Multiple sequence alignment - TraesCS2D01G262000

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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 TraesCS2D01G262000 chr2D 100.000 5127 0 0 1 5127 318341286 318336160 0.000000e+00 9468.0
1 TraesCS2D01G262000 chr2D 78.067 1076 225 7 2848 3913 621559508 621558434 0.000000e+00 669.0
2 TraesCS2D01G262000 chr2B 95.463 3747 97 21 784 4487 386316696 386312980 0.000000e+00 5910.0
3 TraesCS2D01G262000 chr2B 93.849 569 25 5 4564 5127 386312800 386312237 0.000000e+00 848.0
4 TraesCS2D01G262000 chr2B 97.403 77 2 0 703 779 386316743 386316667 1.160000e-26 132.0
5 TraesCS2D01G262000 chr2B 75.362 138 30 2 4544 4681 351749073 351749206 4.290000e-06 63.9
6 TraesCS2D01G262000 chr2B 97.297 37 1 0 4484 4520 386312893 386312857 4.290000e-06 63.9
7 TraesCS2D01G262000 chr2A 95.779 2393 71 10 2640 5009 413323796 413326181 0.000000e+00 3832.0
8 TraesCS2D01G262000 chr2A 97.037 1755 46 4 895 2646 413321965 413323716 0.000000e+00 2948.0
9 TraesCS2D01G262000 chr2A 92.985 613 36 4 1179 1786 293051507 293052117 0.000000e+00 887.0
10 TraesCS2D01G262000 chr2A 78.715 249 49 4 4881 5127 138088527 138088281 4.110000e-36 163.0
11 TraesCS2D01G262000 chr7D 98.014 705 13 1 2 706 202025381 202024678 0.000000e+00 1223.0
12 TraesCS2D01G262000 chr7D 73.669 714 146 22 1 707 385698620 385699298 6.630000e-59 239.0
13 TraesCS2D01G262000 chr3D 97.737 707 12 4 1 706 12109988 12110691 0.000000e+00 1214.0
14 TraesCS2D01G262000 chr3B 92.948 709 48 2 1 709 671863791 671863085 0.000000e+00 1031.0
15 TraesCS2D01G262000 chr3B 91.817 611 45 2 1179 1786 503717514 503718122 0.000000e+00 846.0
16 TraesCS2D01G262000 chr3B 100.000 31 0 0 2104 2134 222813493 222813523 1.990000e-04 58.4
17 TraesCS2D01G262000 chr5B 92.786 707 48 3 1 707 688792654 688791951 0.000000e+00 1020.0
18 TraesCS2D01G262000 chr5D 94.272 611 28 4 1181 1787 84787593 84788200 0.000000e+00 928.0
19 TraesCS2D01G262000 chr5D 97.863 468 9 1 243 710 441114233 441113767 0.000000e+00 808.0
20 TraesCS2D01G262000 chr7B 92.635 611 40 2 1179 1786 454620944 454620336 0.000000e+00 874.0
21 TraesCS2D01G262000 chr7B 92.333 613 37 4 1179 1786 362412992 362412385 0.000000e+00 863.0
22 TraesCS2D01G262000 chr7B 95.016 321 16 0 17 337 649341228 649341548 5.920000e-139 505.0
23 TraesCS2D01G262000 chr7B 95.276 254 11 1 441 694 649345626 649345878 8.000000e-108 401.0
24 TraesCS2D01G262000 chr7B 97.590 83 2 0 282 364 649341549 649341631 5.350000e-30 143.0
25 TraesCS2D01G262000 chr1A 91.980 611 44 2 1179 1786 534668991 534668383 0.000000e+00 852.0
26 TraesCS2D01G262000 chr5A 91.667 612 45 3 1179 1786 37179472 37178863 0.000000e+00 843.0
27 TraesCS2D01G262000 chr5A 76.454 1049 217 23 2879 3908 622782251 622781214 4.520000e-150 542.0
28 TraesCS2D01G262000 chr6A 86.421 707 92 4 1 707 455488902 455488200 0.000000e+00 771.0
29 TraesCS2D01G262000 chr6A 100.000 33 0 0 2104 2136 591206595 591206563 1.540000e-05 62.1
30 TraesCS2D01G262000 chr3A 85.975 713 93 7 1 712 15423313 15424019 0.000000e+00 756.0
31 TraesCS2D01G262000 chr3A 78.226 248 51 3 4881 5127 523564721 523564966 6.870000e-34 156.0
32 TraesCS2D01G262000 chr3A 100.000 31 0 0 2104 2134 31846561 31846591 1.990000e-04 58.4
33 TraesCS2D01G262000 chr7A 78.313 249 50 4 4881 5127 26934843 26934597 1.910000e-34 158.0
34 TraesCS2D01G262000 chr1D 84.615 65 7 3 2072 2135 106843092 106843154 1.540000e-05 62.1
35 TraesCS2D01G262000 chrUn 94.595 37 2 0 2104 2140 32098223 32098259 1.990000e-04 58.4
36 TraesCS2D01G262000 chr4B 100.000 31 0 0 2104 2134 651511622 651511592 1.990000e-04 58.4
37 TraesCS2D01G262000 chr4A 100.000 31 0 0 2104 2134 75437819 75437849 1.990000e-04 58.4


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 TraesCS2D01G262000 chr2D 318336160 318341286 5126 True 9468.000000 9468 100.000000 1 5127 1 chr2D.!!$R1 5126
1 TraesCS2D01G262000 chr2D 621558434 621559508 1074 True 669.000000 669 78.067000 2848 3913 1 chr2D.!!$R2 1065
2 TraesCS2D01G262000 chr2B 386312237 386316743 4506 True 1738.475000 5910 96.003000 703 5127 4 chr2B.!!$R1 4424
3 TraesCS2D01G262000 chr2A 413321965 413326181 4216 False 3390.000000 3832 96.408000 895 5009 2 chr2A.!!$F2 4114
4 TraesCS2D01G262000 chr2A 293051507 293052117 610 False 887.000000 887 92.985000 1179 1786 1 chr2A.!!$F1 607
5 TraesCS2D01G262000 chr7D 202024678 202025381 703 True 1223.000000 1223 98.014000 2 706 1 chr7D.!!$R1 704
6 TraesCS2D01G262000 chr7D 385698620 385699298 678 False 239.000000 239 73.669000 1 707 1 chr7D.!!$F1 706
7 TraesCS2D01G262000 chr3D 12109988 12110691 703 False 1214.000000 1214 97.737000 1 706 1 chr3D.!!$F1 705
8 TraesCS2D01G262000 chr3B 671863085 671863791 706 True 1031.000000 1031 92.948000 1 709 1 chr3B.!!$R1 708
9 TraesCS2D01G262000 chr3B 503717514 503718122 608 False 846.000000 846 91.817000 1179 1786 1 chr3B.!!$F2 607
10 TraesCS2D01G262000 chr5B 688791951 688792654 703 True 1020.000000 1020 92.786000 1 707 1 chr5B.!!$R1 706
11 TraesCS2D01G262000 chr5D 84787593 84788200 607 False 928.000000 928 94.272000 1181 1787 1 chr5D.!!$F1 606
12 TraesCS2D01G262000 chr7B 454620336 454620944 608 True 874.000000 874 92.635000 1179 1786 1 chr7B.!!$R2 607
13 TraesCS2D01G262000 chr7B 362412385 362412992 607 True 863.000000 863 92.333000 1179 1786 1 chr7B.!!$R1 607
14 TraesCS2D01G262000 chr7B 649341228 649345878 4650 False 349.666667 505 95.960667 17 694 3 chr7B.!!$F1 677
15 TraesCS2D01G262000 chr1A 534668383 534668991 608 True 852.000000 852 91.980000 1179 1786 1 chr1A.!!$R1 607
16 TraesCS2D01G262000 chr5A 37178863 37179472 609 True 843.000000 843 91.667000 1179 1786 1 chr5A.!!$R1 607
17 TraesCS2D01G262000 chr5A 622781214 622782251 1037 True 542.000000 542 76.454000 2879 3908 1 chr5A.!!$R2 1029
18 TraesCS2D01G262000 chr6A 455488200 455488902 702 True 771.000000 771 86.421000 1 707 1 chr6A.!!$R1 706
19 TraesCS2D01G262000 chr3A 15423313 15424019 706 False 756.000000 756 85.975000 1 712 1 chr3A.!!$F1 711

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
575 578 0.450482 CCGCGCACAAGTTCGTTAAG 60.450 55.0 8.75 0.00 0.00 1.85 F
1344 1357 0.323178 ACTCCTACCACCACGTCGAT 60.323 55.0 0.00 0.00 0.00 3.59 F
2154 2197 0.327000 AAGGACAGCCTAGGCCTCAT 60.327 55.0 30.42 19.22 46.28 2.90 F
3531 3679 0.251341 AGCAACGAAGCCAGGGATTT 60.251 50.0 0.00 0.00 34.23 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2320 2364 0.398696 AACTGATGTGTTGGGCCGTA 59.601 50.0 0.0 0.0 0.0 4.02 R
3001 3140 0.318699 TCACCGTTGACAAGCTCTCG 60.319 55.0 0.0 0.0 0.0 4.04 R
3943 4091 0.871722 TTGTTTGATTGACCGCCTCG 59.128 50.0 0.0 0.0 0.0 4.63 R
5064 5875 0.250295 TGTGAGAAGCCCCGAAGTTG 60.250 55.0 0.0 0.0 0.0 3.16 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
429 432 1.490490 AGTTGGACAGTCAAGCCTTGA 59.510 47.619 2.24 2.24 37.33 3.02
575 578 0.450482 CCGCGCACAAGTTCGTTAAG 60.450 55.000 8.75 0.00 0.00 1.85
622 625 2.062636 AGGTTTGGTTAGAAGCTCCCA 58.937 47.619 0.00 0.00 29.47 4.37
665 668 7.608376 TGTAATTTCGGATGACATTCCAAACTA 59.392 33.333 0.00 0.00 35.34 2.24
697 700 4.649088 ATAAAGCGGCAGTATTTTTCCC 57.351 40.909 1.45 0.00 0.00 3.97
779 782 4.729868 AGGGACACTTTGTGCTAATCTTT 58.270 39.130 0.00 0.00 38.83 2.52
780 783 5.140454 AGGGACACTTTGTGCTAATCTTTT 58.860 37.500 0.00 0.00 38.83 2.27
781 784 5.598417 AGGGACACTTTGTGCTAATCTTTTT 59.402 36.000 0.00 0.00 38.83 1.94
804 807 2.285827 TTTTTGACGGGCACTTTGTG 57.714 45.000 0.00 0.00 36.51 3.33
820 823 7.468922 CACTTTGTGCTAATCTTGATCGATA 57.531 36.000 0.00 0.00 0.00 2.92
889 892 7.599998 GCATGTTGGACTTCTGTTTCATAAAAT 59.400 33.333 0.00 0.00 0.00 1.82
1021 1031 2.203582 ACCCCAAAACCCCGCTTC 60.204 61.111 0.00 0.00 0.00 3.86
1022 1032 2.117423 CCCCAAAACCCCGCTTCT 59.883 61.111 0.00 0.00 0.00 2.85
1023 1033 1.977009 CCCCAAAACCCCGCTTCTC 60.977 63.158 0.00 0.00 0.00 2.87
1344 1357 0.323178 ACTCCTACCACCACGTCGAT 60.323 55.000 0.00 0.00 0.00 3.59
1630 1643 3.372554 GACAGCGTAGGGTGGAGGC 62.373 68.421 17.94 2.25 45.82 4.70
1699 1712 6.351626 CGGAAGGAGGTACTTTTACAAGGTAT 60.352 42.308 0.00 0.00 41.55 2.73
1700 1713 7.147846 CGGAAGGAGGTACTTTTACAAGGTATA 60.148 40.741 0.00 0.00 41.55 1.47
1844 1862 5.178061 AGAGATTGATGTTCGTGTGCATAA 58.822 37.500 0.00 0.00 0.00 1.90
2084 2102 4.103469 TGCTTTAAACAAGTACTCCCTCCA 59.897 41.667 0.00 0.00 0.00 3.86
2087 2105 7.054751 GCTTTAAACAAGTACTCCCTCCATAT 58.945 38.462 0.00 0.00 0.00 1.78
2154 2197 0.327000 AAGGACAGCCTAGGCCTCAT 60.327 55.000 30.42 19.22 46.28 2.90
2320 2364 9.710900 GGGATGTATCAAAACTTTCAGAAAAAT 57.289 29.630 0.00 0.00 0.00 1.82
2416 2461 8.204836 ACACAATATAGAGTGGGATCAGTAAAC 58.795 37.037 0.00 0.00 39.99 2.01
2431 2476 9.574516 GGATCAGTAAACCAGGATTGTTAATAT 57.425 33.333 0.00 0.00 0.00 1.28
2485 2535 5.928839 AGTTCTGTATCAGTGTGATCACAAC 59.071 40.000 29.42 22.43 46.01 3.32
2605 2655 9.528018 GAAACAAAATTCTCAACATTTCCTACA 57.472 29.630 0.00 0.00 0.00 2.74
2638 2688 5.892160 ACAAATCTCCAGAACATGATGTG 57.108 39.130 0.00 0.00 32.18 3.21
3001 3140 2.157668 CACCTACATTCGCACACAAGAC 59.842 50.000 0.00 0.00 0.00 3.01
3047 3186 1.068588 TCCTCCGTGATATTGAAGCCG 59.931 52.381 0.00 0.00 0.00 5.52
3445 3593 6.303839 ACACAATTTCCTAAAAGCTGACCTA 58.696 36.000 0.00 0.00 0.00 3.08
3531 3679 0.251341 AGCAACGAAGCCAGGGATTT 60.251 50.000 0.00 0.00 34.23 2.17
3677 3825 4.453478 GTCTGAACACATCATCAAGCTTCA 59.547 41.667 0.00 0.00 37.44 3.02
3937 4085 5.246203 TGGACAAACATCTACTGAAGCTAGT 59.754 40.000 0.00 0.00 34.71 2.57
3968 4116 2.574322 CGGTCAATCAAACAAAGCTCG 58.426 47.619 0.00 0.00 0.00 5.03
4090 4238 2.159254 CCTCAGGAAGAAGAGAGAAGCG 60.159 54.545 0.00 0.00 33.74 4.68
4133 4281 4.586841 AGAACGAGGAATCCTAAGGATCAG 59.413 45.833 0.00 0.00 42.27 2.90
4141 4289 8.987399 AGGAATCCTAAGGATCAGAGATATTT 57.013 34.615 0.00 0.00 42.27 1.40
4150 4298 5.907662 AGGATCAGAGATATTTGTCCCTTCA 59.092 40.000 0.00 0.00 0.00 3.02
4156 4304 5.728741 AGAGATATTTGTCCCTTCACCTTCT 59.271 40.000 0.00 0.00 0.00 2.85
4402 4559 5.295292 GTGAGAATGGTTGACCTGTATCATG 59.705 44.000 1.34 0.00 36.82 3.07
4520 4767 4.695217 TCAAAATAGGCATCAACGGAAC 57.305 40.909 0.00 0.00 0.00 3.62
4538 4809 1.321474 ACGTGACCTCGAGTTTACCA 58.679 50.000 12.31 0.00 34.70 3.25
4581 4852 2.440599 GGATGTGGGTGTGGCCTT 59.559 61.111 3.32 0.00 37.43 4.35
4617 4888 7.631811 GCAAGCTTCTCCACTAACTAGATACTT 60.632 40.741 0.00 0.00 0.00 2.24
4618 4889 8.904834 CAAGCTTCTCCACTAACTAGATACTTA 58.095 37.037 0.00 0.00 0.00 2.24
4724 4995 7.731882 TTGTGTCACGGATTTAGTTGATTAA 57.268 32.000 0.00 0.00 0.00 1.40
4879 5153 5.430886 CTGATGATCAATGTTGGAGGTGTA 58.569 41.667 0.00 0.00 0.00 2.90
4901 5175 5.993748 ATGACGTTGGATGGGTAAAAATT 57.006 34.783 0.00 0.00 0.00 1.82
4913 5187 6.163135 TGGGTAAAAATTAACACTGTTGGG 57.837 37.500 4.57 0.00 0.00 4.12
4922 5196 2.132996 CACTGTTGGGGCCAGCAAA 61.133 57.895 4.39 0.00 36.76 3.68
4938 5212 4.304110 CAGCAAAAATGAAGCTCACATGT 58.696 39.130 7.04 0.00 36.26 3.21
5061 5872 6.038714 GGCTCTATGGGAGACTGTTATTTTTG 59.961 42.308 0.00 0.00 46.30 2.44
5062 5873 6.458888 GCTCTATGGGAGACTGTTATTTTTGC 60.459 42.308 0.00 0.00 44.45 3.68
5063 5874 4.701956 ATGGGAGACTGTTATTTTTGCG 57.298 40.909 0.00 0.00 0.00 4.85
5064 5875 2.227865 TGGGAGACTGTTATTTTTGCGC 59.772 45.455 0.00 0.00 0.00 6.09
5065 5876 2.227865 GGGAGACTGTTATTTTTGCGCA 59.772 45.455 5.66 5.66 0.00 6.09
5068 5879 4.537015 GAGACTGTTATTTTTGCGCAACT 58.463 39.130 24.99 12.42 0.00 3.16
5071 5882 3.728718 ACTGTTATTTTTGCGCAACTTCG 59.271 39.130 24.99 8.45 0.00 3.79
5109 9537 5.126061 GTGGTGATGAAAATGGACTGCTTAT 59.874 40.000 0.00 0.00 0.00 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
174 177 0.325577 TCAGGTGGCTGCCATCTCTA 60.326 55.000 30.93 19.19 41.90 2.43
575 578 2.762875 CGTCTCCCACCCCCTACC 60.763 72.222 0.00 0.00 0.00 3.18
622 625 7.537306 CGAAATTACATCAAGAACAAAATCCGT 59.463 33.333 0.00 0.00 0.00 4.69
665 668 4.223659 CTGCCGCTTTATTTAAAACACGT 58.776 39.130 0.00 0.00 0.00 4.49
785 788 2.285827 CACAAAGTGCCCGTCAAAAA 57.714 45.000 0.00 0.00 0.00 1.94
794 797 8.846849 TATCGATCAAGATTAGCACAAAGTGCC 61.847 40.741 17.59 3.56 44.24 5.01
795 798 6.018751 TATCGATCAAGATTAGCACAAAGTGC 60.019 38.462 13.87 13.87 43.91 4.40
796 799 5.784750 TCGATCAAGATTAGCACAAAGTG 57.215 39.130 0.00 0.00 36.51 3.16
797 800 6.703607 CCTATCGATCAAGATTAGCACAAAGT 59.296 38.462 0.00 0.00 32.39 2.66
798 801 6.347240 GCCTATCGATCAAGATTAGCACAAAG 60.347 42.308 0.00 0.00 31.70 2.77
799 802 5.466728 GCCTATCGATCAAGATTAGCACAAA 59.533 40.000 0.00 0.00 31.70 2.83
800 803 4.991056 GCCTATCGATCAAGATTAGCACAA 59.009 41.667 0.00 0.00 31.70 3.33
801 804 4.281941 AGCCTATCGATCAAGATTAGCACA 59.718 41.667 0.00 0.00 32.94 4.57
802 805 4.815269 AGCCTATCGATCAAGATTAGCAC 58.185 43.478 0.00 0.00 32.94 4.40
803 806 6.782082 ATAGCCTATCGATCAAGATTAGCA 57.218 37.500 0.00 0.00 32.94 3.49
804 807 6.853872 CGTATAGCCTATCGATCAAGATTAGC 59.146 42.308 0.00 0.00 32.39 3.09
805 808 7.921787 ACGTATAGCCTATCGATCAAGATTAG 58.078 38.462 0.00 0.00 32.39 1.73
806 809 7.769507 AGACGTATAGCCTATCGATCAAGATTA 59.230 37.037 0.00 0.00 32.39 1.75
807 810 6.600032 AGACGTATAGCCTATCGATCAAGATT 59.400 38.462 0.00 0.00 32.39 2.40
808 811 6.116806 AGACGTATAGCCTATCGATCAAGAT 58.883 40.000 0.00 0.00 34.79 2.40
809 812 5.489249 AGACGTATAGCCTATCGATCAAGA 58.511 41.667 0.00 0.00 0.00 3.02
810 813 5.804692 AGACGTATAGCCTATCGATCAAG 57.195 43.478 0.00 0.00 0.00 3.02
811 814 5.619309 GCAAGACGTATAGCCTATCGATCAA 60.619 44.000 0.00 0.00 0.00 2.57
812 815 4.142665 GCAAGACGTATAGCCTATCGATCA 60.143 45.833 0.00 0.00 0.00 2.92
820 823 3.642901 CGTGCAAGACGTATAGCCT 57.357 52.632 0.00 0.00 43.50 4.58
908 911 0.527600 GTGTGTGCGAGTCACTGACA 60.528 55.000 11.80 0.00 45.81 3.58
956 966 2.663196 GGGGTGGACGTGGAGAAG 59.337 66.667 0.00 0.00 0.00 2.85
1021 1031 0.744281 GCGAAGAAGAGGAGGAGGAG 59.256 60.000 0.00 0.00 0.00 3.69
1022 1032 0.684805 GGCGAAGAAGAGGAGGAGGA 60.685 60.000 0.00 0.00 0.00 3.71
1023 1033 1.819905 GGCGAAGAAGAGGAGGAGG 59.180 63.158 0.00 0.00 0.00 4.30
1081 1094 1.079127 CGGATTGGGTGAGCTTCGT 60.079 57.895 0.00 0.00 0.00 3.85
1197 1210 1.403814 TGAGGAAGATGTAGCCGAGG 58.596 55.000 0.00 0.00 0.00 4.63
1499 1512 1.188863 GTACCTGACGGCCCTCTTTA 58.811 55.000 0.00 0.00 0.00 1.85
1630 1643 1.878522 CGAAGACGAAGCCCGGATG 60.879 63.158 0.73 0.00 43.93 3.51
1699 1712 4.523083 CGGGGAATTCAATCTCTGGTTTA 58.477 43.478 7.93 0.00 0.00 2.01
1700 1713 3.356290 CGGGGAATTCAATCTCTGGTTT 58.644 45.455 7.93 0.00 0.00 3.27
1772 1790 5.929697 TTGATGGAGCTAAATTGCTATCG 57.070 39.130 0.00 0.00 44.17 2.92
1844 1862 1.821753 CTCACACCCAGACTCGAATCT 59.178 52.381 0.00 0.00 0.00 2.40
2154 2197 3.444916 GCCAATTCAGACGATCTACGAA 58.555 45.455 0.00 0.00 45.77 3.85
2320 2364 0.398696 AACTGATGTGTTGGGCCGTA 59.601 50.000 0.00 0.00 0.00 4.02
2570 2620 9.195411 TGTTGAGAATTTTGTTTCATAAGATGC 57.805 29.630 0.00 0.00 0.00 3.91
2605 2655 7.884877 TGTTCTGGAGATTTGTTGATCTAATGT 59.115 33.333 0.00 0.00 36.54 2.71
2610 2660 6.479006 TCATGTTCTGGAGATTTGTTGATCT 58.521 36.000 0.00 0.00 39.04 2.75
2671 2807 3.451178 GGTAAGCCAGAGAGATACAACCA 59.549 47.826 0.00 0.00 34.09 3.67
3001 3140 0.318699 TCACCGTTGACAAGCTCTCG 60.319 55.000 0.00 0.00 0.00 4.04
3047 3186 6.396829 AATAAATGCAGGCTTATCTCCAAC 57.603 37.500 0.00 0.00 0.00 3.77
3445 3593 3.764218 TCTACTTCGGTTCACCTTCTCT 58.236 45.455 0.00 0.00 0.00 3.10
3531 3679 1.279846 TCATCTGCTGTCTCATGGCAA 59.720 47.619 0.00 0.00 35.49 4.52
3567 3715 3.752747 CACATTGTACATCACCAAGAGCA 59.247 43.478 0.00 0.00 0.00 4.26
3943 4091 0.871722 TTGTTTGATTGACCGCCTCG 59.128 50.000 0.00 0.00 0.00 4.63
4090 4238 2.040544 CACCGGAGTCCATTGTGCC 61.041 63.158 9.46 0.00 0.00 5.01
4133 4281 5.819901 CAGAAGGTGAAGGGACAAATATCTC 59.180 44.000 0.00 0.00 0.00 2.75
4141 4289 2.838202 GGTATCAGAAGGTGAAGGGACA 59.162 50.000 0.00 0.00 39.19 4.02
4150 4298 2.492484 GTGTCAGACGGTATCAGAAGGT 59.508 50.000 0.00 0.00 0.00 3.50
4183 4331 5.963176 AATGACATTACTGTGTTGATGCA 57.037 34.783 0.00 0.00 35.14 3.96
4402 4559 5.351465 AGTGACAAATGGATCGTGTTACATC 59.649 40.000 11.96 0.00 35.01 3.06
4515 4762 0.318445 AAACTCGAGGTCACGTTCCG 60.318 55.000 18.41 0.00 34.70 4.30
4520 4767 1.402456 CCTGGTAAACTCGAGGTCACG 60.402 57.143 18.41 0.00 0.00 4.35
4523 4794 1.617357 ACACCTGGTAAACTCGAGGTC 59.383 52.381 18.41 0.00 42.94 3.85
4538 4809 5.415701 CACTGCATCCAATAGTTTAACACCT 59.584 40.000 0.00 0.00 0.00 4.00
4581 4852 1.274728 GAGAAGCTTGCTCTCACCAGA 59.725 52.381 2.10 0.00 39.36 3.86
4617 4888 5.592688 GGGAGTTGCAATAATTTGGCTAGTA 59.407 40.000 0.59 0.00 33.22 1.82
4618 4889 4.402474 GGGAGTTGCAATAATTTGGCTAGT 59.598 41.667 0.59 0.00 33.22 2.57
4724 4995 1.146359 ACCATATGGCATGCATGACCT 59.854 47.619 29.51 22.22 39.32 3.85
4879 5153 5.993748 AATTTTTACCCATCCAACGTCAT 57.006 34.783 0.00 0.00 0.00 3.06
4901 5175 1.228429 GCTGGCCCCAACAGTGTTA 60.228 57.895 8.49 0.00 38.22 2.41
4913 5187 1.001181 TGAGCTTCATTTTTGCTGGCC 59.999 47.619 0.00 0.00 37.16 5.36
4938 5212 2.146724 CCACACCACCACCTCCTCA 61.147 63.158 0.00 0.00 0.00 3.86
5051 5328 3.046390 CCGAAGTTGCGCAAAAATAACA 58.954 40.909 26.87 0.00 0.00 2.41
5061 5872 4.103103 GAAGCCCCGAAGTTGCGC 62.103 66.667 0.00 0.00 0.00 6.09
5062 5873 2.358737 AGAAGCCCCGAAGTTGCG 60.359 61.111 0.00 0.00 0.00 4.85
5063 5874 1.302511 TGAGAAGCCCCGAAGTTGC 60.303 57.895 0.00 0.00 0.00 4.17
5064 5875 0.250295 TGTGAGAAGCCCCGAAGTTG 60.250 55.000 0.00 0.00 0.00 3.16
5065 5876 0.693049 ATGTGAGAAGCCCCGAAGTT 59.307 50.000 0.00 0.00 0.00 2.66
5068 5879 0.321564 CACATGTGAGAAGCCCCGAA 60.322 55.000 21.64 0.00 0.00 4.30
5071 5882 1.380302 ACCACATGTGAGAAGCCCC 59.620 57.895 27.46 0.00 0.00 5.80
5094 9522 8.520351 GTTAACAACCTATAAGCAGTCCATTTT 58.480 33.333 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.