Multiple sequence alignment - TraesCS4B01G267600

Loading Multiple Alignment...

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 TraesCS4B01G267600 chr4B 100.000 2530 0 0 1 2530 540727549 540725020 0.000000e+00 4673.0
1 TraesCS4B01G267600 chr4D 93.863 2102 78 26 1 2056 437819994 437817898 0.000000e+00 3120.0
2 TraesCS4B01G267600 chr4D 87.895 380 12 9 2176 2530 437817764 437817394 1.400000e-112 416.0
3 TraesCS4B01G267600 chr4A 88.748 1893 89 49 255 2053 30286000 30287862 0.000000e+00 2202.0
4 TraesCS4B01G267600 chr4A 87.912 91 9 2 2051 2141 30287934 30288022 3.440000e-19 106.0
5 TraesCS4B01G267600 chr5A 83.036 224 27 8 1106 1322 496204802 496204583 2.570000e-45 193.0
6 TraesCS4B01G267600 chr7D 77.984 377 32 23 1098 1468 489299592 489299923 3.320000e-44 189.0
7 TraesCS4B01G267600 chr7D 75.726 379 33 28 1098 1469 484068737 484069063 4.390000e-28 135.0
8 TraesCS4B01G267600 chr7B 77.480 373 33 18 1103 1469 509732857 509733184 2.590000e-40 176.0
9 TraesCS4B01G267600 chr7B 75.636 275 37 15 1200 1468 517931000 517931250 2.660000e-20 110.0
10 TraesCS4B01G267600 chr7A 77.480 373 33 27 1103 1469 551540228 551540555 2.590000e-40 176.0
11 TraesCS4B01G267600 chrUn 81.513 238 21 16 1093 1322 332176352 332176130 9.300000e-40 174.0
12 TraesCS4B01G267600 chr5D 81.513 238 21 16 1093 1322 394548810 394548588 9.300000e-40 174.0
13 TraesCS4B01G267600 chr5D 81.513 238 21 16 1093 1322 394550823 394550601 9.300000e-40 174.0
14 TraesCS4B01G267600 chr5D 76.567 367 44 27 1106 1460 394163288 394162952 2.010000e-36 163.0
15 TraesCS4B01G267600 chr5D 82.902 193 16 8 1106 1294 394190507 394190328 9.370000e-35 158.0
16 TraesCS4B01G267600 chr5D 83.333 78 10 1 1479 1556 394190055 394189981 4.520000e-08 69.4
17 TraesCS4B01G267600 chr5B 80.400 250 26 15 1093 1322 474279016 474278770 4.330000e-38 169.0
18 TraesCS4B01G267600 chr5B 81.696 224 21 12 1106 1322 474453437 474453227 4.330000e-38 169.0
19 TraesCS4B01G267600 chr5B 81.667 180 12 9 1106 1285 474047931 474047773 2.040000e-26 130.0
20 TraesCS4B01G267600 chr5B 88.000 50 6 0 1479 1528 474055876 474055827 2.720000e-05 60.2
21 TraesCS4B01G267600 chr3B 92.035 113 8 1 1881 1993 176431195 176431306 9.370000e-35 158.0


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 TraesCS4B01G267600 chr4B 540725020 540727549 2529 True 4673 4673 100.000 1 2530 1 chr4B.!!$R1 2529
1 TraesCS4B01G267600 chr4D 437817394 437819994 2600 True 1768 3120 90.879 1 2530 2 chr4D.!!$R1 2529
2 TraesCS4B01G267600 chr4A 30286000 30288022 2022 False 1154 2202 88.330 255 2141 2 chr4A.!!$F1 1886

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
34 35 0.099082 GTCGACTTGTCCCTAGCTCG 59.901 60.0 8.7 0.0 0.0 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1909 2035 0.247736 GTGTGTTTGGTTGTTGCCCA 59.752 50.0 0.0 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
34 35 0.099082 GTCGACTTGTCCCTAGCTCG 59.901 60.000 8.70 0.00 0.00 5.03
114 115 3.616821 TGCTCGCACTTATGAATGTACAC 59.383 43.478 0.00 0.00 0.00 2.90
123 124 0.531657 TGAATGTACACCCGTACCCG 59.468 55.000 0.00 0.00 46.33 5.28
129 130 1.334869 GTACACCCGTACCCGTATGAG 59.665 57.143 0.00 0.00 41.92 2.90
131 132 2.333938 CCCGTACCCGTATGAGCG 59.666 66.667 0.00 0.00 0.00 5.03
132 133 2.354305 CCGTACCCGTATGAGCGC 60.354 66.667 0.00 0.00 0.00 5.92
136 137 1.152819 TACCCGTATGAGCGCCTCT 60.153 57.895 2.29 0.00 0.00 3.69
138 139 0.754217 ACCCGTATGAGCGCCTCTAA 60.754 55.000 2.29 0.00 0.00 2.10
155 156 2.027192 TCTAAAAGACGGAGCTGGCATT 60.027 45.455 0.00 0.00 0.00 3.56
163 164 1.136147 GAGCTGGCATTGCGTCTTG 59.864 57.895 1.91 0.00 35.28 3.02
192 193 4.309099 ACGAAGTAATTACAAACGCCTCA 58.691 39.130 17.65 0.00 41.94 3.86
195 196 6.591062 ACGAAGTAATTACAAACGCCTCATAA 59.409 34.615 17.65 0.00 41.94 1.90
198 199 8.500753 AAGTAATTACAAACGCCTCATAATCA 57.499 30.769 17.65 0.00 0.00 2.57
236 248 6.151144 GGCATGTGTAAACTCAATCCTTTACT 59.849 38.462 0.00 0.00 34.99 2.24
344 358 2.158385 TGCCAACTTTACCATCCAACCT 60.158 45.455 0.00 0.00 0.00 3.50
358 372 1.808945 CCAACCTCATGCTGTCTTGTC 59.191 52.381 0.00 0.00 0.00 3.18
367 381 6.239543 CCTCATGCTGTCTTGTCCTATAGAAT 60.240 42.308 0.00 0.00 0.00 2.40
391 424 2.943036 TTCTAGCCCGTGGACTTTTT 57.057 45.000 0.00 0.00 0.00 1.94
397 430 1.200020 GCCCGTGGACTTTTTCTCATG 59.800 52.381 0.00 0.00 0.00 3.07
714 783 3.382111 AGTGAGCTACTGCCGCTT 58.618 55.556 0.00 0.00 38.49 4.68
804 904 1.457346 CTCTTCAATGCTTTCCGGCT 58.543 50.000 0.00 0.00 0.00 5.52
936 1041 3.721706 CCCACTGACCCCAGCTCC 61.722 72.222 0.00 0.00 44.16 4.70
937 1042 4.087892 CCACTGACCCCAGCTCCG 62.088 72.222 0.00 0.00 44.16 4.63
938 1043 4.767255 CACTGACCCCAGCTCCGC 62.767 72.222 0.00 0.00 44.16 5.54
940 1045 3.710722 CTGACCCCAGCTCCGCTT 61.711 66.667 0.00 0.00 36.40 4.68
941 1046 3.672295 CTGACCCCAGCTCCGCTTC 62.672 68.421 0.00 0.00 36.40 3.86
942 1047 3.394836 GACCCCAGCTCCGCTTCT 61.395 66.667 0.00 0.00 36.40 2.85
1021 1126 3.891586 GAGGTGAGCGTTCGTGCGA 62.892 63.158 5.66 0.00 40.67 5.10
1049 1155 3.957535 CGCCCATGCAAGGATCGC 61.958 66.667 10.18 3.44 37.32 4.58
1072 1178 0.971386 TTCCCCGTGGACTGTACTTC 59.029 55.000 0.00 0.00 41.57 3.01
1079 1185 2.728225 CGTGGACTGTACTTCGTAGCTG 60.728 54.545 0.00 0.00 0.00 4.24
1265 1372 2.992689 TTCAGGTACTCGCCGCCA 60.993 61.111 0.00 0.00 34.60 5.69
1598 1712 4.865365 GTGGTAGTGTTCACTAGATTGAGC 59.135 45.833 12.19 3.78 0.00 4.26
1683 1801 3.510388 TCACTTGTAATGCTCTCGAGG 57.490 47.619 13.56 4.50 0.00 4.63
1690 1808 5.142061 TGTAATGCTCTCGAGGTGTTTAA 57.858 39.130 13.56 0.00 0.00 1.52
1734 1852 2.084546 GGTCTCATGTGTTAGGTTGGC 58.915 52.381 0.00 0.00 0.00 4.52
1747 1873 1.202698 AGGTTGGCTCAGTGAGTTGAC 60.203 52.381 21.06 15.35 31.39 3.18
1816 1942 3.307506 CCAATATTTTGGCCAGGATCCA 58.692 45.455 15.82 0.00 45.71 3.41
1899 2025 7.830099 AAATTAGCTAGCTGATATTTTGGCT 57.170 32.000 27.68 3.90 38.62 4.75
1909 2035 4.032310 TGATATTTTGGCTGGGCAATCTT 58.968 39.130 10.23 2.18 0.00 2.40
1915 2041 2.285024 GCTGGGCAATCTTGGGCAA 61.285 57.895 0.00 0.00 0.00 4.52
1916 2042 1.593265 CTGGGCAATCTTGGGCAAC 59.407 57.895 0.00 0.00 0.00 4.17
1976 2106 3.340928 TCTCTTCGTCACAATCTCGGTA 58.659 45.455 0.00 0.00 0.00 4.02
1980 2110 2.429478 TCGTCACAATCTCGGTAGACA 58.571 47.619 0.00 0.00 33.57 3.41
2034 2169 3.181422 ACCTGGAACTAAAGAAAAGGGGG 60.181 47.826 0.00 0.00 0.00 5.40
2057 2268 3.014304 AGCAATCCATCATTGACAGCT 57.986 42.857 0.00 0.00 44.40 4.24
2114 2325 0.679505 TAGCCAAGTTCGTCTGCACT 59.320 50.000 0.00 0.00 0.00 4.40
2122 2333 2.747446 AGTTCGTCTGCACTGTTTTGTT 59.253 40.909 0.00 0.00 0.00 2.83
2125 2336 2.096819 TCGTCTGCACTGTTTTGTTTCC 59.903 45.455 0.00 0.00 0.00 3.13
2137 2348 3.467374 TTTGTTTCCCTTGTTGGATGC 57.533 42.857 0.00 0.00 38.35 3.91
2144 2355 2.311542 TCCCTTGTTGGATGCTGGTTAT 59.688 45.455 0.00 0.00 38.35 1.89
2152 2363 3.098377 TGGATGCTGGTTATTGCAACAT 58.902 40.909 0.00 0.00 42.74 2.71
2153 2364 3.514706 TGGATGCTGGTTATTGCAACATT 59.485 39.130 0.00 0.00 42.74 2.71
2154 2365 4.114794 GGATGCTGGTTATTGCAACATTC 58.885 43.478 0.00 0.00 42.74 2.67
2155 2366 4.142093 GGATGCTGGTTATTGCAACATTCT 60.142 41.667 0.00 0.00 42.74 2.40
2157 2368 4.558178 TGCTGGTTATTGCAACATTCTTG 58.442 39.130 0.00 0.00 36.15 3.02
2158 2369 4.280425 TGCTGGTTATTGCAACATTCTTGA 59.720 37.500 0.00 0.00 36.15 3.02
2159 2370 4.622740 GCTGGTTATTGCAACATTCTTGAC 59.377 41.667 0.00 0.00 0.00 3.18
2162 2373 4.220602 GGTTATTGCAACATTCTTGACCCT 59.779 41.667 0.00 0.00 0.00 4.34
2163 2374 5.279456 GGTTATTGCAACATTCTTGACCCTT 60.279 40.000 0.00 0.00 0.00 3.95
2164 2375 4.961438 ATTGCAACATTCTTGACCCTTT 57.039 36.364 0.00 0.00 0.00 3.11
2165 2376 4.751767 TTGCAACATTCTTGACCCTTTT 57.248 36.364 0.00 0.00 0.00 2.27
2166 2377 4.751767 TGCAACATTCTTGACCCTTTTT 57.248 36.364 0.00 0.00 0.00 1.94
2186 2397 4.909696 TTTTGCGAGGAACAATTCTTGA 57.090 36.364 0.00 0.00 0.00 3.02
2187 2398 3.896648 TTGCGAGGAACAATTCTTGAC 57.103 42.857 0.00 0.00 0.00 3.18
2188 2399 2.151202 TGCGAGGAACAATTCTTGACC 58.849 47.619 0.00 0.00 0.00 4.02
2189 2400 1.468914 GCGAGGAACAATTCTTGACCC 59.531 52.381 0.00 0.00 33.69 4.46
2190 2401 2.778299 CGAGGAACAATTCTTGACCCA 58.222 47.619 0.00 0.00 33.69 4.51
2191 2402 3.347216 CGAGGAACAATTCTTGACCCAT 58.653 45.455 0.00 0.00 33.69 4.00
2192 2403 3.127548 CGAGGAACAATTCTTGACCCATG 59.872 47.826 0.00 0.00 33.69 3.66
2217 2428 7.710044 TGCATTGATGTGTTGTTAATTCAAAGT 59.290 29.630 0.00 0.00 0.00 2.66
2220 2431 8.854979 TTGATGTGTTGTTAATTCAAAGTCAG 57.145 30.769 0.00 0.00 0.00 3.51
2226 2437 6.605594 TGTTGTTAATTCAAAGTCAGGTTCCT 59.394 34.615 0.00 0.00 0.00 3.36
2230 2441 2.814280 TCAAAGTCAGGTTCCTCGAC 57.186 50.000 10.95 10.95 0.00 4.20
2242 2453 1.600023 TCCTCGACCGTTGCAAAAAT 58.400 45.000 0.00 0.00 0.00 1.82
2281 2492 3.937814 AGATGCACAATCTTCACGGTAA 58.062 40.909 0.00 0.00 43.52 2.85
2282 2493 4.323417 AGATGCACAATCTTCACGGTAAA 58.677 39.130 0.00 0.00 43.52 2.01
2283 2494 4.759693 AGATGCACAATCTTCACGGTAAAA 59.240 37.500 0.00 0.00 43.52 1.52
2359 2586 1.068055 CAGAGCTGAAACAACATGGCC 60.068 52.381 0.00 0.00 0.00 5.36
2369 2596 1.077265 AACATGGCCCCACTCCAAG 59.923 57.895 0.00 0.00 37.13 3.61
2393 2620 0.984230 AAGCATCTCTCCGGGTGAAA 59.016 50.000 0.00 0.00 0.00 2.69
2394 2621 1.207791 AGCATCTCTCCGGGTGAAAT 58.792 50.000 0.00 0.00 0.00 2.17
2395 2622 1.139853 AGCATCTCTCCGGGTGAAATC 59.860 52.381 0.00 0.00 0.00 2.17
2436 2665 3.494626 GCATTGCAGCTCGCTATAAGTAA 59.505 43.478 3.15 0.00 43.06 2.24
2437 2666 4.376819 GCATTGCAGCTCGCTATAAGTAAG 60.377 45.833 3.15 0.00 43.06 2.34
2438 2667 4.386867 TTGCAGCTCGCTATAAGTAAGT 57.613 40.909 9.12 0.00 43.06 2.24
2439 2668 5.509716 TTGCAGCTCGCTATAAGTAAGTA 57.490 39.130 9.12 0.00 43.06 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 0.322277 ACGAGCTAGGGACAAGTCGA 60.322 55.000 0.00 0.00 0.00 4.20
59 60 8.985694 CGTTTATATGAGCGTTTAAGAAAACAG 58.014 33.333 0.00 0.00 44.37 3.16
61 62 7.479291 TGCGTTTATATGAGCGTTTAAGAAAAC 59.521 33.333 5.68 0.00 41.36 2.43
114 115 2.333938 CGCTCATACGGGTACGGG 59.666 66.667 0.00 0.00 46.48 5.28
131 132 1.646189 CAGCTCCGTCTTTTAGAGGC 58.354 55.000 0.00 0.00 0.00 4.70
132 133 1.740718 GCCAGCTCCGTCTTTTAGAGG 60.741 57.143 0.00 0.00 0.00 3.69
136 137 2.083774 CAATGCCAGCTCCGTCTTTTA 58.916 47.619 0.00 0.00 0.00 1.52
138 139 1.589716 GCAATGCCAGCTCCGTCTTT 61.590 55.000 0.00 0.00 0.00 2.52
163 164 6.677411 GCGTTTGTAATTACTTCGTCAATCTC 59.323 38.462 16.33 1.96 0.00 2.75
180 181 3.452990 TCCCTGATTATGAGGCGTTTGTA 59.547 43.478 0.00 0.00 0.00 2.41
184 185 2.238646 TGTTCCCTGATTATGAGGCGTT 59.761 45.455 0.00 0.00 0.00 4.84
187 188 4.526970 TCTTTGTTCCCTGATTATGAGGC 58.473 43.478 0.00 0.00 0.00 4.70
192 193 4.870636 TGCCATCTTTGTTCCCTGATTAT 58.129 39.130 0.00 0.00 0.00 1.28
195 196 2.905415 TGCCATCTTTGTTCCCTGAT 57.095 45.000 0.00 0.00 0.00 2.90
198 199 2.173519 CACATGCCATCTTTGTTCCCT 58.826 47.619 0.00 0.00 0.00 4.20
276 290 2.869233 TTTCTTTTGAGCAGTGCCAC 57.131 45.000 12.58 7.24 0.00 5.01
344 358 6.737720 ATTCTATAGGACAAGACAGCATGA 57.262 37.500 0.00 0.00 39.69 3.07
391 424 1.271871 ACAAAACGATGGGGCATGAGA 60.272 47.619 0.00 0.00 0.00 3.27
397 430 1.816074 TCTACACAAAACGATGGGGC 58.184 50.000 0.00 0.00 0.00 5.80
714 783 1.895131 GCATGGAAGGCCTCTTTTCAA 59.105 47.619 5.23 0.00 37.93 2.69
804 904 4.508128 GCTAGCGCGGCAGTACCA 62.508 66.667 20.13 0.00 39.03 3.25
818 918 1.056700 GGAATGGGAGGGAGCAGCTA 61.057 60.000 0.00 0.00 0.00 3.32
936 1041 1.404851 GGGTGGAGAAGAAGAGAAGCG 60.405 57.143 0.00 0.00 0.00 4.68
937 1042 1.065782 GGGGTGGAGAAGAAGAGAAGC 60.066 57.143 0.00 0.00 0.00 3.86
938 1043 2.260822 TGGGGTGGAGAAGAAGAGAAG 58.739 52.381 0.00 0.00 0.00 2.85
940 1045 2.649742 ATGGGGTGGAGAAGAAGAGA 57.350 50.000 0.00 0.00 0.00 3.10
941 1046 2.843113 AGAATGGGGTGGAGAAGAAGAG 59.157 50.000 0.00 0.00 0.00 2.85
942 1047 2.573462 CAGAATGGGGTGGAGAAGAAGA 59.427 50.000 0.00 0.00 0.00 2.87
1021 1126 4.966787 ATGGGCGCACGGTTGGTT 62.967 61.111 10.83 0.00 0.00 3.67
1063 1169 2.488545 CAGGTCAGCTACGAAGTACAGT 59.511 50.000 0.00 0.00 45.11 3.55
1072 1178 1.298859 GCCAAACCAGGTCAGCTACG 61.299 60.000 0.00 0.00 0.00 3.51
1079 1185 0.752658 AAGCAAAGCCAAACCAGGTC 59.247 50.000 0.00 0.00 0.00 3.85
1277 1384 3.479269 CGCGTCTTCTTGGGCGTC 61.479 66.667 0.00 0.00 43.36 5.19
1394 1501 4.400251 ACCACCCTAGAGCCGGCT 62.400 66.667 33.48 33.48 0.00 5.52
1598 1712 2.213499 ACAAGAAAGAACCAGCACTCG 58.787 47.619 0.00 0.00 0.00 4.18
1683 1801 5.920273 CACAAACTCATGGTGGATTAAACAC 59.080 40.000 5.38 5.38 38.10 3.32
1690 1808 3.334691 CGTACACAAACTCATGGTGGAT 58.665 45.455 0.00 0.00 36.87 3.41
1734 1852 2.552743 TCTACACCGTCAACTCACTGAG 59.447 50.000 4.36 4.36 35.52 3.35
1747 1873 3.735237 AACATGCCTAGATCTACACCG 57.265 47.619 0.00 0.00 0.00 4.94
1899 2025 0.762082 TTGTTGCCCAAGATTGCCCA 60.762 50.000 0.00 0.00 0.00 5.36
1909 2035 0.247736 GTGTGTTTGGTTGTTGCCCA 59.752 50.000 0.00 0.00 0.00 5.36
1915 2041 3.004315 GGATTCGATGTGTGTTTGGTTGT 59.996 43.478 0.00 0.00 0.00 3.32
1916 2042 3.004210 TGGATTCGATGTGTGTTTGGTTG 59.996 43.478 0.00 0.00 0.00 3.77
1976 2106 3.125829 CAGCGCAAGAAACATGTATGTCT 59.874 43.478 11.47 0.00 39.29 3.41
1980 2110 3.424829 CGAACAGCGCAAGAAACATGTAT 60.425 43.478 11.47 0.00 43.02 2.29
2034 2169 3.490419 GCTGTCAATGATGGATTGCTTCC 60.490 47.826 0.00 0.00 45.69 3.46
2035 2170 3.380637 AGCTGTCAATGATGGATTGCTTC 59.619 43.478 0.00 0.00 41.29 3.86
2037 2172 3.014304 AGCTGTCAATGATGGATTGCT 57.986 42.857 0.00 0.00 41.29 3.91
2038 2173 3.795623 AAGCTGTCAATGATGGATTGC 57.204 42.857 0.00 0.00 41.29 3.56
2043 2254 3.011818 TGTGCTAAGCTGTCAATGATGG 58.988 45.455 0.00 0.00 0.00 3.51
2045 2256 2.681848 GCTGTGCTAAGCTGTCAATGAT 59.318 45.455 4.20 0.00 40.20 2.45
2047 2258 2.539346 GCTGTGCTAAGCTGTCAATG 57.461 50.000 4.20 0.00 40.20 2.82
2057 2268 5.247862 TGAAATCTCATTGAGCTGTGCTAA 58.752 37.500 8.89 0.00 39.88 3.09
2114 2325 4.764172 CATCCAACAAGGGAAACAAAACA 58.236 39.130 0.00 0.00 41.12 2.83
2122 2333 0.482446 ACCAGCATCCAACAAGGGAA 59.518 50.000 0.00 0.00 41.12 3.97
2125 2336 3.676873 GCAATAACCAGCATCCAACAAGG 60.677 47.826 0.00 0.00 39.47 3.61
2137 2348 5.163513 GGTCAAGAATGTTGCAATAACCAG 58.836 41.667 0.59 0.00 0.00 4.00
2144 2355 4.751767 AAAAGGGTCAAGAATGTTGCAA 57.248 36.364 0.00 0.00 0.00 4.08
2177 2388 9.876245 ACACATCAATGCATGGGTCAAGAATTG 62.876 40.741 0.00 0.00 35.30 2.32
2178 2389 4.468510 ACATCAATGCATGGGTCAAGAATT 59.531 37.500 0.00 0.00 0.00 2.17
2179 2390 4.028131 ACATCAATGCATGGGTCAAGAAT 58.972 39.130 0.00 0.00 0.00 2.40
2180 2391 3.193903 CACATCAATGCATGGGTCAAGAA 59.806 43.478 0.00 0.00 0.00 2.52
2181 2392 2.756207 CACATCAATGCATGGGTCAAGA 59.244 45.455 0.00 0.00 0.00 3.02
2182 2393 2.494471 ACACATCAATGCATGGGTCAAG 59.506 45.455 0.00 0.00 35.30 3.02
2183 2394 2.527497 ACACATCAATGCATGGGTCAA 58.473 42.857 0.00 0.00 35.30 3.18
2184 2395 2.219080 ACACATCAATGCATGGGTCA 57.781 45.000 0.00 0.00 35.30 4.02
2185 2396 2.231964 ACAACACATCAATGCATGGGTC 59.768 45.455 0.00 0.00 39.64 4.46
2186 2397 2.250031 ACAACACATCAATGCATGGGT 58.750 42.857 0.00 0.00 42.55 4.51
2187 2398 3.322211 AACAACACATCAATGCATGGG 57.678 42.857 0.00 0.00 32.91 4.00
2188 2399 6.590677 TGAATTAACAACACATCAATGCATGG 59.409 34.615 0.00 0.00 0.00 3.66
2189 2400 7.583860 TGAATTAACAACACATCAATGCATG 57.416 32.000 0.00 0.00 0.00 4.06
2190 2401 8.604640 TTTGAATTAACAACACATCAATGCAT 57.395 26.923 0.00 0.00 0.00 3.96
2191 2402 7.710044 ACTTTGAATTAACAACACATCAATGCA 59.290 29.630 0.00 0.00 0.00 3.96
2192 2403 8.075593 ACTTTGAATTAACAACACATCAATGC 57.924 30.769 0.00 0.00 0.00 3.56
2217 2428 1.663739 CAACGGTCGAGGAACCTGA 59.336 57.895 0.00 0.00 37.15 3.86
2220 2431 1.161563 TTTGCAACGGTCGAGGAACC 61.162 55.000 0.00 0.00 35.86 3.62
2226 2437 2.356382 AGAACATTTTTGCAACGGTCGA 59.644 40.909 0.00 0.00 0.00 4.20
2230 2441 4.111916 ACAGAAGAACATTTTTGCAACGG 58.888 39.130 0.00 0.00 0.00 4.44
2282 2493 1.070601 GATTGGCCAGTGCACCTTTTT 59.929 47.619 14.63 0.00 40.13 1.94
2283 2494 0.681175 GATTGGCCAGTGCACCTTTT 59.319 50.000 14.63 0.00 40.13 2.27
2287 2498 0.682209 ATCAGATTGGCCAGTGCACC 60.682 55.000 14.63 0.00 40.13 5.01
2288 2499 0.737219 GATCAGATTGGCCAGTGCAC 59.263 55.000 5.02 9.40 40.13 4.57
2289 2500 0.622136 AGATCAGATTGGCCAGTGCA 59.378 50.000 5.02 0.00 40.13 4.57
2290 2501 1.404391 CAAGATCAGATTGGCCAGTGC 59.596 52.381 5.02 0.00 0.00 4.40
2291 2502 2.995283 TCAAGATCAGATTGGCCAGTG 58.005 47.619 5.02 5.41 0.00 3.66
2359 2586 1.676967 GCTTCTGCCTTGGAGTGGG 60.677 63.158 0.00 0.00 0.00 4.61
2369 2596 1.227497 CCGGAGAGATGCTTCTGCC 60.227 63.158 6.88 7.34 38.71 4.85
2393 2620 3.285484 CTGCACAGCCCAGAATTAAGAT 58.715 45.455 0.00 0.00 32.03 2.40
2394 2621 2.715046 CTGCACAGCCCAGAATTAAGA 58.285 47.619 0.00 0.00 32.03 2.10
2436 2665 6.653989 AGTACTACACCGGTGTAATAGTACT 58.346 40.000 42.79 42.79 44.52 2.73
2437 2666 6.927294 AGTACTACACCGGTGTAATAGTAC 57.073 41.667 41.01 41.01 44.47 2.73
2438 2667 6.990349 GGTAGTACTACACCGGTGTAATAGTA 59.010 42.308 39.00 35.27 44.47 1.82
2439 2668 5.823045 GGTAGTACTACACCGGTGTAATAGT 59.177 44.000 39.00 36.18 44.47 2.12
2474 2709 1.635660 GTTTAATTCGTTGCACGTCGC 59.364 47.619 8.22 3.44 43.14 5.19


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

AutoCloner maintained by Alex Coulton.