Multiple sequence alignment - TraesCS7A01G171600

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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 TraesCS7A01G171600 chr7A 100.000 3774 0 0 1 3774 126920567 126916794 0.000000e+00 6970.0
1 TraesCS7A01G171600 chr7A 93.242 799 21 16 1 769 41617452 41618247 0.000000e+00 1146.0
2 TraesCS7A01G171600 chr7A 93.116 799 25 2 1 769 26314954 26315752 0.000000e+00 1144.0
3 TraesCS7A01G171600 chr7A 92.356 798 30 8 1 769 26311100 26310305 0.000000e+00 1107.0
4 TraesCS7A01G171600 chr7A 75.692 325 53 23 3426 3741 63385668 63385361 5.080000e-29 139.0
5 TraesCS7A01G171600 chr7B 92.993 2155 81 23 774 2885 86166493 86164366 0.000000e+00 3079.0
6 TraesCS7A01G171600 chr7B 85.261 882 71 33 2918 3774 86163681 86162834 0.000000e+00 854.0
7 TraesCS7A01G171600 chr7D 93.394 2074 84 22 849 2885 124505530 124503473 0.000000e+00 3022.0
8 TraesCS7A01G171600 chr7D 78.304 401 67 15 3356 3749 214346913 214347300 1.350000e-59 241.0
9 TraesCS7A01G171600 chr7D 92.632 95 2 2 774 863 124505645 124505551 8.510000e-27 132.0
10 TraesCS7A01G171600 chr7D 81.250 144 23 4 1592 1733 123739127 123738986 3.080000e-21 113.0
11 TraesCS7A01G171600 chr5A 93.199 794 28 3 1 769 359176603 359177395 0.000000e+00 1144.0
12 TraesCS7A01G171600 chr5A 92.556 806 25 5 1 772 454731260 454732064 0.000000e+00 1123.0
13 TraesCS7A01G171600 chr5A 80.000 85 14 3 2998 3080 648794237 648794154 4.070000e-05 60.2
14 TraesCS7A01G171600 chr2A 92.982 798 26 13 1 769 771675958 771676754 0.000000e+00 1136.0
15 TraesCS7A01G171600 chr2A 95.918 686 28 0 1 686 595685674 595684989 0.000000e+00 1112.0
16 TraesCS7A01G171600 chr2A 89.523 754 59 15 33 770 739284819 739284070 0.000000e+00 937.0
17 TraesCS7A01G171600 chr2A 89.157 166 13 5 607 770 595685038 595684876 6.390000e-48 202.0
18 TraesCS7A01G171600 chr1A 92.616 799 25 6 1 769 153261478 153260684 0.000000e+00 1118.0
19 TraesCS7A01G171600 chr1A 88.648 784 55 18 1 769 33057152 33057916 0.000000e+00 924.0
20 TraesCS7A01G171600 chr3A 92.289 804 30 7 1 772 705279327 705278524 0.000000e+00 1112.0
21 TraesCS7A01G171600 chr3A 77.354 945 147 38 1378 2263 10290985 10291921 7.280000e-137 497.0
22 TraesCS7A01G171600 chr3A 80.220 91 16 2 2993 3082 551723751 551723840 2.430000e-07 67.6
23 TraesCS7A01G171600 chr4A 74.745 1370 247 49 1380 2674 440254903 440253558 4.320000e-144 521.0
24 TraesCS7A01G171600 chr4B 74.685 1351 244 53 1380 2657 191788587 191789912 9.350000e-141 510.0
25 TraesCS7A01G171600 chr4B 76.862 376 57 27 3350 3714 461166393 461166037 6.440000e-43 185.0
26 TraesCS7A01G171600 chr4D 76.825 945 152 38 1378 2263 127928429 127929365 1.590000e-128 470.0
27 TraesCS7A01G171600 chr4D 77.778 270 46 12 3473 3737 38590102 38590362 1.820000e-33 154.0
28 TraesCS7A01G171600 chr6B 73.146 1389 301 55 1334 2698 616867586 616868926 2.080000e-117 433.0
29 TraesCS7A01G171600 chr6B 80.344 407 55 17 3351 3749 134830539 134830150 6.170000e-73 285.0
30 TraesCS7A01G171600 chr6D 73.088 1386 295 62 1340 2698 410117387 410116053 4.510000e-114 422.0
31 TraesCS7A01G171600 chr6D 81.206 431 66 13 3325 3749 60551762 60551341 2.170000e-87 333.0
32 TraesCS7A01G171600 chr5D 77.982 545 79 30 3216 3745 374623315 374622797 1.700000e-78 303.0
33 TraesCS7A01G171600 chr5D 77.101 345 61 17 3400 3736 531969821 531970155 2.320000e-42 183.0
34 TraesCS7A01G171600 chr3D 82.727 330 44 12 3327 3649 135015870 135016193 7.980000e-72 281.0
35 TraesCS7A01G171600 chr3D 86.207 87 10 2 3216 3302 23156416 23156500 4.010000e-15 93.5
36 TraesCS7A01G171600 chr2D 75.752 565 106 25 3155 3709 432848541 432849084 4.840000e-64 255.0
37 TraesCS7A01G171600 chr6A 87.952 166 13 6 607 770 13647684 13647524 4.980000e-44 189.0
38 TraesCS7A01G171600 chr6A 89.552 67 7 0 3221 3287 97609444 97609378 6.720000e-13 86.1
39 TraesCS7A01G171600 chr1D 73.704 540 103 30 3215 3737 46461193 46460676 1.390000e-39 174.0
40 TraesCS7A01G171600 chr3B 85.714 91 11 2 3212 3301 40851400 40851489 1.120000e-15 95.3
41 TraesCS7A01G171600 chr3B 96.875 32 1 0 2998 3029 716310493 716310462 2.000000e-03 54.7


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 TraesCS7A01G171600 chr7A 126916794 126920567 3773 True 6970.0 6970 100.0000 1 3774 1 chr7A.!!$R3 3773
1 TraesCS7A01G171600 chr7A 41617452 41618247 795 False 1146.0 1146 93.2420 1 769 1 chr7A.!!$F2 768
2 TraesCS7A01G171600 chr7A 26314954 26315752 798 False 1144.0 1144 93.1160 1 769 1 chr7A.!!$F1 768
3 TraesCS7A01G171600 chr7A 26310305 26311100 795 True 1107.0 1107 92.3560 1 769 1 chr7A.!!$R1 768
4 TraesCS7A01G171600 chr7B 86162834 86166493 3659 True 1966.5 3079 89.1270 774 3774 2 chr7B.!!$R1 3000
5 TraesCS7A01G171600 chr7D 124503473 124505645 2172 True 1577.0 3022 93.0130 774 2885 2 chr7D.!!$R2 2111
6 TraesCS7A01G171600 chr5A 359176603 359177395 792 False 1144.0 1144 93.1990 1 769 1 chr5A.!!$F1 768
7 TraesCS7A01G171600 chr5A 454731260 454732064 804 False 1123.0 1123 92.5560 1 772 1 chr5A.!!$F2 771
8 TraesCS7A01G171600 chr2A 771675958 771676754 796 False 1136.0 1136 92.9820 1 769 1 chr2A.!!$F1 768
9 TraesCS7A01G171600 chr2A 739284070 739284819 749 True 937.0 937 89.5230 33 770 1 chr2A.!!$R1 737
10 TraesCS7A01G171600 chr2A 595684876 595685674 798 True 657.0 1112 92.5375 1 770 2 chr2A.!!$R2 769
11 TraesCS7A01G171600 chr1A 153260684 153261478 794 True 1118.0 1118 92.6160 1 769 1 chr1A.!!$R1 768
12 TraesCS7A01G171600 chr1A 33057152 33057916 764 False 924.0 924 88.6480 1 769 1 chr1A.!!$F1 768
13 TraesCS7A01G171600 chr3A 705278524 705279327 803 True 1112.0 1112 92.2890 1 772 1 chr3A.!!$R1 771
14 TraesCS7A01G171600 chr3A 10290985 10291921 936 False 497.0 497 77.3540 1378 2263 1 chr3A.!!$F1 885
15 TraesCS7A01G171600 chr4A 440253558 440254903 1345 True 521.0 521 74.7450 1380 2674 1 chr4A.!!$R1 1294
16 TraesCS7A01G171600 chr4B 191788587 191789912 1325 False 510.0 510 74.6850 1380 2657 1 chr4B.!!$F1 1277
17 TraesCS7A01G171600 chr4D 127928429 127929365 936 False 470.0 470 76.8250 1378 2263 1 chr4D.!!$F2 885
18 TraesCS7A01G171600 chr6B 616867586 616868926 1340 False 433.0 433 73.1460 1334 2698 1 chr6B.!!$F1 1364
19 TraesCS7A01G171600 chr6D 410116053 410117387 1334 True 422.0 422 73.0880 1340 2698 1 chr6D.!!$R2 1358
20 TraesCS7A01G171600 chr5D 374622797 374623315 518 True 303.0 303 77.9820 3216 3745 1 chr5D.!!$R1 529
21 TraesCS7A01G171600 chr2D 432848541 432849084 543 False 255.0 255 75.7520 3155 3709 1 chr2D.!!$F1 554

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
107 108 0.733223 TTATAGCGTGCGTGCGAACA 60.733 50.0 3.48 0.0 40.67 3.18 F
1262 1353 0.171007 GTGTTCCATGCGGTCCATTG 59.829 55.0 0.00 0.0 29.71 2.82 F
1791 1945 1.174783 TCCAAGGAGAGCTACGTGAC 58.825 55.0 0.00 0.0 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1791 1945 0.798776 GACGTTGTTCTGGAGCATGG 59.201 55.0 0.0 0.0 0.00 3.66 R
2300 2537 0.611714 ACCTTATTCGCCTTGGACGT 59.388 50.0 0.0 0.0 0.00 4.34 R
3031 3946 1.243902 GCAATTCCCTTGTCGGTGAA 58.756 50.0 0.0 0.0 37.18 3.18 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
38 39 8.967664 TTTACATTACTACCGGAGCAAATAAT 57.032 30.769 9.46 0.41 0.00 1.28
107 108 0.733223 TTATAGCGTGCGTGCGAACA 60.733 50.000 3.48 0.00 40.67 3.18
319 322 5.254115 TCAGTAGATCGAGGTCTCTTTTGA 58.746 41.667 0.00 0.00 0.00 2.69
489 493 3.118811 GGAGAGGAGAAAGAGATGTGTGG 60.119 52.174 0.00 0.00 0.00 4.17
961 1043 0.836400 TGACCTCCCCACTTGACCTC 60.836 60.000 0.00 0.00 0.00 3.85
962 1044 1.539124 ACCTCCCCACTTGACCTCC 60.539 63.158 0.00 0.00 0.00 4.30
963 1045 1.229658 CCTCCCCACTTGACCTCCT 60.230 63.158 0.00 0.00 0.00 3.69
964 1046 1.268283 CCTCCCCACTTGACCTCCTC 61.268 65.000 0.00 0.00 0.00 3.71
965 1047 1.608717 CTCCCCACTTGACCTCCTCG 61.609 65.000 0.00 0.00 0.00 4.63
966 1048 1.609501 CCCCACTTGACCTCCTCGA 60.610 63.158 0.00 0.00 0.00 4.04
1026 1117 3.267860 GAGGCGATGGAAGCTGCG 61.268 66.667 0.00 0.00 34.52 5.18
1080 1171 2.501610 GTCATGGCCGTCCTCCTC 59.498 66.667 0.00 0.00 0.00 3.71
1257 1348 3.124921 CCCGTGTTCCATGCGGTC 61.125 66.667 7.74 0.00 43.56 4.79
1259 1350 2.358125 CGTGTTCCATGCGGTCCA 60.358 61.111 0.00 0.00 0.00 4.02
1260 1351 1.745115 CGTGTTCCATGCGGTCCAT 60.745 57.895 0.00 0.00 33.39 3.41
1261 1352 1.305219 CGTGTTCCATGCGGTCCATT 61.305 55.000 0.00 0.00 29.71 3.16
1262 1353 0.171007 GTGTTCCATGCGGTCCATTG 59.829 55.000 0.00 0.00 29.71 2.82
1791 1945 1.174783 TCCAAGGAGAGCTACGTGAC 58.825 55.000 0.00 0.00 0.00 3.67
1832 2010 3.925238 GCTACGACGGCGGCAATG 61.925 66.667 18.49 1.95 43.17 2.82
1833 2011 3.925238 CTACGACGGCGGCAATGC 61.925 66.667 18.49 0.00 43.17 3.56
1896 2113 1.333636 ATGAACCTCCGGCTCCAGAG 61.334 60.000 0.00 0.00 0.00 3.35
2301 2538 3.400590 GTCGAACACCACGGCGAC 61.401 66.667 16.62 0.00 44.83 5.19
2314 2551 2.813908 GCGACGTCCAAGGCGAAT 60.814 61.111 10.58 0.00 0.00 3.34
2707 2959 1.034292 GCAAGCAGGATCTTGACCCC 61.034 60.000 9.36 0.00 44.61 4.95
2713 2965 2.124695 GATCTTGACCCCGTGGCC 60.125 66.667 0.00 0.00 33.59 5.36
2787 3043 0.898320 GACTGAGTTGGCTGGCTCTA 59.102 55.000 2.00 0.00 33.22 2.43
2792 3048 0.107312 AGTTGGCTGGCTCTATGCAG 60.107 55.000 2.00 0.00 45.15 4.41
2814 3070 2.168313 AGAGGCTTCTCTTTGCTCTAGC 59.832 50.000 0.00 0.00 44.95 3.42
2815 3071 2.093764 GAGGCTTCTCTTTGCTCTAGCA 60.094 50.000 0.00 0.00 40.71 3.49
2816 3072 5.842722 AGAGGCTTCTCTTTGCTCTAGCAA 61.843 45.833 13.22 13.22 45.75 3.91
2845 3107 5.163468 TGCTGTTTTTAGGCTTGATTTGTGA 60.163 36.000 0.00 0.00 0.00 3.58
2863 3125 8.975410 ATTTGTGATCACTGAAATACATGTTG 57.025 30.769 25.55 0.00 0.00 3.33
2871 3133 3.655486 TGAAATACATGTTGGTCGTCGT 58.345 40.909 2.30 0.00 0.00 4.34
2936 3851 9.589111 TTCTTAGTGGGTTTGTTTTGTAAAATC 57.411 29.630 0.00 0.00 0.00 2.17
2957 3872 6.889301 ATCGAATGAATTAGTGGCATTGAT 57.111 33.333 0.00 0.00 32.80 2.57
2958 3873 7.984422 ATCGAATGAATTAGTGGCATTGATA 57.016 32.000 0.00 0.00 32.80 2.15
2980 3895 5.552870 ATTTAATCCATGGCGTCTCTACT 57.447 39.130 6.96 0.00 0.00 2.57
3056 3971 2.757868 CCGACAAGGGAATTGCCATTTA 59.242 45.455 19.16 0.00 38.95 1.40
3194 4112 4.849518 AGGAGGAAAGAATTAGTGGCTTC 58.150 43.478 0.00 0.00 0.00 3.86
3197 4115 5.491982 GAGGAAAGAATTAGTGGCTTCAGA 58.508 41.667 0.00 0.00 0.00 3.27
3203 4121 6.910536 AGAATTAGTGGCTTCAGAATTACG 57.089 37.500 0.00 0.00 0.00 3.18
3323 4274 9.811995 AAAAAGAAACAAAAACTACATAGGGTC 57.188 29.630 0.00 0.00 0.00 4.46
3534 4490 7.496591 TGACATCGGTATTACCCATTTAAGAAC 59.503 37.037 7.29 0.00 33.75 3.01
3535 4491 7.340256 ACATCGGTATTACCCATTTAAGAACA 58.660 34.615 7.29 0.00 33.75 3.18
3536 4492 7.830201 ACATCGGTATTACCCATTTAAGAACAA 59.170 33.333 7.29 0.00 33.75 2.83
3537 4493 8.679100 CATCGGTATTACCCATTTAAGAACAAA 58.321 33.333 7.29 0.00 33.75 2.83
3538 4494 8.632906 TCGGTATTACCCATTTAAGAACAAAA 57.367 30.769 7.29 0.00 33.75 2.44
3539 4495 9.075678 TCGGTATTACCCATTTAAGAACAAAAA 57.924 29.630 7.29 0.00 33.75 1.94
3540 4496 9.863845 CGGTATTACCCATTTAAGAACAAAAAT 57.136 29.630 7.29 0.00 33.75 1.82
3576 4556 4.370364 AGAACGACAAAAATTGCACACT 57.630 36.364 0.00 0.00 0.00 3.55
3578 4558 5.510671 AGAACGACAAAAATTGCACACTAG 58.489 37.500 0.00 0.00 0.00 2.57
3579 4559 4.223320 ACGACAAAAATTGCACACTAGG 57.777 40.909 0.00 0.00 0.00 3.02
3594 4574 5.468746 GCACACTAGGTTCACAAAGATTACA 59.531 40.000 0.00 0.00 0.00 2.41
3595 4575 6.149474 GCACACTAGGTTCACAAAGATTACAT 59.851 38.462 0.00 0.00 0.00 2.29
3689 4670 7.986889 GGAATGAATTAGTGGCATTGGTTTTAT 59.013 33.333 0.00 0.00 32.80 1.40
3690 4671 9.382275 GAATGAATTAGTGGCATTGGTTTTATT 57.618 29.630 0.00 0.00 32.80 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 4.930463 TCGAAGTTGCGTGCAATTATTA 57.070 36.364 10.85 0.00 38.28 0.98
107 108 4.612412 TGAAGGCCGCCGTTCGTT 62.612 61.111 3.05 0.00 38.38 3.85
181 182 1.845664 TGGTGAAGCTGGGGCAGTA 60.846 57.895 0.00 0.00 41.70 2.74
319 322 4.015918 TGGGTTCTACATAGTTAGGGGAGT 60.016 45.833 0.00 0.00 0.00 3.85
772 813 5.701290 ACAATGTGCTTGGAAGAGTTAGTAC 59.299 40.000 0.00 0.00 39.30 2.73
816 857 1.331138 GCTGTCTGCTGCTCATCATTC 59.669 52.381 0.00 0.00 38.95 2.67
844 890 5.537300 TCCAAGAGTAGATCCAATAGTGC 57.463 43.478 0.00 0.00 0.00 4.40
964 1046 3.392769 TGTTTTGTTTTGTCGAGGTCG 57.607 42.857 0.00 0.00 41.45 4.79
965 1047 3.546271 GCTTGTTTTGTTTTGTCGAGGTC 59.454 43.478 0.00 0.00 0.00 3.85
966 1048 3.057174 TGCTTGTTTTGTTTTGTCGAGGT 60.057 39.130 0.00 0.00 0.00 3.85
1026 1117 4.593864 GGTGGATCTCGCGCTCCC 62.594 72.222 16.30 9.06 0.00 4.30
1161 1252 1.801178 GTACTCTGCTGTTTCACCTGC 59.199 52.381 0.00 0.00 0.00 4.85
1257 1348 2.605818 CGGCAAGCAAATCAATCAATGG 59.394 45.455 0.00 0.00 0.00 3.16
1259 1350 2.496871 TCCGGCAAGCAAATCAATCAAT 59.503 40.909 0.00 0.00 0.00 2.57
1260 1351 1.891811 TCCGGCAAGCAAATCAATCAA 59.108 42.857 0.00 0.00 0.00 2.57
1261 1352 1.543607 TCCGGCAAGCAAATCAATCA 58.456 45.000 0.00 0.00 0.00 2.57
1262 1353 2.544486 GGATCCGGCAAGCAAATCAATC 60.544 50.000 0.00 0.00 0.00 2.67
1351 1460 1.139947 GAAGTTCGGCGAGAGGAGG 59.860 63.158 10.46 0.00 0.00 4.30
1675 1808 4.095400 AGGCCCTCCATCTCCGGT 62.095 66.667 0.00 0.00 33.74 5.28
1791 1945 0.798776 GACGTTGTTCTGGAGCATGG 59.201 55.000 0.00 0.00 0.00 3.66
1896 2113 2.743928 CCTCGCAGAAGGTGTGGC 60.744 66.667 0.00 0.00 37.27 5.01
2255 2492 4.115199 GATGGCAGGGGGTTCGCT 62.115 66.667 0.00 0.00 36.55 4.93
2299 2536 1.287425 CCTTATTCGCCTTGGACGTC 58.713 55.000 7.13 7.13 0.00 4.34
2300 2537 0.611714 ACCTTATTCGCCTTGGACGT 59.388 50.000 0.00 0.00 0.00 4.34
2301 2538 1.006832 CACCTTATTCGCCTTGGACG 58.993 55.000 0.00 0.00 0.00 4.79
2302 2539 2.396590 TCACCTTATTCGCCTTGGAC 57.603 50.000 0.00 0.00 0.00 4.02
2303 2540 2.355716 CCTTCACCTTATTCGCCTTGGA 60.356 50.000 0.00 0.00 0.00 3.53
2304 2541 2.017049 CCTTCACCTTATTCGCCTTGG 58.983 52.381 0.00 0.00 0.00 3.61
2314 2551 1.003839 CAGCACGGCCTTCACCTTA 60.004 57.895 0.00 0.00 0.00 2.69
2713 2965 3.136123 CGCAGGAAGGGCACATGG 61.136 66.667 0.00 0.00 0.00 3.66
2734 2986 1.737236 CCGAAATCCACATCTTCGCAA 59.263 47.619 0.00 0.00 40.39 4.85
2792 3048 3.737972 GCTAGAGCAAAGAGAAGCCTCTC 60.738 52.174 3.99 3.99 43.95 3.20
2814 3070 5.523188 TCAAGCCTAAAAACAGCAATGTTTG 59.477 36.000 7.09 0.00 40.67 2.93
2815 3071 5.669477 TCAAGCCTAAAAACAGCAATGTTT 58.331 33.333 0.65 0.65 43.04 2.83
2816 3072 5.275067 TCAAGCCTAAAAACAGCAATGTT 57.725 34.783 0.00 0.00 0.00 2.71
2819 3075 6.203338 CACAAATCAAGCCTAAAAACAGCAAT 59.797 34.615 0.00 0.00 0.00 3.56
2820 3076 5.523188 CACAAATCAAGCCTAAAAACAGCAA 59.477 36.000 0.00 0.00 0.00 3.91
2845 3107 5.245531 ACGACCAACATGTATTTCAGTGAT 58.754 37.500 0.00 0.00 0.00 3.06
2896 3585 8.834004 ACCCACTAAGAACATGTAGTATAGAA 57.166 34.615 0.00 0.00 0.00 2.10
2897 3586 8.834004 AACCCACTAAGAACATGTAGTATAGA 57.166 34.615 0.00 0.00 0.00 1.98
2898 3587 9.314321 CAAACCCACTAAGAACATGTAGTATAG 57.686 37.037 0.00 2.73 0.00 1.31
2899 3588 8.818860 ACAAACCCACTAAGAACATGTAGTATA 58.181 33.333 0.00 0.00 0.00 1.47
2902 3591 5.937111 ACAAACCCACTAAGAACATGTAGT 58.063 37.500 0.00 0.00 0.00 2.73
2903 3592 6.877611 AACAAACCCACTAAGAACATGTAG 57.122 37.500 0.00 0.00 0.00 2.74
2904 3593 7.122948 ACAAAACAAACCCACTAAGAACATGTA 59.877 33.333 0.00 0.00 0.00 2.29
2905 3594 6.071051 ACAAAACAAACCCACTAAGAACATGT 60.071 34.615 0.00 0.00 0.00 3.21
2906 3595 6.337356 ACAAAACAAACCCACTAAGAACATG 58.663 36.000 0.00 0.00 0.00 3.21
2907 3596 6.538945 ACAAAACAAACCCACTAAGAACAT 57.461 33.333 0.00 0.00 0.00 2.71
2909 3598 8.760103 TTTTACAAAACAAACCCACTAAGAAC 57.240 30.769 0.00 0.00 0.00 3.01
2910 3599 9.589111 GATTTTACAAAACAAACCCACTAAGAA 57.411 29.630 0.00 0.00 0.00 2.52
2912 3601 7.916450 TCGATTTTACAAAACAAACCCACTAAG 59.084 33.333 0.00 0.00 0.00 2.18
2913 3602 7.769220 TCGATTTTACAAAACAAACCCACTAA 58.231 30.769 0.00 0.00 0.00 2.24
2914 3603 7.330900 TCGATTTTACAAAACAAACCCACTA 57.669 32.000 0.00 0.00 0.00 2.74
2916 3605 6.889019 TTCGATTTTACAAAACAAACCCAC 57.111 33.333 0.00 0.00 0.00 4.61
2957 3872 6.665992 AGTAGAGACGCCATGGATTAAATA 57.334 37.500 18.40 0.00 0.00 1.40
2958 3873 5.552870 AGTAGAGACGCCATGGATTAAAT 57.447 39.130 18.40 0.00 0.00 1.40
2962 3877 3.452627 AGAAAGTAGAGACGCCATGGATT 59.547 43.478 18.40 0.00 0.00 3.01
3031 3946 1.243902 GCAATTCCCTTGTCGGTGAA 58.756 50.000 0.00 0.00 37.18 3.18
3161 4079 7.818997 AATTCTTTCCTCCTTACGAAACTTT 57.181 32.000 0.00 0.00 0.00 2.66
3169 4087 5.746284 AGCCACTAATTCTTTCCTCCTTAC 58.254 41.667 0.00 0.00 0.00 2.34
3180 4098 5.294552 GCGTAATTCTGAAGCCACTAATTCT 59.705 40.000 0.00 0.00 0.00 2.40
3301 4252 6.940867 GGAGACCCTATGTAGTTTTTGTTTCT 59.059 38.462 0.00 0.00 0.00 2.52
3302 4253 6.713450 TGGAGACCCTATGTAGTTTTTGTTTC 59.287 38.462 0.00 0.00 0.00 2.78
3303 4254 6.489022 GTGGAGACCCTATGTAGTTTTTGTTT 59.511 38.462 0.00 0.00 0.00 2.83
3312 4263 5.878406 ATTTCTGTGGAGACCCTATGTAG 57.122 43.478 0.00 0.00 0.00 2.74
3314 4265 4.289672 ACAATTTCTGTGGAGACCCTATGT 59.710 41.667 0.00 0.00 36.69 2.29
3545 4501 9.484326 GCAATTTTTGTCGTTCTTTGTTTTTAT 57.516 25.926 0.00 0.00 0.00 1.40
3546 4502 8.495949 TGCAATTTTTGTCGTTCTTTGTTTTTA 58.504 25.926 0.00 0.00 0.00 1.52
3556 4536 4.675114 CCTAGTGTGCAATTTTTGTCGTTC 59.325 41.667 0.00 0.00 0.00 3.95
3639 4619 7.041916 TCCTTCTTAGTAATCGTTTTTGCGAAA 60.042 33.333 0.00 0.00 44.38 3.46
3640 4620 6.424509 TCCTTCTTAGTAATCGTTTTTGCGAA 59.575 34.615 0.00 0.00 44.38 4.70
3641 4621 5.927689 TCCTTCTTAGTAATCGTTTTTGCGA 59.072 36.000 0.00 0.00 45.32 5.10
3642 4622 6.160664 TCCTTCTTAGTAATCGTTTTTGCG 57.839 37.500 0.00 0.00 0.00 4.85
3643 4623 8.234546 TCATTCCTTCTTAGTAATCGTTTTTGC 58.765 33.333 0.00 0.00 0.00 3.68


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

AutoCloner maintained by Alex Coulton.