Multiple sequence alignment - TraesCS1D01G148500

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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 TraesCS1D01G148500 chr1D 100.000 3644 0 0 1 3644 204475921 204479564 0.000000e+00 6730.0
1 TraesCS1D01G148500 chr1D 99.622 529 2 0 3078 3606 336346228 336346756 0.000000e+00 966.0
2 TraesCS1D01G148500 chr1D 95.652 506 20 2 3099 3604 266971870 266972373 0.000000e+00 811.0
3 TraesCS1D01G148500 chr1B 91.755 3117 170 35 1 3060 300327636 300330722 0.000000e+00 4252.0
4 TraesCS1D01G148500 chr1A 95.075 2193 97 6 871 3060 260833890 260836074 0.000000e+00 3441.0
5 TraesCS1D01G148500 chr1A 81.237 938 78 29 1 872 260824695 260825600 0.000000e+00 667.0
6 TraesCS1D01G148500 chr1A 100.000 40 0 0 871 910 260833850 260833889 1.400000e-09 75.0
7 TraesCS1D01G148500 chr1A 100.000 40 0 0 3605 3644 260836087 260836126 1.400000e-09 75.0
8 TraesCS1D01G148500 chr2D 95.678 509 22 0 3098 3606 581407454 581406946 0.000000e+00 819.0
9 TraesCS1D01G148500 chr2D 95.481 509 19 1 3098 3602 559219969 559220477 0.000000e+00 809.0
10 TraesCS1D01G148500 chr7D 95.833 504 21 0 3098 3601 193255325 193254822 0.000000e+00 815.0
11 TraesCS1D01G148500 chr3D 95.481 509 23 0 3098 3606 336095602 336095094 0.000000e+00 813.0
12 TraesCS1D01G148500 chr6D 95.464 507 23 0 3098 3604 170709557 170710063 0.000000e+00 809.0
13 TraesCS1D01G148500 chr6D 82.650 317 27 12 7 298 473289188 473288875 4.670000e-64 255.0
14 TraesCS1D01G148500 chr6D 85.903 227 21 3 3 218 473293021 473292795 7.870000e-57 231.0
15 TraesCS1D01G148500 chr6D 91.935 62 5 0 316 377 473292511 473292450 1.800000e-13 87.9
16 TraesCS1D01G148500 chr6D 92.982 57 4 0 289 345 473288006 473287950 2.330000e-12 84.2
17 TraesCS1D01G148500 chr4D 94.303 509 27 1 3098 3606 272178232 272178738 0.000000e+00 778.0
18 TraesCS1D01G148500 chr5D 94.578 498 25 2 3098 3595 109455124 109455619 0.000000e+00 769.0
19 TraesCS1D01G148500 chr3B 79.550 489 55 17 7 453 35049202 35049687 1.270000e-79 307.0
20 TraesCS1D01G148500 chr3B 79.550 489 55 17 7 453 35133202 35133687 1.270000e-79 307.0
21 TraesCS1D01G148500 chr3B 79.943 349 47 13 3 330 600909724 600910070 6.080000e-58 235.0
22 TraesCS1D01G148500 chr3B 100.000 30 0 0 543 572 6652071 6652042 5.080000e-04 56.5
23 TraesCS1D01G148500 chr6A 87.273 220 23 2 3 217 616415548 616415329 2.810000e-61 246.0
24 TraesCS1D01G148500 chr6A 96.226 53 2 0 294 346 616415217 616415165 1.800000e-13 87.9
25 TraesCS1D01G148500 chr6A 77.143 140 21 7 241 377 616415203 616415072 1.820000e-08 71.3


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 TraesCS1D01G148500 chr1D 204475921 204479564 3643 False 6730 6730 100.000000 1 3644 1 chr1D.!!$F1 3643
1 TraesCS1D01G148500 chr1D 336346228 336346756 528 False 966 966 99.622000 3078 3606 1 chr1D.!!$F3 528
2 TraesCS1D01G148500 chr1D 266971870 266972373 503 False 811 811 95.652000 3099 3604 1 chr1D.!!$F2 505
3 TraesCS1D01G148500 chr1B 300327636 300330722 3086 False 4252 4252 91.755000 1 3060 1 chr1B.!!$F1 3059
4 TraesCS1D01G148500 chr1A 260833850 260836126 2276 False 1197 3441 98.358333 871 3644 3 chr1A.!!$F2 2773
5 TraesCS1D01G148500 chr1A 260824695 260825600 905 False 667 667 81.237000 1 872 1 chr1A.!!$F1 871
6 TraesCS1D01G148500 chr2D 581406946 581407454 508 True 819 819 95.678000 3098 3606 1 chr2D.!!$R1 508
7 TraesCS1D01G148500 chr2D 559219969 559220477 508 False 809 809 95.481000 3098 3602 1 chr2D.!!$F1 504
8 TraesCS1D01G148500 chr7D 193254822 193255325 503 True 815 815 95.833000 3098 3601 1 chr7D.!!$R1 503
9 TraesCS1D01G148500 chr3D 336095094 336095602 508 True 813 813 95.481000 3098 3606 1 chr3D.!!$R1 508
10 TraesCS1D01G148500 chr6D 170709557 170710063 506 False 809 809 95.464000 3098 3604 1 chr6D.!!$F1 506
11 TraesCS1D01G148500 chr4D 272178232 272178738 506 False 778 778 94.303000 3098 3606 1 chr4D.!!$F1 508

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
535 592 0.546122 AACTCCCACAGTGCTTCACA 59.454 50.0 0.0 0.0 36.74 3.58 F
689 759 0.745845 GCCACATGAGATGCGGAACT 60.746 55.0 0.0 0.0 34.39 3.01 F
1607 1716 0.465705 GCTCCCGAACCATCTCATCA 59.534 55.0 0.0 0.0 0.00 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1590 1699 0.459899 CGTGATGAGATGGTTCGGGA 59.540 55.0 0.00 0.0 0.00 5.14 R
1610 1719 0.525761 TGCGCTTTTACCAGATTGGC 59.474 50.0 9.73 0.0 42.67 4.52 R
2951 3063 0.244721 GAACTGCACCATCCAAAGGC 59.755 55.0 0.00 0.0 0.00 4.35 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
69 70 1.202268 ACGTCGAGCTACAACCATAGC 60.202 52.381 0.00 0.00 46.74 2.97
96 97 4.675029 CTGGAACCGGCCGACGTT 62.675 66.667 30.73 23.47 42.24 3.99
174 175 1.449601 CTACGGCGAGGGTTGCAAT 60.450 57.895 16.62 0.00 0.00 3.56
218 219 5.445964 ACCCTTTTGACAGATGTTACAACT 58.554 37.500 0.00 0.00 0.00 3.16
370 392 4.156008 GCTACAACTATGGACAACAAAGGG 59.844 45.833 0.00 0.00 0.00 3.95
399 421 2.874701 GGCAACATCAGATGCTACGATT 59.125 45.455 10.59 0.00 42.55 3.34
410 432 6.149308 TCAGATGCTACGATTGTTTTGTCAAT 59.851 34.615 0.00 0.00 40.20 2.57
453 494 4.547905 ACGACGATGCTACGCCCG 62.548 66.667 0.00 13.01 38.11 6.13
487 528 2.774439 AGTTTTTGCTGCAACCGTAG 57.226 45.000 15.72 0.00 0.00 3.51
535 592 0.546122 AACTCCCACAGTGCTTCACA 59.454 50.000 0.00 0.00 36.74 3.58
574 631 4.025401 GGTTGCTGCGAACCACGG 62.025 66.667 21.26 0.00 44.34 4.94
612 681 1.133761 ACGACTATCTAGCTGGGAGCA 60.134 52.381 0.00 0.00 45.56 4.26
636 705 2.345991 GGCAAGGTGCTACGACCA 59.654 61.111 0.00 0.00 44.28 4.02
647 717 2.267681 CTACGACCAGGGCGACAGAC 62.268 65.000 25.69 0.00 0.00 3.51
673 743 4.147449 CGCACATCCGAGGAGCCA 62.147 66.667 0.00 0.00 0.00 4.75
675 745 2.981302 CACATCCGAGGAGCCACA 59.019 61.111 0.00 0.00 0.00 4.17
676 746 1.524002 CACATCCGAGGAGCCACAT 59.476 57.895 0.00 0.00 0.00 3.21
686 756 1.144716 GAGCCACATGAGATGCGGA 59.855 57.895 0.00 0.00 34.39 5.54
689 759 0.745845 GCCACATGAGATGCGGAACT 60.746 55.000 0.00 0.00 34.39 3.01
704 774 1.067354 GGAACTAACGCGAGGAAGGAA 60.067 52.381 15.93 0.00 0.00 3.36
763 836 4.760047 GGCTCGCACCCGACACAT 62.760 66.667 0.00 0.00 38.82 3.21
764 837 3.188786 GCTCGCACCCGACACATC 61.189 66.667 0.00 0.00 38.82 3.06
820 893 2.338984 GCCTAGTACCGCCCATCG 59.661 66.667 0.00 0.00 38.08 3.84
910 983 5.809562 CAGTGATAAAGAGACCTGTGATGAC 59.190 44.000 0.00 0.00 0.00 3.06
911 984 4.800993 GTGATAAAGAGACCTGTGATGACG 59.199 45.833 0.00 0.00 0.00 4.35
1024 1133 3.758931 GTTGCCCATGCGGAACCC 61.759 66.667 3.53 0.00 41.78 4.11
1227 1336 2.980233 GTGGCCTCAGCAAACGCT 60.980 61.111 3.32 0.00 42.56 5.07
1242 1351 4.082523 GCTGCAGCCAGGACCGTA 62.083 66.667 28.76 0.00 39.54 4.02
1325 1434 4.052229 CGGTTCGTCCTCGGCAGT 62.052 66.667 0.00 0.00 37.69 4.40
1554 1663 2.355837 GTCGCCAACTCTGACGCA 60.356 61.111 0.00 0.00 0.00 5.24
1583 1692 1.336148 GCTCATCGCTCAGATCCTCAG 60.336 57.143 0.00 0.00 37.52 3.35
1590 1699 4.218578 CAGATCCTCAGCCGCGCT 62.219 66.667 5.56 0.00 40.77 5.92
1607 1716 0.465705 GCTCCCGAACCATCTCATCA 59.534 55.000 0.00 0.00 0.00 3.07
1610 1719 0.530650 CCCGAACCATCTCATCACGG 60.531 60.000 0.00 0.00 38.83 4.94
1624 1733 2.570415 TCACGGCCAATCTGGTAAAA 57.430 45.000 2.24 0.00 40.46 1.52
1625 1734 2.432444 TCACGGCCAATCTGGTAAAAG 58.568 47.619 2.24 0.00 40.46 2.27
1629 1738 0.525761 GCCAATCTGGTAAAAGCGCA 59.474 50.000 11.47 0.00 40.46 6.09
1656 1765 3.754850 TGGACAAACATGAAGATGCTCTG 59.245 43.478 0.00 0.00 32.14 3.35
1692 1801 5.455326 CCAGGATTTATCAGAGAAATCGGGT 60.455 44.000 19.62 8.10 42.00 5.28
1737 1846 9.628500 GGTTCCTTTGTTATCTTGGATAACTAT 57.372 33.333 22.56 0.00 35.95 2.12
1839 1948 0.394565 AGAGTGTGAAGAAGCGGCTT 59.605 50.000 16.36 16.36 0.00 4.35
1854 1963 1.876156 CGGCTTAATTCAGAGGATGGC 59.124 52.381 0.00 0.00 0.00 4.40
1878 1987 4.344978 TGAGCTACACTGAGTTCACCTAT 58.655 43.478 0.00 0.00 32.41 2.57
1903 2012 2.856760 TCTCCAGGGCTATGACTTCT 57.143 50.000 0.00 0.00 0.00 2.85
1909 2018 3.448686 CAGGGCTATGACTTCTTGTACG 58.551 50.000 0.00 0.00 0.00 3.67
2160 2269 1.628340 TCAGTCCCGGATGTTGATGTT 59.372 47.619 0.73 0.00 0.00 2.71
2417 2526 2.649516 TGTACCGTCGTGTTCTTTACG 58.350 47.619 0.00 0.00 42.56 3.18
2534 2643 7.509546 CAGGGTGGTCTATACTTGAATAACAT 58.490 38.462 0.00 0.00 0.00 2.71
2547 2656 8.304202 ACTTGAATAACATGAAGATCGATAGC 57.696 34.615 0.00 0.00 0.00 2.97
2686 2796 4.089105 TTTTTGCCGGCGAGGATT 57.911 50.000 23.90 0.00 45.00 3.01
2691 2801 1.535833 TTGCCGGCGAGGATTAAAAA 58.464 45.000 23.90 2.74 45.00 1.94
2712 2822 2.774234 AGTAACAGCATGAGCCCTGTAT 59.226 45.455 0.00 0.00 41.16 2.29
2727 2837 4.302455 CCCTGTATTCAGATTAGCTGTCG 58.698 47.826 0.00 0.00 45.14 4.35
2748 2858 3.913763 CGGTGAACATACACATTGCTTTG 59.086 43.478 0.00 0.00 41.88 2.77
2758 2868 2.739913 CACATTGCTTTGCTGGAAATGG 59.260 45.455 0.00 0.00 0.00 3.16
2805 2915 1.372623 GCTTGCTCTTGGCTGTTGC 60.373 57.895 0.00 0.00 42.39 4.17
2848 2958 6.250819 CACTGGTCATTTTGCTTTAGTATCG 58.749 40.000 0.00 0.00 0.00 2.92
2852 2964 3.372514 TCATTTTGCTTTAGTATCGCGCA 59.627 39.130 8.75 0.00 0.00 6.09
2872 2984 5.541008 CGCATTTGCTATTTGTTTGTAAGC 58.459 37.500 0.51 0.00 39.32 3.09
2879 2991 5.048083 TGCTATTTGTTTGTAAGCTTCCTGG 60.048 40.000 0.00 0.00 34.28 4.45
2889 3001 2.675658 AGCTTCCTGGCCTTTTGTTA 57.324 45.000 3.32 0.00 0.00 2.41
2896 3008 5.313280 TCCTGGCCTTTTGTTAACTCTTA 57.687 39.130 3.32 0.00 0.00 2.10
2903 3015 6.148976 GGCCTTTTGTTAACTCTTAGTCGATT 59.851 38.462 7.22 0.00 0.00 3.34
2937 3049 7.531857 TTTGAATTTGGATAGTTAGTGGCAA 57.468 32.000 0.00 0.00 0.00 4.52
2951 3063 6.861055 AGTTAGTGGCAATTTTTATGTCAACG 59.139 34.615 0.00 0.00 33.59 4.10
2952 3064 3.987220 AGTGGCAATTTTTATGTCAACGC 59.013 39.130 0.00 0.00 33.59 4.84
2969 3081 1.526575 CGCCTTTGGATGGTGCAGTT 61.527 55.000 0.00 0.00 0.00 3.16
3027 3139 5.992217 GTGACATTACTGAAAGGACTGTTCT 59.008 40.000 0.00 0.00 39.30 3.01
3036 3149 5.674933 GAAAGGACTGTTCTTTCGACATT 57.325 39.130 22.14 0.00 40.13 2.71
3056 3169 7.088589 ACATTTAAGCATAGGTAGCAAACTG 57.911 36.000 0.00 0.00 0.00 3.16
3057 3170 6.884295 ACATTTAAGCATAGGTAGCAAACTGA 59.116 34.615 0.00 0.00 0.00 3.41
3058 3171 6.985188 TTTAAGCATAGGTAGCAAACTGAG 57.015 37.500 0.00 0.00 0.00 3.35
3059 3172 4.826274 AAGCATAGGTAGCAAACTGAGA 57.174 40.909 0.00 0.00 0.00 3.27
3060 3173 4.826274 AGCATAGGTAGCAAACTGAGAA 57.174 40.909 0.00 0.00 0.00 2.87
3062 3175 4.938226 AGCATAGGTAGCAAACTGAGAAAC 59.062 41.667 0.00 0.00 0.00 2.78
3064 3177 5.355350 GCATAGGTAGCAAACTGAGAAACAT 59.645 40.000 0.00 0.00 0.00 2.71
3065 3178 6.538742 GCATAGGTAGCAAACTGAGAAACATA 59.461 38.462 0.00 0.00 0.00 2.29
3066 3179 7.227512 GCATAGGTAGCAAACTGAGAAACATAT 59.772 37.037 0.00 0.00 0.00 1.78
3067 3180 6.992063 AGGTAGCAAACTGAGAAACATATG 57.008 37.500 0.00 0.00 0.00 1.78
3068 3181 6.476378 AGGTAGCAAACTGAGAAACATATGT 58.524 36.000 1.41 1.41 0.00 2.29
3069 3182 7.620880 AGGTAGCAAACTGAGAAACATATGTA 58.379 34.615 9.21 0.00 0.00 2.29
3070 3183 7.549488 AGGTAGCAAACTGAGAAACATATGTAC 59.451 37.037 9.21 6.81 0.00 2.90
3071 3184 7.549488 GGTAGCAAACTGAGAAACATATGTACT 59.451 37.037 9.21 11.58 0.00 2.73
3072 3185 9.582431 GTAGCAAACTGAGAAACATATGTACTA 57.418 33.333 9.21 1.73 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 2.107141 CGTCTCCAATCTCGGGCC 59.893 66.667 0.00 0.00 0.00 5.80
13 14 2.264794 GGTGACCGCGTCTCCAAT 59.735 61.111 18.48 0.00 43.28 3.16
33 34 2.175566 GACGTCAGTTAGTTCTAGCGC 58.824 52.381 11.55 0.00 0.00 5.92
34 35 2.093310 TCGACGTCAGTTAGTTCTAGCG 59.907 50.000 17.16 0.00 0.00 4.26
69 70 0.109319 CCGGTTCCAGCAAATTTCCG 60.109 55.000 0.00 5.49 36.85 4.30
93 94 1.855513 TCGTGGTTGTAACTCCAACG 58.144 50.000 0.00 0.00 44.48 4.10
96 97 1.972075 TCCATCGTGGTTGTAACTCCA 59.028 47.619 4.33 0.00 39.03 3.86
152 153 1.908066 GCAACCCTCGCCGTAGTTTG 61.908 60.000 0.00 0.00 0.00 2.93
160 161 3.056313 GCTGATTGCAACCCTCGCC 62.056 63.158 0.00 0.00 42.31 5.54
174 175 0.456221 GTAGCTCCTAACTGCGCTGA 59.544 55.000 21.92 0.00 34.14 4.26
239 240 4.558496 CGTTCCATGGTTGTAGCATTTGTT 60.558 41.667 12.58 0.00 33.46 2.83
399 421 5.112686 GGGTTGCAACTTATTGACAAAACA 58.887 37.500 27.64 0.00 38.15 2.83
410 432 1.500512 GCGTCGTGGGTTGCAACTTA 61.501 55.000 27.64 14.83 0.00 2.24
453 494 2.383027 AAACTTTTGCCGTCGTCGCC 62.383 55.000 0.00 0.00 35.54 5.54
466 507 2.378445 ACGGTTGCAGCAAAAACTTT 57.622 40.000 10.11 0.00 0.00 2.66
535 592 1.599047 CACCAACATCTCGCCTCCT 59.401 57.895 0.00 0.00 0.00 3.69
589 658 1.202903 TCCCAGCTAGATAGTCGTCCC 60.203 57.143 0.00 0.00 0.00 4.46
622 691 2.955881 GCCCTGGTCGTAGCACCTT 61.956 63.158 0.00 0.00 37.34 3.50
623 692 3.391382 GCCCTGGTCGTAGCACCT 61.391 66.667 0.00 0.00 37.34 4.00
630 699 3.681835 GTCTGTCGCCCTGGTCGT 61.682 66.667 0.00 0.00 0.00 4.34
673 743 2.540515 CGTTAGTTCCGCATCTCATGT 58.459 47.619 0.00 0.00 0.00 3.21
686 756 2.825861 TTTCCTTCCTCGCGTTAGTT 57.174 45.000 5.77 0.00 0.00 2.24
689 759 1.001633 AGCTTTTCCTTCCTCGCGTTA 59.998 47.619 5.77 0.00 0.00 3.18
704 774 2.358737 CTGTTCGCCCCGAGCTTT 60.359 61.111 3.37 0.00 37.92 3.51
780 853 3.294493 TGCGCTGGCCCAAAGTTC 61.294 61.111 9.73 0.00 38.85 3.01
820 893 2.638480 TGGTATGTGAGGCATAAGGC 57.362 50.000 0.00 0.00 41.29 4.35
910 983 2.642427 TCCATGTTCATGGATTGTCCG 58.358 47.619 25.03 3.50 45.19 4.79
932 1041 0.249120 CTGGGCCGTCATACACTCAA 59.751 55.000 0.00 0.00 0.00 3.02
1012 1121 2.480610 CGAATGGGGTTCCGCATGG 61.481 63.158 19.36 12.12 39.12 3.66
1024 1133 1.153449 TTAGCCAGACGCCGAATGG 60.153 57.895 7.78 7.78 38.78 3.16
1227 1336 4.063967 CGTACGGTCCTGGCTGCA 62.064 66.667 7.57 0.00 0.00 4.41
1314 1423 1.376037 CCCAGAAACTGCCGAGGAC 60.376 63.158 0.00 0.00 0.00 3.85
1325 1434 2.034687 GCTGCTGCTCCCCAGAAA 59.965 61.111 8.53 0.00 44.64 2.52
1590 1699 0.459899 CGTGATGAGATGGTTCGGGA 59.540 55.000 0.00 0.00 0.00 5.14
1596 1705 0.548031 ATTGGCCGTGATGAGATGGT 59.452 50.000 0.00 0.00 0.00 3.55
1607 1716 1.173913 GCTTTTACCAGATTGGCCGT 58.826 50.000 0.00 0.00 42.67 5.68
1610 1719 0.525761 TGCGCTTTTACCAGATTGGC 59.474 50.000 9.73 0.00 42.67 4.52
1624 1733 2.593346 TGTTTGTCCAAAATTGCGCT 57.407 40.000 9.73 0.00 31.33 5.92
1625 1734 2.799412 TCATGTTTGTCCAAAATTGCGC 59.201 40.909 0.00 0.00 31.33 6.09
1629 1738 6.527423 AGCATCTTCATGTTTGTCCAAAATT 58.473 32.000 0.00 0.00 31.86 1.82
1692 1801 1.144093 CCCATACTTTCCCCCGCATTA 59.856 52.381 0.00 0.00 0.00 1.90
1737 1846 1.347707 GTGATGTCCTTCCACCAGTCA 59.652 52.381 0.00 0.00 0.00 3.41
1839 1948 3.393609 AGCTCATGCCATCCTCTGAATTA 59.606 43.478 0.00 0.00 40.80 1.40
1854 1963 3.056250 AGGTGAACTCAGTGTAGCTCATG 60.056 47.826 0.00 0.00 0.00 3.07
1878 1987 1.126488 CATAGCCCTGGAGAAGCTGA 58.874 55.000 5.56 0.00 37.45 4.26
1903 2012 3.562141 CCCATGTTCTTGAACACGTACAA 59.438 43.478 17.02 0.00 35.22 2.41
1909 2018 2.948979 TGACACCCATGTTCTTGAACAC 59.051 45.455 17.02 5.05 39.95 3.32
1989 2098 3.559171 CCTCAACCTGGAGAATTTTCCGA 60.559 47.826 10.26 0.80 40.27 4.55
2073 2182 1.738346 GCCAAATCGCCCCATCTTCC 61.738 60.000 0.00 0.00 0.00 3.46
2308 2417 1.606531 CCTTCAAGGCCTCCTCCAG 59.393 63.158 5.23 0.00 30.89 3.86
2417 2526 5.978322 GGAGACTTCAATACTTGGTCGTATC 59.022 44.000 0.00 0.00 30.33 2.24
2534 2643 5.004448 ACTTATCCTCGCTATCGATCTTCA 58.996 41.667 0.00 0.00 44.56 3.02
2547 2656 2.022195 TCCTCGACCAACTTATCCTCG 58.978 52.381 0.00 0.00 0.00 4.63
2676 2786 4.726876 GCTGTTACTTTTTAATCCTCGCCG 60.727 45.833 0.00 0.00 0.00 6.46
2685 2795 5.048083 CAGGGCTCATGCTGTTACTTTTTAA 60.048 40.000 0.00 0.00 39.59 1.52
2686 2796 4.458989 CAGGGCTCATGCTGTTACTTTTTA 59.541 41.667 0.00 0.00 39.59 1.52
2691 2801 0.987294 ACAGGGCTCATGCTGTTACT 59.013 50.000 0.00 0.00 39.59 2.24
2712 2822 3.006430 TGTTCACCGACAGCTAATCTGAA 59.994 43.478 0.00 0.00 45.72 3.02
2727 2837 3.674753 GCAAAGCAATGTGTATGTTCACC 59.325 43.478 0.00 0.00 37.51 4.02
2748 2858 5.852282 ATTATTGGTGTACCATTTCCAGC 57.148 39.130 4.31 0.00 46.97 4.85
2794 2904 4.093952 CCGCTCGCAACAGCCAAG 62.094 66.667 0.00 0.00 35.84 3.61
2824 2934 6.250819 CGATACTAAAGCAAAATGACCAGTG 58.749 40.000 0.00 0.00 0.00 3.66
2852 2964 7.599998 CAGGAAGCTTACAAACAAATAGCAAAT 59.400 33.333 12.25 0.00 34.37 2.32
2872 2984 4.145052 AGAGTTAACAAAAGGCCAGGAAG 58.855 43.478 5.01 0.00 0.00 3.46
2879 2991 6.723131 ATCGACTAAGAGTTAACAAAAGGC 57.277 37.500 8.61 0.99 0.00 4.35
2937 3049 5.461032 TCCAAAGGCGTTGACATAAAAAT 57.539 34.783 14.88 0.00 39.87 1.82
2949 3061 1.973281 CTGCACCATCCAAAGGCGT 60.973 57.895 0.00 0.00 0.00 5.68
2951 3063 0.244721 GAACTGCACCATCCAAAGGC 59.755 55.000 0.00 0.00 0.00 4.35
2952 3064 1.915141 AGAACTGCACCATCCAAAGG 58.085 50.000 0.00 0.00 0.00 3.11
2969 3081 7.386059 TGTTTAGAGATACTGAATGTGCAAGA 58.614 34.615 0.00 0.00 0.00 3.02
3000 3112 4.452455 CAGTCCTTTCAGTAATGTCACCAC 59.548 45.833 0.00 0.00 0.00 4.16
3027 3139 6.110033 TGCTACCTATGCTTAAATGTCGAAA 58.890 36.000 0.00 0.00 0.00 3.46
3036 3149 6.294361 TCTCAGTTTGCTACCTATGCTTAA 57.706 37.500 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.