Multiple sequence alignment - TraesCS2D01G317100

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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 TraesCS2D01G317100 chr2D 100.000 2918 0 0 1 2918 406409185 406412102 0.000000e+00 5389
1 TraesCS2D01G317100 chr2D 89.362 564 53 4 2270 2833 53389398 53388842 0.000000e+00 702
2 TraesCS2D01G317100 chr2A 93.064 2278 132 14 1 2262 545799396 545801663 0.000000e+00 3308
3 TraesCS2D01G317100 chr2A 88.015 534 56 4 2269 2796 459359310 459359841 2.470000e-175 625
4 TraesCS2D01G317100 chr2A 87.453 534 55 7 2270 2796 459164597 459165125 3.220000e-169 604
5 TraesCS2D01G317100 chr2A 93.878 98 3 3 2823 2917 356992343 356992440 8.430000e-31 145
6 TraesCS2D01G317100 chr2B 90.276 1851 154 8 419 2261 482337706 482339538 0.000000e+00 2398
7 TraesCS2D01G317100 chr2B 91.697 277 20 2 437 710 482337706 482337430 5.900000e-102 381
8 TraesCS2D01G317100 chr2B 88.584 219 20 4 1 215 482337198 482337415 8.020000e-66 261
9 TraesCS2D01G317100 chr6B 88.319 565 60 4 2270 2833 106577945 106578504 0.000000e+00 673
10 TraesCS2D01G317100 chr6B 85.714 539 69 4 2270 2802 580969944 580970480 1.960000e-156 562
11 TraesCS2D01G317100 chr5D 88.598 535 53 3 2269 2802 342815814 342815287 0.000000e+00 643
12 TraesCS2D01G317100 chr4B 87.778 540 56 6 2270 2802 66597371 66596835 8.880000e-175 623
13 TraesCS2D01G317100 chr1D 86.749 566 62 5 2269 2833 185063691 185063138 4.130000e-173 617
14 TraesCS2D01G317100 chr4A 88.109 513 60 1 2270 2781 463541046 463540534 2.490000e-170 608
15 TraesCS2D01G317100 chr3A 76.323 756 161 16 1437 2181 79904837 79904089 3.530000e-104 388
16 TraesCS2D01G317100 chr3B 71.844 1204 304 31 736 1921 116438011 116436825 2.180000e-81 313
17 TraesCS2D01G317100 chr5B 100.000 85 0 0 2834 2918 258946686 258946602 1.080000e-34 158
18 TraesCS2D01G317100 chr5A 100.000 84 0 0 2834 2917 313183575 313183658 3.890000e-34 156
19 TraesCS2D01G317100 chr3D 100.000 84 0 0 2834 2917 291499823 291499740 3.890000e-34 156
20 TraesCS2D01G317100 chr3D 100.000 83 0 0 2835 2917 279978529 279978447 1.400000e-33 154
21 TraesCS2D01G317100 chr3D 98.824 85 1 0 2834 2918 247756116 247756032 5.040000e-33 152
22 TraesCS2D01G317100 chr7D 98.810 84 1 0 2834 2917 275955272 275955189 1.810000e-32 150
23 TraesCS2D01G317100 chr7D 98.810 84 1 0 2834 2917 362509405 362509488 1.810000e-32 150
24 TraesCS2D01G317100 chr4D 100.000 81 0 0 2837 2917 108605496 108605416 1.810000e-32 150


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 TraesCS2D01G317100 chr2D 406409185 406412102 2917 False 5389.0 5389 100.000 1 2918 1 chr2D.!!$F1 2917
1 TraesCS2D01G317100 chr2D 53388842 53389398 556 True 702.0 702 89.362 2270 2833 1 chr2D.!!$R1 563
2 TraesCS2D01G317100 chr2A 545799396 545801663 2267 False 3308.0 3308 93.064 1 2262 1 chr2A.!!$F4 2261
3 TraesCS2D01G317100 chr2A 459359310 459359841 531 False 625.0 625 88.015 2269 2796 1 chr2A.!!$F3 527
4 TraesCS2D01G317100 chr2A 459164597 459165125 528 False 604.0 604 87.453 2270 2796 1 chr2A.!!$F2 526
5 TraesCS2D01G317100 chr2B 482337198 482339538 2340 False 1329.5 2398 89.430 1 2261 2 chr2B.!!$F1 2260
6 TraesCS2D01G317100 chr6B 106577945 106578504 559 False 673.0 673 88.319 2270 2833 1 chr6B.!!$F1 563
7 TraesCS2D01G317100 chr6B 580969944 580970480 536 False 562.0 562 85.714 2270 2802 1 chr6B.!!$F2 532
8 TraesCS2D01G317100 chr5D 342815287 342815814 527 True 643.0 643 88.598 2269 2802 1 chr5D.!!$R1 533
9 TraesCS2D01G317100 chr4B 66596835 66597371 536 True 623.0 623 87.778 2270 2802 1 chr4B.!!$R1 532
10 TraesCS2D01G317100 chr1D 185063138 185063691 553 True 617.0 617 86.749 2269 2833 1 chr1D.!!$R1 564
11 TraesCS2D01G317100 chr4A 463540534 463541046 512 True 608.0 608 88.109 2270 2781 1 chr4A.!!$R1 511
12 TraesCS2D01G317100 chr3A 79904089 79904837 748 True 388.0 388 76.323 1437 2181 1 chr3A.!!$R1 744
13 TraesCS2D01G317100 chr3B 116436825 116438011 1186 True 313.0 313 71.844 736 1921 1 chr3B.!!$R1 1185

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
469 600 2.460918 ACGCGTGCTATCTTGTATCAC 58.539 47.619 12.93 0.0 0.0 3.06 F
1177 1322 0.108585 GAACTCCTCACTTGCACCCA 59.891 55.000 0.00 0.0 0.0 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1426 1571 1.147191 AGACTCCATGGGCGAGGTATA 59.853 52.381 13.02 0.0 0.00 1.47 R
2332 2515 1.202557 CCAAGTTGTTGTGCATTGCCT 60.203 47.619 6.12 0.0 30.95 4.75 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
137 141 5.301551 TGAATTCACACAAGTTGTATGGCTT 59.698 36.000 14.08 7.96 35.67 4.35
138 142 4.829064 TTCACACAAGTTGTATGGCTTC 57.171 40.909 14.08 0.00 35.67 3.86
225 229 3.976942 CGTGCAATTTGTTCAAAGAGGAG 59.023 43.478 0.00 0.00 0.00 3.69
226 230 4.261155 CGTGCAATTTGTTCAAAGAGGAGA 60.261 41.667 0.00 0.00 0.00 3.71
245 249 5.418840 AGGAGAGAGAGAGAAGATTTGACAC 59.581 44.000 0.00 0.00 0.00 3.67
253 358 9.160496 GAGAGAGAAGATTTGACACAATAATGT 57.840 33.333 0.00 0.00 41.61 2.71
322 427 4.634012 AGACGACATAGATAGCCTCTCT 57.366 45.455 0.00 0.00 35.28 3.10
452 583 3.391049 AGTCACTTGTTTAGGAAGACGC 58.609 45.455 0.00 0.00 32.74 5.19
469 600 2.460918 ACGCGTGCTATCTTGTATCAC 58.539 47.619 12.93 0.00 0.00 3.06
476 607 6.564125 GCGTGCTATCTTGTATCACCATAAAC 60.564 42.308 0.00 0.00 0.00 2.01
486 619 9.787532 CTTGTATCACCATAAACGATGATTTTT 57.212 29.630 0.00 0.00 37.82 1.94
523 656 9.965824 AAGAAAGTGTGTTGGAAAGTTATATTG 57.034 29.630 0.00 0.00 0.00 1.90
692 826 7.756395 ATTAGATGAGGCCATTAATGTGAAG 57.244 36.000 14.25 0.24 32.09 3.02
717 851 8.806146 AGTTCTATTAAAACATGTGGCAAGATT 58.194 29.630 0.00 0.00 0.00 2.40
730 864 5.105635 TGTGGCAAGATTGAATTCCTCATTC 60.106 40.000 2.27 0.00 41.76 2.67
992 1137 6.449698 TCTTCTGAAAATTGTTGATCTTGCC 58.550 36.000 0.00 0.00 0.00 4.52
1076 1221 3.771216 ACATTTCTCCCTTGCATGAAGT 58.229 40.909 0.00 0.00 0.00 3.01
1157 1302 3.372349 CCATCAGATTCACCTTCCATGGT 60.372 47.826 12.58 0.00 41.77 3.55
1177 1322 0.108585 GAACTCCTCACTTGCACCCA 59.891 55.000 0.00 0.00 0.00 4.51
1404 1549 6.556874 TCCTTTCAAACCCTTTGTGGAATTAT 59.443 34.615 0.00 0.00 41.36 1.28
1407 1552 4.590647 TCAAACCCTTTGTGGAATTATGCA 59.409 37.500 0.00 0.00 41.36 3.96
1426 1571 4.745351 TGCAGACTCCTATCATCATACCT 58.255 43.478 0.00 0.00 0.00 3.08
1435 1580 6.062749 TCCTATCATCATACCTATACCTCGC 58.937 44.000 0.00 0.00 0.00 5.03
1539 1684 3.872459 ATGGAGGATGGTTCAATCTCC 57.128 47.619 0.00 0.00 0.00 3.71
1542 1687 2.370189 GGAGGATGGTTCAATCTCCGAT 59.630 50.000 0.00 0.00 32.87 4.18
1592 1737 8.621286 GGTAAACTCACTACCATATGGATTTTG 58.379 37.037 28.77 17.44 38.98 2.44
1626 1771 7.124147 CCTGAAAATATTGACCCATTTACACCT 59.876 37.037 0.00 0.00 0.00 4.00
1725 1870 3.251479 TCTCCATTCATGACAACCTCG 57.749 47.619 0.00 0.00 0.00 4.63
1796 1941 5.398603 TTTGGTAGTGGTATTTTGCATGG 57.601 39.130 0.00 0.00 0.00 3.66
1905 2050 5.358922 CATGCCAAAGAAAGGAAGAAACAA 58.641 37.500 0.00 0.00 0.00 2.83
1927 2072 6.824305 AACTACAAAGTTGATCTTCCCATG 57.176 37.500 0.00 0.00 44.40 3.66
1928 2073 5.256474 ACTACAAAGTTGATCTTCCCATGG 58.744 41.667 4.14 4.14 35.02 3.66
2185 2368 7.750186 AGATTCATCTTTAATGGTTGTGGACCT 60.750 37.037 0.00 0.00 40.87 3.85
2253 2436 6.520272 TCATGAAGATTTTCTAGAGCTAGGC 58.480 40.000 0.00 0.00 34.31 3.93
2262 2445 6.791867 TTTCTAGAGCTAGGCAAGATGTAA 57.208 37.500 4.80 0.00 34.06 2.41
2263 2446 6.791867 TTCTAGAGCTAGGCAAGATGTAAA 57.208 37.500 4.80 0.00 34.06 2.01
2264 2447 6.150396 TCTAGAGCTAGGCAAGATGTAAAC 57.850 41.667 4.80 0.00 34.06 2.01
2265 2448 5.894393 TCTAGAGCTAGGCAAGATGTAAACT 59.106 40.000 4.80 0.00 34.06 2.66
2266 2449 5.428184 AGAGCTAGGCAAGATGTAAACTT 57.572 39.130 0.00 0.00 0.00 2.66
2267 2450 5.423886 AGAGCTAGGCAAGATGTAAACTTC 58.576 41.667 0.00 0.00 0.00 3.01
2331 2514 2.630158 CAGCCCAGAGATCAAGTCTTG 58.370 52.381 6.21 6.21 37.29 3.02
2332 2515 2.235650 CAGCCCAGAGATCAAGTCTTGA 59.764 50.000 17.46 17.46 45.01 3.02
2339 2522 4.333095 CAGAGATCAAGTCTTGAGGCAATG 59.667 45.833 19.64 10.99 43.98 2.82
2381 2565 7.475840 AGAAAACAATCGCTTTATTGATCTCC 58.524 34.615 9.46 0.00 38.84 3.71
2505 2690 5.864474 GCCTCGATGATAACGAAACATCTAT 59.136 40.000 0.00 0.00 39.23 1.98
2670 2855 4.202253 TGAATGTACTCACAAGCTCACAGT 60.202 41.667 0.00 0.00 38.42 3.55
2716 2901 8.856490 ACAACAACAAGACATTTATCAAGTTC 57.144 30.769 0.00 0.00 0.00 3.01
2790 2981 1.264295 GTCCCTCGGACCAACTTACT 58.736 55.000 0.00 0.00 46.19 2.24
2802 2993 6.040616 CGGACCAACTTACTATCTCAGGTTAT 59.959 42.308 0.00 0.00 0.00 1.89
2803 2994 7.230108 CGGACCAACTTACTATCTCAGGTTATA 59.770 40.741 0.00 0.00 0.00 0.98
2804 2995 9.091220 GGACCAACTTACTATCTCAGGTTATAT 57.909 37.037 0.00 0.00 0.00 0.86
2823 3014 9.256228 GGTTATATATCTCATAACCCTCACTGA 57.744 37.037 12.28 0.00 46.57 3.41
2833 3024 2.690840 ACCCTCACTGACAACTTACCT 58.309 47.619 0.00 0.00 0.00 3.08
2834 3025 3.853207 ACCCTCACTGACAACTTACCTA 58.147 45.455 0.00 0.00 0.00 3.08
2835 3026 4.426704 ACCCTCACTGACAACTTACCTAT 58.573 43.478 0.00 0.00 0.00 2.57
2836 3027 5.586877 ACCCTCACTGACAACTTACCTATA 58.413 41.667 0.00 0.00 0.00 1.31
2837 3028 6.021030 ACCCTCACTGACAACTTACCTATAA 58.979 40.000 0.00 0.00 0.00 0.98
2838 3029 6.672657 ACCCTCACTGACAACTTACCTATAAT 59.327 38.462 0.00 0.00 0.00 1.28
2839 3030 7.182206 ACCCTCACTGACAACTTACCTATAATT 59.818 37.037 0.00 0.00 0.00 1.40
2840 3031 7.711339 CCCTCACTGACAACTTACCTATAATTC 59.289 40.741 0.00 0.00 0.00 2.17
2841 3032 8.258007 CCTCACTGACAACTTACCTATAATTCA 58.742 37.037 0.00 0.00 0.00 2.57
2842 3033 9.823647 CTCACTGACAACTTACCTATAATTCAT 57.176 33.333 0.00 0.00 0.00 2.57
2843 3034 9.599866 TCACTGACAACTTACCTATAATTCATG 57.400 33.333 0.00 0.00 0.00 3.07
2844 3035 8.830580 CACTGACAACTTACCTATAATTCATGG 58.169 37.037 0.00 0.00 0.00 3.66
2845 3036 7.499232 ACTGACAACTTACCTATAATTCATGGC 59.501 37.037 0.00 0.00 0.00 4.40
2846 3037 7.342581 TGACAACTTACCTATAATTCATGGCA 58.657 34.615 0.00 0.00 0.00 4.92
2847 3038 7.831690 TGACAACTTACCTATAATTCATGGCAA 59.168 33.333 0.00 0.00 0.00 4.52
2848 3039 8.588290 ACAACTTACCTATAATTCATGGCAAA 57.412 30.769 0.00 0.00 0.00 3.68
2849 3040 9.030452 ACAACTTACCTATAATTCATGGCAAAA 57.970 29.630 0.00 0.00 0.00 2.44
2850 3041 9.520204 CAACTTACCTATAATTCATGGCAAAAG 57.480 33.333 0.00 0.00 0.00 2.27
2851 3042 9.474313 AACTTACCTATAATTCATGGCAAAAGA 57.526 29.630 0.00 0.00 0.00 2.52
2852 3043 9.125026 ACTTACCTATAATTCATGGCAAAAGAG 57.875 33.333 0.00 0.00 0.00 2.85
2853 3044 9.342308 CTTACCTATAATTCATGGCAAAAGAGA 57.658 33.333 0.00 0.00 0.00 3.10
2854 3045 9.866655 TTACCTATAATTCATGGCAAAAGAGAT 57.133 29.630 0.00 0.00 0.00 2.75
2855 3046 8.401490 ACCTATAATTCATGGCAAAAGAGATC 57.599 34.615 0.00 0.00 0.00 2.75
2856 3047 7.449704 ACCTATAATTCATGGCAAAAGAGATCC 59.550 37.037 0.00 0.00 0.00 3.36
2857 3048 7.449395 CCTATAATTCATGGCAAAAGAGATCCA 59.551 37.037 0.00 0.00 0.00 3.41
2858 3049 5.593679 AATTCATGGCAAAAGAGATCCAG 57.406 39.130 0.00 0.00 31.36 3.86
2859 3050 3.726557 TCATGGCAAAAGAGATCCAGT 57.273 42.857 0.00 0.00 31.36 4.00
2860 3051 3.614092 TCATGGCAAAAGAGATCCAGTC 58.386 45.455 0.00 0.00 31.36 3.51
2861 3052 3.009363 TCATGGCAAAAGAGATCCAGTCA 59.991 43.478 0.00 0.00 31.36 3.41
2862 3053 2.783135 TGGCAAAAGAGATCCAGTCAC 58.217 47.619 0.00 0.00 0.00 3.67
2863 3054 2.106338 TGGCAAAAGAGATCCAGTCACA 59.894 45.455 0.00 0.00 0.00 3.58
2864 3055 2.485814 GGCAAAAGAGATCCAGTCACAC 59.514 50.000 0.00 0.00 0.00 3.82
2865 3056 3.406764 GCAAAAGAGATCCAGTCACACT 58.593 45.455 0.00 0.00 0.00 3.55
2866 3057 3.434984 GCAAAAGAGATCCAGTCACACTC 59.565 47.826 0.00 0.00 0.00 3.51
2867 3058 4.635223 CAAAAGAGATCCAGTCACACTCA 58.365 43.478 0.00 0.00 0.00 3.41
2868 3059 5.243981 CAAAAGAGATCCAGTCACACTCAT 58.756 41.667 0.00 0.00 0.00 2.90
2869 3060 6.401394 CAAAAGAGATCCAGTCACACTCATA 58.599 40.000 0.00 0.00 0.00 2.15
2870 3061 5.590530 AAGAGATCCAGTCACACTCATAC 57.409 43.478 0.00 0.00 0.00 2.39
2871 3062 4.865905 AGAGATCCAGTCACACTCATACT 58.134 43.478 0.00 0.00 0.00 2.12
2872 3063 4.887071 AGAGATCCAGTCACACTCATACTC 59.113 45.833 0.00 0.00 0.00 2.59
2873 3064 4.604156 AGATCCAGTCACACTCATACTCA 58.396 43.478 0.00 0.00 0.00 3.41
2874 3065 5.019470 AGATCCAGTCACACTCATACTCAA 58.981 41.667 0.00 0.00 0.00 3.02
2875 3066 4.521130 TCCAGTCACACTCATACTCAAC 57.479 45.455 0.00 0.00 0.00 3.18
2876 3067 3.895041 TCCAGTCACACTCATACTCAACA 59.105 43.478 0.00 0.00 0.00 3.33
2877 3068 4.528206 TCCAGTCACACTCATACTCAACAT 59.472 41.667 0.00 0.00 0.00 2.71
2878 3069 4.867047 CCAGTCACACTCATACTCAACATC 59.133 45.833 0.00 0.00 0.00 3.06
2879 3070 5.473039 CAGTCACACTCATACTCAACATCA 58.527 41.667 0.00 0.00 0.00 3.07
2880 3071 5.928264 CAGTCACACTCATACTCAACATCAA 59.072 40.000 0.00 0.00 0.00 2.57
2881 3072 6.592994 CAGTCACACTCATACTCAACATCAAT 59.407 38.462 0.00 0.00 0.00 2.57
2882 3073 7.118825 CAGTCACACTCATACTCAACATCAATT 59.881 37.037 0.00 0.00 0.00 2.32
2883 3074 8.314021 AGTCACACTCATACTCAACATCAATTA 58.686 33.333 0.00 0.00 0.00 1.40
2884 3075 8.935844 GTCACACTCATACTCAACATCAATTAA 58.064 33.333 0.00 0.00 0.00 1.40
2885 3076 9.671279 TCACACTCATACTCAACATCAATTAAT 57.329 29.630 0.00 0.00 0.00 1.40
2910 3101 7.466746 AACAAAGCATATAAATGACAGTGGT 57.533 32.000 0.00 0.00 34.84 4.16
2911 3102 6.855836 ACAAAGCATATAAATGACAGTGGTG 58.144 36.000 0.00 0.00 34.84 4.17
2912 3103 5.505173 AAGCATATAAATGACAGTGGTGC 57.495 39.130 0.00 0.00 34.84 5.01
2913 3104 4.785301 AGCATATAAATGACAGTGGTGCT 58.215 39.130 0.00 0.00 34.84 4.40
2914 3105 4.818546 AGCATATAAATGACAGTGGTGCTC 59.181 41.667 0.00 0.00 35.71 4.26
2915 3106 4.818546 GCATATAAATGACAGTGGTGCTCT 59.181 41.667 0.00 0.00 34.84 4.09
2916 3107 5.049818 GCATATAAATGACAGTGGTGCTCTC 60.050 44.000 0.00 0.00 34.84 3.20
2917 3108 4.833478 ATAAATGACAGTGGTGCTCTCT 57.167 40.909 0.00 0.00 0.00 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
225 229 8.994429 TTATTGTGTCAAATCTTCTCTCTCTC 57.006 34.615 0.00 0.00 0.00 3.20
226 230 9.381033 CATTATTGTGTCAAATCTTCTCTCTCT 57.619 33.333 0.00 0.00 0.00 3.10
245 249 7.818930 ACAAGCCACTTTTCCATTACATTATTG 59.181 33.333 0.00 0.00 0.00 1.90
253 358 9.868277 CAATAATTACAAGCCACTTTTCCATTA 57.132 29.630 0.00 0.00 0.00 1.90
322 427 2.265367 TGCCATCAAGAAGTACCCTCA 58.735 47.619 0.00 0.00 0.00 3.86
358 486 4.336433 CACCATGGCTCCAAACTACTATTG 59.664 45.833 13.04 0.00 0.00 1.90
432 561 2.155155 CGCGTCTTCCTAAACAAGTGAC 59.845 50.000 0.00 0.00 0.00 3.67
452 583 6.345803 CGTTTATGGTGATACAAGATAGCACG 60.346 42.308 0.00 0.00 34.94 5.34
486 619 5.461032 ACACACTTTCTTTTGTTGGACAA 57.539 34.783 0.00 0.00 36.11 3.18
523 656 9.630098 TTCTAAATTTGATCTTGCATCAGTTTC 57.370 29.630 0.00 0.00 0.00 2.78
692 826 8.863049 CAATCTTGCCACATGTTTTAATAGAAC 58.137 33.333 0.00 0.00 0.00 3.01
992 1137 4.285517 AGCCATTAGGATCCATGACTACTG 59.714 45.833 15.82 1.62 36.89 2.74
1076 1221 3.741029 GCTGTCGTGCCTCTCAATA 57.259 52.632 0.00 0.00 0.00 1.90
1157 1302 0.108585 GGGTGCAAGTGAGGAGTTCA 59.891 55.000 0.00 0.00 0.00 3.18
1177 1322 2.158534 TGGTAGGTTCAAGTGGTGCATT 60.159 45.455 0.00 0.00 0.00 3.56
1187 1332 6.367374 TGACTAACATCATGGTAGGTTCAA 57.633 37.500 14.47 0.00 41.84 2.69
1318 1463 1.683365 CCTCATTGTTGGGCTGGGG 60.683 63.158 0.00 0.00 0.00 4.96
1367 1512 5.279657 GGGTTTGAAAGGAAATCTTCATGCT 60.280 40.000 0.00 0.00 33.94 3.79
1404 1549 4.745351 AGGTATGATGATAGGAGTCTGCA 58.255 43.478 0.00 0.00 0.00 4.41
1407 1552 8.414042 AGGTATAGGTATGATGATAGGAGTCT 57.586 38.462 0.00 0.00 0.00 3.24
1426 1571 1.147191 AGACTCCATGGGCGAGGTATA 59.853 52.381 13.02 0.00 0.00 1.47
1539 1684 4.479303 TGCATGGTGGGCATATCG 57.521 55.556 0.00 0.00 36.11 2.92
1592 1737 6.208599 TGGGTCAATATTTTCAGGAGAACAAC 59.791 38.462 0.00 0.00 32.39 3.32
1725 1870 5.755861 GGTCTTATCTTCTCTTGGTACATGC 59.244 44.000 0.00 0.00 39.30 4.06
1796 1941 7.107542 TGTGTAATTACCCAAGGATGTAGAAC 58.892 38.462 13.01 0.35 0.00 3.01
1905 2050 5.014123 TCCATGGGAAGATCAACTTTGTAGT 59.986 40.000 13.02 0.00 39.13 2.73
2054 2205 9.469807 CTCACTCTTATGTTACTCCATTGATAC 57.530 37.037 0.00 0.00 0.00 2.24
2115 2298 9.606631 ACAACAACACATACCATTTAAACAAAT 57.393 25.926 0.00 0.00 0.00 2.32
2123 2306 6.227298 TGGAAACAACAACACATACCATTT 57.773 33.333 0.00 0.00 37.44 2.32
2230 2413 6.286758 TGCCTAGCTCTAGAAAATCTTCATG 58.713 40.000 5.53 0.00 35.21 3.07
2262 2445 1.528309 CGGGGTGCCACAAGAAGTT 60.528 57.895 0.00 0.00 0.00 2.66
2263 2446 2.113139 CGGGGTGCCACAAGAAGT 59.887 61.111 0.00 0.00 0.00 3.01
2264 2447 2.672996 CCGGGGTGCCACAAGAAG 60.673 66.667 0.00 0.00 0.00 2.85
2265 2448 4.966787 GCCGGGGTGCCACAAGAA 62.967 66.667 2.18 0.00 0.00 2.52
2331 2514 2.129607 CAAGTTGTTGTGCATTGCCTC 58.870 47.619 6.12 0.11 0.00 4.70
2332 2515 1.202557 CCAAGTTGTTGTGCATTGCCT 60.203 47.619 6.12 0.00 30.95 4.75
2339 2522 6.500041 TGTTTTCTATACCAAGTTGTTGTGC 58.500 36.000 1.45 0.00 30.95 4.57
2381 2565 5.928976 TCCATCAAACCTATGTATCCACAG 58.071 41.667 0.00 0.00 38.30 3.66
2505 2690 3.192230 CGTATTTCCGCTGCCGCA 61.192 61.111 0.00 0.00 35.30 5.69
2519 2704 1.812235 TGGAGTTCTGCTACGTCGTA 58.188 50.000 4.78 4.78 0.00 3.43
2670 2855 7.708322 TGTTGTTTGTCATATTTGCTTTGCTTA 59.292 29.630 0.00 0.00 0.00 3.09
2716 2901 8.613482 GGATATCTCATCATGTTCATGCATTAG 58.387 37.037 0.00 0.00 0.00 1.73
2802 2993 7.785028 AGTTGTCAGTGAGGGTTATGAGATATA 59.215 37.037 0.00 0.00 0.00 0.86
2803 2994 6.613271 AGTTGTCAGTGAGGGTTATGAGATAT 59.387 38.462 0.00 0.00 0.00 1.63
2804 2995 5.958380 AGTTGTCAGTGAGGGTTATGAGATA 59.042 40.000 0.00 0.00 0.00 1.98
2805 2996 4.780021 AGTTGTCAGTGAGGGTTATGAGAT 59.220 41.667 0.00 0.00 0.00 2.75
2823 3014 8.588290 TTTGCCATGAATTATAGGTAAGTTGT 57.412 30.769 0.00 0.00 0.00 3.32
2833 3024 8.000709 ACTGGATCTCTTTTGCCATGAATTATA 58.999 33.333 0.00 0.00 0.00 0.98
2834 3025 6.837568 ACTGGATCTCTTTTGCCATGAATTAT 59.162 34.615 0.00 0.00 0.00 1.28
2835 3026 6.189859 ACTGGATCTCTTTTGCCATGAATTA 58.810 36.000 0.00 0.00 0.00 1.40
2836 3027 5.021458 ACTGGATCTCTTTTGCCATGAATT 58.979 37.500 0.00 0.00 0.00 2.17
2837 3028 4.607239 ACTGGATCTCTTTTGCCATGAAT 58.393 39.130 0.00 0.00 0.00 2.57
2838 3029 4.012374 GACTGGATCTCTTTTGCCATGAA 58.988 43.478 0.00 0.00 0.00 2.57
2839 3030 3.009363 TGACTGGATCTCTTTTGCCATGA 59.991 43.478 0.00 0.00 0.00 3.07
2840 3031 3.128242 GTGACTGGATCTCTTTTGCCATG 59.872 47.826 0.00 0.00 0.00 3.66
2841 3032 3.245016 TGTGACTGGATCTCTTTTGCCAT 60.245 43.478 0.00 0.00 0.00 4.40
2842 3033 2.106338 TGTGACTGGATCTCTTTTGCCA 59.894 45.455 0.00 0.00 0.00 4.92
2843 3034 2.485814 GTGTGACTGGATCTCTTTTGCC 59.514 50.000 0.00 0.00 0.00 4.52
2844 3035 3.406764 AGTGTGACTGGATCTCTTTTGC 58.593 45.455 0.00 0.00 0.00 3.68
2845 3036 4.635223 TGAGTGTGACTGGATCTCTTTTG 58.365 43.478 0.00 0.00 0.00 2.44
2846 3037 4.963318 TGAGTGTGACTGGATCTCTTTT 57.037 40.909 0.00 0.00 0.00 2.27
2847 3038 5.719085 AGTATGAGTGTGACTGGATCTCTTT 59.281 40.000 0.00 0.00 0.00 2.52
2848 3039 5.268387 AGTATGAGTGTGACTGGATCTCTT 58.732 41.667 0.00 0.00 0.00 2.85
2849 3040 4.865905 AGTATGAGTGTGACTGGATCTCT 58.134 43.478 0.00 0.00 0.00 3.10
2850 3041 4.642437 TGAGTATGAGTGTGACTGGATCTC 59.358 45.833 0.00 0.00 0.00 2.75
2851 3042 4.604156 TGAGTATGAGTGTGACTGGATCT 58.396 43.478 0.00 0.00 0.00 2.75
2852 3043 4.991153 TGAGTATGAGTGTGACTGGATC 57.009 45.455 0.00 0.00 0.00 3.36
2853 3044 4.528206 TGTTGAGTATGAGTGTGACTGGAT 59.472 41.667 0.00 0.00 0.00 3.41
2854 3045 3.895041 TGTTGAGTATGAGTGTGACTGGA 59.105 43.478 0.00 0.00 0.00 3.86
2855 3046 4.257267 TGTTGAGTATGAGTGTGACTGG 57.743 45.455 0.00 0.00 0.00 4.00
2856 3047 5.473039 TGATGTTGAGTATGAGTGTGACTG 58.527 41.667 0.00 0.00 0.00 3.51
2857 3048 5.728637 TGATGTTGAGTATGAGTGTGACT 57.271 39.130 0.00 0.00 0.00 3.41
2858 3049 6.974932 ATTGATGTTGAGTATGAGTGTGAC 57.025 37.500 0.00 0.00 0.00 3.67
2859 3050 9.671279 ATTAATTGATGTTGAGTATGAGTGTGA 57.329 29.630 0.00 0.00 0.00 3.58
2884 3075 9.189156 ACCACTGTCATTTATATGCTTTGTTAT 57.811 29.630 0.00 0.00 0.00 1.89
2885 3076 8.458052 CACCACTGTCATTTATATGCTTTGTTA 58.542 33.333 0.00 0.00 0.00 2.41
2886 3077 7.315142 CACCACTGTCATTTATATGCTTTGTT 58.685 34.615 0.00 0.00 0.00 2.83
2887 3078 6.625740 GCACCACTGTCATTTATATGCTTTGT 60.626 38.462 0.00 0.00 0.00 2.83
2888 3079 5.745294 GCACCACTGTCATTTATATGCTTTG 59.255 40.000 0.00 0.00 0.00 2.77
2889 3080 5.653769 AGCACCACTGTCATTTATATGCTTT 59.346 36.000 0.00 0.00 37.62 3.51
2890 3081 5.195940 AGCACCACTGTCATTTATATGCTT 58.804 37.500 0.00 0.00 37.62 3.91
2891 3082 4.785301 AGCACCACTGTCATTTATATGCT 58.215 39.130 0.00 0.00 36.11 3.79
2892 3083 4.818546 AGAGCACCACTGTCATTTATATGC 59.181 41.667 0.00 0.00 0.00 3.14
2893 3084 6.286758 AGAGAGCACCACTGTCATTTATATG 58.713 40.000 0.00 0.00 41.17 1.78
2894 3085 6.491714 AGAGAGCACCACTGTCATTTATAT 57.508 37.500 0.00 0.00 41.17 0.86
2895 3086 5.939764 AGAGAGCACCACTGTCATTTATA 57.060 39.130 0.00 0.00 41.17 0.98
2896 3087 4.833478 AGAGAGCACCACTGTCATTTAT 57.167 40.909 0.00 0.00 41.17 1.40


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

AutoCloner maintained by Alex Coulton.