 6.183360 GCTCACATCAAATAAGGTCAATTCGA 60.183 38.462 0.00 0.00 0.00 3.71
3448 5385 5.499139 TTGTCTTCTGTTTAAGCCTTGTG 57.501 39.130 0.00 0.00 0.00 3.33
3449 5386 5.067805 CCTTTGTCTTCTGTTTAAGCCTTGT 59.932 40.000 0.00 0.00 0.00 3.16
3489 5426 6.374578 GCACCTTTGTCTTCTGTTTAGAATC 58.625 40.000 0.00 0.00 41.83 2.52
3585 5522 7.849026 CCATAATATAAGACCGTTTTTGACACG 59.151 37.037 0.00 0.00 37.39 4.49
3586 5523 8.126700 CCCATAATATAAGACCGTTTTTGACAC 58.873 37.037 0.00 0.00 0.00 3.67
3590 5527 8.215926 TGTCCCATAATATAAGACCGTTTTTG 57.784 34.615 0.00 0.00 0.00 2.44
3612 5549 5.415221 CACTTCATTTCTACTCCCTCTGTC 58.585 45.833 0.00 0.00 0.00 3.51
3667 5604 8.768501 ACATACAAAGATAGTCCAGTCTCATA 57.231 34.615 0.00 0.00 0.00 2.15
3819 5756 5.129634 TGGTTGATGCTGAACTTAAGTTGA 58.870 37.500 25.17 16.19 38.56 3.18
3899 5836 5.895636 CCAACAAAGGCAGATACATGTTA 57.104 39.130 2.30 0.00 30.48 2.41
4044 6204 3.439476 CAGCTTTCTAAATCAGCAGCACT 59.561 43.478 0.00 0.00 35.88 4.40
4062 6222 2.902705 TCTTTTGTACACGACCAGCT 57.097 45.000 0.00 0.00 0.00 4.24
4085 6245 0.382636 GCGCGGTACATATTCAACGC 60.383 55.000 8.83 5.80 43.15 4.84
4104 6264 1.361668 CGGCGGGTCAGTCATTTGAG 61.362 60.000 0.00 0.00 0.00 3.02
4111 6271 4.778143 AATGGCGGCGGGTCAGTC 62.778 66.667 9.78 0.00 30.81 3.51
4150 6310 2.676121 TTGCCACCCTTCGCCATG 60.676 61.111 0.00 0.00 0.00 3.66
4162 6329 4.980805 GGCGTCCGTGAGTTGCCA 62.981 66.667 0.00 0.00 45.06 4.92
4201 6368 2.032550 GTCATGCGTGCTGCTTATGATT 59.967 45.455 0.00 0.00 46.63 2.57
4415 6597 2.669229 TGTACTCGTCGGCGTGGA 60.669 61.111 16.40 3.95 39.49 4.02
4625 6807 2.039624 TGAGGAGGGAGGTCCAGC 59.960 66.667 0.00 0.00 39.34 4.85
4682 6864 2.227089 GACCATGTCGCGGAAGACCT 62.227 60.000 6.13 0.00 40.26 3.85


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

AutoCloner maintained by Alex Coulton.