Multiple sequence alignment - TraesCS1D01G032000

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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 TraesCS1D01G032000 chr1D 100.000 2303 0 0 1 2303 12498203 12500505 0.000000e+00 4253.0
1 TraesCS1D01G032000 chr5D 91.552 1823 123 17 483 2303 403616583 403618376 0.000000e+00 2484.0
2 TraesCS1D01G032000 chr5D 90.792 1705 102 23 632 2303 417810466 417812148 0.000000e+00 2228.0
3 TraesCS1D01G032000 chr5D 90.265 1623 112 16 712 2303 193611361 193609754 0.000000e+00 2080.0
4 TraesCS1D01G032000 chr5D 89.795 1656 120 23 680 2303 371076665 371075027 0.000000e+00 2076.0
5 TraesCS1D01G032000 chr5D 90.685 1503 88 14 831 2303 384428708 384430188 0.000000e+00 1953.0
6 TraesCS1D01G032000 chr2D 92.266 1668 109 9 584 2250 315437682 315436034 0.000000e+00 2348.0
7 TraesCS1D01G032000 chr2D 87.434 1711 170 21 1 1687 166115293 166116982 0.000000e+00 1927.0
8 TraesCS1D01G032000 chr2D 82.441 467 72 8 1 463 536999571 536999111 1.280000e-107 399.0
9 TraesCS1D01G032000 chr2D 81.884 414 70 5 1 412 299362488 299362078 6.090000e-91 344.0
10 TraesCS1D01G032000 chr3D 87.572 2092 175 35 248 2303 55541011 55543053 0.000000e+00 2344.0
11 TraesCS1D01G032000 chr3D 90.106 1799 124 22 540 2303 2390507 2392286 0.000000e+00 2287.0
12 TraesCS1D01G032000 chr4D 92.294 1674 86 14 657 2303 98461706 98460049 0.000000e+00 2337.0
13 TraesCS1D01G032000 chr4D 87.485 1710 171 19 1 1687 85739102 85740791 0.000000e+00 1932.0
14 TraesCS1D01G032000 chr2B 89.689 1833 135 23 348 2151 25568082 25569889 0.000000e+00 2289.0
15 TraesCS1D01G032000 chr2B 85.700 2056 220 37 1 2024 171772057 171770044 0.000000e+00 2100.0
16 TraesCS1D01G032000 chr2B 82.581 155 15 6 2160 2303 143948287 143948440 2.400000e-25 126.0
17 TraesCS1D01G032000 chr6A 88.726 1907 164 23 36 1916 157447703 157445822 0.000000e+00 2283.0
18 TraesCS1D01G032000 chr4B 86.328 1931 201 32 127 2024 609394232 609392332 0.000000e+00 2045.0
19 TraesCS1D01G032000 chr4B 87.109 1792 187 16 1 1768 25580253 25582024 0.000000e+00 1989.0
20 TraesCS1D01G032000 chr4B 81.273 267 27 10 2045 2303 81170633 81170884 6.490000e-46 195.0
21 TraesCS1D01G032000 chr4B 87.162 148 12 3 2163 2303 523968487 523968340 6.580000e-36 161.0
22 TraesCS1D01G032000 chr4B 78.889 270 32 13 2045 2303 609392482 609392227 2.370000e-35 159.0
23 TraesCS1D01G032000 chr4B 100.000 39 0 0 2161 2199 519578504 519578466 3.170000e-09 73.1
24 TraesCS1D01G032000 chr4A 86.221 1945 176 45 333 2248 589095388 589097269 0.000000e+00 2023.0
25 TraesCS1D01G032000 chr4A 80.515 272 31 6 2042 2303 651442890 651443149 3.020000e-44 189.0
26 TraesCS1D01G032000 chr7B 88.561 1696 144 22 207 1874 400946988 400948661 0.000000e+00 2012.0
27 TraesCS1D01G032000 chr7B 80.089 447 78 8 36 479 687971425 687971863 2.850000e-84 322.0
28 TraesCS1D01G032000 chr7B 83.871 155 13 6 2160 2303 400948727 400948880 1.110000e-28 137.0
29 TraesCS1D01G032000 chr7D 87.927 1698 174 19 1 1687 613117696 613116019 0.000000e+00 1971.0
30 TraesCS1D01G032000 chr7D 86.608 1710 170 19 1 1687 397981196 397979523 0.000000e+00 1834.0
31 TraesCS1D01G032000 chr7D 88.387 155 11 2 2156 2303 575205507 575205661 1.820000e-41 180.0
32 TraesCS1D01G032000 chr6D 88.510 1671 130 30 481 2106 380048564 380046911 0.000000e+00 1965.0
33 TraesCS1D01G032000 chr3B 91.543 1348 74 11 549 1874 21414074 21412745 0.000000e+00 1821.0
34 TraesCS1D01G032000 chr3B 100.000 39 0 0 2161 2199 259904653 259904691 3.170000e-09 73.1
35 TraesCS1D01G032000 chr3A 84.211 912 119 13 59 964 749438094 749438986 0.000000e+00 863.0
36 TraesCS1D01G032000 chr3A 100.000 39 0 0 2161 2199 653872487 653872525 3.170000e-09 73.1
37 TraesCS1D01G032000 chr6B 83.459 266 25 5 2045 2303 202753954 202753701 1.780000e-56 230.0
38 TraesCS1D01G032000 chr6B 82.707 266 27 7 2045 2303 696658595 696658342 3.850000e-53 219.0
39 TraesCS1D01G032000 chr6B 82.331 266 28 5 2045 2303 132875290 132875037 1.790000e-51 213.0
40 TraesCS1D01G032000 chr7A 100.000 39 0 0 2161 2199 613753329 613753291 3.170000e-09 73.1
41 TraesCS1D01G032000 chr7A 100.000 39 0 0 2161 2199 628976194 628976232 3.170000e-09 73.1
42 TraesCS1D01G032000 chr1B 100.000 39 0 0 2161 2199 631844789 631844827 3.170000e-09 73.1
43 TraesCS1D01G032000 chr1A 100.000 39 0 0 2161 2199 562942985 562943023 3.170000e-09 73.1


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 TraesCS1D01G032000 chr1D 12498203 12500505 2302 False 4253.0 4253 100.0000 1 2303 1 chr1D.!!$F1 2302
1 TraesCS1D01G032000 chr5D 403616583 403618376 1793 False 2484.0 2484 91.5520 483 2303 1 chr5D.!!$F2 1820
2 TraesCS1D01G032000 chr5D 417810466 417812148 1682 False 2228.0 2228 90.7920 632 2303 1 chr5D.!!$F3 1671
3 TraesCS1D01G032000 chr5D 193609754 193611361 1607 True 2080.0 2080 90.2650 712 2303 1 chr5D.!!$R1 1591
4 TraesCS1D01G032000 chr5D 371075027 371076665 1638 True 2076.0 2076 89.7950 680 2303 1 chr5D.!!$R2 1623
5 TraesCS1D01G032000 chr5D 384428708 384430188 1480 False 1953.0 1953 90.6850 831 2303 1 chr5D.!!$F1 1472
6 TraesCS1D01G032000 chr2D 315436034 315437682 1648 True 2348.0 2348 92.2660 584 2250 1 chr2D.!!$R2 1666
7 TraesCS1D01G032000 chr2D 166115293 166116982 1689 False 1927.0 1927 87.4340 1 1687 1 chr2D.!!$F1 1686
8 TraesCS1D01G032000 chr3D 55541011 55543053 2042 False 2344.0 2344 87.5720 248 2303 1 chr3D.!!$F2 2055
9 TraesCS1D01G032000 chr3D 2390507 2392286 1779 False 2287.0 2287 90.1060 540 2303 1 chr3D.!!$F1 1763
10 TraesCS1D01G032000 chr4D 98460049 98461706 1657 True 2337.0 2337 92.2940 657 2303 1 chr4D.!!$R1 1646
11 TraesCS1D01G032000 chr4D 85739102 85740791 1689 False 1932.0 1932 87.4850 1 1687 1 chr4D.!!$F1 1686
12 TraesCS1D01G032000 chr2B 25568082 25569889 1807 False 2289.0 2289 89.6890 348 2151 1 chr2B.!!$F1 1803
13 TraesCS1D01G032000 chr2B 171770044 171772057 2013 True 2100.0 2100 85.7000 1 2024 1 chr2B.!!$R1 2023
14 TraesCS1D01G032000 chr6A 157445822 157447703 1881 True 2283.0 2283 88.7260 36 1916 1 chr6A.!!$R1 1880
15 TraesCS1D01G032000 chr4B 25580253 25582024 1771 False 1989.0 1989 87.1090 1 1768 1 chr4B.!!$F1 1767
16 TraesCS1D01G032000 chr4B 609392227 609394232 2005 True 1102.0 2045 82.6085 127 2303 2 chr4B.!!$R3 2176
17 TraesCS1D01G032000 chr4A 589095388 589097269 1881 False 2023.0 2023 86.2210 333 2248 1 chr4A.!!$F1 1915
18 TraesCS1D01G032000 chr7B 400946988 400948880 1892 False 1074.5 2012 86.2160 207 2303 2 chr7B.!!$F2 2096
19 TraesCS1D01G032000 chr7D 613116019 613117696 1677 True 1971.0 1971 87.9270 1 1687 1 chr7D.!!$R2 1686
20 TraesCS1D01G032000 chr7D 397979523 397981196 1673 True 1834.0 1834 86.6080 1 1687 1 chr7D.!!$R1 1686
21 TraesCS1D01G032000 chr6D 380046911 380048564 1653 True 1965.0 1965 88.5100 481 2106 1 chr6D.!!$R1 1625
22 TraesCS1D01G032000 chr3B 21412745 21414074 1329 True 1821.0 1821 91.5430 549 1874 1 chr3B.!!$R1 1325
23 TraesCS1D01G032000 chr3A 749438094 749438986 892 False 863.0 863 84.2110 59 964 1 chr3A.!!$F2 905

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
376 384 0.107312 CTAAGAGCTGGGCACTGCAT 60.107 55.0 20.71 8.2 43.24 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2112 2195 0.106167 ACTCTATAGTCCAGCGCCCA 60.106 55.0 2.29 0.0 0.0 5.36 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
48 49 1.886313 CAGATAGTGCAGCGCCCAG 60.886 63.158 2.29 0.00 0.00 4.45
100 101 1.226888 CTCCGTTAGGCGCTACACC 60.227 63.158 7.64 0.00 39.71 4.16
101 102 1.940883 CTCCGTTAGGCGCTACACCA 61.941 60.000 7.64 0.00 39.71 4.17
139 141 1.534729 GGTGGCAAACCTACTGGAAG 58.465 55.000 0.00 0.00 46.55 3.46
140 142 1.202891 GGTGGCAAACCTACTGGAAGT 60.203 52.381 0.00 0.00 45.78 3.01
187 189 2.106074 CGGATGTGCAGCGCCTAAA 61.106 57.895 2.29 0.00 0.00 1.85
220 222 1.215382 CTACACAGTGCAGCGCCTA 59.785 57.895 2.29 0.00 0.00 3.93
221 223 1.078759 CTACACAGTGCAGCGCCTAC 61.079 60.000 2.29 0.01 0.00 3.18
271 274 2.027377 CCAGTCCAGAGAGCAACAGAAT 60.027 50.000 0.00 0.00 0.00 2.40
272 275 3.001414 CAGTCCAGAGAGCAACAGAATG 58.999 50.000 0.00 0.00 46.00 2.67
273 276 1.736681 GTCCAGAGAGCAACAGAATGC 59.263 52.381 0.00 0.00 46.78 3.56
287 290 4.074970 ACAGAATGCTTCCAGTAGGTTTG 58.925 43.478 0.00 0.00 42.53 2.93
288 291 4.202461 ACAGAATGCTTCCAGTAGGTTTGA 60.202 41.667 0.00 0.00 42.53 2.69
290 293 2.561478 TGCTTCCAGTAGGTTTGACC 57.439 50.000 0.00 0.00 38.99 4.02
342 345 1.884926 GATGTCTAGGCGCTGCACC 60.885 63.158 7.64 0.00 0.00 5.01
343 346 3.391665 ATGTCTAGGCGCTGCACCC 62.392 63.158 7.64 0.27 0.00 4.61
362 365 0.173481 CTACTGTGCAGCGCCTAAGA 59.827 55.000 2.29 0.00 0.00 2.10
376 384 0.107312 CTAAGAGCTGGGCACTGCAT 60.107 55.000 20.71 8.20 43.24 3.96
412 420 4.096003 TCCCTTAGGCGCTGCACC 62.096 66.667 7.64 0.00 0.00 5.01
413 421 4.408821 CCCTTAGGCGCTGCACCA 62.409 66.667 7.64 0.00 0.00 4.17
423 431 1.709147 CGCTGCACCATGACTTAGCC 61.709 60.000 0.00 0.00 0.00 3.93
449 458 2.359011 GGGGGCAAACCTACTGGG 59.641 66.667 0.00 0.00 40.03 4.45
451 460 1.771646 GGGGCAAACCTACTGGGAA 59.228 57.895 0.00 0.00 40.03 3.97
454 463 1.305930 GGCAAACCTACTGGGAAGCG 61.306 60.000 0.00 0.00 38.76 4.68
481 490 2.182827 TGCTCTCTAGACTGGCATGTT 58.817 47.619 0.00 0.00 0.00 2.71
489 498 1.625315 AGACTGGCATGTTCAGTAGCA 59.375 47.619 18.95 0.00 44.51 3.49
494 503 3.419943 TGGCATGTTCAGTAGCATTTCA 58.580 40.909 0.00 0.00 0.00 2.69
497 506 4.082571 GGCATGTTCAGTAGCATTTCAAGT 60.083 41.667 0.00 0.00 0.00 3.16
521 532 3.083349 CGCCCATGGGAGAGGTGA 61.083 66.667 36.00 0.00 37.24 4.02
565 576 3.104766 CCTTAGGCGCTGCACATG 58.895 61.111 7.64 0.00 0.00 3.21
577 588 2.670229 GCTGCACATGTGGACATTTCTG 60.670 50.000 26.55 11.55 33.61 3.02
578 589 1.887854 TGCACATGTGGACATTTCTGG 59.112 47.619 26.55 0.00 33.61 3.86
579 590 1.888512 GCACATGTGGACATTTCTGGT 59.111 47.619 26.55 0.00 33.61 4.00
581 592 2.229543 CACATGTGGACATTTCTGGTGG 59.770 50.000 18.51 0.00 33.61 4.61
582 593 1.820519 CATGTGGACATTTCTGGTGGG 59.179 52.381 0.00 0.00 33.61 4.61
705 723 2.356665 TCCTTCTCAGATCCGGAGAG 57.643 55.000 11.34 11.72 42.00 3.20
707 725 1.953686 CCTTCTCAGATCCGGAGAGAC 59.046 57.143 18.71 6.95 42.00 3.36
748 766 3.372675 CCAACCCCTCCCTTAAGGTAATG 60.373 52.174 20.22 5.00 36.75 1.90
777 795 1.165270 CCCCTCGTTTTCATCCACAC 58.835 55.000 0.00 0.00 0.00 3.82
947 968 5.533154 TGTTTGATGTTGGTGTTAGGGTTAG 59.467 40.000 0.00 0.00 0.00 2.34
980 1001 9.452287 GTTAGGGTTATGGTTATTGTTAAGTGA 57.548 33.333 0.00 0.00 0.00 3.41
1090 1147 0.523072 CGCATCTTTGGACAAGGTGG 59.477 55.000 0.00 0.00 0.00 4.61
1116 1173 4.963878 GATGTCAACATCCCGCCT 57.036 55.556 11.31 0.00 45.24 5.52
1168 1225 2.158254 GTGTCCACCGACCGAAATAAAC 59.842 50.000 0.00 0.00 38.32 2.01
1213 1271 4.409718 TTTGTATGCCCGAACTATGCTA 57.590 40.909 0.00 0.00 0.00 3.49
1263 1321 1.373435 CCAACCACCGGTAAGCTCA 59.627 57.895 6.87 0.00 33.12 4.26
1335 1395 2.575993 CAGTCACCGCCTCCTCTG 59.424 66.667 0.00 0.00 0.00 3.35
1376 1437 5.221601 GGATAGATCATGAAGTGCCAGAAGA 60.222 44.000 0.00 0.00 0.00 2.87
1463 1524 1.743252 GGCTTGGAGGAAGAGCGTG 60.743 63.158 0.00 0.00 37.29 5.34
1507 1568 3.349022 GAAGAAACGAGAGGAGGAGAGA 58.651 50.000 0.00 0.00 0.00 3.10
1519 1580 2.047844 GAGAGAGCACGCCAAGCA 60.048 61.111 0.00 0.00 0.00 3.91
1759 1828 8.309656 TGCCATTTGTCATTTGTAATGAATGTA 58.690 29.630 3.83 0.00 36.23 2.29
1936 2009 2.032860 ATAGTAGTGCAGCGCCCAGG 62.033 60.000 2.29 0.00 0.00 4.45
1952 2035 4.030452 GGACACAAGCGCTGCACC 62.030 66.667 12.58 7.17 0.00 5.01
2058 2141 0.796312 CGTGTATGGTCAGTGTTGCC 59.204 55.000 0.00 0.00 0.00 4.52
2060 2143 1.535462 GTGTATGGTCAGTGTTGCCAC 59.465 52.381 6.11 0.00 42.17 5.01
2112 2195 3.237741 GAGCAGCGCCTAGGGGAT 61.238 66.667 28.92 20.96 33.58 3.85
2121 2204 3.946201 CTAGGGGATGGGCGCTGG 61.946 72.222 7.64 0.00 0.00 4.85
2125 2208 3.161450 GGGATGGGCGCTGGACTA 61.161 66.667 7.64 0.00 0.00 2.59
2128 2211 0.247736 GGATGGGCGCTGGACTATAG 59.752 60.000 7.64 0.00 0.00 1.31
2130 2213 1.203523 GATGGGCGCTGGACTATAGAG 59.796 57.143 7.64 0.00 0.00 2.43
2141 2224 1.067821 GACTATAGAGTGCAGCGCCTT 59.932 52.381 2.29 0.00 35.45 4.35
2213 2324 0.969917 TGGGCAGTGCAGTGTTGTTT 60.970 50.000 22.22 0.00 0.00 2.83
2226 2337 5.510671 CAGTGTTGTTTACTGCTAAACTGG 58.489 41.667 9.28 0.00 41.65 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 4.445385 GCTGTTTTCAAATACCAAGTGCTG 59.555 41.667 0.00 0.00 0.00 4.41
48 49 3.031964 CTGTGCAGCGCCTAACAGC 62.032 63.158 17.60 7.99 34.19 4.40
49 50 0.389817 TACTGTGCAGCGCCTAACAG 60.390 55.000 24.34 24.34 44.46 3.16
50 51 0.669318 GTACTGTGCAGCGCCTAACA 60.669 55.000 2.29 4.99 0.00 2.41
53 54 1.215382 CTGTACTGTGCAGCGCCTA 59.785 57.895 12.86 0.00 0.00 3.93
124 126 3.251004 CAGAACACTTCCAGTAGGTTTGC 59.749 47.826 0.00 0.00 35.89 3.68
125 127 4.451900 ACAGAACACTTCCAGTAGGTTTG 58.548 43.478 0.00 0.00 35.89 2.93
139 141 2.139118 GTCCAGAGAGCAACAGAACAC 58.861 52.381 0.00 0.00 0.00 3.32
140 142 2.042464 AGTCCAGAGAGCAACAGAACA 58.958 47.619 0.00 0.00 0.00 3.18
170 172 1.718757 CCTTTAGGCGCTGCACATCC 61.719 60.000 7.64 0.00 0.00 3.51
172 174 3.909662 CCTTTAGGCGCTGCACAT 58.090 55.556 7.64 0.00 0.00 3.21
187 189 1.475682 GTGTAGTGTTACGCCTAGCCT 59.524 52.381 0.00 0.00 34.85 4.58
228 230 2.182842 GTCCAGATGTGCATCGCCC 61.183 63.158 6.54 0.00 42.48 6.13
233 235 0.033894 TGGCATGTCCAGATGTGCAT 60.034 50.000 4.93 0.00 40.72 3.96
271 274 1.073284 GGGTCAAACCTACTGGAAGCA 59.927 52.381 0.00 0.00 38.64 3.91
272 275 1.613520 GGGGTCAAACCTACTGGAAGC 60.614 57.143 0.00 0.00 38.64 3.86
273 276 1.004394 GGGGGTCAAACCTACTGGAAG 59.996 57.143 0.00 0.00 38.64 3.46
301 304 1.779025 CGCTGCACCATGACATAGCC 61.779 60.000 0.00 0.00 0.00 3.93
323 326 2.104928 TGCAGCGCCTAGACATCG 59.895 61.111 2.29 0.00 0.00 3.84
326 329 4.082523 GGGTGCAGCGCCTAGACA 62.083 66.667 24.40 0.00 33.98 3.41
328 331 2.043349 TAGGGTGCAGCGCCTAGA 60.043 61.111 24.40 7.40 33.98 2.43
330 333 2.363795 AGTAGGGTGCAGCGCCTA 60.364 61.111 24.40 11.82 33.98 3.93
342 345 0.807667 CTTAGGCGCTGCACAGTAGG 60.808 60.000 7.64 0.00 0.00 3.18
343 346 0.173481 TCTTAGGCGCTGCACAGTAG 59.827 55.000 7.64 0.00 0.00 2.57
362 365 0.179000 GTACTATGCAGTGCCCAGCT 59.821 55.000 13.72 3.55 36.14 4.24
376 384 0.965866 AGAGGCGCTGCACTGTACTA 60.966 55.000 7.64 0.00 0.00 1.82
434 443 0.965866 GCTTCCCAGTAGGTTTGCCC 60.966 60.000 0.00 0.00 36.75 5.36
437 446 1.804748 GAACGCTTCCCAGTAGGTTTG 59.195 52.381 0.00 0.00 36.75 2.93
449 458 4.973663 GTCTAGAGAGCAATAGAACGCTTC 59.026 45.833 0.00 0.00 38.99 3.86
451 460 4.036262 CAGTCTAGAGAGCAATAGAACGCT 59.964 45.833 0.00 0.00 42.42 5.07
454 463 4.098654 TGCCAGTCTAGAGAGCAATAGAAC 59.901 45.833 8.43 0.00 30.11 3.01
481 490 3.475575 TGCACACTTGAAATGCTACTGA 58.524 40.909 0.00 0.00 40.13 3.41
489 498 1.286880 GGCGCTGCACACTTGAAAT 59.713 52.632 7.64 0.00 0.00 2.17
521 532 1.266718 CGCTGCACATTAAAGGTGTGT 59.733 47.619 8.94 0.00 46.59 3.72
527 538 1.331756 CCTAGGCGCTGCACATTAAAG 59.668 52.381 7.64 0.00 0.00 1.85
565 576 1.250840 GCCCCACCAGAAATGTCCAC 61.251 60.000 0.00 0.00 0.00 4.02
630 647 2.616842 CACTAAGCTTCGGGTTTGTGTT 59.383 45.455 0.00 0.00 46.09 3.32
705 723 2.859032 GCTTCGATATCCACGGACAGTC 60.859 54.545 0.00 0.00 0.00 3.51
707 725 1.603172 GGCTTCGATATCCACGGACAG 60.603 57.143 0.00 0.00 0.00 3.51
748 766 1.196012 AAACGAGGGGATCAGAGGAC 58.804 55.000 0.00 0.00 0.00 3.85
777 795 5.860182 AGATTTGAGCAAATGTGACAATTCG 59.140 36.000 12.73 0.00 40.77 3.34
876 896 4.451544 GGCCTAACCATGCCCAAA 57.548 55.556 0.00 0.00 41.97 3.28
947 968 4.448720 AACCATAACCCTAACCATAGCC 57.551 45.455 0.00 0.00 0.00 3.93
980 1001 2.067386 TGCCTACAAAACCCTAACCCT 58.933 47.619 0.00 0.00 0.00 4.34
1116 1173 2.100584 GCAAACATCTCCACACCAACAA 59.899 45.455 0.00 0.00 0.00 2.83
1168 1225 4.856801 CCGCCCTTCCGTCCATGG 62.857 72.222 4.97 4.97 0.00 3.66
1213 1271 2.783135 AGTTGGAAGTGCACGATCATT 58.217 42.857 21.89 7.84 0.00 2.57
1304 1362 4.188462 CGGTGACTGCATACAAAATAGGA 58.812 43.478 0.00 0.00 0.00 2.94
1305 1363 3.242739 GCGGTGACTGCATACAAAATAGG 60.243 47.826 12.26 0.00 0.00 2.57
1307 1365 2.680841 GGCGGTGACTGCATACAAAATA 59.319 45.455 19.20 0.00 0.00 1.40
1335 1395 1.860676 TCCACGTGAAGTACTTGCAC 58.139 50.000 19.30 17.85 0.00 4.57
1463 1524 2.038659 CTCCATCCTCTCCTTCTGACC 58.961 57.143 0.00 0.00 0.00 4.02
1507 1568 1.815866 AAGTTTTGCTTGGCGTGCT 59.184 47.368 3.39 0.00 35.80 4.40
1519 1580 1.416401 TCCTCCTCACGAGCAAGTTTT 59.584 47.619 0.00 0.00 37.27 2.43
1603 1664 0.691078 TAGAGCGAGGCCATTTCCCT 60.691 55.000 5.01 0.00 34.77 4.20
1759 1828 4.707030 TTACTACGACATGGTTCACGAT 57.293 40.909 0.00 0.00 0.00 3.73
1921 1994 4.082523 GTCCTGGGCGCTGCACTA 62.083 66.667 7.64 0.00 30.56 2.74
1936 2009 4.030452 GGGTGCAGCGCTTGTGTC 62.030 66.667 7.50 0.00 0.00 3.67
1942 2015 3.314331 ACAGTAGGGTGCAGCGCT 61.314 61.111 2.64 2.64 43.25 5.92
1952 2035 3.899981 TTGGGCGCTGCACAGTAGG 62.900 63.158 7.64 0.00 45.08 3.18
2023 2106 6.021596 CCATACACGAAAATTGCTAAGTCAC 58.978 40.000 0.00 0.00 0.00 3.67
2058 2141 1.067000 CCAGAGAGCCACAGAAGAGTG 60.067 57.143 0.00 0.00 39.21 3.51
2060 2143 1.554836 TCCAGAGAGCCACAGAAGAG 58.445 55.000 0.00 0.00 0.00 2.85
2112 2195 0.106167 ACTCTATAGTCCAGCGCCCA 60.106 55.000 2.29 0.00 0.00 5.36
2121 2204 0.671251 AGGCGCTGCACTCTATAGTC 59.329 55.000 7.64 0.00 31.97 2.59
2125 2208 0.249657 GCTAAGGCGCTGCACTCTAT 60.250 55.000 7.64 0.00 0.00 1.98
2158 2264 3.121030 GTACAGTGCAGCGCCCAG 61.121 66.667 2.29 0.00 0.00 4.45
2171 2277 0.669318 GTTAGGCGCTGCACTGTACA 60.669 55.000 7.64 0.00 0.00 2.90
2213 2324 5.801531 TCTGTTTCTCCAGTTTAGCAGTA 57.198 39.130 0.00 0.00 34.02 2.74
2250 2361 8.902540 TTAGTGATGTTCAAGTTATGTGAGTT 57.097 30.769 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.