Multiple sequence alignment - TraesCS2D01G379300

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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 TraesCS2D01G379300 chr2D 100.000 3002 0 0 1 3002 483784205 483787206 0.000000e+00 5544.0
1 TraesCS2D01G379300 chr2D 100.000 29 0 0 2253 2281 569306953 569306925 2.000000e-03 54.7
2 TraesCS2D01G379300 chr2A 90.636 2232 143 41 1 2181 627609186 627611402 0.000000e+00 2904.0
3 TraesCS2D01G379300 chr2A 85.185 702 66 17 2237 2907 627611411 627612105 0.000000e+00 686.0
4 TraesCS2D01G379300 chr2A 89.583 48 0 2 2234 2281 381504070 381504112 4.180000e-04 56.5
5 TraesCS2D01G379300 chr2B 94.229 1750 72 21 776 2508 568634457 568636194 0.000000e+00 2645.0
6 TraesCS2D01G379300 chr2B 90.736 734 55 11 1 731 568633631 568634354 0.000000e+00 966.0
7 TraesCS2D01G379300 chr2B 87.438 406 44 6 2304 2705 223689662 223689260 7.580000e-126 460.0
8 TraesCS2D01G379300 chr2B 82.068 474 56 15 2320 2780 161880921 161881378 7.860000e-101 377.0
9 TraesCS2D01G379300 chr2B 94.030 134 4 4 2826 2958 568638765 568638895 1.830000e-47 200.0
10 TraesCS2D01G379300 chr2B 100.000 40 0 0 2787 2826 568636193 568636232 1.150000e-09 75.0
11 TraesCS2D01G379300 chr3D 87.990 408 43 5 2303 2706 290864883 290865288 7.530000e-131 477.0
12 TraesCS2D01G379300 chr3D 79.132 484 79 15 2303 2781 204067808 204068274 6.250000e-82 315.0
13 TraesCS2D01G379300 chr3D 100.000 29 0 0 2253 2281 516076147 516076119 2.000000e-03 54.7
14 TraesCS2D01G379300 chr4A 87.961 407 43 4 2302 2706 48786645 48786243 2.710000e-130 475.0
15 TraesCS2D01G379300 chr5D 87.531 409 43 7 2303 2706 124535092 124534687 1.630000e-127 466.0
16 TraesCS2D01G379300 chr7B 87.438 406 47 4 2303 2706 281711614 281711211 5.860000e-127 464.0
17 TraesCS2D01G379300 chr7B 84.865 185 28 0 1738 1922 428921203 428921019 1.420000e-43 187.0
18 TraesCS2D01G379300 chr7B 88.000 150 18 0 1280 1429 428921490 428921341 8.550000e-41 178.0
19 TraesCS2D01G379300 chr4D 86.842 418 50 4 2304 2717 230640536 230640952 2.110000e-126 462.0
20 TraesCS2D01G379300 chr4D 86.957 414 48 5 2293 2704 354810356 354809947 7.580000e-126 460.0
21 TraesCS2D01G379300 chr4D 83.208 399 53 4 2320 2706 354809519 354809915 1.320000e-93 353.0
22 TraesCS2D01G379300 chr1D 87.255 408 46 5 2303 2706 182101573 182101978 7.580000e-126 460.0
23 TraesCS2D01G379300 chr1D 78.601 486 77 20 2303 2780 234028212 234028678 2.260000e-76 296.0
24 TraesCS2D01G379300 chr1D 100.000 28 0 0 2252 2279 462475954 462475981 5.000000e-03 52.8
25 TraesCS2D01G379300 chr5B 79.135 393 70 11 2304 2689 391546064 391546451 8.250000e-66 261.0
26 TraesCS2D01G379300 chr5B 86.164 159 17 3 2631 2785 462586152 462585995 1.850000e-37 167.0
27 TraesCS2D01G379300 chr7A 86.022 186 24 2 1738 1922 476936082 476935898 6.560000e-47 198.0
28 TraesCS2D01G379300 chr7A 89.333 150 16 0 1280 1429 476936369 476936220 3.950000e-44 189.0
29 TraesCS2D01G379300 chr7A 96.875 32 1 0 2253 2284 138956061 138956030 2.000000e-03 54.7
30 TraesCS2D01G379300 chr7D 84.184 196 29 2 1728 1922 414489579 414489385 3.950000e-44 189.0
31 TraesCS2D01G379300 chr7D 89.333 150 16 0 1280 1429 414489856 414489707 3.950000e-44 189.0
32 TraesCS2D01G379300 chr7D 97.059 34 0 1 2249 2281 44535306 44535273 4.180000e-04 56.5
33 TraesCS2D01G379300 chr3B 100.000 29 0 0 2253 2281 23927037 23927065 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 TraesCS2D01G379300 chr2D 483784205 483787206 3001 False 5544.0 5544 100.00000 1 3002 1 chr2D.!!$F1 3001
1 TraesCS2D01G379300 chr2A 627609186 627612105 2919 False 1795.0 2904 87.91050 1 2907 2 chr2A.!!$F2 2906
2 TraesCS2D01G379300 chr2B 568633631 568638895 5264 False 971.5 2645 94.74875 1 2958 4 chr2B.!!$F2 2957

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
28 29 0.881118 GACACCACCGATGTTGCAAT 59.119 50.0 0.59 0.0 0.0 3.56 F
1043 1134 0.840288 AAACCCCATCAAAAGCCCCC 60.840 55.0 0.00 0.0 0.0 5.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1545 1658 0.317938 CGGAGAACGGGAGCGATAAG 60.318 60.0 0.00 0.00 39.42 1.73 R
2511 2628 0.526096 GCAAACGGCATGCACATAGG 60.526 55.0 21.36 5.09 43.29 2.57 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
18 19 1.878522 GCTATGAGCGACACCACCG 60.879 63.158 0.00 0.00 0.00 4.94
25 26 2.860293 CGACACCACCGATGTTGC 59.140 61.111 0.00 0.00 0.00 4.17
26 27 1.958715 CGACACCACCGATGTTGCA 60.959 57.895 0.00 0.00 0.00 4.08
28 29 0.881118 GACACCACCGATGTTGCAAT 59.119 50.000 0.59 0.00 0.00 3.56
101 102 3.749064 GTGTCGAGCGCCCTCTCA 61.749 66.667 2.29 0.00 35.90 3.27
124 139 3.188786 GTCGTCGGTGGATGCTGC 61.189 66.667 0.00 0.00 0.00 5.25
129 144 1.992834 TCGGTGGATGCTGCCCTTA 60.993 57.895 0.00 0.00 0.00 2.69
136 151 1.065126 GGATGCTGCCCTTACAAGAGT 60.065 52.381 0.00 0.00 0.00 3.24
184 199 3.196913 TAAGCGTCGCGTGGTGACA 62.197 57.895 16.13 0.00 42.42 3.58
193 208 4.250305 GTGGTGACAGTGGGCGGT 62.250 66.667 0.00 0.00 44.46 5.68
258 275 0.941936 TGCGTTCGTCATGAAGCGAA 60.942 50.000 14.97 14.97 43.55 4.70
265 282 1.402852 CGTCATGAAGCGAAGAGACCA 60.403 52.381 0.00 0.00 0.00 4.02
298 316 3.717707 TCATGAATCTAACGGTGCTAGC 58.282 45.455 8.10 8.10 0.00 3.42
319 337 1.210155 GCTTGATCCAACACCACGC 59.790 57.895 0.00 0.00 0.00 5.34
345 363 3.181429 ACAACCAATCCAATCCAGTGACT 60.181 43.478 0.00 0.00 0.00 3.41
412 430 7.633789 ACTAAAACTATTCACATGGAGGATGT 58.366 34.615 0.00 0.00 46.98 3.06
449 467 4.641868 TCCTTTCAATATGGTAGGAGGGT 58.358 43.478 0.00 0.00 31.60 4.34
455 473 4.171243 TCAATATGGTAGGAGGGTACTGGA 59.829 45.833 0.00 0.00 0.00 3.86
690 716 1.406903 ATATGCAGCCTGGAAAAGCC 58.593 50.000 0.00 0.00 37.10 4.35
731 785 7.038659 ACTTCATAAGTAACAGAGCAGATGTC 58.961 38.462 0.00 0.00 40.69 3.06
825 911 1.391157 GCAGTTGGCAACCACTCCAA 61.391 55.000 25.81 0.00 43.97 3.53
843 929 1.779061 AACTCGGCCACTCCCACAAT 61.779 55.000 2.24 0.00 0.00 2.71
854 940 2.656055 CCACAATGCCCAAACCCG 59.344 61.111 0.00 0.00 0.00 5.28
943 1034 2.110967 CAACTCATCCCAGCAGGCG 61.111 63.158 0.00 0.00 34.51 5.52
1013 1104 3.451141 TCAAATCAAACACAAGCACCC 57.549 42.857 0.00 0.00 0.00 4.61
1036 1127 5.448654 CCTCATCTCATAAACCCCATCAAA 58.551 41.667 0.00 0.00 0.00 2.69
1038 1129 6.040166 CCTCATCTCATAAACCCCATCAAAAG 59.960 42.308 0.00 0.00 0.00 2.27
1039 1130 5.360714 TCATCTCATAAACCCCATCAAAAGC 59.639 40.000 0.00 0.00 0.00 3.51
1042 1133 1.945580 TAAACCCCATCAAAAGCCCC 58.054 50.000 0.00 0.00 0.00 5.80
1043 1134 0.840288 AAACCCCATCAAAAGCCCCC 60.840 55.000 0.00 0.00 0.00 5.40
1044 1135 2.759560 CCCCATCAAAAGCCCCCG 60.760 66.667 0.00 0.00 0.00 5.73
1172 1266 4.697756 CGCGCCCTCCAACTCCAA 62.698 66.667 0.00 0.00 0.00 3.53
1173 1267 2.747855 GCGCCCTCCAACTCCAAG 60.748 66.667 0.00 0.00 0.00 3.61
1176 1270 2.356667 CCCTCCAACTCCAAGGCC 59.643 66.667 0.00 0.00 0.00 5.19
1177 1271 2.356667 CCTCCAACTCCAAGGCCC 59.643 66.667 0.00 0.00 0.00 5.80
1437 1543 1.987855 CCCGGCCTTCCTGTCAGTA 60.988 63.158 0.00 0.00 0.00 2.74
1521 1634 1.296715 GTTCCTCATGGTGGCGAGT 59.703 57.895 0.00 0.00 34.23 4.18
1884 1997 2.896443 GTGGCCTCCTTCCTCTCG 59.104 66.667 3.32 0.00 0.00 4.04
2258 2375 8.934023 TCTTTTCTTTTATGGATAAGTGTGGT 57.066 30.769 0.00 0.00 0.00 4.16
2314 2431 8.571336 GCAATATCATATACAGGGATAATTGGC 58.429 37.037 0.00 0.00 0.00 4.52
2361 2478 2.553685 CGGCAGGTTTACCCCTAGTTTT 60.554 50.000 0.00 0.00 36.42 2.43
2416 2533 4.686091 GCTTGTCTTATGTTTTTGCCCTTC 59.314 41.667 0.00 0.00 0.00 3.46
2525 2644 0.589708 CATCACCTATGTGCATGCCG 59.410 55.000 16.68 0.00 42.46 5.69
2541 2660 1.621107 GCCGTTTGCATTCATGACAG 58.379 50.000 0.00 0.00 40.77 3.51
2558 2677 5.607939 TGACAGAAGTGTTGGAAAGTCTA 57.392 39.130 0.00 0.00 36.88 2.59
2559 2678 5.357257 TGACAGAAGTGTTGGAAAGTCTAC 58.643 41.667 0.00 0.00 36.88 2.59
2659 2789 3.066621 TGACCAATGTTCTGAGTGTTTGC 59.933 43.478 0.00 0.00 0.00 3.68
2660 2790 3.290710 ACCAATGTTCTGAGTGTTTGCT 58.709 40.909 0.00 0.00 0.00 3.91
2674 2804 6.206634 TGAGTGTTTGCTAAGTTTCATAAGGG 59.793 38.462 0.00 0.00 0.00 3.95
2685 2815 9.177608 CTAAGTTTCATAAGGGAATGACATTCA 57.822 33.333 25.59 9.05 41.03 2.57
2696 2826 5.404946 GGAATGACATTCATGGAAGTTGTG 58.595 41.667 25.59 0.00 41.03 3.33
2756 2902 6.873076 TGGAGTGATCATTTTATTTTTGCCAC 59.127 34.615 0.00 0.00 0.00 5.01
2771 2917 1.271325 TGCCACGACTTCCATGAATGT 60.271 47.619 0.00 0.00 0.00 2.71
2780 2926 3.276857 CTTCCATGAATGTCAGTCCCTG 58.723 50.000 0.00 0.00 0.00 4.45
2781 2927 1.561076 TCCATGAATGTCAGTCCCTGG 59.439 52.381 11.01 11.01 31.51 4.45
2828 2974 7.996098 ATGCCAGTTAGCTCTTAAACTTTTA 57.004 32.000 0.00 0.00 33.72 1.52
2920 5597 1.002366 GTGCTCACTGCGTCCAATAG 58.998 55.000 0.00 0.00 46.63 1.73
2950 5627 3.953775 ACAAGGGACCGCCACTGG 61.954 66.667 0.00 0.00 35.15 4.00
2960 5637 4.740822 GCCACTGGTCGGCCCATT 62.741 66.667 2.12 0.00 44.15 3.16
2961 5638 2.751436 CCACTGGTCGGCCCATTG 60.751 66.667 2.12 4.50 44.15 2.82
2962 5639 2.751436 CACTGGTCGGCCCATTGG 60.751 66.667 2.12 0.00 44.15 3.16
2963 5640 2.933287 ACTGGTCGGCCCATTGGA 60.933 61.111 2.12 0.00 44.15 3.53
2964 5641 2.354729 CTGGTCGGCCCATTGGAA 59.645 61.111 2.12 0.00 44.15 3.53
2965 5642 1.750399 CTGGTCGGCCCATTGGAAG 60.750 63.158 2.12 0.00 44.15 3.46
2966 5643 2.355115 GGTCGGCCCATTGGAAGT 59.645 61.111 3.62 0.00 0.00 3.01
2967 5644 1.304134 GGTCGGCCCATTGGAAGTT 60.304 57.895 3.62 0.00 0.00 2.66
2968 5645 0.034863 GGTCGGCCCATTGGAAGTTA 60.035 55.000 3.62 0.00 0.00 2.24
2969 5646 1.092348 GTCGGCCCATTGGAAGTTAC 58.908 55.000 3.62 0.00 0.00 2.50
2970 5647 0.988832 TCGGCCCATTGGAAGTTACT 59.011 50.000 3.62 0.00 0.00 2.24
2971 5648 1.094785 CGGCCCATTGGAAGTTACTG 58.905 55.000 3.62 0.00 0.00 2.74
2972 5649 1.613255 CGGCCCATTGGAAGTTACTGT 60.613 52.381 3.62 0.00 0.00 3.55
2973 5650 2.355310 CGGCCCATTGGAAGTTACTGTA 60.355 50.000 3.62 0.00 0.00 2.74
2974 5651 3.279434 GGCCCATTGGAAGTTACTGTAG 58.721 50.000 3.62 0.00 0.00 2.74
2975 5652 2.683362 GCCCATTGGAAGTTACTGTAGC 59.317 50.000 3.62 0.00 0.00 3.58
2976 5653 2.936498 CCCATTGGAAGTTACTGTAGCG 59.064 50.000 3.62 0.00 0.00 4.26
2977 5654 3.369052 CCCATTGGAAGTTACTGTAGCGA 60.369 47.826 3.62 0.00 0.00 4.93
2978 5655 3.865745 CCATTGGAAGTTACTGTAGCGAG 59.134 47.826 0.00 0.00 0.00 5.03
2979 5656 2.649331 TGGAAGTTACTGTAGCGAGC 57.351 50.000 0.00 0.00 0.00 5.03
2980 5657 2.168496 TGGAAGTTACTGTAGCGAGCT 58.832 47.619 2.25 2.25 0.00 4.09
2981 5658 2.094700 TGGAAGTTACTGTAGCGAGCTG 60.095 50.000 7.99 0.00 0.00 4.24
2982 5659 2.094649 GGAAGTTACTGTAGCGAGCTGT 60.095 50.000 7.99 0.00 0.00 4.40
2983 5660 2.638556 AGTTACTGTAGCGAGCTGTG 57.361 50.000 7.99 0.53 0.00 3.66
2984 5661 1.887198 AGTTACTGTAGCGAGCTGTGT 59.113 47.619 7.99 6.32 0.00 3.72
2985 5662 2.296471 AGTTACTGTAGCGAGCTGTGTT 59.704 45.455 7.99 0.00 0.00 3.32
2986 5663 3.057734 GTTACTGTAGCGAGCTGTGTTT 58.942 45.455 7.99 0.00 0.00 2.83
2987 5664 1.502231 ACTGTAGCGAGCTGTGTTTG 58.498 50.000 7.99 0.00 0.00 2.93
2988 5665 1.202533 ACTGTAGCGAGCTGTGTTTGT 60.203 47.619 7.99 0.00 0.00 2.83
2989 5666 2.035449 ACTGTAGCGAGCTGTGTTTGTA 59.965 45.455 7.99 0.00 0.00 2.41
2990 5667 2.663602 CTGTAGCGAGCTGTGTTTGTAG 59.336 50.000 7.99 0.00 0.00 2.74
2991 5668 1.390463 GTAGCGAGCTGTGTTTGTAGC 59.610 52.381 7.99 0.00 40.18 3.58
2992 5669 1.130613 GCGAGCTGTGTTTGTAGCG 59.869 57.895 0.00 0.00 44.43 4.26
2993 5670 1.130613 CGAGCTGTGTTTGTAGCGC 59.869 57.895 0.00 0.00 44.43 5.92
2994 5671 1.556591 CGAGCTGTGTTTGTAGCGCA 61.557 55.000 11.47 0.00 44.43 6.09
2995 5672 0.586319 GAGCTGTGTTTGTAGCGCAA 59.414 50.000 11.47 0.00 44.43 4.85
2996 5673 1.197721 GAGCTGTGTTTGTAGCGCAAT 59.802 47.619 11.47 0.00 44.43 3.56
2997 5674 2.415168 GAGCTGTGTTTGTAGCGCAATA 59.585 45.455 11.47 0.00 44.43 1.90
2998 5675 3.009723 AGCTGTGTTTGTAGCGCAATAT 58.990 40.909 11.47 0.00 44.43 1.28
2999 5676 3.063997 AGCTGTGTTTGTAGCGCAATATC 59.936 43.478 11.47 0.00 44.43 1.63
3000 5677 3.597324 CTGTGTTTGTAGCGCAATATCG 58.403 45.455 11.47 0.00 36.89 2.92
3001 5678 2.997303 TGTGTTTGTAGCGCAATATCGT 59.003 40.909 11.47 0.00 36.89 3.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 0.925466 GCCGAATGCATTGCAACATC 59.075 50.000 18.59 12.89 43.62 3.06
25 26 1.713937 TAGTGCCGCCGAATGCATTG 61.714 55.000 18.59 9.14 40.07 2.82
26 27 1.451207 TAGTGCCGCCGAATGCATT 60.451 52.632 12.83 12.83 40.07 3.56
28 29 2.817834 GTAGTGCCGCCGAATGCA 60.818 61.111 0.00 0.00 41.33 3.96
39 40 0.375106 GCTCCATTCGCTTGTAGTGC 59.625 55.000 0.00 0.00 0.00 4.40
118 133 2.716217 GAACTCTTGTAAGGGCAGCAT 58.284 47.619 0.00 0.00 0.00 3.79
124 139 1.439679 GCACCGAACTCTTGTAAGGG 58.560 55.000 0.00 0.00 0.00 3.95
129 144 2.665185 GCGGCACCGAACTCTTGT 60.665 61.111 14.43 0.00 42.83 3.16
136 151 2.997075 ATCACTACGCGGCACCGAA 61.997 57.895 14.43 0.00 42.83 4.30
184 199 4.602259 CACACGACACCGCCCACT 62.602 66.667 0.00 0.00 39.95 4.00
193 208 1.217001 GTCACATGAAGCACACGACA 58.783 50.000 0.00 0.00 0.00 4.35
258 275 1.014804 AGTCCCTCATCCTGGTCTCT 58.985 55.000 0.00 0.00 0.00 3.10
265 282 3.939042 AGATTCATGAGTCCCTCATCCT 58.061 45.455 14.09 0.00 46.83 3.24
280 297 2.108168 AGGCTAGCACCGTTAGATTCA 58.892 47.619 18.24 0.00 33.69 2.57
298 316 0.883833 GTGGTGTTGGATCAAGCAGG 59.116 55.000 0.00 0.00 0.00 4.85
319 337 1.102978 GGATTGGATTGGTTGTCCCG 58.897 55.000 0.00 0.00 34.76 5.14
345 363 2.359354 CGTTGGTGGGCCGATCAA 60.359 61.111 9.71 9.71 37.67 2.57
412 430 5.429681 TGAAAGGAGAATCGTCCCAATTA 57.570 39.130 0.00 0.00 37.31 1.40
449 467 2.009681 TGCTCTGAAGTGGTCCAGTA 57.990 50.000 0.00 0.00 0.00 2.74
455 473 1.911357 TCCATCATGCTCTGAAGTGGT 59.089 47.619 8.44 0.00 36.04 4.16
731 785 2.251409 ATCATGGATGAACTGCCTCG 57.749 50.000 0.00 0.00 40.69 4.63
825 911 2.224159 ATTGTGGGAGTGGCCGAGT 61.224 57.895 0.00 0.00 37.63 4.18
843 929 2.519780 GTGGTTCGGGTTTGGGCA 60.520 61.111 0.00 0.00 0.00 5.36
854 940 0.826256 GGTTGGGAGGGTTGTGGTTC 60.826 60.000 0.00 0.00 0.00 3.62
955 1046 1.798813 CGGCGGATTTTATAGAGGCAC 59.201 52.381 0.00 0.00 0.00 5.01
1013 1104 4.712051 TGATGGGGTTTATGAGATGAGG 57.288 45.455 0.00 0.00 0.00 3.86
1042 1133 2.202810 GAGAGGAGAAAGCGGCGG 60.203 66.667 9.78 0.00 0.00 6.13
1043 1134 2.202810 GGAGAGGAGAAAGCGGCG 60.203 66.667 0.51 0.51 0.00 6.46
1044 1135 1.142965 GAGGAGAGGAGAAAGCGGC 59.857 63.158 0.00 0.00 0.00 6.53
1049 1140 2.052690 CGCGGGAGGAGAGGAGAAA 61.053 63.158 0.00 0.00 0.00 2.52
1545 1658 0.317938 CGGAGAACGGGAGCGATAAG 60.318 60.000 0.00 0.00 39.42 1.73
1884 1997 1.205893 AGGAGCACGAAGATGAAGACC 59.794 52.381 0.00 0.00 0.00 3.85
1978 2091 0.745468 TTAAACAAAGCGCGGGGTTT 59.255 45.000 22.07 22.07 44.21 3.27
1986 2099 3.362534 GGCACGGTTAATTAAACAAAGCG 59.637 43.478 13.51 10.41 46.34 4.68
2018 2131 3.623703 ACTGAGGATGCATGCAACATTA 58.376 40.909 26.68 15.69 0.00 1.90
2212 2326 4.097892 AGAATCCATAAACATTGTTCCGCC 59.902 41.667 1.83 0.00 0.00 6.13
2251 2368 1.887198 CGACTGAGACCTAACCACACT 59.113 52.381 0.00 0.00 0.00 3.55
2289 2406 9.857656 AGCCAATTATCCCTGTATATGATATTG 57.142 33.333 0.00 0.00 0.00 1.90
2290 2407 9.857656 CAGCCAATTATCCCTGTATATGATATT 57.142 33.333 0.00 0.00 0.00 1.28
2292 2409 8.392631 ACAGCCAATTATCCCTGTATATGATA 57.607 34.615 0.00 0.00 36.82 2.15
2295 2412 7.012704 GCATACAGCCAATTATCCCTGTATATG 59.987 40.741 10.67 5.35 44.99 1.78
2361 2478 3.948473 TGGACAGGAACGATTGTTTTCAA 59.052 39.130 0.00 0.00 44.33 2.69
2378 2495 2.165437 GACAAGCAAAGTGGTTTGGACA 59.835 45.455 0.38 0.00 42.99 4.02
2511 2628 0.526096 GCAAACGGCATGCACATAGG 60.526 55.000 21.36 5.09 43.29 2.57
2522 2641 1.199789 TCTGTCATGAATGCAAACGGC 59.800 47.619 0.00 0.00 45.13 5.68
2523 2642 3.058016 ACTTCTGTCATGAATGCAAACGG 60.058 43.478 0.00 0.00 0.00 4.44
2525 2644 4.863491 ACACTTCTGTCATGAATGCAAAC 58.137 39.130 0.00 0.00 0.00 2.93
2541 2660 6.223852 TGAGATGTAGACTTTCCAACACTTC 58.776 40.000 0.00 0.00 0.00 3.01
2558 2677 8.484575 AGATCATATGAGTTCAAACTGAGATGT 58.515 33.333 11.78 5.00 40.89 3.06
2559 2678 8.890124 AGATCATATGAGTTCAAACTGAGATG 57.110 34.615 11.78 9.71 41.26 2.90
2622 2741 1.885887 TGGTCAATGTTTGCTACCAGC 59.114 47.619 0.00 0.00 42.82 4.85
2623 2742 4.487948 CATTGGTCAATGTTTGCTACCAG 58.512 43.478 13.78 0.00 42.32 4.00
2648 2778 7.301054 CCTTATGAAACTTAGCAAACACTCAG 58.699 38.462 0.00 0.00 0.00 3.35
2659 2789 9.177608 TGAATGTCATTCCCTTATGAAACTTAG 57.822 33.333 20.41 0.00 38.50 2.18
2660 2790 9.699410 ATGAATGTCATTCCCTTATGAAACTTA 57.301 29.630 20.41 0.00 38.50 2.24
2674 2804 5.404946 CCACAACTTCCATGAATGTCATTC 58.595 41.667 17.21 17.21 34.28 2.67
2706 2836 3.485394 TGCTTTTGTTGTGGAGCATCTA 58.515 40.909 0.00 0.00 39.97 1.98
2707 2837 2.309613 TGCTTTTGTTGTGGAGCATCT 58.690 42.857 0.00 0.00 39.97 2.90
2714 2857 4.034279 CACTCCAAAATGCTTTTGTTGTGG 59.966 41.667 20.28 15.19 46.53 4.17
2738 2881 6.589907 GGAAGTCGTGGCAAAAATAAAATGAT 59.410 34.615 0.00 0.00 0.00 2.45
2740 2883 5.694006 TGGAAGTCGTGGCAAAAATAAAATG 59.306 36.000 0.00 0.00 0.00 2.32
2756 2902 2.932614 GGACTGACATTCATGGAAGTCG 59.067 50.000 4.96 2.97 41.43 4.18
2780 2926 6.992063 TCTCTTTTGAGCTAATTGACATCC 57.008 37.500 0.00 0.00 45.83 3.51
2781 2927 7.431668 GCATTCTCTTTTGAGCTAATTGACATC 59.568 37.037 0.00 0.00 45.83 3.06
2834 2980 6.603599 AGTGGCTTAAACTTTTTCTCTTGTCT 59.396 34.615 0.00 0.00 0.00 3.41
2836 2982 6.377146 TGAGTGGCTTAAACTTTTTCTCTTGT 59.623 34.615 0.00 0.00 0.00 3.16
2868 5544 1.063942 CCATTTCCTCCACCCCTAACC 60.064 57.143 0.00 0.00 0.00 2.85
2920 5597 1.005867 CCTTGTGGGTTGCACATGC 60.006 57.895 0.00 0.00 42.50 4.06
2950 5627 1.092348 GTAACTTCCAATGGGCCGAC 58.908 55.000 0.00 0.00 0.00 4.79
2958 5635 3.195825 AGCTCGCTACAGTAACTTCCAAT 59.804 43.478 0.00 0.00 0.00 3.16
2959 5636 2.561419 AGCTCGCTACAGTAACTTCCAA 59.439 45.455 0.00 0.00 0.00 3.53
2960 5637 2.094700 CAGCTCGCTACAGTAACTTCCA 60.095 50.000 0.00 0.00 0.00 3.53
2961 5638 2.094649 ACAGCTCGCTACAGTAACTTCC 60.095 50.000 0.00 0.00 0.00 3.46
2962 5639 2.917971 CACAGCTCGCTACAGTAACTTC 59.082 50.000 0.00 0.00 0.00 3.01
2963 5640 2.296471 ACACAGCTCGCTACAGTAACTT 59.704 45.455 0.00 0.00 0.00 2.66
2964 5641 1.887198 ACACAGCTCGCTACAGTAACT 59.113 47.619 0.00 0.00 0.00 2.24
2965 5642 2.349297 ACACAGCTCGCTACAGTAAC 57.651 50.000 0.00 0.00 0.00 2.50
2966 5643 3.057019 CAAACACAGCTCGCTACAGTAA 58.943 45.455 0.00 0.00 0.00 2.24
2967 5644 2.035449 ACAAACACAGCTCGCTACAGTA 59.965 45.455 0.00 0.00 0.00 2.74
2968 5645 1.202533 ACAAACACAGCTCGCTACAGT 60.203 47.619 0.00 0.00 0.00 3.55
2969 5646 1.502231 ACAAACACAGCTCGCTACAG 58.498 50.000 0.00 0.00 0.00 2.74
2970 5647 2.672714 CTACAAACACAGCTCGCTACA 58.327 47.619 0.00 0.00 0.00 2.74
2971 5648 1.390463 GCTACAAACACAGCTCGCTAC 59.610 52.381 0.00 0.00 34.86 3.58
2972 5649 1.710013 GCTACAAACACAGCTCGCTA 58.290 50.000 0.00 0.00 34.86 4.26
2973 5650 1.284982 CGCTACAAACACAGCTCGCT 61.285 55.000 0.00 0.00 35.57 4.93
2974 5651 1.130613 CGCTACAAACACAGCTCGC 59.869 57.895 0.00 0.00 35.57 5.03
2975 5652 1.130613 GCGCTACAAACACAGCTCG 59.869 57.895 0.00 0.00 35.57 5.03
2976 5653 0.586319 TTGCGCTACAAACACAGCTC 59.414 50.000 9.73 0.00 34.56 4.09
2977 5654 1.238439 ATTGCGCTACAAACACAGCT 58.762 45.000 9.73 0.00 42.86 4.24
2978 5655 2.892373 TATTGCGCTACAAACACAGC 57.108 45.000 9.73 0.00 42.86 4.40
2979 5656 3.062099 ACGATATTGCGCTACAAACACAG 59.938 43.478 9.73 0.00 42.86 3.66
2980 5657 2.997303 ACGATATTGCGCTACAAACACA 59.003 40.909 9.73 0.00 42.86 3.72
2981 5658 3.651562 ACGATATTGCGCTACAAACAC 57.348 42.857 9.73 0.00 42.86 3.32


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

AutoCloner maintained by Alex Coulton.