Multiple sequence alignment - TraesCS7B01G032800

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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 TraesCS7B01G032800 chr7B 100.000 3117 0 0 1 3117 32665734 32662618 0.000000e+00 5757.0
1 TraesCS7B01G032800 chr7D 89.410 1747 107 26 496 2207 83474571 83472868 0.000000e+00 2130.0
2 TraesCS7B01G032800 chr7D 91.930 917 39 16 2233 3117 83472359 83471446 0.000000e+00 1251.0
3 TraesCS7B01G032800 chr7A 86.903 1802 118 42 496 2233 85161332 85159585 0.000000e+00 1912.0
4 TraesCS7B01G032800 chr7A 90.872 493 40 2 1 488 85162582 85162090 0.000000e+00 656.0
5 TraesCS7B01G032800 chr7A 95.604 364 15 1 2751 3113 85158258 85157895 1.610000e-162 582.0
6 TraesCS7B01G032800 chr7A 95.062 324 14 2 2435 2757 85158850 85158528 2.770000e-140 508.0
7 TraesCS7B01G032800 chr7A 85.372 417 23 12 997 1399 68202260 68202652 6.260000e-107 398.0
8 TraesCS7B01G032800 chr7A 100.000 37 0 0 2404 2440 85158899 85158863 5.580000e-08 69.4
9 TraesCS7B01G032800 chr2A 86.420 405 23 12 1010 1400 505416788 505417174 6.220000e-112 414.0
10 TraesCS7B01G032800 chr2A 85.928 334 20 9 1003 1334 519936797 519936489 6.440000e-87 331.0
11 TraesCS7B01G032800 chr1A 81.250 80 14 1 2274 2353 526746277 526746199 2.600000e-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 TraesCS7B01G032800 chr7B 32662618 32665734 3116 True 5757.00 5757 100.0000 1 3117 1 chr7B.!!$R1 3116
1 TraesCS7B01G032800 chr7D 83471446 83474571 3125 True 1690.50 2130 90.6700 496 3117 2 chr7D.!!$R1 2621
2 TraesCS7B01G032800 chr7A 85157895 85162582 4687 True 745.48 1912 93.6882 1 3113 5 chr7A.!!$R1 3112

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
576 1336 0.784495 ACCTATCTATGCCCCGGAGA 59.216 55.000 0.73 0.0 0.0 3.71 F
942 1713 1.003718 CAACCCCACCTTCTCCGAC 60.004 63.158 0.00 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1825 2639 0.175073 GATCAAGTACCTTCGCCCGT 59.825 55.0 0.0 0.0 0.0 5.28 R
2190 3033 0.179100 GTGCAGAATAGCCGCTCTCA 60.179 55.0 0.0 0.0 0.0 3.27 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
80 81 3.181416 ACACCCATTTTAGTGCCCCTTAA 60.181 43.478 0.00 0.00 37.51 1.85
90 91 4.073293 AGTGCCCCTTAACATAAGATCG 57.927 45.455 0.00 0.00 0.00 3.69
136 141 9.860898 ATGCATTAGAACTTTAAATTGGAAGAC 57.139 29.630 0.00 3.07 0.00 3.01
156 161 6.056090 AGACTACCTTCCAAATTCCTCTTC 57.944 41.667 0.00 0.00 0.00 2.87
160 165 4.411013 ACCTTCCAAATTCCTCTTCTTGG 58.589 43.478 0.00 0.00 39.80 3.61
188 193 6.352516 CAATTGTAGCCCTCTCATTTACTCT 58.647 40.000 0.00 0.00 0.00 3.24
189 194 6.567602 ATTGTAGCCCTCTCATTTACTCTT 57.432 37.500 0.00 0.00 0.00 2.85
194 199 6.072199 AGCCCTCTCATTTACTCTTTTCAT 57.928 37.500 0.00 0.00 0.00 2.57
246 252 5.236911 CCTCAAATTCATCTCAGAAGCTAGC 59.763 44.000 6.62 6.62 0.00 3.42
251 257 1.680735 CATCTCAGAAGCTAGCGGAGT 59.319 52.381 20.38 5.97 0.00 3.85
280 286 5.182001 GGGAGGATATCATCAAAAACATCGG 59.818 44.000 18.38 0.00 0.00 4.18
323 329 5.694006 GCACCACATAATCAGTAGAGACATC 59.306 44.000 0.00 0.00 0.00 3.06
326 332 6.041409 ACCACATAATCAGTAGAGACATCCAG 59.959 42.308 0.00 0.00 0.00 3.86
340 346 4.063689 GACATCCAGGTTGCTATCATCAG 58.936 47.826 0.00 0.00 0.00 2.90
349 355 2.486918 TGCTATCATCAGCACAATCCG 58.513 47.619 0.00 0.00 46.41 4.18
351 357 1.802960 CTATCATCAGCACAATCCGCC 59.197 52.381 0.00 0.00 0.00 6.13
378 384 2.544844 CCTGAGGGGTAGAGGTAACA 57.455 55.000 0.00 0.00 41.41 2.41
393 399 5.707298 AGAGGTAACAACATCCACAAATGAG 59.293 40.000 0.00 0.00 41.41 2.90
400 406 4.371624 ACATCCACAAATGAGTTCCTGA 57.628 40.909 0.00 0.00 0.00 3.86
401 407 4.927049 ACATCCACAAATGAGTTCCTGAT 58.073 39.130 0.00 0.00 0.00 2.90
412 418 5.116084 TGAGTTCCTGATTAGGGGAATTG 57.884 43.478 3.28 0.00 44.70 2.32
466 472 1.152777 TGGTCCTTGTTGTGCCCAG 60.153 57.895 0.00 0.00 0.00 4.45
469 475 1.477923 GGTCCTTGTTGTGCCCAGTAA 60.478 52.381 0.00 0.00 0.00 2.24
472 478 3.439129 GTCCTTGTTGTGCCCAGTAATAC 59.561 47.826 0.00 0.00 0.00 1.89
488 494 6.039941 CCAGTAATACCAACACAGGAAACAAA 59.960 38.462 0.00 0.00 0.00 2.83
489 495 7.416890 CCAGTAATACCAACACAGGAAACAAAA 60.417 37.037 0.00 0.00 0.00 2.44
490 496 7.976734 CAGTAATACCAACACAGGAAACAAAAA 59.023 33.333 0.00 0.00 0.00 1.94
491 497 7.977293 AGTAATACCAACACAGGAAACAAAAAC 59.023 33.333 0.00 0.00 0.00 2.43
492 498 4.882842 ACCAACACAGGAAACAAAAACT 57.117 36.364 0.00 0.00 0.00 2.66
493 499 4.565022 ACCAACACAGGAAACAAAAACTG 58.435 39.130 0.00 0.00 37.01 3.16
494 500 3.932089 CCAACACAGGAAACAAAAACTGG 59.068 43.478 0.00 0.00 35.34 4.00
500 1256 4.202111 ACAGGAAACAAAAACTGGATTCCG 60.202 41.667 0.00 0.00 44.18 4.30
526 1282 1.677633 AACACCACTTATGCCGCCC 60.678 57.895 0.00 0.00 0.00 6.13
533 1289 2.776526 TTATGCCGCCCCCTGGAT 60.777 61.111 0.00 0.00 0.00 3.41
543 1302 1.218439 CCCCCTGGATAACCCCAACA 61.218 60.000 0.00 0.00 35.47 3.33
547 1306 2.491825 CCCTGGATAACCCCAACAAACA 60.492 50.000 0.00 0.00 35.47 2.83
566 1326 7.690256 ACAAACAGAAACAAGGACCTATCTAT 58.310 34.615 0.00 0.00 0.00 1.98
576 1336 0.784495 ACCTATCTATGCCCCGGAGA 59.216 55.000 0.73 0.00 0.00 3.71
579 1339 2.624293 CCTATCTATGCCCCGGAGATCA 60.624 54.545 0.73 0.00 32.27 2.92
687 1451 2.438614 TCTGGACCGCCTCTCTCG 60.439 66.667 0.00 0.00 34.31 4.04
845 1615 5.277345 CGGCGGAAAATTCCTCATAAACTAG 60.277 44.000 10.31 0.00 45.33 2.57
942 1713 1.003718 CAACCCCACCTTCTCCGAC 60.004 63.158 0.00 0.00 0.00 4.79
1006 1777 1.372251 CTCGCGCTTCACACTCACT 60.372 57.895 5.56 0.00 0.00 3.41
1008 1779 2.710971 CGCGCTTCACACTCACTCG 61.711 63.158 5.56 0.00 0.00 4.18
1037 1812 1.611519 GGTGATTTTCCCGTTGACCA 58.388 50.000 0.00 0.00 0.00 4.02
1043 1818 4.022416 TGATTTTCCCGTTGACCAATCAAG 60.022 41.667 0.00 0.00 45.58 3.02
1064 1839 1.012841 CAAGAAATCCTCCTCAGCGC 58.987 55.000 0.00 0.00 0.00 5.92
1069 1844 2.249413 AATCCTCCTCAGCGCAGTGG 62.249 60.000 11.47 13.03 0.00 4.00
1072 1847 4.383861 TCCTCAGCGCAGTGGCAG 62.384 66.667 15.30 0.00 41.24 4.85
1088 1863 2.039405 CAGAGCCAGCAGAAGCCAC 61.039 63.158 0.00 0.00 43.56 5.01
1825 2639 1.202582 GAGTCGTGCCAAGCTTCTAGA 59.797 52.381 0.00 0.00 0.00 2.43
1826 2640 1.067495 AGTCGTGCCAAGCTTCTAGAC 60.067 52.381 0.00 2.56 0.00 2.59
1827 2641 0.109272 TCGTGCCAAGCTTCTAGACG 60.109 55.000 0.00 3.19 0.00 4.18
1828 2642 1.078759 CGTGCCAAGCTTCTAGACGG 61.079 60.000 0.00 0.00 0.00 4.79
1829 2643 0.741221 GTGCCAAGCTTCTAGACGGG 60.741 60.000 0.00 0.00 0.00 5.28
1830 2644 1.815840 GCCAAGCTTCTAGACGGGC 60.816 63.158 6.02 6.02 0.00 6.13
1831 2645 1.519455 CCAAGCTTCTAGACGGGCG 60.519 63.158 0.00 0.00 0.00 6.13
1832 2646 1.511305 CAAGCTTCTAGACGGGCGA 59.489 57.895 0.00 0.00 0.00 5.54
1833 2647 0.108804 CAAGCTTCTAGACGGGCGAA 60.109 55.000 0.00 0.00 0.00 4.70
1834 2648 0.173708 AAGCTTCTAGACGGGCGAAG 59.826 55.000 0.00 0.00 37.72 3.79
1835 2649 1.227002 GCTTCTAGACGGGCGAAGG 60.227 63.158 0.00 0.00 35.78 3.46
1836 2650 1.946475 GCTTCTAGACGGGCGAAGGT 61.946 60.000 0.00 0.00 35.78 3.50
1837 2651 1.386533 CTTCTAGACGGGCGAAGGTA 58.613 55.000 0.00 0.00 32.55 3.08
1838 2652 1.065251 CTTCTAGACGGGCGAAGGTAC 59.935 57.143 0.00 0.00 32.55 3.34
1873 2687 2.183046 GTCTGCCCAGCTCGAGAC 59.817 66.667 18.75 7.74 0.00 3.36
1875 2689 1.908299 TCTGCCCAGCTCGAGACAA 60.908 57.895 18.75 0.00 0.00 3.18
1877 2691 0.603707 CTGCCCAGCTCGAGACAAAA 60.604 55.000 18.75 0.00 0.00 2.44
1878 2692 0.036732 TGCCCAGCTCGAGACAAAAT 59.963 50.000 18.75 0.00 0.00 1.82
1884 2702 1.002430 AGCTCGAGACAAAATCCAGCA 59.998 47.619 18.75 0.00 0.00 4.41
1928 2768 1.105167 TCTTCCTGTCGTGTCCGTGT 61.105 55.000 0.00 0.00 35.01 4.49
1932 2772 1.362717 CTGTCGTGTCCGTGTTCCT 59.637 57.895 0.00 0.00 35.01 3.36
1982 2822 1.746787 GGTAAAAACCCGCCATCGATT 59.253 47.619 0.00 0.00 38.10 3.34
1983 2823 2.164827 GGTAAAAACCCGCCATCGATTT 59.835 45.455 0.00 0.00 38.10 2.17
2139 2982 3.019964 GTGGCCACACTGATGTTCA 57.980 52.632 31.23 0.00 44.29 3.18
2142 2985 2.420022 GTGGCCACACTGATGTTCATAC 59.580 50.000 31.23 0.00 44.29 2.39
2143 2986 2.305635 TGGCCACACTGATGTTCATACT 59.694 45.455 0.00 0.00 36.72 2.12
2144 2987 2.939103 GGCCACACTGATGTTCATACTC 59.061 50.000 0.00 0.00 36.72 2.59
2145 2988 2.939103 GCCACACTGATGTTCATACTCC 59.061 50.000 0.00 0.00 36.72 3.85
2146 2989 3.190079 CCACACTGATGTTCATACTCCG 58.810 50.000 0.00 0.00 36.72 4.63
2183 3026 6.014669 TGCCAGTGTTTATGGATAAAGCTTTT 60.015 34.615 18.47 5.29 40.51 2.27
2221 3064 3.735237 ATTCTGCACCTAGGTGTATCG 57.265 47.619 36.31 23.89 46.90 2.92
2225 3068 0.177141 GCACCTAGGTGTATCGGCAA 59.823 55.000 36.31 0.00 46.90 4.52
2233 3076 1.134521 GGTGTATCGGCAACTGGATGA 60.135 52.381 0.00 0.00 0.00 2.92
2234 3077 2.485479 GGTGTATCGGCAACTGGATGAT 60.485 50.000 0.00 0.00 0.00 2.45
2254 3666 4.410555 TGATATACCCCACATGTTACTGCA 59.589 41.667 0.00 0.00 0.00 4.41
2267 3704 8.192774 CACATGTTACTGCAGGAATTGATTATT 58.807 33.333 23.91 5.56 0.00 1.40
2453 3953 9.716556 AATAGGTTAGTGTATATAGGATGGGAG 57.283 37.037 0.00 0.00 0.00 4.30
2520 4021 8.736244 TGTAGCTTTCATGGTTTAATTTCCTAC 58.264 33.333 0.00 0.00 0.00 3.18
2683 4184 5.652452 AGTATCTTTACAATTTGGGAGTGCC 59.348 40.000 0.78 0.00 0.00 5.01
2723 4224 1.330655 CCGGGTGTGCCTGAGTCTAT 61.331 60.000 0.00 0.00 43.97 1.98
2726 4227 0.807667 GGTGTGCCTGAGTCTATGCG 60.808 60.000 0.00 0.00 0.00 4.73
2800 4577 4.553742 CGACAACGACCATGACATTTTCAA 60.554 41.667 0.00 0.00 42.66 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 9.359653 CCTGGAAATGATTTTTCCTACATAGAT 57.640 33.333 15.87 0.00 46.16 1.98
136 141 5.649831 CCAAGAAGAGGAATTTGGAAGGTAG 59.350 44.000 0.00 0.00 42.05 3.18
152 157 4.261801 GGCTACAATTGCTACCAAGAAGA 58.738 43.478 5.05 0.00 33.80 2.87
156 161 2.945668 GAGGGCTACAATTGCTACCAAG 59.054 50.000 5.05 0.00 33.80 3.61
160 165 3.543680 TGAGAGGGCTACAATTGCTAC 57.456 47.619 5.05 0.00 0.00 3.58
188 193 9.730705 TGGGAAATGCACAAAATAATATGAAAA 57.269 25.926 0.00 0.00 0.00 2.29
189 194 9.730705 TTGGGAAATGCACAAAATAATATGAAA 57.269 25.926 0.00 0.00 36.84 2.69
194 199 7.032580 CGACTTGGGAAATGCACAAAATAATA 58.967 34.615 0.00 0.00 39.94 0.98
203 208 1.068541 GGTTCGACTTGGGAAATGCAC 60.069 52.381 0.00 0.00 0.00 4.57
204 209 1.202879 AGGTTCGACTTGGGAAATGCA 60.203 47.619 0.00 0.00 0.00 3.96
205 210 1.468914 GAGGTTCGACTTGGGAAATGC 59.531 52.381 0.00 0.00 0.00 3.56
209 215 3.502123 ATTTGAGGTTCGACTTGGGAA 57.498 42.857 0.00 0.00 0.00 3.97
246 252 4.571369 TGATATCCTCCCTACTACTCCG 57.429 50.000 0.00 0.00 0.00 4.63
251 257 8.561536 TGTTTTTGATGATATCCTCCCTACTA 57.438 34.615 0.00 0.00 0.00 1.82
280 286 4.299978 GTGCAATATCGAGTTACCTCTCC 58.700 47.826 0.00 0.00 35.43 3.71
290 296 5.698089 ACTGATTATGTGGTGCAATATCGAG 59.302 40.000 0.00 0.00 0.00 4.04
292 298 5.929697 ACTGATTATGTGGTGCAATATCG 57.070 39.130 0.00 0.00 0.00 2.92
340 346 1.451927 TGATGGAGGCGGATTGTGC 60.452 57.895 0.00 0.00 0.00 4.57
344 350 0.982852 TCAGGTGATGGAGGCGGATT 60.983 55.000 0.00 0.00 0.00 3.01
347 353 2.503061 CTCAGGTGATGGAGGCGG 59.497 66.667 0.00 0.00 0.00 6.13
377 383 4.520111 TCAGGAACTCATTTGTGGATGTTG 59.480 41.667 0.00 0.00 34.60 3.33
378 384 4.728772 TCAGGAACTCATTTGTGGATGTT 58.271 39.130 0.00 0.00 34.60 2.71
393 399 4.519906 TCCAATTCCCCTAATCAGGAAC 57.480 45.455 0.00 0.00 45.91 3.62
400 406 4.419875 TGTGATCCATCCAATTCCCCTAAT 59.580 41.667 0.00 0.00 0.00 1.73
401 407 3.790976 TGTGATCCATCCAATTCCCCTAA 59.209 43.478 0.00 0.00 0.00 2.69
443 449 1.523758 GCACAACAAGGACCAGGTAG 58.476 55.000 0.00 0.00 0.00 3.18
466 472 7.977293 AGTTTTTGTTTCCTGTGTTGGTATTAC 59.023 33.333 0.00 0.00 0.00 1.89
469 475 6.337356 CAGTTTTTGTTTCCTGTGTTGGTAT 58.663 36.000 0.00 0.00 0.00 2.73
472 478 3.932089 CCAGTTTTTGTTTCCTGTGTTGG 59.068 43.478 0.00 0.00 0.00 3.77
488 494 3.981071 TGTCTCATCGGAATCCAGTTT 57.019 42.857 0.00 0.00 0.00 2.66
489 495 3.007940 TGTTGTCTCATCGGAATCCAGTT 59.992 43.478 0.00 0.00 0.00 3.16
490 496 2.567169 TGTTGTCTCATCGGAATCCAGT 59.433 45.455 0.00 0.00 0.00 4.00
491 497 2.932614 GTGTTGTCTCATCGGAATCCAG 59.067 50.000 0.00 0.00 0.00 3.86
492 498 2.354704 GGTGTTGTCTCATCGGAATCCA 60.355 50.000 0.00 0.00 0.00 3.41
493 499 2.280628 GGTGTTGTCTCATCGGAATCC 58.719 52.381 0.00 0.00 0.00 3.01
494 500 2.673368 GTGGTGTTGTCTCATCGGAATC 59.327 50.000 0.00 0.00 0.00 2.52
500 1256 3.375299 GGCATAAGTGGTGTTGTCTCATC 59.625 47.826 0.00 0.00 0.00 2.92
526 1282 2.176045 GTTTGTTGGGGTTATCCAGGG 58.824 52.381 0.00 0.00 38.17 4.45
533 1289 4.160626 CCTTGTTTCTGTTTGTTGGGGTTA 59.839 41.667 0.00 0.00 0.00 2.85
543 1302 6.599638 GCATAGATAGGTCCTTGTTTCTGTTT 59.400 38.462 0.00 0.00 0.00 2.83
547 1306 4.103311 GGGCATAGATAGGTCCTTGTTTCT 59.897 45.833 0.00 0.00 0.00 2.52
566 1326 4.414956 AGGGTGATCTCCGGGGCA 62.415 66.667 0.00 0.00 0.00 5.36
594 1354 4.802051 GCCTCCAATGGCCGCTCA 62.802 66.667 0.00 0.00 46.82 4.26
604 1364 2.903357 GCTCTCATCGGCCTCCAA 59.097 61.111 0.00 0.00 0.00 3.53
687 1451 1.608283 CCTTCTCGAACCTTCCACACC 60.608 57.143 0.00 0.00 0.00 4.16
734 1504 2.285083 TCAACCAAGACCGACTTTGTG 58.715 47.619 0.00 0.00 35.20 3.33
845 1615 1.066858 TGATTGGGTTGAGCGAGACTC 60.067 52.381 0.00 0.00 46.45 3.36
942 1713 4.825679 GGTGGAGGGGGAGGGAGG 62.826 77.778 0.00 0.00 0.00 4.30
1006 1777 0.249699 AAATCACCGAGTGTGTGCGA 60.250 50.000 4.33 0.00 45.61 5.10
1008 1779 1.069227 GGAAAATCACCGAGTGTGTGC 60.069 52.381 4.33 0.00 45.61 4.57
1025 1800 1.243902 GCTTGATTGGTCAACGGGAA 58.756 50.000 0.00 0.00 39.36 3.97
1026 1801 0.608035 GGCTTGATTGGTCAACGGGA 60.608 55.000 0.00 0.00 39.36 5.14
1027 1802 0.893270 TGGCTTGATTGGTCAACGGG 60.893 55.000 0.00 0.00 39.36 5.28
1037 1812 4.264083 TGAGGAGGATTTCTTGGCTTGATT 60.264 41.667 0.00 0.00 0.00 2.57
1043 1818 1.387539 GCTGAGGAGGATTTCTTGGC 58.612 55.000 0.00 0.00 0.00 4.52
1069 1844 3.132801 GGCTTCTGCTGGCTCTGC 61.133 66.667 0.00 0.00 39.59 4.26
1072 1847 3.123620 CGTGGCTTCTGCTGGCTC 61.124 66.667 0.00 0.00 39.59 4.70
1088 1863 2.587194 CTTCGCTCTCCATGCCCG 60.587 66.667 0.00 0.00 0.00 6.13
1446 2248 0.249447 CGTCCGATAGCATGCTTCCA 60.249 55.000 28.02 8.59 0.00 3.53
1534 2348 2.505118 GACGACGACTGCCTCTGC 60.505 66.667 0.00 0.00 38.26 4.26
1536 2350 3.063084 GGGACGACGACTGCCTCT 61.063 66.667 0.00 0.00 0.00 3.69
1596 2410 1.008538 CTTGCGGTTCTTGCGCTTT 60.009 52.632 9.73 0.00 34.24 3.51
1712 2526 1.083209 CTCGTGTTGTCGTCGTCGA 60.083 57.895 0.00 0.00 44.12 4.20
1825 2639 0.175073 GATCAAGTACCTTCGCCCGT 59.825 55.000 0.00 0.00 0.00 5.28
1826 2640 0.870307 CGATCAAGTACCTTCGCCCG 60.870 60.000 0.00 0.00 0.00 6.13
1827 2641 0.175073 ACGATCAAGTACCTTCGCCC 59.825 55.000 0.00 0.00 35.08 6.13
1828 2642 1.278238 CACGATCAAGTACCTTCGCC 58.722 55.000 0.00 0.00 35.08 5.54
1829 2643 1.278238 CCACGATCAAGTACCTTCGC 58.722 55.000 0.00 0.00 35.08 4.70
1830 2644 1.278238 GCCACGATCAAGTACCTTCG 58.722 55.000 0.00 0.00 37.60 3.79
1831 2645 2.380084 TGCCACGATCAAGTACCTTC 57.620 50.000 0.00 0.00 0.00 3.46
1832 2646 2.851263 TTGCCACGATCAAGTACCTT 57.149 45.000 0.00 0.00 0.00 3.50
1833 2647 2.632377 CATTGCCACGATCAAGTACCT 58.368 47.619 0.00 0.00 0.00 3.08
1834 2648 1.670811 CCATTGCCACGATCAAGTACC 59.329 52.381 0.00 0.00 0.00 3.34
1835 2649 1.064060 GCCATTGCCACGATCAAGTAC 59.936 52.381 0.00 0.00 0.00 2.73
1836 2650 1.378531 GCCATTGCCACGATCAAGTA 58.621 50.000 0.00 0.00 0.00 2.24
1837 2651 1.647545 CGCCATTGCCACGATCAAGT 61.648 55.000 0.00 0.00 0.00 3.16
1838 2652 1.063006 CGCCATTGCCACGATCAAG 59.937 57.895 0.00 0.00 0.00 3.02
1839 2653 1.643868 GACGCCATTGCCACGATCAA 61.644 55.000 0.00 0.00 0.00 2.57
1840 2654 2.046411 ACGCCATTGCCACGATCA 60.046 55.556 0.00 0.00 0.00 2.92
1841 2655 1.815421 AGACGCCATTGCCACGATC 60.815 57.895 0.00 0.00 0.00 3.69
1842 2656 2.108514 CAGACGCCATTGCCACGAT 61.109 57.895 0.00 0.00 0.00 3.73
1843 2657 2.741985 CAGACGCCATTGCCACGA 60.742 61.111 0.00 0.00 0.00 4.35
1844 2658 4.465512 GCAGACGCCATTGCCACG 62.466 66.667 0.00 0.00 34.28 4.94
1867 2681 3.250762 CACTTTGCTGGATTTTGTCTCGA 59.749 43.478 0.00 0.00 0.00 4.04
1868 2682 3.558505 CACTTTGCTGGATTTTGTCTCG 58.441 45.455 0.00 0.00 0.00 4.04
1869 2683 3.243501 TGCACTTTGCTGGATTTTGTCTC 60.244 43.478 0.00 0.00 45.31 3.36
1870 2684 2.694628 TGCACTTTGCTGGATTTTGTCT 59.305 40.909 0.00 0.00 45.31 3.41
1873 2687 3.374220 TCTGCACTTTGCTGGATTTTG 57.626 42.857 5.36 0.00 45.31 2.44
1875 2689 2.353406 GCATCTGCACTTTGCTGGATTT 60.353 45.455 5.36 0.00 45.31 2.17
1877 2691 0.815734 GCATCTGCACTTTGCTGGAT 59.184 50.000 5.36 3.96 45.31 3.41
1878 2692 1.246056 GGCATCTGCACTTTGCTGGA 61.246 55.000 4.33 1.95 45.31 3.86
1884 2702 1.509463 CGCATGGCATCTGCACTTT 59.491 52.632 13.04 0.00 44.36 2.66
2139 2982 2.353579 GCAACGGTAAAATGCGGAGTAT 59.646 45.455 0.00 0.00 0.00 2.12
2142 2985 0.179174 GGCAACGGTAAAATGCGGAG 60.179 55.000 0.00 0.00 40.94 4.63
2143 2986 0.889638 TGGCAACGGTAAAATGCGGA 60.890 50.000 0.00 0.00 40.94 5.54
2144 2987 0.455972 CTGGCAACGGTAAAATGCGG 60.456 55.000 0.00 0.00 40.94 5.69
2145 2988 3.014369 CTGGCAACGGTAAAATGCG 57.986 52.632 0.00 0.00 40.94 4.73
2190 3033 0.179100 GTGCAGAATAGCCGCTCTCA 60.179 55.000 0.00 0.00 0.00 3.27
2211 3054 1.855295 TCCAGTTGCCGATACACCTA 58.145 50.000 0.00 0.00 0.00 3.08
2221 3064 2.375174 TGGGGTATATCATCCAGTTGCC 59.625 50.000 0.00 0.00 0.00 4.52
2225 3068 4.242811 ACATGTGGGGTATATCATCCAGT 58.757 43.478 0.00 0.00 0.00 4.00
2233 3076 4.202461 CCTGCAGTAACATGTGGGGTATAT 60.202 45.833 13.81 0.00 0.00 0.86
2234 3077 3.135712 CCTGCAGTAACATGTGGGGTATA 59.864 47.826 13.81 0.00 0.00 1.47
2450 3950 9.917129 GAGCTATCTTAGACTAAATTAACCTCC 57.083 37.037 0.00 0.00 0.00 4.30
2452 3952 9.134055 ACGAGCTATCTTAGACTAAATTAACCT 57.866 33.333 0.00 0.00 0.00 3.50
2453 3953 9.182933 CACGAGCTATCTTAGACTAAATTAACC 57.817 37.037 0.00 0.00 0.00 2.85
2520 4021 4.905866 CACATTGGCTTTATTATCTTCGCG 59.094 41.667 0.00 0.00 0.00 5.87
2683 4184 4.443394 CGGATTACTATTTTCGAACTCGGG 59.557 45.833 0.00 0.00 40.29 5.14
2688 4189 4.872124 ACACCCGGATTACTATTTTCGAAC 59.128 41.667 0.73 0.00 0.00 3.95
2726 4227 0.370273 CATTTCCACAGTACGAGCGC 59.630 55.000 0.00 0.00 0.00 5.92
2800 4577 7.342026 GTCACCCCAGTTTCATATTTAGGAAAT 59.658 37.037 1.32 0.00 38.11 2.17


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

AutoCloner maintained by Alex Coulton.