Multiple sequence alignment - TraesCS3B01G223700

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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 TraesCS3B01G223700 chr3B 100.000 3032 0 0 1 3032 295072727 295069696 0.000000e+00 5600
1 TraesCS3B01G223700 chr3B 91.298 2965 223 34 84 3032 71908350 71911295 0.000000e+00 4013
2 TraesCS3B01G223700 chr3B 87.340 2883 300 46 200 3032 120083365 120080498 0.000000e+00 3241
3 TraesCS3B01G223700 chr3B 85.724 2970 346 61 92 3032 74831192 74828272 0.000000e+00 3064
4 TraesCS3B01G223700 chr5B 90.979 2860 225 31 190 3032 370324918 370322075 0.000000e+00 3821
5 TraesCS3B01G223700 chr4B 90.139 2870 239 34 190 3032 569591672 569594524 0.000000e+00 3692
6 TraesCS3B01G223700 chr1B 89.785 2888 230 44 194 3032 465588428 465585557 0.000000e+00 3639
7 TraesCS3B01G223700 chr1B 87.941 2894 282 47 189 3032 556073203 556070327 0.000000e+00 3349
8 TraesCS3B01G223700 chr7B 88.935 2892 250 49 194 3032 363002299 363005173 0.000000e+00 3504
9 TraesCS3B01G223700 chr7B 92.017 238 17 2 74 309 383867165 383867402 1.740000e-87 333
10 TraesCS3B01G223700 chr6B 87.076 3010 318 51 74 3032 115927038 115924049 0.000000e+00 3338
11 TraesCS3B01G223700 chr6B 99.394 165 1 0 2868 3032 517275997 517275833 1.770000e-77 300
12 TraesCS3B01G223700 chr2B 82.507 343 43 9 1 342 570601511 570601185 4.950000e-73 285
13 TraesCS3B01G223700 chr2B 82.216 343 44 9 1 342 570516130 570515804 2.300000e-71 279
14 TraesCS3B01G223700 chr2B 81.503 346 41 14 1 342 657767356 657767682 2.320000e-66 263


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 TraesCS3B01G223700 chr3B 295069696 295072727 3031 True 5600 5600 100.000 1 3032 1 chr3B.!!$R3 3031
1 TraesCS3B01G223700 chr3B 71908350 71911295 2945 False 4013 4013 91.298 84 3032 1 chr3B.!!$F1 2948
2 TraesCS3B01G223700 chr3B 120080498 120083365 2867 True 3241 3241 87.340 200 3032 1 chr3B.!!$R2 2832
3 TraesCS3B01G223700 chr3B 74828272 74831192 2920 True 3064 3064 85.724 92 3032 1 chr3B.!!$R1 2940
4 TraesCS3B01G223700 chr5B 370322075 370324918 2843 True 3821 3821 90.979 190 3032 1 chr5B.!!$R1 2842
5 TraesCS3B01G223700 chr4B 569591672 569594524 2852 False 3692 3692 90.139 190 3032 1 chr4B.!!$F1 2842
6 TraesCS3B01G223700 chr1B 465585557 465588428 2871 True 3639 3639 89.785 194 3032 1 chr1B.!!$R1 2838
7 TraesCS3B01G223700 chr1B 556070327 556073203 2876 True 3349 3349 87.941 189 3032 1 chr1B.!!$R2 2843
8 TraesCS3B01G223700 chr7B 363002299 363005173 2874 False 3504 3504 88.935 194 3032 1 chr7B.!!$F1 2838
9 TraesCS3B01G223700 chr6B 115924049 115927038 2989 True 3338 3338 87.076 74 3032 1 chr6B.!!$R1 2958

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
269 280 0.237761 GCCAAGCATCATCGCTGATC 59.762 55.000 0.0 0.0 42.89 2.92 F
1059 1081 1.338020 CCAACAACTCCAGCACCTTTC 59.662 52.381 0.0 0.0 0.00 2.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2018 2040 0.543277 TTCTCCTCATCGCCATGCTT 59.457 50.0 0.00 0.0 0.0 3.91 R
2134 2165 0.609131 AGCTCACCGGGTTTTGATGG 60.609 55.0 6.32 0.0 0.0 3.51 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
25 26 8.975663 GCCCCTTTTACATACTTTCTAGTAAT 57.024 34.615 0.00 0.00 40.14 1.89
71 72 9.331282 AGATTTCCTTTTGTAGTCTATGTATGC 57.669 33.333 0.00 0.00 0.00 3.14
72 73 9.109393 GATTTCCTTTTGTAGTCTATGTATGCA 57.891 33.333 0.00 0.00 0.00 3.96
73 74 9.632638 ATTTCCTTTTGTAGTCTATGTATGCAT 57.367 29.630 3.79 3.79 39.03 3.96
74 75 8.437360 TTCCTTTTGTAGTCTATGTATGCATG 57.563 34.615 10.16 0.00 36.58 4.06
75 76 7.564793 TCCTTTTGTAGTCTATGTATGCATGT 58.435 34.615 10.16 0.00 36.58 3.21
76 77 7.495606 TCCTTTTGTAGTCTATGTATGCATGTG 59.504 37.037 10.16 0.00 36.58 3.21
77 78 7.280876 CCTTTTGTAGTCTATGTATGCATGTGT 59.719 37.037 10.16 0.00 36.58 3.72
78 79 8.560355 TTTTGTAGTCTATGTATGCATGTGTT 57.440 30.769 10.16 0.00 36.58 3.32
79 80 7.538303 TTGTAGTCTATGTATGCATGTGTTG 57.462 36.000 10.16 0.00 36.58 3.33
80 81 6.872920 TGTAGTCTATGTATGCATGTGTTGA 58.127 36.000 10.16 0.00 36.58 3.18
81 82 7.500141 TGTAGTCTATGTATGCATGTGTTGAT 58.500 34.615 10.16 0.00 36.58 2.57
82 83 6.856135 AGTCTATGTATGCATGTGTTGATG 57.144 37.500 10.16 0.00 36.58 3.07
83 84 6.351711 AGTCTATGTATGCATGTGTTGATGT 58.648 36.000 10.16 0.00 36.58 3.06
84 85 6.825213 AGTCTATGTATGCATGTGTTGATGTT 59.175 34.615 10.16 0.00 36.58 2.71
85 86 7.337689 AGTCTATGTATGCATGTGTTGATGTTT 59.662 33.333 10.16 0.00 36.58 2.83
86 87 7.970061 GTCTATGTATGCATGTGTTGATGTTTT 59.030 33.333 10.16 0.00 36.58 2.43
87 88 9.171877 TCTATGTATGCATGTGTTGATGTTTTA 57.828 29.630 10.16 0.00 36.58 1.52
155 160 3.638627 CTGAACCTCCCTTTGCTTCTTTT 59.361 43.478 0.00 0.00 0.00 2.27
161 166 5.838521 ACCTCCCTTTGCTTCTTTTCATTTA 59.161 36.000 0.00 0.00 0.00 1.40
168 173 8.542953 CCTTTGCTTCTTTTCATTTACTTTGTC 58.457 33.333 0.00 0.00 0.00 3.18
186 191 6.378280 ACTTTGTCTGTTGATTTTCTGGAACT 59.622 34.615 0.00 0.00 0.00 3.01
187 192 5.756195 TGTCTGTTGATTTTCTGGAACTG 57.244 39.130 0.00 0.00 0.00 3.16
198 203 7.766278 TGATTTTCTGGAACTGTCTTAGATAGC 59.234 37.037 5.90 0.00 0.00 2.97
222 228 8.674607 AGCTTAGGTTTATTTTCCTTGTAATCG 58.325 33.333 0.00 0.00 35.51 3.34
226 232 7.813645 AGGTTTATTTTCCTTGTAATCGTCAC 58.186 34.615 0.00 0.00 0.00 3.67
228 238 8.294577 GGTTTATTTTCCTTGTAATCGTCACTT 58.705 33.333 0.00 0.00 0.00 3.16
236 246 8.025243 TCCTTGTAATCGTCACTTAAATTGTC 57.975 34.615 0.00 0.00 0.00 3.18
238 248 9.146984 CCTTGTAATCGTCACTTAAATTGTCTA 57.853 33.333 0.00 0.00 0.00 2.59
253 264 2.747177 TGTCTAGCCTAGCTTTAGCCA 58.253 47.619 0.00 0.00 43.38 4.75
269 280 0.237761 GCCAAGCATCATCGCTGATC 59.762 55.000 0.00 0.00 42.89 2.92
270 281 1.589803 CCAAGCATCATCGCTGATCA 58.410 50.000 0.00 0.00 42.89 2.92
272 283 2.552743 CCAAGCATCATCGCTGATCATT 59.447 45.455 0.00 0.00 42.89 2.57
284 295 3.430790 CGCTGATCATTTAGTCCCTGTGA 60.431 47.826 0.00 0.00 0.00 3.58
462 477 2.572104 CTCTAGCCACTAACCCCTGTTT 59.428 50.000 0.00 0.00 35.87 2.83
573 594 2.354510 GAGCAACACTACAAACAGCACA 59.645 45.455 0.00 0.00 0.00 4.57
608 629 7.403231 TCAAGAACTGATAGGTAAGATTTCCCT 59.597 37.037 0.00 0.00 0.00 4.20
752 774 2.767536 ATTCACCCGCTGAATGTCG 58.232 52.632 5.91 0.00 46.23 4.35
938 960 5.970640 AGGGATTTAGGTACAATGAGGAGAA 59.029 40.000 0.00 0.00 0.00 2.87
942 964 6.636454 TTTAGGTACAATGAGGAGAACCAT 57.364 37.500 0.00 0.00 38.94 3.55
1059 1081 1.338020 CCAACAACTCCAGCACCTTTC 59.662 52.381 0.00 0.00 0.00 2.62
1082 1104 1.891178 CAATCTCATGTGCAAGTGCG 58.109 50.000 0.00 0.00 45.83 5.34
1142 1164 4.162096 TGCTTAGTCTCGAGTTCACTTC 57.838 45.455 13.13 3.05 0.00 3.01
1537 1559 5.739752 TGAGATTCATTTGCCTATTGTCG 57.260 39.130 0.00 0.00 0.00 4.35
1608 1630 3.255642 TGCCTTGTGATTTCTTTGCTACC 59.744 43.478 0.00 0.00 0.00 3.18
1706 1728 6.597672 CCTGTTAGTGGCATTACTCACATTAA 59.402 38.462 0.00 0.00 35.10 1.40
1788 1810 8.478066 TCTTATGCTAGTCTTGAGCTTAATGAA 58.522 33.333 0.00 0.00 38.28 2.57
1816 1838 5.745312 TCATCCTCATGTTAGTGTTGACT 57.255 39.130 0.00 0.00 36.07 3.41
1822 1844 5.334414 CCTCATGTTAGTGTTGACTTTGCTC 60.334 44.000 0.00 0.00 33.21 4.26
1834 1856 6.265196 TGTTGACTTTGCTCATTTCTACCATT 59.735 34.615 0.00 0.00 0.00 3.16
1899 1921 7.393216 ACTCTATTGATGATTTAGAGGGCATC 58.607 38.462 10.10 0.00 42.04 3.91
1900 1922 7.237263 ACTCTATTGATGATTTAGAGGGCATCT 59.763 37.037 6.96 6.96 42.04 2.90
1916 1938 5.140747 GGCATCTACCCTATCACTTGTAG 57.859 47.826 0.00 0.00 33.58 2.74
1918 1940 5.070580 GGCATCTACCCTATCACTTGTAGTT 59.929 44.000 0.00 0.00 33.91 2.24
1920 1942 6.407074 GCATCTACCCTATCACTTGTAGTTGT 60.407 42.308 0.00 0.00 35.20 3.32
1922 1944 6.931838 TCTACCCTATCACTTGTAGTTGTTG 58.068 40.000 0.00 0.00 33.91 3.33
1927 1949 6.262273 CCCTATCACTTGTAGTTGTTGTTTGT 59.738 38.462 0.00 0.00 0.00 2.83
1928 1950 7.132213 CCTATCACTTGTAGTTGTTGTTTGTG 58.868 38.462 0.00 0.00 0.00 3.33
1934 1956 5.539582 TGTAGTTGTTGTTTGTGTGAGTC 57.460 39.130 0.00 0.00 0.00 3.36
1937 1959 4.839121 AGTTGTTGTTTGTGTGAGTCCTA 58.161 39.130 0.00 0.00 0.00 2.94
1959 1981 7.236984 CCTATTTCAGGTTTTTGCTTGTGCAT 61.237 38.462 0.00 0.00 43.49 3.96
1995 2017 3.849911 TGACCAAGTTCGAGATGACATC 58.150 45.455 7.39 7.39 0.00 3.06
1998 2020 2.093500 CCAAGTTCGAGATGACATCCCA 60.093 50.000 11.92 0.00 0.00 4.37
2018 2040 3.835134 GGATCCTGGTGGACCCAA 58.165 61.111 3.84 0.00 45.94 4.12
2101 2131 2.304180 TGAGGAAGCAAAGGAGAAGAGG 59.696 50.000 0.00 0.00 0.00 3.69
2102 2132 2.569404 GAGGAAGCAAAGGAGAAGAGGA 59.431 50.000 0.00 0.00 0.00 3.71
2114 2145 3.287222 GAGAAGAGGAGCAGCTTAGAGA 58.713 50.000 0.00 0.00 0.00 3.10
2129 2160 1.674359 AGAGATGATCGAGCGAGTGT 58.326 50.000 0.00 0.00 0.00 3.55
2134 2165 2.257974 TGATCGAGCGAGTGTTACAC 57.742 50.000 7.50 7.50 34.10 2.90
2249 2282 6.659824 AGTCATTTCTTAAATACCGTCCCAT 58.340 36.000 0.00 0.00 0.00 4.00
2261 2297 2.750712 ACCGTCCCATTGAATTTTACCG 59.249 45.455 0.00 0.00 0.00 4.02
2340 2376 6.226787 ACTAGTGATCTATACAATGCTTGCC 58.773 40.000 0.00 0.00 0.00 4.52
2387 2423 3.248043 TTGAGTGCTCAAATCCCGG 57.752 52.632 11.72 0.00 45.56 5.73
2475 2512 3.374745 CTGAATTTGTGCCAAGTGTGTC 58.625 45.455 0.00 0.00 0.00 3.67
2772 2818 2.443416 GTGGTATGTTCCTTTGGGGAC 58.557 52.381 0.00 0.00 45.03 4.46
2957 3048 4.141620 GGATCATGCTCTCTTTAGGAACCA 60.142 45.833 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.975663 ATTACTAGAAAGTATGTAAAAGGGGC 57.024 34.615 0.00 0.00 38.02 5.80
45 46 9.331282 GCATACATAGACTACAAAAGGAAATCT 57.669 33.333 0.00 0.00 0.00 2.40
46 47 9.109393 TGCATACATAGACTACAAAAGGAAATC 57.891 33.333 0.00 0.00 0.00 2.17
47 48 9.632638 ATGCATACATAGACTACAAAAGGAAAT 57.367 29.630 0.00 0.00 33.67 2.17
48 49 8.892723 CATGCATACATAGACTACAAAAGGAAA 58.107 33.333 0.00 0.00 33.67 3.13
49 50 8.046708 ACATGCATACATAGACTACAAAAGGAA 58.953 33.333 0.00 0.00 33.67 3.36
50 51 7.495606 CACATGCATACATAGACTACAAAAGGA 59.504 37.037 0.00 0.00 33.67 3.36
51 52 7.280876 ACACATGCATACATAGACTACAAAAGG 59.719 37.037 0.00 0.00 33.67 3.11
52 53 8.201554 ACACATGCATACATAGACTACAAAAG 57.798 34.615 0.00 0.00 33.67 2.27
53 54 8.450180 CAACACATGCATACATAGACTACAAAA 58.550 33.333 0.00 0.00 33.67 2.44
54 55 7.821846 TCAACACATGCATACATAGACTACAAA 59.178 33.333 0.00 0.00 33.67 2.83
55 56 7.327214 TCAACACATGCATACATAGACTACAA 58.673 34.615 0.00 0.00 33.67 2.41
56 57 6.872920 TCAACACATGCATACATAGACTACA 58.127 36.000 0.00 0.00 33.67 2.74
57 58 7.439356 ACATCAACACATGCATACATAGACTAC 59.561 37.037 0.00 0.00 33.67 2.73
58 59 7.500141 ACATCAACACATGCATACATAGACTA 58.500 34.615 0.00 0.00 33.67 2.59
59 60 6.351711 ACATCAACACATGCATACATAGACT 58.648 36.000 0.00 0.00 33.67 3.24
60 61 6.609237 ACATCAACACATGCATACATAGAC 57.391 37.500 0.00 0.00 33.67 2.59
61 62 7.628769 AAACATCAACACATGCATACATAGA 57.371 32.000 0.00 0.00 33.67 1.98
62 63 9.955208 ATAAAACATCAACACATGCATACATAG 57.045 29.630 0.00 0.00 33.67 2.23
68 69 9.740239 GAGATAATAAAACATCAACACATGCAT 57.260 29.630 0.00 0.00 0.00 3.96
69 70 8.959548 AGAGATAATAAAACATCAACACATGCA 58.040 29.630 0.00 0.00 0.00 3.96
118 119 8.235230 AGGGAGGTTCAGATTATCTTCACTATA 58.765 37.037 0.00 0.00 0.00 1.31
126 127 4.476479 AGCAAAGGGAGGTTCAGATTATCT 59.524 41.667 0.00 0.00 0.00 1.98
127 128 4.786425 AGCAAAGGGAGGTTCAGATTATC 58.214 43.478 0.00 0.00 0.00 1.75
128 129 4.870021 AGCAAAGGGAGGTTCAGATTAT 57.130 40.909 0.00 0.00 0.00 1.28
155 160 9.734620 CAGAAAATCAACAGACAAAGTAAATGA 57.265 29.630 0.00 0.00 0.00 2.57
161 166 6.378280 AGTTCCAGAAAATCAACAGACAAAGT 59.622 34.615 0.00 0.00 0.00 2.66
168 173 6.382869 AAGACAGTTCCAGAAAATCAACAG 57.617 37.500 0.00 0.00 0.00 3.16
176 181 6.859112 AGCTATCTAAGACAGTTCCAGAAA 57.141 37.500 0.00 0.00 0.00 2.52
180 185 6.195700 ACCTAAGCTATCTAAGACAGTTCCA 58.804 40.000 0.00 0.00 0.00 3.53
198 203 9.983804 GACGATTACAAGGAAAATAAACCTAAG 57.016 33.333 0.00 0.00 35.25 2.18
222 228 6.342111 AGCTAGGCTAGACAATTTAAGTGAC 58.658 40.000 25.37 2.06 36.99 3.67
226 232 7.041712 GGCTAAAGCTAGGCTAGACAATTTAAG 60.042 40.741 25.37 15.03 45.19 1.85
228 238 6.289064 GGCTAAAGCTAGGCTAGACAATTTA 58.711 40.000 25.37 18.78 45.19 1.40
253 264 5.061853 ACTAAATGATCAGCGATGATGCTT 58.938 37.500 22.75 12.95 44.46 3.91
259 270 3.744942 CAGGGACTAAATGATCAGCGATG 59.255 47.826 0.09 0.00 36.02 3.84
260 271 3.389329 ACAGGGACTAAATGATCAGCGAT 59.611 43.478 0.09 0.00 36.02 4.58
269 280 4.152402 CGTGTTCTTCACAGGGACTAAATG 59.848 45.833 0.00 0.00 46.44 2.32
270 281 4.039973 TCGTGTTCTTCACAGGGACTAAAT 59.960 41.667 0.00 0.00 46.44 1.40
272 283 2.960384 TCGTGTTCTTCACAGGGACTAA 59.040 45.455 0.00 0.00 46.44 2.24
486 506 4.341366 AATCCAACCTGCAAAAAGGAAG 57.659 40.909 0.00 0.00 40.02 3.46
573 594 6.831976 ACCTATCAGTTCTTGAACACTTTCT 58.168 36.000 14.80 0.00 39.77 2.52
608 629 6.515832 TGCTGAGCTAAATCATCTAATCGAA 58.484 36.000 5.83 0.00 0.00 3.71
639 660 4.505324 AGGCCTATCCTCAAAAACTACC 57.495 45.455 1.29 0.00 43.20 3.18
752 774 1.079336 GGGTGAGAGTAACCACGCC 60.079 63.158 0.00 0.00 39.65 5.68
938 960 4.225042 TCTGTTGTGGAGCATAGTTATGGT 59.775 41.667 3.66 3.66 46.05 3.55
942 964 9.109393 GAATAAATCTGTTGTGGAGCATAGTTA 57.891 33.333 0.00 0.00 0.00 2.24
1059 1081 1.736126 ACTTGCACATGAGATTGCTCG 59.264 47.619 0.00 0.00 44.33 5.03
1082 1104 9.608617 CTATATCATCAAATTCATCTTGTGTGC 57.391 33.333 0.00 0.00 0.00 4.57
1142 1164 1.006805 GGATCATCCTCGGCACTCG 60.007 63.158 0.00 0.00 40.90 4.18
1537 1559 1.067846 TGACACATCACGCTCTGGTAC 60.068 52.381 0.00 0.00 0.00 3.34
1706 1728 7.011763 CACGAGGAAAGTAAATGTGATCATCAT 59.988 37.037 0.00 1.73 32.56 2.45
1718 1740 3.830755 AGGTCTAGCACGAGGAAAGTAAA 59.169 43.478 0.00 0.00 0.00 2.01
1764 1786 9.448438 TTTTCATTAAGCTCAAGACTAGCATAA 57.552 29.630 0.22 0.00 42.62 1.90
1788 1810 9.685276 TCAACACTAACATGAGGATGATATTTT 57.315 29.630 0.00 0.00 33.36 1.82
1816 1838 8.402798 TGTTTAGAATGGTAGAAATGAGCAAA 57.597 30.769 0.00 0.00 0.00 3.68
1822 1844 7.765307 AGCACATGTTTAGAATGGTAGAAATG 58.235 34.615 0.00 0.00 0.00 2.32
1872 1894 7.671302 TGCCCTCTAAATCATCAATAGAGTAC 58.329 38.462 7.92 0.00 40.56 2.73
1899 1921 6.698380 ACAACAACTACAAGTGATAGGGTAG 58.302 40.000 0.00 0.00 39.23 3.18
1900 1922 6.675413 ACAACAACTACAAGTGATAGGGTA 57.325 37.500 0.00 0.00 0.00 3.69
1916 1938 5.751243 ATAGGACTCACACAAACAACAAC 57.249 39.130 0.00 0.00 0.00 3.32
1918 1940 5.883115 TGAAATAGGACTCACACAAACAACA 59.117 36.000 0.00 0.00 0.00 3.33
1920 1942 6.618287 CTGAAATAGGACTCACACAAACAA 57.382 37.500 0.00 0.00 0.00 2.83
1934 1956 4.448732 GCACAAGCAAAAACCTGAAATAGG 59.551 41.667 0.00 0.00 46.26 2.57
1959 1981 5.255687 ACTTGGTCAGCATGTATTGATTCA 58.744 37.500 0.00 0.00 37.40 2.57
1962 1984 4.333649 CGAACTTGGTCAGCATGTATTGAT 59.666 41.667 0.00 0.00 37.40 2.57
1966 1988 3.195610 TCTCGAACTTGGTCAGCATGTAT 59.804 43.478 0.00 0.00 37.40 2.29
1995 2017 1.697394 TCCACCAGGATCCCATGGG 60.697 63.158 26.30 26.30 39.61 4.00
2018 2040 0.543277 TTCTCCTCATCGCCATGCTT 59.457 50.000 0.00 0.00 0.00 3.91
2101 2131 3.825308 CTCGATCATCTCTAAGCTGCTC 58.175 50.000 1.00 0.00 0.00 4.26
2102 2132 2.030007 GCTCGATCATCTCTAAGCTGCT 60.030 50.000 0.00 0.00 31.24 4.24
2114 2145 2.479730 GGTGTAACACTCGCTCGATCAT 60.480 50.000 0.00 0.00 39.98 2.45
2129 2160 2.231529 CACCGGGTTTTGATGGTGTAA 58.768 47.619 6.32 0.00 45.34 2.41
2134 2165 0.609131 AGCTCACCGGGTTTTGATGG 60.609 55.000 6.32 0.00 0.00 3.51
2207 2240 3.252215 TGACTCAAGCAACCCAAATAACG 59.748 43.478 0.00 0.00 0.00 3.18
2249 2282 4.871557 CCCTATGTCGACGGTAAAATTCAA 59.128 41.667 11.62 0.00 0.00 2.69
2261 2297 2.061773 CATCAATCGCCCTATGTCGAC 58.938 52.381 9.11 9.11 37.55 4.20
2340 2376 7.440523 AATAACTTCCACTACTTTCAGCAAG 57.559 36.000 0.00 0.00 38.64 4.01
2475 2512 1.064166 AGGTGATTGCTCTCAATGGGG 60.064 52.381 0.00 0.00 42.60 4.96
2725 2771 3.971305 CCCAGGAACATGGTATACACCTA 59.029 47.826 5.01 0.00 45.98 3.08
2743 2789 1.202651 GGAACATACCACCGATCCCAG 60.203 57.143 0.00 0.00 0.00 4.45
2744 2790 0.834612 GGAACATACCACCGATCCCA 59.165 55.000 0.00 0.00 0.00 4.37
2957 3048 6.996509 AGTTTAAATGATGACTGTGCCAAAT 58.003 32.000 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.