Multiple sequence alignment - TraesCS1B01G008400

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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 TraesCS1B01G008400 chr1B 100.000 3749 0 0 1 3749 4484673 4480925 0.000000e+00 6924.0
1 TraesCS1B01G008400 chr1B 91.043 3528 305 8 225 3749 3950377 3953896 0.000000e+00 4754.0
2 TraesCS1B01G008400 chr1B 86.591 2916 363 19 846 3749 4114376 4117275 0.000000e+00 3193.0
3 TraesCS1B01G008400 chr1B 87.821 2726 315 14 1032 3749 4150801 4153517 0.000000e+00 3179.0
4 TraesCS1B01G008400 chr1B 86.141 2915 384 15 846 3749 4591791 4588886 0.000000e+00 3127.0
5 TraesCS1B01G008400 chr1B 87.069 2753 345 11 1002 3749 4510838 4508092 0.000000e+00 3101.0
6 TraesCS1B01G008400 chr1B 86.512 2721 359 5 1032 3747 4095606 4098323 0.000000e+00 2985.0
7 TraesCS1B01G008400 chr1B 96.503 143 4 1 1 143 3950085 3950226 6.260000e-58 235.0
8 TraesCS1B01G008400 chr1B 90.909 77 3 1 141 213 3950252 3950328 2.380000e-17 100.0
9 TraesCS1B01G008400 chr3D 86.527 2917 370 16 846 3749 560058277 560055371 0.000000e+00 3188.0
10 TraesCS1B01G008400 chr1A 86.481 2759 352 17 1001 3749 3491814 3489067 0.000000e+00 3009.0
11 TraesCS1B01G008400 chr1A 85.610 2870 385 17 899 3749 3503979 3501119 0.000000e+00 2987.0
12 TraesCS1B01G008400 chr1A 86.813 91 9 2 528 618 3696114 3696027 8.570000e-17 99.0
13 TraesCS1B01G008400 chr1A 83.333 108 14 3 574 678 3694582 3694476 3.080000e-16 97.1
14 TraesCS1B01G008400 chr1D 81.193 218 21 12 574 786 723426 723224 1.390000e-34 158.0
15 TraesCS1B01G008400 chr1D 100.000 34 0 0 589 622 33989652 33989685 3.130000e-06 63.9


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 TraesCS1B01G008400 chr1B 4480925 4484673 3748 True 6924.000000 6924 100.000000 1 3749 1 chr1B.!!$R1 3748
1 TraesCS1B01G008400 chr1B 4114376 4117275 2899 False 3193.000000 3193 86.591000 846 3749 1 chr1B.!!$F2 2903
2 TraesCS1B01G008400 chr1B 4150801 4153517 2716 False 3179.000000 3179 87.821000 1032 3749 1 chr1B.!!$F3 2717
3 TraesCS1B01G008400 chr1B 4588886 4591791 2905 True 3127.000000 3127 86.141000 846 3749 1 chr1B.!!$R3 2903
4 TraesCS1B01G008400 chr1B 4508092 4510838 2746 True 3101.000000 3101 87.069000 1002 3749 1 chr1B.!!$R2 2747
5 TraesCS1B01G008400 chr1B 4095606 4098323 2717 False 2985.000000 2985 86.512000 1032 3747 1 chr1B.!!$F1 2715
6 TraesCS1B01G008400 chr1B 3950085 3953896 3811 False 1696.333333 4754 92.818333 1 3749 3 chr1B.!!$F4 3748
7 TraesCS1B01G008400 chr3D 560055371 560058277 2906 True 3188.000000 3188 86.527000 846 3749 1 chr3D.!!$R1 2903
8 TraesCS1B01G008400 chr1A 3489067 3491814 2747 True 3009.000000 3009 86.481000 1001 3749 1 chr1A.!!$R1 2748
9 TraesCS1B01G008400 chr1A 3501119 3503979 2860 True 2987.000000 2987 85.610000 899 3749 1 chr1A.!!$R2 2850

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
40 41 1.090052 GGCTAGTGCAACCGTGGATC 61.09 60.0 0.0 0.0 41.91 3.36 F
379 449 1.180029 CAGGCCTTGAATTCCACAGG 58.82 55.0 0.0 7.0 0.00 4.00 F
1977 2071 1.580059 TACCCCCAGAACTAGGCAAG 58.42 55.0 0.0 0.0 0.00 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1095 1189 1.070445 CTCAGTGAGATCCCTCCATGC 59.930 57.143 15.46 0.00 38.66 4.06 R
2328 2423 1.686052 AGGCTGATGAGATCTCCGAAC 59.314 52.381 20.03 8.99 0.00 3.95 R
3038 3137 0.318107 CCAAGTTTCTGCGGCAACAG 60.318 55.000 10.73 2.61 39.12 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
40 41 1.090052 GGCTAGTGCAACCGTGGATC 61.090 60.000 0.00 0.00 41.91 3.36
44 45 2.359850 TGCAACCGTGGATCTGCC 60.360 61.111 0.00 0.00 33.78 4.85
76 77 5.741982 GGATGTGCAACCGTAATATTTGTTC 59.258 40.000 0.00 0.00 34.36 3.18
120 121 8.129211 GGCACTTAGCTAGTACCAATAATTTTG 58.871 37.037 0.00 0.00 39.73 2.44
130 131 5.904362 ACCAATAATTTTGAGTCCAGCTC 57.096 39.130 0.00 0.00 44.36 4.09
143 144 2.224314 GTCCAGCTCAAACTTACTGTGC 59.776 50.000 0.00 0.00 34.32 4.57
145 146 2.481952 CCAGCTCAAACTTACTGTGCTC 59.518 50.000 0.00 0.00 40.62 4.26
146 147 3.133691 CAGCTCAAACTTACTGTGCTCA 58.866 45.455 0.00 0.00 40.62 4.26
147 148 3.059325 CAGCTCAAACTTACTGTGCTCAC 60.059 47.826 0.00 0.00 40.62 3.51
190 219 5.767816 ACTGTACATATCTACGCACATCA 57.232 39.130 0.00 0.00 0.00 3.07
193 222 6.485648 ACTGTACATATCTACGCACATCACTA 59.514 38.462 0.00 0.00 0.00 2.74
246 315 2.017049 GCATACCTGGTGTGTTGGATC 58.983 52.381 22.28 3.57 0.00 3.36
257 326 2.147958 GTGTTGGATCTTACACGGCAA 58.852 47.619 12.75 0.00 35.77 4.52
266 335 2.952978 TCTTACACGGCAACCAACATTT 59.047 40.909 0.00 0.00 0.00 2.32
283 352 7.387948 ACCAACATTTACAGAAAGCACTAGTAG 59.612 37.037 0.00 0.00 0.00 2.57
300 369 7.707893 GCACTAGTAGTGGAATTTTACCGAATA 59.292 37.037 27.48 0.00 46.01 1.75
330 400 4.035675 CCGAGCTTTGAACTTTTCTTCAGT 59.964 41.667 0.00 0.00 31.76 3.41
365 435 2.091541 TGCTGCTTTATTGTACAGGCC 58.908 47.619 0.00 0.00 0.00 5.19
379 449 1.180029 CAGGCCTTGAATTCCACAGG 58.820 55.000 0.00 7.00 0.00 4.00
404 474 3.072476 ACAGCCACTACCTCTTTTTGCTA 59.928 43.478 0.00 0.00 0.00 3.49
405 475 4.072131 CAGCCACTACCTCTTTTTGCTAA 58.928 43.478 0.00 0.00 0.00 3.09
411 481 4.989168 ACTACCTCTTTTTGCTAAGACACG 59.011 41.667 0.00 0.00 31.19 4.49
431 501 4.332819 CACGTGACTTCCAAAAAGACTTCT 59.667 41.667 10.90 0.00 0.00 2.85
465 535 2.639065 TGTAATCCCAGCACGGAATTC 58.361 47.619 0.00 0.00 36.56 2.17
682 753 2.670905 TGCCACGATGTTAACTGAATCG 59.329 45.455 19.52 19.52 46.57 3.34
712 783 2.871133 TCGGTGCATAAGTTGTAGACG 58.129 47.619 0.00 0.00 0.00 4.18
1221 1315 1.973281 CTGCAACTGGACGGGCATT 60.973 57.895 0.00 0.00 35.45 3.56
1246 1340 3.057548 CAGCTGTTCGCCATGGCA 61.058 61.111 34.93 19.88 42.06 4.92
1362 1456 6.043590 TCCTCACATATATTGACCTCAGCAAT 59.956 38.462 0.00 0.00 39.20 3.56
1720 1814 9.353999 CCCAGCTAAATATTTTGTACTTGTTTC 57.646 33.333 5.91 0.00 0.00 2.78
1758 1852 3.315596 GCCTATACCCCAAGAACTAGGT 58.684 50.000 0.00 0.00 36.36 3.08
1766 1860 2.365941 CCCAAGAACTAGGTAGGCTAGC 59.634 54.545 15.72 15.72 0.00 3.42
1783 1877 5.360999 AGGCTAGCCCATTTACAAATTCTTC 59.639 40.000 30.42 0.00 36.58 2.87
1821 1915 7.077050 TGATTTTTCAGGTCCAATTCCAATT 57.923 32.000 0.00 0.00 0.00 2.32
1889 1983 7.232330 TGAAAATCAAATCACAGGTCCAATACA 59.768 33.333 0.00 0.00 0.00 2.29
1902 1996 4.079958 GGTCCAATACACCCAGAAATAGGT 60.080 45.833 0.00 0.00 0.00 3.08
1929 2023 5.122396 CCTCACTATGCTAAACCAACTTGAC 59.878 44.000 0.00 0.00 0.00 3.18
1938 2032 3.771577 AACCAACTTGACCTCTACAGG 57.228 47.619 0.00 0.00 46.87 4.00
1977 2071 1.580059 TACCCCCAGAACTAGGCAAG 58.420 55.000 0.00 0.00 0.00 4.01
2065 2159 3.440522 GGGCAACTTACTGAATCTCCAAC 59.559 47.826 0.00 0.00 0.00 3.77
2068 2162 5.106515 GGCAACTTACTGAATCTCCAACTTC 60.107 44.000 0.00 0.00 0.00 3.01
2097 2191 4.900684 TGTCGAACAACCAAATATCTGGA 58.099 39.130 0.91 0.00 38.96 3.86
2109 2203 6.564152 ACCAAATATCTGGATCTATTCCTGGT 59.436 38.462 0.91 0.00 45.68 4.00
2130 2224 7.996644 CCTGGTAGCTTAGGAAATATAACCAAA 59.003 37.037 0.00 0.00 36.11 3.28
2150 2244 7.237255 ACCAAACTAGTACTACTACACCTCTT 58.763 38.462 0.00 0.00 0.00 2.85
2209 2304 4.191544 TGGCAATCTTATGAACCTCGAAG 58.808 43.478 0.00 0.00 0.00 3.79
2277 2372 4.100808 ACTTTTGGGAAGTTGCAAAGCATA 59.899 37.500 0.00 0.00 38.76 3.14
2365 2460 1.537202 GCCTTGTTGTACTTGAGCTGG 59.463 52.381 0.00 0.00 0.00 4.85
2368 2463 2.169832 TGTTGTACTTGAGCTGGCTC 57.830 50.000 14.86 14.86 43.01 4.70
2408 2503 5.137551 ACCTTTACCCGCAAATATATGCTT 58.862 37.500 0.00 0.00 44.21 3.91
2427 2522 3.623510 GCTTAGGTGGCAGACTTCAATAC 59.376 47.826 0.00 0.00 0.00 1.89
2505 2600 2.470821 ACGAGTTTGGTTCGACTTCTG 58.529 47.619 1.31 0.00 40.36 3.02
2520 2615 0.603707 TTCTGCTTCAGGCGAACCAG 60.604 55.000 7.58 7.58 45.43 4.00
2577 2672 9.113838 GTGTATCCACAACTCATAAAGATGAAT 57.886 33.333 0.00 0.00 40.24 2.57
2617 2712 7.675161 TTCTCTGGACATATCTCACCAAATA 57.325 36.000 0.00 0.00 31.85 1.40
2688 2783 4.397874 GGTTCCATACCCCCGGTA 57.602 61.111 0.00 0.00 42.80 4.02
2725 2820 6.658391 GTCCAACCTAGTAGAACTAAGACTCA 59.342 42.308 0.00 0.00 29.00 3.41
2731 2827 7.776500 ACCTAGTAGAACTAAGACTCAGATTCC 59.224 40.741 0.00 0.00 29.00 3.01
2742 2838 6.750660 AGACTCAGATTCCAATCATCTCAT 57.249 37.500 2.21 0.00 37.89 2.90
2814 2910 9.396022 ACTGAACTTATCATCGAACCAATTATT 57.604 29.630 0.00 0.00 37.44 1.40
2861 2957 8.340618 AGAAAAGCTAAGCAATCTTGAATACA 57.659 30.769 0.00 0.00 33.85 2.29
2927 3026 0.251341 AGGGGCCTGCACAAAACTAG 60.251 55.000 0.84 0.00 0.00 2.57
2975 3074 0.109342 CAGTGGAAGTCTGCCTGGTT 59.891 55.000 0.00 0.00 0.00 3.67
3038 3137 7.460287 TGTGAGCAACAATAACCTAAGTGGTC 61.460 42.308 0.00 0.00 41.78 4.02
3050 3149 2.280797 GTGGTCTGTTGCCGCAGA 60.281 61.111 3.55 3.55 42.56 4.26
3170 3269 3.674997 ACGCTTGATGTGTCCTACAATT 58.325 40.909 0.00 0.00 43.77 2.32
3279 3378 2.521465 TGGCCTGCCACCTTGTTG 60.521 61.111 6.80 0.00 41.89 3.33
3288 3387 1.479709 CCACCTTGTTGTTCAACCCA 58.520 50.000 12.23 0.16 32.18 4.51
3318 3420 3.444034 GCTCACCAAAAAGGGAAGATACC 59.556 47.826 0.00 0.00 43.89 2.73
3325 3427 5.306937 CCAAAAAGGGAAGATACCTGGTTTT 59.693 40.000 3.84 0.00 38.63 2.43
3362 3464 4.155709 TCTTGTGATGGGTTTTGGCATTA 58.844 39.130 0.00 0.00 0.00 1.90
3421 3523 3.885901 AGAAGAGAAAACCACAGGAAAGC 59.114 43.478 0.00 0.00 0.00 3.51
3424 3526 1.947456 AGAAAACCACAGGAAAGCGTC 59.053 47.619 0.00 0.00 0.00 5.19
3547 3649 1.200519 TTGGAACAGGAGGATACGGG 58.799 55.000 0.00 0.00 42.39 5.28
3565 3667 3.118738 ACGGGAAAGTCTATAAGGCACAG 60.119 47.826 0.00 0.00 0.00 3.66
3614 3716 3.685139 AGAAGCTTCATCAGACCGAAA 57.315 42.857 27.57 0.00 0.00 3.46
3634 3736 6.294176 CCGAAAAAGAGTTGGATGATGAAAGT 60.294 38.462 0.00 0.00 0.00 2.66
3685 3787 1.590238 CAGATCCGACAACGAAGCATC 59.410 52.381 0.00 0.00 42.66 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 0.524862 GCACATCCTGTTCTTGGCAG 59.475 55.000 0.00 0.00 0.00 4.85
44 45 1.069022 CGGTTGCACATCCTGTTCTTG 60.069 52.381 0.00 0.00 0.00 3.02
76 77 0.531532 CCTCATGCCTCGTTGCTAGG 60.532 60.000 0.00 0.00 37.17 3.02
120 121 3.743396 CACAGTAAGTTTGAGCTGGACTC 59.257 47.826 0.00 0.00 46.45 3.36
130 131 3.259207 GCAGTGAGCACAGTAAGTTTG 57.741 47.619 3.19 0.00 44.79 2.93
143 144 3.124806 CACATAGCAGAAACAGCAGTGAG 59.875 47.826 0.00 0.00 35.20 3.51
145 146 2.810274 ACACATAGCAGAAACAGCAGTG 59.190 45.455 0.00 0.00 37.46 3.66
146 147 3.131709 ACACATAGCAGAAACAGCAGT 57.868 42.857 0.00 0.00 0.00 4.40
147 148 4.692625 AGTAACACATAGCAGAAACAGCAG 59.307 41.667 0.00 0.00 0.00 4.24
190 219 6.852420 TTCACTTTGGTAGCTCATAGTAGT 57.148 37.500 0.00 0.00 30.01 2.73
193 222 7.620880 TGTAATTCACTTTGGTAGCTCATAGT 58.379 34.615 0.00 0.00 30.93 2.12
226 287 2.017049 GATCCAACACACCAGGTATGC 58.983 52.381 0.00 0.00 0.00 3.14
227 288 3.634397 AGATCCAACACACCAGGTATG 57.366 47.619 0.00 0.00 0.00 2.39
228 289 4.534500 TGTAAGATCCAACACACCAGGTAT 59.466 41.667 0.00 0.00 0.00 2.73
229 290 3.904965 TGTAAGATCCAACACACCAGGTA 59.095 43.478 0.00 0.00 0.00 3.08
230 291 2.708861 TGTAAGATCCAACACACCAGGT 59.291 45.455 0.00 0.00 0.00 4.00
232 293 2.736721 CGTGTAAGATCCAACACACCAG 59.263 50.000 21.55 7.37 44.98 4.00
233 294 2.549134 CCGTGTAAGATCCAACACACCA 60.549 50.000 21.55 0.00 44.98 4.17
236 297 1.070914 TGCCGTGTAAGATCCAACACA 59.929 47.619 21.55 5.80 44.98 3.72
246 315 3.363341 AAATGTTGGTTGCCGTGTAAG 57.637 42.857 0.00 0.00 0.00 2.34
257 326 6.062095 ACTAGTGCTTTCTGTAAATGTTGGT 58.938 36.000 0.00 0.00 0.00 3.67
266 335 6.852420 ATTCCACTACTAGTGCTTTCTGTA 57.148 37.500 5.39 0.00 44.63 2.74
283 352 6.094719 GTGGGTTTATTCGGTAAAATTCCAC 58.905 40.000 16.53 16.53 39.73 4.02
300 369 1.029681 GTTCAAAGCTCGGTGGGTTT 58.970 50.000 0.00 0.00 37.38 3.27
330 400 1.947212 GCAGCATCATGACCACACTGA 60.947 52.381 0.00 0.00 0.00 3.41
365 435 3.191371 GGCTGTAACCTGTGGAATTCAAG 59.809 47.826 7.93 1.62 0.00 3.02
379 449 4.320275 GCAAAAAGAGGTAGTGGCTGTAAC 60.320 45.833 0.00 0.00 0.00 2.50
404 474 4.094442 GTCTTTTTGGAAGTCACGTGTCTT 59.906 41.667 24.69 24.69 0.00 3.01
405 475 3.621715 GTCTTTTTGGAAGTCACGTGTCT 59.378 43.478 16.51 12.93 0.00 3.41
411 481 9.803315 AAATAAAGAAGTCTTTTTGGAAGTCAC 57.197 29.630 11.36 0.00 43.07 3.67
442 512 4.640771 ATTCCGTGCTGGGATTACATAT 57.359 40.909 0.00 0.00 27.83 1.78
443 513 4.102524 AGAATTCCGTGCTGGGATTACATA 59.897 41.667 0.65 0.00 46.73 2.29
444 514 3.117888 AGAATTCCGTGCTGGGATTACAT 60.118 43.478 0.65 0.00 46.73 2.29
445 515 2.238646 AGAATTCCGTGCTGGGATTACA 59.761 45.455 0.65 0.00 46.73 2.41
451 521 1.452108 GGGAGAATTCCGTGCTGGG 60.452 63.158 0.65 0.00 45.04 4.45
453 523 1.361668 CGTGGGAGAATTCCGTGCTG 61.362 60.000 0.65 0.00 45.04 4.41
682 753 1.378531 TATGCACCGAATGGACTTGC 58.621 50.000 0.00 0.00 39.21 4.01
733 804 1.003223 CGGACGCGTACATACTGATCA 60.003 52.381 23.49 0.00 0.00 2.92
878 949 2.031012 TCGCAACAGCTGAGTGGG 59.969 61.111 23.35 23.46 0.00 4.61
1095 1189 1.070445 CTCAGTGAGATCCCTCCATGC 59.930 57.143 15.46 0.00 38.66 4.06
1221 1315 2.822758 GCGAACAGCTGTGCACACA 61.823 57.895 24.69 3.06 44.04 3.72
1362 1456 1.977854 AGTGCACCATGGAGACTGTTA 59.022 47.619 21.47 0.00 0.00 2.41
1720 1814 2.711542 AGGCCCTGAAAGTTGATTACG 58.288 47.619 0.00 0.00 0.00 3.18
1758 1852 6.013554 AGAATTTGTAAATGGGCTAGCCTA 57.986 37.500 32.18 28.06 36.10 3.93
1766 1860 9.657419 AATTAAGCTGAAGAATTTGTAAATGGG 57.343 29.630 0.00 0.00 0.00 4.00
1783 1877 9.211485 ACCTGAAAAATCATTTGAATTAAGCTG 57.789 29.630 0.00 0.00 0.00 4.24
1821 1915 8.089625 TCATCTTAGTGAGATTGGTTATGGAA 57.910 34.615 0.00 0.00 42.55 3.53
1889 1983 4.436079 AGTGAGGTTACCTATTTCTGGGT 58.564 43.478 2.88 0.00 39.90 4.51
1902 1996 6.368779 AGTTGGTTTAGCATAGTGAGGTTA 57.631 37.500 0.00 0.00 0.00 2.85
1929 2023 6.653989 ACCTGTTATTTGATTCCTGTAGAGG 58.346 40.000 0.00 0.00 41.39 3.69
1977 2071 5.353678 AGAAAGTTCATTGAGCATAGTGAGC 59.646 40.000 3.25 0.00 0.00 4.26
2020 2114 5.200483 CAATTCTAAAGGTATTGGGCCTGA 58.800 41.667 4.53 0.00 36.30 3.86
2065 2159 4.617959 TGGTTGTTCGACAAGTCTAGAAG 58.382 43.478 0.00 0.00 39.00 2.85
2068 2162 5.924475 ATTTGGTTGTTCGACAAGTCTAG 57.076 39.130 0.00 0.00 39.00 2.43
2130 2224 8.930846 TTTCAAAGAGGTGTAGTAGTACTAGT 57.069 34.615 14.57 14.57 30.12 2.57
2143 2237 7.175641 ACCTGTTATCTGATTTTCAAAGAGGTG 59.824 37.037 14.62 0.00 37.16 4.00
2144 2238 7.234355 ACCTGTTATCTGATTTTCAAAGAGGT 58.766 34.615 11.23 11.23 35.10 3.85
2150 2244 7.122650 GGATGGAACCTGTTATCTGATTTTCAA 59.877 37.037 0.00 0.00 0.00 2.69
2220 2315 4.153411 ACCCCGAAATTTGGTTGTGATAA 58.847 39.130 0.00 0.00 0.00 1.75
2226 2321 3.676291 ATTGACCCCGAAATTTGGTTG 57.324 42.857 0.00 0.00 30.97 3.77
2328 2423 1.686052 AGGCTGATGAGATCTCCGAAC 59.314 52.381 20.03 8.99 0.00 3.95
2365 2460 3.063485 GTCCTGAAAGTGAGTTGAGAGC 58.937 50.000 0.00 0.00 0.00 4.09
2368 2463 3.760580 AGGTCCTGAAAGTGAGTTGAG 57.239 47.619 0.00 0.00 0.00 3.02
2408 2503 3.450904 AGGTATTGAAGTCTGCCACCTA 58.549 45.455 0.00 0.00 33.23 3.08
2453 2548 1.080638 ACTACTTGGAATGGGGCCAA 58.919 50.000 4.39 0.00 42.81 4.52
2617 2712 4.226394 TGTTAGTTGGGTACATGCACCTAT 59.774 41.667 14.87 0.00 38.73 2.57
2682 2777 4.581868 TGGACAATTTAGAAAGTACCGGG 58.418 43.478 6.32 0.00 0.00 5.73
2686 2781 8.843885 ACTAGGTTGGACAATTTAGAAAGTAC 57.156 34.615 0.00 0.00 0.00 2.73
2688 2783 8.877195 TCTACTAGGTTGGACAATTTAGAAAGT 58.123 33.333 0.00 0.00 0.00 2.66
2742 2838 5.474532 CAGATTTCTTGTGGAATCTCACCAA 59.525 40.000 0.00 0.00 39.22 3.67
2814 2910 4.860802 ATCTGTGTTGGTATGGATCCAA 57.139 40.909 20.67 5.49 41.84 3.53
2827 2923 7.609532 AGATTGCTTAGCTTTTCTATCTGTGTT 59.390 33.333 5.60 0.00 0.00 3.32
2861 2957 9.331466 ACTCAGTATGTTCCCAGATATATCAAT 57.669 33.333 15.08 0.00 37.40 2.57
2927 3026 5.296780 TGTTGTTGTTGATCTTCAAGGACTC 59.703 40.000 0.00 0.00 37.00 3.36
2966 3065 1.533625 TTTCCAATCGAACCAGGCAG 58.466 50.000 0.00 0.00 0.00 4.85
2975 3074 2.687935 GGCCTGCTAAATTTCCAATCGA 59.312 45.455 0.00 0.00 0.00 3.59
3005 3104 6.372659 AGGTTATTGTTGCTCACATCTAACAG 59.627 38.462 16.01 0.00 36.49 3.16
3038 3137 0.318107 CCAAGTTTCTGCGGCAACAG 60.318 55.000 10.73 2.61 39.12 3.16
3211 3310 1.334869 AGAAACCAACTTGCTGAAGCG 59.665 47.619 0.00 0.00 45.83 4.68
3279 3378 1.807142 GAGCAGCTACTTGGGTTGAAC 59.193 52.381 0.00 0.00 0.00 3.18
3288 3387 2.887152 CCTTTTTGGTGAGCAGCTACTT 59.113 45.455 0.00 0.00 0.00 2.24
3318 3420 5.585844 AGAACAATTGGCAAAAGAAAACCAG 59.414 36.000 10.83 0.00 32.79 4.00
3325 3427 5.336150 TCACAAGAACAATTGGCAAAAGA 57.664 34.783 10.83 0.00 34.36 2.52
3424 3526 2.032528 TCCCTTGCTTCAGCGGTG 59.967 61.111 8.67 8.67 45.83 4.94
3547 3649 4.123506 GGAGCTGTGCCTTATAGACTTTC 58.876 47.826 0.00 0.00 0.00 2.62
3565 3667 0.534652 CTAGCTGCCCATCTTGGAGC 60.535 60.000 0.00 0.00 40.96 4.70
3614 3716 9.525826 AAATCTACTTTCATCATCCAACTCTTT 57.474 29.630 0.00 0.00 0.00 2.52
3685 3787 5.490139 AGCAGAATCCATACATTTTGACG 57.510 39.130 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.