Multiple sequence alignment - TraesCS7D01G115200

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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 TraesCS7D01G115200 chr7D 100.000 3183 0 0 1 3183 70819277 70822459 0.000000e+00 5879.0
1 TraesCS7D01G115200 chr7B 92.009 2140 114 28 158 2280 12965498 12967597 0.000000e+00 2952.0
2 TraesCS7D01G115200 chr7B 90.083 121 11 1 1 120 12965293 12965413 4.250000e-34 156.0
3 TraesCS7D01G115200 chr7A 90.700 957 53 15 1546 2487 76935987 76936922 0.000000e+00 1242.0
4 TraesCS7D01G115200 chr7A 86.216 769 71 22 728 1471 76935086 76935844 0.000000e+00 800.0
5 TraesCS7D01G115200 chr7A 92.025 326 19 6 158 478 76932790 76933113 4.840000e-123 451.0
6 TraesCS7D01G115200 chr7A 90.625 128 12 0 2283 2410 21201837 21201964 1.520000e-38 171.0
7 TraesCS7D01G115200 chr7A 90.625 128 12 0 2283 2410 29330354 29330481 1.520000e-38 171.0
8 TraesCS7D01G115200 chr2D 93.305 702 37 5 2489 3183 48039391 48040089 0.000000e+00 1027.0
9 TraesCS7D01G115200 chr2D 88.321 137 15 1 2282 2418 637667190 637667325 2.540000e-36 163.0
10 TraesCS7D01G115200 chr6B 91.983 711 50 6 2476 3183 182035317 182036023 0.000000e+00 990.0
11 TraesCS7D01G115200 chr4A 92.000 700 52 4 2486 3183 578166071 578165374 0.000000e+00 979.0
12 TraesCS7D01G115200 chr3B 90.987 699 37 5 2489 3183 503986272 503986948 0.000000e+00 918.0
13 TraesCS7D01G115200 chr3B 77.273 352 59 15 1833 2168 16326726 16327072 1.510000e-43 187.0
14 TraesCS7D01G115200 chr3B 79.921 254 43 7 2021 2266 16334568 16334821 2.520000e-41 180.0
15 TraesCS7D01G115200 chr3B 76.243 362 66 15 1822 2168 20382971 20382615 1.170000e-39 174.0
16 TraesCS7D01G115200 chr3B 90.152 132 13 0 1585 1716 16325014 16325145 4.220000e-39 172.0
17 TraesCS7D01G115200 chr3B 90.152 132 13 0 1585 1716 20383334 20383203 4.220000e-39 172.0
18 TraesCS7D01G115200 chr3B 88.971 136 14 1 2283 2418 30386073 30386207 1.960000e-37 167.0
19 TraesCS7D01G115200 chr3B 89.844 128 13 0 2283 2410 660704722 660704849 7.060000e-37 165.0
20 TraesCS7D01G115200 chr3D 88.920 713 43 18 2473 3183 483196699 483196021 0.000000e+00 846.0
21 TraesCS7D01G115200 chr3D 78.042 337 53 14 1822 2141 11593314 11593646 3.240000e-45 193.0
22 TraesCS7D01G115200 chr3D 90.217 92 8 1 1626 1716 11592988 11593079 5.580000e-23 119.0
23 TraesCS7D01G115200 chr3A 92.424 132 10 0 1585 1716 25388730 25388599 4.190000e-44 189.0
24 TraesCS7D01G115200 chr3A 76.471 357 63 14 1822 2161 25388367 25388015 1.170000e-39 174.0
25 TraesCS7D01G115200 chr3A 90.551 127 12 0 2284 2410 12866659 12866785 5.460000e-38 169.0
26 TraesCS7D01G115200 chr5D 91.339 127 11 0 2284 2410 377147984 377147858 1.170000e-39 174.0
27 TraesCS7D01G115200 chr5A 90.625 128 12 0 2284 2411 487944953 487945080 1.520000e-38 171.0
28 TraesCS7D01G115200 chr4B 88.312 77 6 3 2478 2552 557974568 557974643 4.370000e-14 89.8


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 TraesCS7D01G115200 chr7D 70819277 70822459 3182 False 5879 5879 100.000 1 3183 1 chr7D.!!$F1 3182
1 TraesCS7D01G115200 chr7B 12965293 12967597 2304 False 1554 2952 91.046 1 2280 2 chr7B.!!$F1 2279
2 TraesCS7D01G115200 chr7A 76932790 76936922 4132 False 831 1242 89.647 158 2487 3 chr7A.!!$F3 2329
3 TraesCS7D01G115200 chr2D 48039391 48040089 698 False 1027 1027 93.305 2489 3183 1 chr2D.!!$F1 694
4 TraesCS7D01G115200 chr6B 182035317 182036023 706 False 990 990 91.983 2476 3183 1 chr6B.!!$F1 707
5 TraesCS7D01G115200 chr4A 578165374 578166071 697 True 979 979 92.000 2486 3183 1 chr4A.!!$R1 697
6 TraesCS7D01G115200 chr3B 503986272 503986948 676 False 918 918 90.987 2489 3183 1 chr3B.!!$F3 694
7 TraesCS7D01G115200 chr3D 483196021 483196699 678 True 846 846 88.920 2473 3183 1 chr3D.!!$R1 710

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
991 2777 0.03467 GAGTGCAATTCCCTCCTGCT 60.035 55.0 0.0 0.0 37.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2367 4295 0.758734 CCGGCCTATTCATCTGGACA 59.241 55.0 0.0 0.0 0.0 4.02 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
28 30 1.276989 CAAGACCCAGCCAATGCATTT 59.723 47.619 9.83 0.00 41.13 2.32
32 34 3.055891 AGACCCAGCCAATGCATTTTTAC 60.056 43.478 9.83 0.00 41.13 2.01
74 76 3.595190 TCGATCCCTCATCTAAGGTCA 57.405 47.619 0.00 0.00 34.34 4.02
90 92 1.065272 GGTCAGGAGGAGTCTAGACGT 60.065 57.143 17.07 6.21 36.20 4.34
96 98 1.950909 GAGGAGTCTAGACGTGATGGG 59.049 57.143 17.07 0.00 36.20 4.00
101 103 0.333652 TCTAGACGTGATGGGGGTGA 59.666 55.000 0.00 0.00 0.00 4.02
110 112 4.349636 ACGTGATGGGGGTGATGAAATATA 59.650 41.667 0.00 0.00 0.00 0.86
120 122 7.138736 GGGGTGATGAAATATAATGTTTGTCG 58.861 38.462 0.00 0.00 0.00 4.35
128 153 8.885722 TGAAATATAATGTTTGTCGGAGTAACC 58.114 33.333 0.00 0.00 0.00 2.85
129 154 8.795842 AAATATAATGTTTGTCGGAGTAACCA 57.204 30.769 0.00 0.00 38.90 3.67
131 156 8.974060 ATATAATGTTTGTCGGAGTAACCAAT 57.026 30.769 0.00 0.00 38.90 3.16
138 163 3.114065 GTCGGAGTAACCAATTAGAGCG 58.886 50.000 0.00 0.00 38.90 5.03
148 173 5.551760 ACCAATTAGAGCGTGAATTCAAG 57.448 39.130 16.00 16.00 0.00 3.02
156 181 4.070581 AGCGTGAATTCAAGAATGTTCG 57.929 40.909 23.23 14.44 0.00 3.95
162 211 4.695455 TGAATTCAAGAATGTTCGAGGACC 59.305 41.667 5.45 0.00 0.00 4.46
189 238 2.372504 AGCAATGCAGATGAGAGGCTAT 59.627 45.455 8.35 0.00 0.00 2.97
242 294 8.576442 TCTTCAAAATCTCCACATAAAAGGAAC 58.424 33.333 0.00 0.00 32.57 3.62
461 514 6.681729 ACTATCTTTTGTGGGTCTGTTCTA 57.318 37.500 0.00 0.00 0.00 2.10
470 523 5.087323 TGTGGGTCTGTTCTATCTCTTTCT 58.913 41.667 0.00 0.00 0.00 2.52
471 524 5.544176 TGTGGGTCTGTTCTATCTCTTTCTT 59.456 40.000 0.00 0.00 0.00 2.52
472 525 6.103330 GTGGGTCTGTTCTATCTCTTTCTTC 58.897 44.000 0.00 0.00 0.00 2.87
482 535 9.139174 GTTCTATCTCTTTCTTCTTCTTCTGTG 57.861 37.037 0.00 0.00 0.00 3.66
500 553 0.313043 TGTTCACGTTCCGTCTCTCC 59.687 55.000 0.00 0.00 38.32 3.71
513 566 1.414550 GTCTCTCCCATGAAGCTACCC 59.585 57.143 0.00 0.00 0.00 3.69
533 586 3.314553 CCGCGTGGGATACAATAACTAG 58.685 50.000 7.26 0.00 38.47 2.57
617 2134 6.791887 AAGAGTGTTCAGTGTCATATTGTG 57.208 37.500 0.00 0.00 0.00 3.33
667 2184 7.437565 GCATACTATCATGTATCAGGCACTATG 59.562 40.741 0.00 0.00 31.17 2.23
668 2185 6.291648 ACTATCATGTATCAGGCACTATGG 57.708 41.667 0.00 0.00 36.02 2.74
687 2204 7.433425 CACTATGGATGTGCGTAGTATCATATG 59.567 40.741 6.16 0.00 0.00 1.78
692 2209 3.056821 TGTGCGTAGTATCATATGCTCCC 60.057 47.826 0.00 0.00 38.30 4.30
699 2216 6.038382 CGTAGTATCATATGCTCCCTTCGTAT 59.962 42.308 0.00 0.00 0.00 3.06
713 2230 7.650104 GCTCCCTTCGTATCATAATATAAGAGC 59.350 40.741 0.00 0.00 0.00 4.09
716 2233 7.644551 CCCTTCGTATCATAATATAAGAGCGTC 59.355 40.741 0.00 0.00 0.00 5.19
726 2505 2.762535 TAAGAGCGTCTTTGAAGGGG 57.237 50.000 5.74 0.00 37.89 4.79
748 2527 2.397252 GAGTCAATGTGCGAGCGC 59.603 61.111 8.08 8.08 42.35 5.92
821 2601 9.631452 TGAGAATACTATTCATGATTGATCGAC 57.369 33.333 10.76 0.00 0.00 4.20
846 2626 4.669197 CGGAAAATACGGAAAAGACAGCAG 60.669 45.833 0.00 0.00 0.00 4.24
869 2649 7.719633 GCAGGTAGGTGATGGAATCTATTTAAA 59.280 37.037 0.00 0.00 45.81 1.52
937 2717 0.105964 TAGACGGGCATGTGCATACC 59.894 55.000 7.36 0.00 44.36 2.73
991 2777 0.034670 GAGTGCAATTCCCTCCTGCT 60.035 55.000 0.00 0.00 37.00 4.24
1080 2872 1.776975 ATGCTGCAGGGGCTAGATCC 61.777 60.000 17.12 0.00 41.91 3.36
1091 2883 3.564571 GGGGCTAGATCCAGAGCTACATA 60.565 52.174 10.66 0.00 38.79 2.29
1109 2901 0.398098 TATTCTCTCCCCGGACACCC 60.398 60.000 0.73 0.00 0.00 4.61
1133 2925 0.815095 TTGCTCTCTCGCCATTCGTA 59.185 50.000 0.00 0.00 39.67 3.43
1138 2930 0.311165 CTCTCGCCATTCGTATCGGT 59.689 55.000 0.00 0.00 39.67 4.69
1298 3104 5.746721 GGTCCAATATATTTGCGGTTTGTTC 59.253 40.000 0.00 0.00 0.00 3.18
1307 3113 0.380378 GCGGTTTGTTCTGCAACTCA 59.620 50.000 0.00 0.00 39.28 3.41
1308 3114 1.859998 GCGGTTTGTTCTGCAACTCAC 60.860 52.381 0.00 0.00 39.28 3.51
1334 3140 1.269998 AGGACGGACAAGTTCTTCGAG 59.730 52.381 0.00 0.00 0.00 4.04
1482 3399 9.463443 GTCATTTACCTTTTATTATGGACATGC 57.537 33.333 0.00 0.00 0.00 4.06
1485 3402 7.946381 TTACCTTTTATTATGGACATGCACA 57.054 32.000 0.00 0.00 0.00 4.57
1499 3416 3.315191 ACATGCACAGTGTTGGTTCTTAC 59.685 43.478 1.61 0.00 0.00 2.34
1500 3417 3.275617 TGCACAGTGTTGGTTCTTACT 57.724 42.857 1.61 0.00 0.00 2.24
1507 3424 6.866248 CACAGTGTTGGTTCTTACTTTTGTTT 59.134 34.615 0.00 0.00 0.00 2.83
1509 3426 7.383843 ACAGTGTTGGTTCTTACTTTTGTTTTG 59.616 33.333 0.00 0.00 0.00 2.44
1513 3430 6.591750 TGGTTCTTACTTTTGTTTTGGACA 57.408 33.333 0.00 0.00 36.19 4.02
1686 3606 0.534203 GGCGGTCTTGGAACTGAACA 60.534 55.000 0.00 0.00 0.00 3.18
1709 3629 5.392767 TCAAGTACTTCAAGCCTCTACTG 57.607 43.478 4.77 0.00 0.00 2.74
1719 3639 2.025155 AGCCTCTACTGGTATGTCACG 58.975 52.381 0.00 0.00 0.00 4.35
1727 3647 1.990563 CTGGTATGTCACGTCCGAAAC 59.009 52.381 0.00 0.00 0.00 2.78
1731 3651 2.249844 ATGTCACGTCCGAAACCTTT 57.750 45.000 0.00 0.00 0.00 3.11
1732 3652 2.886862 TGTCACGTCCGAAACCTTTA 57.113 45.000 0.00 0.00 0.00 1.85
1733 3653 3.176552 TGTCACGTCCGAAACCTTTAA 57.823 42.857 0.00 0.00 0.00 1.52
1758 3678 4.226384 AGGCTTGGAATCTCAAGGTTTTT 58.774 39.130 11.50 0.00 43.06 1.94
1759 3679 5.393866 AGGCTTGGAATCTCAAGGTTTTTA 58.606 37.500 11.50 0.00 43.06 1.52
1760 3680 5.478332 AGGCTTGGAATCTCAAGGTTTTTAG 59.522 40.000 11.50 0.00 43.06 1.85
1789 3709 0.185175 ACCCGGAAACCTCAAGCTTT 59.815 50.000 0.73 0.00 0.00 3.51
1793 3713 3.877508 CCCGGAAACCTCAAGCTTTATAG 59.122 47.826 0.73 0.00 0.00 1.31
1794 3714 4.383770 CCCGGAAACCTCAAGCTTTATAGA 60.384 45.833 0.73 0.00 0.00 1.98
1795 3715 4.811557 CCGGAAACCTCAAGCTTTATAGAG 59.188 45.833 0.00 0.00 0.00 2.43
1796 3716 4.271291 CGGAAACCTCAAGCTTTATAGAGC 59.729 45.833 7.17 7.17 43.02 4.09
1797 3717 5.186198 GGAAACCTCAAGCTTTATAGAGCA 58.814 41.667 16.84 0.00 45.12 4.26
1802 3722 8.986929 AACCTCAAGCTTTATAGAGCATTAAT 57.013 30.769 16.84 0.00 45.12 1.40
1867 3789 2.427095 GTTTGTTGTCAAGGTGAGGCTT 59.573 45.455 0.00 0.00 34.88 4.35
1886 3808 3.420893 CTTGTCCAGATAAAGGGCACAA 58.579 45.455 0.00 0.00 41.18 3.33
1946 3868 2.017783 GAGGTACGCGCACAAACGA 61.018 57.895 12.27 0.00 34.06 3.85
1947 3869 1.349259 GAGGTACGCGCACAAACGAT 61.349 55.000 12.27 0.00 34.06 3.73
1948 3870 1.058284 GGTACGCGCACAAACGATC 59.942 57.895 12.27 0.00 34.06 3.69
1949 3871 1.619526 GGTACGCGCACAAACGATCA 61.620 55.000 12.27 0.00 34.06 2.92
1950 3872 0.515717 GTACGCGCACAAACGATCAC 60.516 55.000 5.73 0.00 34.06 3.06
1951 3873 1.936130 TACGCGCACAAACGATCACG 61.936 55.000 5.73 0.00 45.75 4.35
1986 3908 5.434182 TGTACTGATCAATCATCCCACAA 57.566 39.130 0.00 0.00 36.02 3.33
2137 4065 0.827368 GCTTCTTCTCGTCCCAGGAT 59.173 55.000 0.00 0.00 0.00 3.24
2145 4073 4.356979 GTCCCAGGATGACGAGGA 57.643 61.111 0.00 0.00 39.69 3.71
2148 4076 1.070445 CCCAGGATGACGAGGATGC 59.930 63.158 0.00 0.00 39.69 3.91
2161 4089 0.543749 AGGATGCAGACCAGCTTACC 59.456 55.000 13.88 0.00 34.99 2.85
2199 4127 4.393680 GTCGTAAATTTCCTGTGCATGGTA 59.606 41.667 0.00 0.00 0.00 3.25
2284 4212 8.589338 AGCCTGTATAAATTACTCTACCTGATG 58.411 37.037 0.00 0.00 0.00 3.07
2294 4222 7.661536 TTACTCTACCTGATGTTGCTAAGAT 57.338 36.000 0.00 0.00 0.00 2.40
2295 4223 8.762481 TTACTCTACCTGATGTTGCTAAGATA 57.238 34.615 0.00 0.00 0.00 1.98
2296 4224 7.283625 ACTCTACCTGATGTTGCTAAGATAG 57.716 40.000 0.00 0.00 0.00 2.08
2300 4228 3.812053 CCTGATGTTGCTAAGATAGTGGC 59.188 47.826 0.00 0.00 0.00 5.01
2310 4238 5.835819 TGCTAAGATAGTGGCTTCAGACTAT 59.164 40.000 0.00 0.00 37.96 2.12
2367 4295 7.811117 AATTAATAAAATGGCTGCATGCATT 57.189 28.000 22.97 13.89 45.15 3.56
2369 4297 2.483014 AAAATGGCTGCATGCATTGT 57.517 40.000 22.97 4.54 45.15 2.71
2377 4305 2.021457 CTGCATGCATTGTCCAGATGA 58.979 47.619 22.97 0.00 0.00 2.92
2379 4307 3.028130 TGCATGCATTGTCCAGATGAAT 58.972 40.909 18.46 0.00 0.00 2.57
2382 4310 4.321008 GCATGCATTGTCCAGATGAATAGG 60.321 45.833 14.21 0.00 0.00 2.57
2387 4315 1.048601 GTCCAGATGAATAGGCCGGA 58.951 55.000 5.05 0.00 0.00 5.14
2465 4399 0.605319 TTTGGACGACTGGGCATGAC 60.605 55.000 0.00 0.00 0.00 3.06
2508 4446 8.867935 CAAAACGAAATATGTATTTGGCAATCA 58.132 29.630 0.00 1.66 36.13 2.57
2589 4527 1.080434 GGTCGCTCGATATGCCTCC 60.080 63.158 0.00 0.00 0.00 4.30
2644 4585 0.832135 TTCTCTCCAGGTGCGGTCTT 60.832 55.000 0.00 0.00 0.00 3.01
2658 4599 3.695606 TCTTGCTCGCTCCGCCTT 61.696 61.111 0.00 0.00 0.00 4.35
2851 4798 2.579201 CTCCCAGGCAATCGTCGT 59.421 61.111 0.00 0.00 0.00 4.34
2962 4910 1.221021 GGGTTCAGTGATCCGGTCC 59.779 63.158 13.02 0.00 0.00 4.46
3080 5028 8.092521 ACAGAAACTGAGAATTGTCACATTAG 57.907 34.615 0.23 0.00 35.18 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.111999 TTGGCTGGGTCTTGACCTCG 62.112 60.000 17.99 10.92 0.00 4.63
14 15 5.883503 ATTTGTAAAAATGCATTGGCTGG 57.116 34.783 13.82 0.00 41.91 4.85
32 34 8.267620 TCGATGTAGGCCATTCATATTATTTG 57.732 34.615 5.01 0.00 32.56 2.32
42 44 1.625818 AGGGATCGATGTAGGCCATTC 59.374 52.381 5.01 0.00 32.56 2.67
43 45 1.625818 GAGGGATCGATGTAGGCCATT 59.374 52.381 5.01 0.00 32.56 3.16
74 76 2.422235 CCATCACGTCTAGACTCCTCCT 60.422 54.545 20.34 0.00 0.00 3.69
90 92 6.862225 ACATTATATTTCATCACCCCCATCA 58.138 36.000 0.00 0.00 0.00 3.07
96 98 7.012894 TCCGACAAACATTATATTTCATCACCC 59.987 37.037 0.00 0.00 0.00 4.61
110 112 6.938030 TCTAATTGGTTACTCCGACAAACATT 59.062 34.615 0.00 0.00 39.52 2.71
120 122 4.119442 TCACGCTCTAATTGGTTACTCC 57.881 45.455 0.00 0.00 0.00 3.85
127 152 5.801350 TCTTGAATTCACGCTCTAATTGG 57.199 39.130 7.89 0.00 0.00 3.16
128 153 7.246311 ACATTCTTGAATTCACGCTCTAATTG 58.754 34.615 7.89 0.19 0.00 2.32
129 154 7.383102 ACATTCTTGAATTCACGCTCTAATT 57.617 32.000 7.89 0.00 0.00 1.40
131 156 6.401047 CGAACATTCTTGAATTCACGCTCTAA 60.401 38.462 7.89 0.00 0.00 2.10
138 163 5.390991 GGTCCTCGAACATTCTTGAATTCAC 60.391 44.000 7.89 0.00 0.00 3.18
148 173 1.336517 TGACACGGTCCTCGAACATTC 60.337 52.381 2.23 0.00 42.43 2.67
156 181 1.639298 GCATTGCTGACACGGTCCTC 61.639 60.000 0.16 0.00 0.00 3.71
162 211 1.062148 CTCATCTGCATTGCTGACACG 59.938 52.381 18.87 11.38 39.15 4.49
189 238 5.339008 ACTTCGTGCATATTCTCACCTTA 57.661 39.130 0.00 0.00 0.00 2.69
440 493 7.400339 AGAGATAGAACAGACCCACAAAAGATA 59.600 37.037 0.00 0.00 0.00 1.98
461 514 7.440856 GTGAACACAGAAGAAGAAGAAAGAGAT 59.559 37.037 0.00 0.00 0.00 2.75
470 523 3.869246 GGAACGTGAACACAGAAGAAGAA 59.131 43.478 5.80 0.00 0.00 2.52
471 524 3.454375 GGAACGTGAACACAGAAGAAGA 58.546 45.455 5.80 0.00 0.00 2.87
472 525 3.861569 GGAACGTGAACACAGAAGAAG 57.138 47.619 5.80 0.00 0.00 2.85
500 553 2.173669 CACGCGGGTAGCTTCATGG 61.174 63.158 12.47 0.00 45.59 3.66
513 566 4.233123 TCTAGTTATTGTATCCCACGCG 57.767 45.455 3.53 3.53 0.00 6.01
614 2131 5.177881 GTGTTTGTTATGATACGGTGTCACA 59.822 40.000 9.85 0.00 0.00 3.58
617 2134 6.237755 GCTAGTGTTTGTTATGATACGGTGTC 60.238 42.308 0.00 0.00 0.00 3.67
667 2184 4.748892 AGCATATGATACTACGCACATCC 58.251 43.478 6.97 0.00 0.00 3.51
668 2185 4.800993 GGAGCATATGATACTACGCACATC 59.199 45.833 6.97 0.00 0.00 3.06
687 2204 7.650104 GCTCTTATATTATGATACGAAGGGAGC 59.350 40.741 5.48 0.00 0.00 4.70
692 2209 9.776158 AAGACGCTCTTATATTATGATACGAAG 57.224 33.333 0.00 0.00 34.42 3.79
699 2216 7.872993 CCCTTCAAAGACGCTCTTATATTATGA 59.127 37.037 1.53 0.00 35.27 2.15
713 2230 2.165845 ACTCGTATCCCCTTCAAAGACG 59.834 50.000 0.00 0.00 0.00 4.18
716 2233 3.887621 TGACTCGTATCCCCTTCAAAG 57.112 47.619 0.00 0.00 0.00 2.77
726 2505 1.518929 GCTCGCACATTGACTCGTATC 59.481 52.381 0.00 0.00 0.00 2.24
821 2601 4.708601 CTGTCTTTTCCGTATTTTCCGTG 58.291 43.478 0.00 0.00 0.00 4.94
846 2626 9.057089 CACTTTAAATAGATTCCATCACCTACC 57.943 37.037 0.00 0.00 0.00 3.18
869 2649 1.963338 GCGCTTCACTCTTGCCACT 60.963 57.895 0.00 0.00 0.00 4.00
912 2692 3.161866 TGCACATGCCCGTCTATATAGA 58.838 45.455 8.44 8.44 41.18 1.98
937 2717 4.875713 GGCCTGGGGGTGTATGCG 62.876 72.222 0.00 0.00 34.45 4.73
991 2777 2.360726 CTGCTGCATGGTGCTGGA 60.361 61.111 1.31 6.85 45.31 3.86
1080 2872 3.192422 CGGGGAGAGAATATGTAGCTCTG 59.808 52.174 0.00 0.00 39.00 3.35
1091 2883 1.689582 GGGTGTCCGGGGAGAGAAT 60.690 63.158 0.00 0.00 0.00 2.40
1109 2901 2.811317 GGCGAGAGAGCAACACGG 60.811 66.667 0.00 0.00 39.27 4.94
1133 2925 4.175337 CCACATGGCGGGACCGAT 62.175 66.667 15.99 0.00 43.94 4.18
1158 2953 2.629656 GCAAGTGGCATGAACGGCT 61.630 57.895 0.00 0.00 43.97 5.52
1298 3104 3.865745 CCGTCCTAATAAGTGAGTTGCAG 59.134 47.826 0.00 0.00 0.00 4.41
1307 3113 5.997384 AGAACTTGTCCGTCCTAATAAGT 57.003 39.130 0.00 0.00 0.00 2.24
1308 3114 5.515626 CGAAGAACTTGTCCGTCCTAATAAG 59.484 44.000 0.00 0.00 0.00 1.73
1334 3140 0.531532 CATGGACGGTCATCTCCAGC 60.532 60.000 10.76 0.00 39.99 4.85
1435 3241 1.514003 CGAGCTCTGCGGTAGATAGA 58.486 55.000 12.85 0.00 34.21 1.98
1458 3266 9.248291 GTGCATGTCCATAATAAAAGGTAAATG 57.752 33.333 0.00 0.00 0.00 2.32
1482 3399 5.949735 ACAAAAGTAAGAACCAACACTGTG 58.050 37.500 6.19 6.19 0.00 3.66
1485 3402 6.871492 CCAAAACAAAAGTAAGAACCAACACT 59.129 34.615 0.00 0.00 0.00 3.55
1499 3416 4.736126 AACCTCCTGTCCAAAACAAAAG 57.264 40.909 0.00 0.00 37.45 2.27
1500 3417 6.399743 GTTTAACCTCCTGTCCAAAACAAAA 58.600 36.000 0.00 0.00 37.45 2.44
1507 3424 2.424793 AGGGTTTAACCTCCTGTCCAA 58.575 47.619 14.27 0.00 38.64 3.53
1580 3500 8.443160 TCTCGAGCTTCATGTAATTTTAAAGTG 58.557 33.333 7.81 0.00 0.00 3.16
1583 3503 7.822334 TCCTCTCGAGCTTCATGTAATTTTAAA 59.178 33.333 7.81 0.00 0.00 1.52
1686 3606 5.105146 CCAGTAGAGGCTTGAAGTACTTGAT 60.105 44.000 14.14 0.00 0.00 2.57
1709 3629 1.067354 AGGTTTCGGACGTGACATACC 60.067 52.381 0.00 0.00 0.00 2.73
1731 3651 6.327386 ACCTTGAGATTCCAAGCCTTATTA 57.673 37.500 8.54 0.00 41.53 0.98
1732 3652 5.198602 ACCTTGAGATTCCAAGCCTTATT 57.801 39.130 8.54 0.00 41.53 1.40
1733 3653 4.870021 ACCTTGAGATTCCAAGCCTTAT 57.130 40.909 8.54 0.00 41.53 1.73
1758 3678 5.633117 AGGTTTCCGGGTTTGAAAATACTA 58.367 37.500 0.00 0.00 33.80 1.82
1759 3679 4.476297 AGGTTTCCGGGTTTGAAAATACT 58.524 39.130 0.00 0.00 33.80 2.12
1760 3680 4.278919 TGAGGTTTCCGGGTTTGAAAATAC 59.721 41.667 0.00 0.00 33.80 1.89
1802 3722 9.599056 ATCAATCAGTATAGGAAGAGAGAATGA 57.401 33.333 0.00 0.00 0.00 2.57
1814 3736 3.341823 GCTGGGCATCAATCAGTATAGG 58.658 50.000 0.00 0.00 0.00 2.57
1815 3737 2.998670 CGCTGGGCATCAATCAGTATAG 59.001 50.000 0.00 0.00 0.00 1.31
1843 3765 3.489229 GCCTCACCTTGACAACAAACTTC 60.489 47.826 0.00 0.00 35.49 3.01
1849 3771 1.064758 ACAAGCCTCACCTTGACAACA 60.065 47.619 8.71 0.00 43.79 3.33
1867 3789 2.290896 CCTTGTGCCCTTTATCTGGACA 60.291 50.000 0.00 0.00 0.00 4.02
1886 3808 3.477530 TGATGTGATCGACGAGTATCCT 58.522 45.455 3.01 0.00 0.00 3.24
1946 3868 1.913419 ACAAGGGGTGGTAATCGTGAT 59.087 47.619 0.00 0.00 0.00 3.06
1947 3869 1.354101 ACAAGGGGTGGTAATCGTGA 58.646 50.000 0.00 0.00 0.00 4.35
1948 3870 2.235402 AGTACAAGGGGTGGTAATCGTG 59.765 50.000 0.00 0.00 0.00 4.35
1949 3871 2.235402 CAGTACAAGGGGTGGTAATCGT 59.765 50.000 0.00 0.00 0.00 3.73
1950 3872 2.498481 TCAGTACAAGGGGTGGTAATCG 59.502 50.000 0.00 0.00 0.00 3.34
1951 3873 4.163458 TGATCAGTACAAGGGGTGGTAATC 59.837 45.833 0.00 0.00 0.00 1.75
2137 4065 1.893062 CTGGTCTGCATCCTCGTCA 59.107 57.895 9.06 0.00 0.00 4.35
2145 4073 0.987294 ACTGGTAAGCTGGTCTGCAT 59.013 50.000 0.00 0.00 34.99 3.96
2148 4076 6.313905 CACTTTATAACTGGTAAGCTGGTCTG 59.686 42.308 0.00 0.00 0.00 3.51
2199 4127 6.715280 AGGATGAACATCTTGTGTCTACAAT 58.285 36.000 13.34 0.00 45.16 2.71
2284 4212 4.568760 GTCTGAAGCCACTATCTTAGCAAC 59.431 45.833 0.00 0.00 0.00 4.17
2357 4285 2.021457 TCATCTGGACAATGCATGCAG 58.979 47.619 26.69 15.79 0.00 4.41
2367 4295 0.758734 CCGGCCTATTCATCTGGACA 59.241 55.000 0.00 0.00 0.00 4.02
2369 4297 1.342074 CTCCGGCCTATTCATCTGGA 58.658 55.000 0.00 0.00 34.36 3.86
2449 4380 2.125106 GGTCATGCCCAGTCGTCC 60.125 66.667 0.00 0.00 0.00 4.79
2480 4414 9.862371 ATTGCCAAATACATATTTCGTTTTGTA 57.138 25.926 0.00 0.00 33.88 2.41
2481 4415 8.770438 ATTGCCAAATACATATTTCGTTTTGT 57.230 26.923 0.00 0.00 33.88 2.83
2482 4416 8.867935 TGATTGCCAAATACATATTTCGTTTTG 58.132 29.630 0.00 0.00 33.88 2.44
2508 4446 0.968405 ACTTTTGCAATCGGGCACAT 59.032 45.000 0.00 0.00 44.86 3.21
2533 4471 2.835705 CGGACGGAGATCAGGTCGG 61.836 68.421 0.00 0.04 0.00 4.79
2724 4665 4.468769 AGGTCACGCCGGGGGATA 62.469 66.667 23.83 4.47 43.70 2.59
2962 4910 2.171237 TCATACCCAGATCAACAGCAGG 59.829 50.000 0.00 0.00 0.00 4.85
3080 5028 7.093992 GCTAGGACCAGTAATCAGATCAATAC 58.906 42.308 0.00 0.00 0.00 1.89
3149 5097 9.162764 TCCAGCTAACAACTTACTATCAAAATC 57.837 33.333 0.00 0.00 0.00 2.17
3150 5098 9.686683 ATCCAGCTAACAACTTACTATCAAAAT 57.313 29.630 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.