Multiple sequence alignment - TraesCS4A01G469100

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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 TraesCS4A01G469100 chr4A 100.000 3134 0 0 1 3134 731042871 731046004 0.000000e+00 5788
1 TraesCS4A01G469100 chr4A 97.856 653 14 0 74 726 729292232 729292884 0.000000e+00 1129
2 TraesCS4A01G469100 chr4A 84.292 643 99 2 76 717 730352611 730353252 7.380000e-176 627
3 TraesCS4A01G469100 chr4A 83.436 652 106 2 76 726 729278015 729278665 3.460000e-169 604
4 TraesCS4A01G469100 chr4A 83.086 538 79 11 186 717 729583694 729583163 2.190000e-131 479
5 TraesCS4A01G469100 chr4A 99.074 216 1 1 730 945 731057420 731057634 1.360000e-103 387
6 TraesCS4A01G469100 chr5B 93.766 1524 68 4 1614 3134 655396887 655395388 0.000000e+00 2263
7 TraesCS4A01G469100 chr5B 95.890 73 1 2 1 72 695499336 695499265 1.970000e-22 117
8 TraesCS4A01G469100 chr7A 81.302 2412 377 53 748 3134 721386989 721384627 0.000000e+00 1888
9 TraesCS4A01G469100 chr5D 80.271 2438 373 76 748 3134 439744945 439742565 0.000000e+00 1738
10 TraesCS4A01G469100 chr5A 95.264 739 35 0 1041 1779 437352125 437351387 0.000000e+00 1171
11 TraesCS4A01G469100 chr5A 96.364 220 7 1 727 945 437345595 437345376 8.260000e-96 361
12 TraesCS4A01G469100 chr5A 95.154 227 10 1 727 952 437352349 437352123 1.070000e-94 357
13 TraesCS4A01G469100 chr1D 81.450 1186 209 9 1956 3134 483043293 483042112 0.000000e+00 961
14 TraesCS4A01G469100 chr1D 81.674 1135 143 44 748 1836 483044492 483043377 0.000000e+00 883
15 TraesCS4A01G469100 chr2A 77.706 619 112 23 80 687 772372766 772372163 3.840000e-94 355
16 TraesCS4A01G469100 chr2A 95.890 73 2 1 1 72 464959233 464959305 1.970000e-22 117
17 TraesCS4A01G469100 chr2B 76.923 650 130 17 85 726 787953384 787952747 4.970000e-93 351
18 TraesCS4A01G469100 chr2D 77.174 276 57 6 439 711 650725820 650725548 4.190000e-34 156
19 TraesCS4A01G469100 chr7D 97.260 73 0 2 1 71 37237899 37237827 4.240000e-24 122
20 TraesCS4A01G469100 chr1B 95.890 73 1 2 1 71 42277654 42277726 1.970000e-22 117
21 TraesCS4A01G469100 chr3D 95.833 72 2 1 1 72 475124899 475124829 7.100000e-22 115
22 TraesCS4A01G469100 chr7B 93.506 77 4 1 1 76 704828834 704828910 2.550000e-21 113
23 TraesCS4A01G469100 chr3A 93.590 78 1 4 1 74 702909724 702909647 2.550000e-21 113
24 TraesCS4A01G469100 chr6A 91.358 81 5 2 1 79 601135708 601135788 3.300000e-20 110
25 TraesCS4A01G469100 chr6B 92.208 77 4 2 1 75 18732683 18732759 1.190000e-19 108


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 TraesCS4A01G469100 chr4A 731042871 731046004 3133 False 5788 5788 100.000 1 3134 1 chr4A.!!$F4 3133
1 TraesCS4A01G469100 chr4A 729292232 729292884 652 False 1129 1129 97.856 74 726 1 chr4A.!!$F2 652
2 TraesCS4A01G469100 chr4A 730352611 730353252 641 False 627 627 84.292 76 717 1 chr4A.!!$F3 641
3 TraesCS4A01G469100 chr4A 729278015 729278665 650 False 604 604 83.436 76 726 1 chr4A.!!$F1 650
4 TraesCS4A01G469100 chr4A 729583163 729583694 531 True 479 479 83.086 186 717 1 chr4A.!!$R1 531
5 TraesCS4A01G469100 chr5B 655395388 655396887 1499 True 2263 2263 93.766 1614 3134 1 chr5B.!!$R1 1520
6 TraesCS4A01G469100 chr7A 721384627 721386989 2362 True 1888 1888 81.302 748 3134 1 chr7A.!!$R1 2386
7 TraesCS4A01G469100 chr5D 439742565 439744945 2380 True 1738 1738 80.271 748 3134 1 chr5D.!!$R1 2386
8 TraesCS4A01G469100 chr5A 437351387 437352349 962 True 764 1171 95.209 727 1779 2 chr5A.!!$R2 1052
9 TraesCS4A01G469100 chr1D 483042112 483044492 2380 True 922 961 81.562 748 3134 2 chr1D.!!$R1 2386
10 TraesCS4A01G469100 chr2A 772372163 772372766 603 True 355 355 77.706 80 687 1 chr2A.!!$R1 607
11 TraesCS4A01G469100 chr2B 787952747 787953384 637 True 351 351 76.923 85 726 1 chr2B.!!$R1 641

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
56 57 0.041386 AGAGGCCGGGGTATATCCTC 59.959 60.0 12.64 12.64 42.68 3.71 F
1242 1291 0.319211 TCGCCAAAAGTCGTCGTCAT 60.319 50.0 0.00 0.00 0.00 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1335 1384 0.032615 AGAGAGTGTAGGCAGAGGGG 60.033 60.0 0.0 0.0 0.00 4.79 R
2197 2252 0.105142 ACGGCCATATGGGAGGTAGT 60.105 55.0 23.3 0.0 40.01 2.73 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
29 30 9.726232 ATTAATAATATGATTGCATGCATCGTC 57.274 29.630 23.37 19.28 35.94 4.20
30 31 4.430137 AATATGATTGCATGCATCGTCC 57.570 40.909 23.37 9.50 35.94 4.79
31 32 1.682740 ATGATTGCATGCATCGTCCA 58.317 45.000 23.37 14.71 32.31 4.02
32 33 1.018910 TGATTGCATGCATCGTCCAG 58.981 50.000 23.37 0.00 0.00 3.86
33 34 1.302366 GATTGCATGCATCGTCCAGA 58.698 50.000 23.37 3.69 0.00 3.86
34 35 1.878088 GATTGCATGCATCGTCCAGAT 59.122 47.619 23.37 9.24 41.01 2.90
35 36 6.820877 TATGATTGCATGCATCGTCCAGATG 61.821 44.000 23.37 3.93 45.51 2.90
42 43 1.445095 ATCGTCCAGATGCAGAGGC 59.555 57.895 0.00 0.00 38.36 4.70
43 44 2.037620 ATCGTCCAGATGCAGAGGCC 62.038 60.000 0.00 0.00 38.36 5.19
44 45 2.202987 GTCCAGATGCAGAGGCCG 60.203 66.667 0.00 0.00 40.13 6.13
45 46 3.473647 TCCAGATGCAGAGGCCGG 61.474 66.667 0.00 0.00 40.13 6.13
46 47 4.559063 CCAGATGCAGAGGCCGGG 62.559 72.222 2.18 0.00 40.13 5.73
47 48 4.559063 CAGATGCAGAGGCCGGGG 62.559 72.222 2.18 0.00 40.13 5.73
49 50 3.161450 GATGCAGAGGCCGGGGTA 61.161 66.667 2.18 0.00 40.13 3.69
50 51 2.448542 ATGCAGAGGCCGGGGTAT 60.449 61.111 2.18 0.00 40.13 2.73
51 52 1.152118 ATGCAGAGGCCGGGGTATA 60.152 57.895 2.18 0.00 40.13 1.47
52 53 0.547712 ATGCAGAGGCCGGGGTATAT 60.548 55.000 2.18 0.00 40.13 0.86
53 54 1.192146 TGCAGAGGCCGGGGTATATC 61.192 60.000 2.18 0.00 40.13 1.63
54 55 1.900545 GCAGAGGCCGGGGTATATCC 61.901 65.000 2.18 0.00 0.00 2.59
55 56 0.252284 CAGAGGCCGGGGTATATCCT 60.252 60.000 2.18 0.00 36.25 3.24
56 57 0.041386 AGAGGCCGGGGTATATCCTC 59.959 60.000 12.64 12.64 42.68 3.71
57 58 0.976590 GAGGCCGGGGTATATCCTCC 60.977 65.000 2.18 1.46 37.85 4.30
58 59 1.080538 GGCCGGGGTATATCCTCCT 59.919 63.158 2.18 0.00 36.25 3.69
59 60 0.546988 GGCCGGGGTATATCCTCCTT 60.547 60.000 2.18 0.00 36.25 3.36
60 61 1.359168 GCCGGGGTATATCCTCCTTT 58.641 55.000 2.18 0.00 36.25 3.11
61 62 1.703513 GCCGGGGTATATCCTCCTTTT 59.296 52.381 2.18 0.00 36.25 2.27
62 63 2.107726 GCCGGGGTATATCCTCCTTTTT 59.892 50.000 2.18 0.00 36.25 1.94
63 64 3.328637 GCCGGGGTATATCCTCCTTTTTA 59.671 47.826 2.18 0.00 36.25 1.52
64 65 4.202493 GCCGGGGTATATCCTCCTTTTTAA 60.202 45.833 2.18 0.00 36.25 1.52
65 66 5.690899 GCCGGGGTATATCCTCCTTTTTAAA 60.691 44.000 2.18 0.00 36.25 1.52
66 67 6.367161 CCGGGGTATATCCTCCTTTTTAAAA 58.633 40.000 1.07 0.00 36.25 1.52
67 68 6.834969 CCGGGGTATATCCTCCTTTTTAAAAA 59.165 38.462 12.62 12.62 36.25 1.94
95 96 8.934023 AAAAGTAACTCATGAAAGTAATCCCA 57.066 30.769 0.00 0.00 0.00 4.37
302 303 2.432146 TCACAAGATCCCCATCTCGAAG 59.568 50.000 0.00 0.00 38.55 3.79
315 316 5.181748 CCATCTCGAAGTTCTCTCCAAAAT 58.818 41.667 0.56 0.00 0.00 1.82
595 600 3.504375 AGGATCTTGCTTCCTTGCTTTT 58.496 40.909 0.00 0.00 40.84 2.27
596 601 3.257624 AGGATCTTGCTTCCTTGCTTTTG 59.742 43.478 0.00 0.00 40.84 2.44
617 622 7.969536 TTTGAAGATTCAGTGGAGAAAGTAG 57.030 36.000 0.00 0.00 38.61 2.57
731 736 9.277565 CAATTCGTTTTCTAACATATCTGTTGG 57.722 33.333 6.73 4.03 45.16 3.77
805 812 1.674764 CTGCGCCACTCTCTCCATCT 61.675 60.000 4.18 0.00 0.00 2.90
837 844 3.556999 CAGCTAGCTAGTAGGGACTTCA 58.443 50.000 18.86 0.00 41.75 3.02
854 864 4.395625 ACTTCAGTTAGTTTGTTAGGCCC 58.604 43.478 0.00 0.00 0.00 5.80
971 988 5.730296 ATCAGATACCTAGTTCATTCCCG 57.270 43.478 0.00 0.00 0.00 5.14
972 989 4.800023 TCAGATACCTAGTTCATTCCCGA 58.200 43.478 0.00 0.00 0.00 5.14
973 990 5.394738 TCAGATACCTAGTTCATTCCCGAT 58.605 41.667 0.00 0.00 0.00 4.18
974 991 5.477291 TCAGATACCTAGTTCATTCCCGATC 59.523 44.000 0.00 0.00 0.00 3.69
975 992 4.773149 AGATACCTAGTTCATTCCCGATCC 59.227 45.833 0.00 0.00 0.00 3.36
979 999 3.118408 CCTAGTTCATTCCCGATCCAACA 60.118 47.826 0.00 0.00 0.00 3.33
1011 1032 1.127343 CTCCCTCCATGGACTTCTCC 58.873 60.000 11.44 0.00 38.35 3.71
1028 1049 4.933064 CGATCTGACCTCCGGCGC 62.933 72.222 0.00 0.00 0.00 6.53
1083 1131 2.292192 CCTTCTCTCTGTTCCCCTCTCT 60.292 54.545 0.00 0.00 0.00 3.10
1233 1282 1.880027 GGAACAGTCATCGCCAAAAGT 59.120 47.619 0.00 0.00 0.00 2.66
1242 1291 0.319211 TCGCCAAAAGTCGTCGTCAT 60.319 50.000 0.00 0.00 0.00 3.06
1278 1327 3.036084 GTCGACTGGTGCACCGTG 61.036 66.667 29.47 25.92 39.43 4.94
1279 1328 4.293648 TCGACTGGTGCACCGTGG 62.294 66.667 29.47 27.31 39.43 4.94
1329 1378 2.432444 CTTCAAGGTATGGTTCCGCAA 58.568 47.619 0.00 0.00 0.00 4.85
1380 1429 2.094675 GCCATCTGCAGCCTTTTTCTA 58.905 47.619 9.47 0.00 40.77 2.10
1397 1446 2.449031 CTAGACAACCGCACCCAGCA 62.449 60.000 0.00 0.00 46.13 4.41
1434 1483 0.253327 AGGAGTTCCATTCCCTTCGC 59.747 55.000 0.28 0.00 38.89 4.70
1437 1486 0.404040 AGTTCCATTCCCTTCGCCAA 59.596 50.000 0.00 0.00 0.00 4.52
1608 1657 0.583568 CGTACGACGAGACGAAGCTC 60.584 60.000 10.44 0.00 46.05 4.09
1783 1832 4.101448 CCCCCAGCTCCTCCAACG 62.101 72.222 0.00 0.00 0.00 4.10
1784 1833 4.101448 CCCCAGCTCCTCCAACGG 62.101 72.222 0.00 0.00 0.00 4.44
2124 2179 2.659063 CGCCTCCTGGGACATGTCA 61.659 63.158 26.47 7.61 38.20 3.58
2131 2186 0.463204 CTGGGACATGTCATCGCTCT 59.537 55.000 26.47 0.00 38.20 4.09
2194 2249 1.002087 GGGACTGGTTCTTCGACACAT 59.998 52.381 0.00 0.00 0.00 3.21
2197 2252 1.691976 ACTGGTTCTTCGACACATGGA 59.308 47.619 0.00 0.00 0.00 3.41
2199 2254 1.691976 TGGTTCTTCGACACATGGACT 59.308 47.619 0.00 0.00 0.00 3.85
2216 2271 0.105142 ACTACCTCCCATATGGCCGT 60.105 55.000 16.97 13.02 0.00 5.68
2350 2408 1.378531 CTCCTCTCCACTCACTCTCG 58.621 60.000 0.00 0.00 0.00 4.04
2389 2447 9.672673 TTTCTCCTCATCTTATTAAGAACTTGG 57.327 33.333 10.07 9.88 41.63 3.61
2523 2581 1.183549 GTGATCTGTACCCACTCCGT 58.816 55.000 0.00 0.00 0.00 4.69
2606 2667 1.378646 AGCGACTCGGACATCCTGA 60.379 57.895 0.00 0.00 0.00 3.86
2631 2692 2.166459 TGCTGCGCTCTCTACAATAACT 59.834 45.455 9.73 0.00 0.00 2.24
2851 2913 1.331756 CACGCATTATGCCTGGACTTC 59.668 52.381 11.90 0.00 41.12 3.01
3107 3169 3.805267 CGCAGCATCCTCTTCCAC 58.195 61.111 0.00 0.00 0.00 4.02
3108 3170 1.220206 CGCAGCATCCTCTTCCACT 59.780 57.895 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 9.726232 GACGATGCATGCAATCATATTATTAAT 57.274 29.630 26.68 1.78 0.00 1.40
5 6 7.336427 TGGACGATGCATGCAATCATATTATTA 59.664 33.333 26.68 0.00 0.00 0.98
6 7 6.151480 TGGACGATGCATGCAATCATATTATT 59.849 34.615 26.68 3.17 0.00 1.40
7 8 5.648960 TGGACGATGCATGCAATCATATTAT 59.351 36.000 26.68 4.06 0.00 1.28
8 9 5.002516 TGGACGATGCATGCAATCATATTA 58.997 37.500 26.68 4.66 0.00 0.98
9 10 3.822167 TGGACGATGCATGCAATCATATT 59.178 39.130 26.68 5.83 0.00 1.28
10 11 3.414269 TGGACGATGCATGCAATCATAT 58.586 40.909 26.68 6.72 0.00 1.78
11 12 2.809696 CTGGACGATGCATGCAATCATA 59.190 45.455 26.68 13.50 0.00 2.15
12 13 1.607148 CTGGACGATGCATGCAATCAT 59.393 47.619 26.68 8.07 0.00 2.45
13 14 1.018910 CTGGACGATGCATGCAATCA 58.981 50.000 26.68 16.25 0.00 2.57
14 15 1.302366 TCTGGACGATGCATGCAATC 58.698 50.000 26.68 21.00 0.00 2.67
15 16 1.607148 CATCTGGACGATGCATGCAAT 59.393 47.619 26.68 13.54 42.75 3.56
16 17 1.018910 CATCTGGACGATGCATGCAA 58.981 50.000 26.68 8.49 42.75 4.08
17 18 2.697819 CATCTGGACGATGCATGCA 58.302 52.632 25.04 25.04 42.75 3.96
24 25 1.445095 GCCTCTGCATCTGGACGAT 59.555 57.895 0.00 0.00 37.47 3.73
25 26 2.725312 GGCCTCTGCATCTGGACGA 61.725 63.158 0.00 0.00 40.13 4.20
26 27 2.202987 GGCCTCTGCATCTGGACG 60.203 66.667 0.00 0.00 40.13 4.79
27 28 2.202987 CGGCCTCTGCATCTGGAC 60.203 66.667 0.00 0.35 40.13 4.02
28 29 3.473647 CCGGCCTCTGCATCTGGA 61.474 66.667 0.00 0.00 40.13 3.86
29 30 4.559063 CCCGGCCTCTGCATCTGG 62.559 72.222 0.00 0.00 40.13 3.86
30 31 4.559063 CCCCGGCCTCTGCATCTG 62.559 72.222 0.00 0.00 40.13 2.90
31 32 2.972589 ATACCCCGGCCTCTGCATCT 62.973 60.000 0.00 0.00 40.13 2.90
32 33 1.192146 TATACCCCGGCCTCTGCATC 61.192 60.000 0.00 0.00 40.13 3.91
33 34 0.547712 ATATACCCCGGCCTCTGCAT 60.548 55.000 0.00 0.00 40.13 3.96
34 35 1.152118 ATATACCCCGGCCTCTGCA 60.152 57.895 0.00 0.00 40.13 4.41
35 36 1.597461 GATATACCCCGGCCTCTGC 59.403 63.158 0.00 0.00 0.00 4.26
36 37 0.252284 AGGATATACCCCGGCCTCTG 60.252 60.000 0.00 0.00 40.05 3.35
37 38 0.041386 GAGGATATACCCCGGCCTCT 59.959 60.000 13.12 0.00 41.44 3.69
38 39 0.976590 GGAGGATATACCCCGGCCTC 60.977 65.000 12.24 12.24 43.40 4.70
39 40 1.080538 GGAGGATATACCCCGGCCT 59.919 63.158 0.00 0.00 40.05 5.19
40 41 0.546988 AAGGAGGATATACCCCGGCC 60.547 60.000 0.00 0.00 40.05 6.13
41 42 1.359168 AAAGGAGGATATACCCCGGC 58.641 55.000 0.00 0.00 40.05 6.13
42 43 5.571791 TTAAAAAGGAGGATATACCCCGG 57.428 43.478 0.00 0.00 40.05 5.73
43 44 7.885009 TTTTTAAAAAGGAGGATATACCCCG 57.115 36.000 9.31 0.00 40.05 5.73
69 70 9.362151 TGGGATTACTTTCATGAGTTACTTTTT 57.638 29.630 0.00 0.00 0.00 1.94
70 71 8.934023 TGGGATTACTTTCATGAGTTACTTTT 57.066 30.769 0.00 0.00 0.00 2.27
71 72 8.793592 GTTGGGATTACTTTCATGAGTTACTTT 58.206 33.333 0.00 0.00 0.00 2.66
72 73 7.393515 GGTTGGGATTACTTTCATGAGTTACTT 59.606 37.037 0.00 0.00 0.00 2.24
95 96 1.145738 AGGACATGGAAGCTGTTGGTT 59.854 47.619 0.00 0.00 36.51 3.67
223 224 0.747283 CTTGATGAGCAGGTCAGGCC 60.747 60.000 8.56 0.00 39.07 5.19
302 303 8.877808 AAAAGATGTTGAATTTTGGAGAGAAC 57.122 30.769 0.00 0.00 0.00 3.01
315 316 4.797868 CGTGCAAGACAAAAAGATGTTGAA 59.202 37.500 0.00 0.00 32.57 2.69
595 600 5.247110 AGCTACTTTCTCCACTGAATCTTCA 59.753 40.000 0.00 0.00 35.57 3.02
596 601 5.729510 AGCTACTTTCTCCACTGAATCTTC 58.270 41.667 0.00 0.00 0.00 2.87
731 736 1.066605 GCATGTGTGGATGCCTGATTC 59.933 52.381 0.00 0.00 42.57 2.52
737 742 2.344981 TGCTGCATGTGTGGATGCC 61.345 57.895 0.00 0.00 46.98 4.40
837 844 1.612462 GCGGGGCCTAACAAACTAACT 60.612 52.381 0.84 0.00 0.00 2.24
861 871 6.650427 TTATATACCAGTACAGGAGCACAG 57.350 41.667 11.86 0.00 0.00 3.66
965 982 1.541233 GCGAGATGTTGGATCGGGAAT 60.541 52.381 0.00 0.00 36.96 3.01
966 983 0.179084 GCGAGATGTTGGATCGGGAA 60.179 55.000 0.00 0.00 36.96 3.97
969 986 1.212616 GAAGCGAGATGTTGGATCGG 58.787 55.000 0.00 0.00 36.96 4.18
971 988 1.212616 CGGAAGCGAGATGTTGGATC 58.787 55.000 0.00 0.00 0.00 3.36
972 989 3.369381 CGGAAGCGAGATGTTGGAT 57.631 52.632 0.00 0.00 0.00 3.41
973 990 4.910956 CGGAAGCGAGATGTTGGA 57.089 55.556 0.00 0.00 0.00 3.53
1034 1082 0.181587 TGTGGTGAACGGATTGGTGT 59.818 50.000 0.00 0.00 0.00 4.16
1037 1085 0.536233 TGGTGTGGTGAACGGATTGG 60.536 55.000 0.00 0.00 0.00 3.16
1048 1096 3.103213 AAGGCTGGGTGGTGTGGT 61.103 61.111 0.00 0.00 0.00 4.16
1083 1131 3.199946 GGATGTTGAGGGTGAGAATGGTA 59.800 47.826 0.00 0.00 0.00 3.25
1233 1282 1.226575 GGCGACATCATGACGACGA 60.227 57.895 17.11 0.00 37.72 4.20
1242 1291 2.606213 TGGGTCCAGGCGACATCA 60.606 61.111 0.00 0.00 43.95 3.07
1274 1323 1.964373 GTGTACAGCCAACCCACGG 60.964 63.158 0.00 0.00 0.00 4.94
1278 1327 0.037590 TCATGGTGTACAGCCAACCC 59.962 55.000 21.65 6.79 39.72 4.11
1279 1328 2.017049 GATCATGGTGTACAGCCAACC 58.983 52.381 21.65 7.53 39.72 3.77
1329 1378 1.306226 GTAGGCAGAGGGGTGGTCT 60.306 63.158 0.00 0.00 0.00 3.85
1335 1384 0.032615 AGAGAGTGTAGGCAGAGGGG 60.033 60.000 0.00 0.00 0.00 4.79
1380 1429 3.872603 TGCTGGGTGCGGTTGTCT 61.873 61.111 0.00 0.00 46.63 3.41
1434 1483 0.820226 TGACGGAGAGATGCTCTTGG 59.180 55.000 0.00 0.00 41.35 3.61
1437 1486 1.039068 CCATGACGGAGAGATGCTCT 58.961 55.000 0.00 0.00 44.28 4.09
1608 1657 4.452733 GCCTGGAGGAACGTCGGG 62.453 72.222 0.00 0.00 37.39 5.14
1843 1898 3.034030 GCCATAACCAGCGATGCC 58.966 61.111 0.00 0.00 0.00 4.40
2050 2105 4.475135 GAGAAGACCCTGGGCGGC 62.475 72.222 14.08 0.00 0.00 6.53
2124 2179 0.106469 TGAGGGCAGTCTAGAGCGAT 60.106 55.000 0.00 0.00 0.00 4.58
2131 2186 1.683385 CATCGACATGAGGGCAGTCTA 59.317 52.381 0.00 0.00 30.57 2.59
2197 2252 0.105142 ACGGCCATATGGGAGGTAGT 60.105 55.000 23.30 0.00 40.01 2.73
2199 2254 0.762418 CAACGGCCATATGGGAGGTA 59.238 55.000 23.30 0.00 40.01 3.08
2216 2271 1.335132 GGAGAGCATACCGGGGTCAA 61.335 60.000 6.32 0.00 35.30 3.18
2284 2339 0.105709 TGGGAGACGGGCATCATAGA 60.106 55.000 0.00 0.00 0.00 1.98
2289 2344 2.060980 AGAGTGGGAGACGGGCATC 61.061 63.158 0.00 0.00 0.00 3.91
2350 2408 4.517285 TGAGGAGAAATCAGTACATTGCC 58.483 43.478 0.00 0.00 0.00 4.52
2535 2593 2.045634 GCATGAGGCTGCTGGACA 60.046 61.111 0.00 0.00 39.12 4.02
2595 2656 1.079819 AGCACGTTCAGGATGTCCG 60.080 57.895 0.00 0.00 42.08 4.79
2649 2710 4.981806 ATGTGCCTGCGTTTTATTACAT 57.018 36.364 0.00 0.00 0.00 2.29
3009 3071 1.671742 GGCACGAGAGTTGGAAGGA 59.328 57.895 0.00 0.00 46.40 3.36
3089 3151 2.124983 TGGAAGAGGATGCTGCGC 60.125 61.111 0.00 0.00 0.00 6.09
3096 3158 1.022903 AGGGAGGAGTGGAAGAGGAT 58.977 55.000 0.00 0.00 0.00 3.24
3107 3169 0.266152 ATGTGGTAGGGAGGGAGGAG 59.734 60.000 0.00 0.00 0.00 3.69
3108 3170 0.722676 AATGTGGTAGGGAGGGAGGA 59.277 55.000 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.