Multiple sequence alignment - TraesCS1A01G380100

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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 TraesCS1A01G380100 chr1A 100.000 2450 0 0 1 2450 551631964 551634413 0.000000e+00 4525
1 TraesCS1A01G380100 chr1D 88.970 2475 215 20 12 2450 460146937 460149389 0.000000e+00 3005
2 TraesCS1A01G380100 chr1B 88.862 2487 216 23 1 2450 632013766 632016228 0.000000e+00 3001
3 TraesCS1A01G380100 chr2D 84.676 2519 299 36 1 2450 528325828 528323328 0.000000e+00 2433
4 TraesCS1A01G380100 chr3B 83.081 2512 330 55 1 2450 720992627 720990149 0.000000e+00 2196
5 TraesCS1A01G380100 chr3B 83.066 2498 332 54 12 2450 721042222 721039757 0.000000e+00 2185
6 TraesCS1A01G380100 chr3B 83.767 2150 296 30 329 2450 721049026 721046902 0.000000e+00 1988
7 TraesCS1A01G380100 chr3D 82.919 2535 327 62 1 2450 545158566 545156053 0.000000e+00 2185
8 TraesCS1A01G380100 chr3D 82.903 2515 309 58 12 2450 545036240 545033771 0.000000e+00 2150
9 TraesCS1A01G380100 chr3D 82.709 2510 342 52 12 2450 545063805 545061317 0.000000e+00 2146
10 TraesCS1A01G380100 chr3D 82.764 2518 318 58 1 2450 544826979 544824510 0.000000e+00 2139
11 TraesCS1A01G380100 chr3D 84.341 2101 280 29 381 2448 545076365 545074281 0.000000e+00 2012
12 TraesCS1A01G380100 chr3D 93.029 373 26 0 276 648 263277403 263277031 1.660000e-151 545
13 TraesCS1A01G380100 chr3A 82.993 2499 332 48 12 2450 681655965 681653500 0.000000e+00 2174
14 TraesCS1A01G380100 chr3A 82.942 2515 320 51 12 2450 681565164 681562683 0.000000e+00 2167
15 TraesCS1A01G380100 chr3A 82.893 2496 341 44 12 2450 681526560 681524094 0.000000e+00 2165
16 TraesCS1A01G380100 chr3A 81.912 2532 341 62 1 2450 681666190 681663694 0.000000e+00 2030
17 TraesCS1A01G380100 chr3A 84.592 1986 257 24 488 2450 681468465 681466506 0.000000e+00 1927
18 TraesCS1A01G380100 chr3A 84.110 1781 241 15 707 2450 681635207 681633432 0.000000e+00 1683
19 TraesCS1A01G380100 chr3A 80.242 744 91 26 12 710 681641101 681640369 2.170000e-140 508
20 TraesCS1A01G380100 chr3A 80.344 524 55 22 12 498 681469019 681468507 1.080000e-93 353


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 TraesCS1A01G380100 chr1A 551631964 551634413 2449 False 4525 4525 100.000 1 2450 1 chr1A.!!$F1 2449
1 TraesCS1A01G380100 chr1D 460146937 460149389 2452 False 3005 3005 88.970 12 2450 1 chr1D.!!$F1 2438
2 TraesCS1A01G380100 chr1B 632013766 632016228 2462 False 3001 3001 88.862 1 2450 1 chr1B.!!$F1 2449
3 TraesCS1A01G380100 chr2D 528323328 528325828 2500 True 2433 2433 84.676 1 2450 1 chr2D.!!$R1 2449
4 TraesCS1A01G380100 chr3B 720990149 720992627 2478 True 2196 2196 83.081 1 2450 1 chr3B.!!$R1 2449
5 TraesCS1A01G380100 chr3B 721039757 721042222 2465 True 2185 2185 83.066 12 2450 1 chr3B.!!$R2 2438
6 TraesCS1A01G380100 chr3B 721046902 721049026 2124 True 1988 1988 83.767 329 2450 1 chr3B.!!$R3 2121
7 TraesCS1A01G380100 chr3D 545156053 545158566 2513 True 2185 2185 82.919 1 2450 1 chr3D.!!$R6 2449
8 TraesCS1A01G380100 chr3D 545033771 545036240 2469 True 2150 2150 82.903 12 2450 1 chr3D.!!$R3 2438
9 TraesCS1A01G380100 chr3D 545061317 545063805 2488 True 2146 2146 82.709 12 2450 1 chr3D.!!$R4 2438
10 TraesCS1A01G380100 chr3D 544824510 544826979 2469 True 2139 2139 82.764 1 2450 1 chr3D.!!$R2 2449
11 TraesCS1A01G380100 chr3D 545074281 545076365 2084 True 2012 2012 84.341 381 2448 1 chr3D.!!$R5 2067
12 TraesCS1A01G380100 chr3A 681653500 681655965 2465 True 2174 2174 82.993 12 2450 1 chr3A.!!$R5 2438
13 TraesCS1A01G380100 chr3A 681562683 681565164 2481 True 2167 2167 82.942 12 2450 1 chr3A.!!$R2 2438
14 TraesCS1A01G380100 chr3A 681524094 681526560 2466 True 2165 2165 82.893 12 2450 1 chr3A.!!$R1 2438
15 TraesCS1A01G380100 chr3A 681663694 681666190 2496 True 2030 2030 81.912 1 2450 1 chr3A.!!$R6 2449
16 TraesCS1A01G380100 chr3A 681633432 681635207 1775 True 1683 1683 84.110 707 2450 1 chr3A.!!$R3 1743
17 TraesCS1A01G380100 chr3A 681466506 681469019 2513 True 1140 1927 82.468 12 2450 2 chr3A.!!$R7 2438
18 TraesCS1A01G380100 chr3A 681640369 681641101 732 True 508 508 80.242 12 710 1 chr3A.!!$R4 698

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
935 1130 0.533755 GATGATAGCAACCTGCCGCT 60.534 55.0 0.0 0.0 46.52 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1934 2171 0.105039 CCTCCAACTCCGTGGCTATC 59.895 60.0 0.0 0.0 38.68 2.08 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
66 75 3.924238 CAACGGATGCCTACATTGC 57.076 52.632 0.00 0.00 36.35 3.56
67 76 1.093972 CAACGGATGCCTACATTGCA 58.906 50.000 0.00 0.00 43.97 4.08
114 153 4.081406 CCCACCAATTCATCTTTGAGTCA 58.919 43.478 0.00 0.00 32.27 3.41
137 182 6.549364 TCACAGAACCCAATCAAAACATACTT 59.451 34.615 0.00 0.00 0.00 2.24
265 333 6.889301 AATCCAAGCATAGATACAACCATG 57.111 37.500 0.00 0.00 0.00 3.66
291 361 1.002888 CCAGTCAGAGTCACAAGGCAT 59.997 52.381 0.00 0.00 0.00 4.40
334 441 4.929808 ACACATACTTAGTTGTACAGCAGC 59.070 41.667 12.54 0.00 0.00 5.25
347 455 5.757886 TGTACAGCAGCAAGAAATTAACAC 58.242 37.500 0.00 0.00 0.00 3.32
473 588 4.063998 AGAGAATATTGCAGCATCGTCA 57.936 40.909 0.00 0.00 0.00 4.35
498 666 4.390297 CGTCCTCTTGTTCATCTCCTTTTC 59.610 45.833 0.00 0.00 0.00 2.29
504 672 3.679389 TGTTCATCTCCTTTTCCTCAGC 58.321 45.455 0.00 0.00 0.00 4.26
526 694 4.221924 GCCTTAAAGTTTCTGGCCCATAAA 59.778 41.667 16.56 0.00 37.81 1.40
557 725 7.041848 AGGCTAAGCTTGTTTTTATGCTTTTTG 60.042 33.333 9.86 0.00 42.22 2.44
641 833 4.508662 GAAGTTTGTGGATACTGGAGAGG 58.491 47.826 0.00 0.00 37.61 3.69
815 1010 1.490490 AGACTTGTCCAAGAGCACCAA 59.510 47.619 13.69 0.00 40.79 3.67
830 1025 2.584791 CACCAAACAGCGTAGATTTGC 58.415 47.619 0.00 0.00 32.98 3.68
834 1029 3.670055 CCAAACAGCGTAGATTTGCTTTG 59.330 43.478 0.00 0.00 40.03 2.77
909 1104 3.119173 GCTTGGCTATTTGTGTGGCATTA 60.119 43.478 0.00 0.00 36.21 1.90
935 1130 0.533755 GATGATAGCAACCTGCCGCT 60.534 55.000 0.00 0.00 46.52 5.52
957 1152 4.009675 TGAAGCTGTTGTTCAACTCAAGT 58.990 39.130 15.18 0.00 30.89 3.16
997 1192 5.003804 GGCAGTCAACTCCAGAAATAGAAA 58.996 41.667 0.00 0.00 0.00 2.52
1004 1199 7.334421 GTCAACTCCAGAAATAGAAACTATGCA 59.666 37.037 0.00 0.00 0.00 3.96
1043 1238 0.761187 TTCTCAAGCTCACAGGCTGT 59.239 50.000 15.88 15.88 42.24 4.40
1048 1243 0.183492 AAGCTCACAGGCTGTTCCAA 59.817 50.000 19.43 3.00 42.24 3.53
1063 1261 6.351286 GGCTGTTCCAACCTCAAAAATGATAT 60.351 38.462 0.00 0.00 34.01 1.63
1110 1308 2.223203 GCACTTGAGGCATCTGAATTCG 60.223 50.000 0.00 0.00 0.00 3.34
1133 1331 2.553904 CCTCCTTGAAGTTGAGCATGGT 60.554 50.000 0.00 0.00 32.75 3.55
1135 1333 1.815003 CCTTGAAGTTGAGCATGGTCC 59.185 52.381 21.58 7.69 0.00 4.46
1136 1334 2.553904 CCTTGAAGTTGAGCATGGTCCT 60.554 50.000 21.58 9.91 0.00 3.85
1167 1365 0.473755 TGTGTTGGAGCCTGACACAT 59.526 50.000 18.67 0.00 46.09 3.21
1212 1410 2.652590 GCTTCCAGATCATCTTGGCTT 58.347 47.619 0.00 0.00 0.00 4.35
1216 1414 3.044156 TCCAGATCATCTTGGCTTAGCT 58.956 45.455 3.59 0.00 0.00 3.32
1223 1421 1.303561 CTTGGCTTAGCTGGGTGCA 60.304 57.895 3.59 0.00 45.94 4.57
1264 1462 6.238076 GGCAAGTTTGTTGTTATCACCTTTTG 60.238 38.462 0.00 0.00 0.00 2.44
1284 1482 3.804036 TGTGAACAATGGAAGAAGACGT 58.196 40.909 0.00 0.00 0.00 4.34
1313 1511 1.707989 TGTGGTTCCCCTGATGCTTAA 59.292 47.619 0.00 0.00 0.00 1.85
1372 1570 3.019564 GCAATGCCATCTGGTAACTCTT 58.980 45.455 0.00 0.00 37.57 2.85
1374 1572 2.672961 TGCCATCTGGTAACTCTTCG 57.327 50.000 0.00 0.00 37.57 3.79
1377 1575 2.678190 GCCATCTGGTAACTCTTCGCTT 60.678 50.000 0.00 0.00 37.57 4.68
1390 1612 0.323302 TTCGCTTGATGTGGCTACCA 59.677 50.000 0.00 0.00 0.00 3.25
1404 1626 2.758979 GGCTACCAGAACACTAGCAGTA 59.241 50.000 0.00 0.00 35.63 2.74
1446 1668 3.774766 ACTCATGTAGGCCACTGATTGTA 59.225 43.478 5.01 0.00 0.00 2.41
1568 1790 3.874316 TGGCCTGGACATTAGATAGGAT 58.126 45.455 3.32 0.00 0.00 3.24
1620 1842 0.030908 GAATCCGACCACTAGAGCCG 59.969 60.000 0.00 0.00 0.00 5.52
1689 1911 4.037858 CTTCAACAGCAGGATATTTGCC 57.962 45.455 8.92 0.00 42.48 4.52
1740 1962 4.035792 CGGATATCCAATACCTCTAGCTCG 59.964 50.000 21.70 0.00 35.14 5.03
1749 1971 2.054232 CCTCTAGCTCGTGGAGGTTA 57.946 55.000 13.49 0.00 46.68 2.85
1758 1980 4.080863 AGCTCGTGGAGGTTATTGATTTCT 60.081 41.667 0.00 0.00 37.04 2.52
1784 2006 4.281182 AGGTAGCTGGGTAATATCTGTTCG 59.719 45.833 0.00 0.00 0.00 3.95
1785 2007 4.038883 GGTAGCTGGGTAATATCTGTTCGT 59.961 45.833 0.00 0.00 0.00 3.85
1806 2028 4.336993 CGTCTTAGGCTCAGATACTTGAGT 59.663 45.833 1.07 0.00 45.07 3.41
1811 2033 9.815306 TCTTAGGCTCAGATACTTGAGTAATAT 57.185 33.333 0.00 0.00 45.07 1.28
1824 2046 6.825213 ACTTGAGTAATATCATCTTGCTGCAA 59.175 34.615 15.16 15.16 0.00 4.08
1831 2053 1.820519 TCATCTTGCTGCAAATGTCCC 59.179 47.619 23.72 0.00 0.00 4.46
1832 2054 0.813184 ATCTTGCTGCAAATGTCCCG 59.187 50.000 16.74 2.93 0.00 5.14
1849 2071 2.582978 GGAGGTACTGCCGGTTCC 59.417 66.667 1.90 0.00 42.57 3.62
1850 2072 2.582978 GAGGTACTGCCGGTTCCC 59.417 66.667 1.90 0.00 41.55 3.97
1851 2073 2.203877 AGGTACTGCCGGTTCCCA 60.204 61.111 1.90 0.00 43.70 4.37
1852 2074 1.833787 GAGGTACTGCCGGTTCCCAA 61.834 60.000 1.90 0.00 41.55 4.12
1964 2201 2.548480 GGAGTTGGAGGTCGTTGAAAAG 59.452 50.000 0.00 0.00 0.00 2.27
1975 2212 2.171870 TCGTTGAAAAGGGAGAAGTGGT 59.828 45.455 0.00 0.00 31.46 4.16
2018 2255 2.221055 GTGTCTCCACGATGTGTTGTTC 59.779 50.000 0.00 0.00 0.00 3.18
2051 2288 8.961293 ATGGTGGTAATGAATCCATGAATTAT 57.039 30.769 0.00 0.00 37.48 1.28
2078 2315 6.763135 TCATCTACAATGCAGGTCTTTACATC 59.237 38.462 0.00 0.00 0.00 3.06
2083 2320 2.551270 TGCAGGTCTTTACATCTCCCT 58.449 47.619 0.00 0.00 0.00 4.20
2112 2349 5.070446 ACCAATATCAGCAGGATAAACGAGA 59.930 40.000 0.00 0.00 41.66 4.04
2129 2366 2.159379 CGAGACACCGATCAATGAGTGA 60.159 50.000 7.91 0.00 41.67 3.41
2140 2377 6.019762 CGATCAATGAGTGAGTCAAAACATG 58.980 40.000 0.00 0.00 40.43 3.21
2141 2378 6.347969 CGATCAATGAGTGAGTCAAAACATGT 60.348 38.462 0.00 0.00 40.43 3.21
2152 2389 2.964464 TCAAAACATGTGTTGGCCTGAT 59.036 40.909 25.17 0.00 38.44 2.90
2177 2414 0.740737 GAACGGGCCCAATCTTCATG 59.259 55.000 24.92 3.98 0.00 3.07
2193 2430 0.816825 CATGGGATGTCAGCCCTTCG 60.817 60.000 26.24 11.17 46.19 3.79
2313 2550 7.657761 AGATCGTTGTAAGAGAACTTGAACATT 59.342 33.333 0.00 0.00 37.53 2.71
2314 2551 6.943981 TCGTTGTAAGAGAACTTGAACATTG 58.056 36.000 0.00 0.00 37.53 2.82
2318 2555 5.470098 TGTAAGAGAACTTGAACATTGCCTC 59.530 40.000 0.00 0.00 37.53 4.70
2329 2566 0.738975 CATTGCCTCAGTGATGCTGG 59.261 55.000 19.34 6.84 45.08 4.85
2333 2570 0.743701 GCCTCAGTGATGCTGGTGAG 60.744 60.000 12.62 0.00 45.08 3.51
2339 2579 2.418976 CAGTGATGCTGGTGAGTGATTG 59.581 50.000 0.00 0.00 41.42 2.67
2392 2632 5.023452 TGAGTAACTCCTCATTGCTCCTTA 58.977 41.667 0.00 0.00 37.83 2.69
2445 2685 7.459234 AGATCTTCATGCAGAATTCATATGGA 58.541 34.615 8.44 0.00 35.25 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 77 9.841295 GGGTGTCATGATATAGTTACCTTTAAA 57.159 33.333 0.00 0.00 0.00 1.52
72 83 6.183361 GGTGGGTGTCATGATATAGTTACCTT 60.183 42.308 0.00 0.00 0.00 3.50
93 127 4.520111 TGTGACTCAAAGATGAATTGGTGG 59.480 41.667 0.00 0.00 34.49 4.61
114 153 6.976934 AAGTATGTTTTGATTGGGTTCTGT 57.023 33.333 0.00 0.00 0.00 3.41
265 333 0.109226 GTGACTCTGACTGGGCGTAC 60.109 60.000 0.00 0.00 0.00 3.67
291 361 4.819630 GTGTGTTTACTTTCTCCACATGGA 59.180 41.667 0.00 0.00 43.08 3.41
334 441 6.751425 TGTTCTGCTTGTGTGTTAATTTCTTG 59.249 34.615 0.00 0.00 0.00 3.02
347 455 3.358707 TTGCAATCTGTTCTGCTTGTG 57.641 42.857 0.00 0.00 39.38 3.33
459 574 0.933097 GACGATGACGATGCTGCAAT 59.067 50.000 6.36 0.00 42.66 3.56
473 588 3.370104 AGGAGATGAACAAGAGGACGAT 58.630 45.455 0.00 0.00 0.00 3.73
498 666 2.489722 GCCAGAAACTTTAAGGCTGAGG 59.510 50.000 11.40 3.04 42.01 3.86
504 672 5.993748 TTTATGGGCCAGAAACTTTAAGG 57.006 39.130 21.71 0.00 0.00 2.69
526 694 8.314021 AGCATAAAAACAAGCTTAGCCTTAAAT 58.686 29.630 0.00 0.00 32.52 1.40
557 725 1.422531 ATGAGGTGAGAGAGGGCATC 58.577 55.000 0.00 0.00 0.00 3.91
641 833 3.942829 TGTCTGGTCATCTTTCACATCC 58.057 45.455 0.00 0.00 0.00 3.51
765 957 6.257849 GTGGAATGCAGAACGAGATTACATTA 59.742 38.462 0.00 0.00 0.00 1.90
783 978 3.636300 TGGACAAGTCTTTTGGTGGAATG 59.364 43.478 0.00 0.00 0.00 2.67
815 1010 4.290155 CAACAAAGCAAATCTACGCTGTT 58.710 39.130 0.00 0.00 38.82 3.16
830 1025 5.671329 GCTCTACAAATACTCGCCAACAAAG 60.671 44.000 0.00 0.00 0.00 2.77
834 1029 3.259064 TGCTCTACAAATACTCGCCAAC 58.741 45.455 0.00 0.00 0.00 3.77
909 1104 4.280174 GGCAGGTTGCTATCATCATTTGAT 59.720 41.667 0.67 0.00 44.28 2.57
935 1130 4.009675 ACTTGAGTTGAACAACAGCTTCA 58.990 39.130 17.85 10.63 43.47 3.02
957 1152 4.023291 ACTGCCTTCCAAAACTGAAAGAA 58.977 39.130 0.00 0.00 37.43 2.52
997 1192 4.278419 GGTTTTGTCTTTCACCTGCATAGT 59.722 41.667 0.00 0.00 0.00 2.12
1004 1199 5.449553 AGAAGATGGTTTTGTCTTTCACCT 58.550 37.500 0.00 0.00 34.97 4.00
1043 1238 8.869109 ACTTGAATATCATTTTTGAGGTTGGAA 58.131 29.630 0.00 0.00 0.00 3.53
1048 1243 6.884295 TCGGACTTGAATATCATTTTTGAGGT 59.116 34.615 0.00 0.00 0.00 3.85
1063 1261 0.034896 GTTGAGGGCTCGGACTTGAA 59.965 55.000 0.00 0.00 0.00 2.69
1090 1288 2.223203 GCGAATTCAGATGCCTCAAGTG 60.223 50.000 6.22 0.00 0.00 3.16
1110 1308 0.250901 TGCTCAACTTCAAGGAGGGC 60.251 55.000 0.00 0.00 0.00 5.19
1133 1331 2.819019 CAACACATTACATGCACCAGGA 59.181 45.455 0.00 0.00 0.00 3.86
1135 1333 2.819019 TCCAACACATTACATGCACCAG 59.181 45.455 0.00 0.00 0.00 4.00
1136 1334 2.819019 CTCCAACACATTACATGCACCA 59.181 45.455 0.00 0.00 0.00 4.17
1167 1365 0.605319 CCAAGCTGCCCAAGTTACGA 60.605 55.000 0.00 0.00 0.00 3.43
1212 1410 2.257207 ACTCTAAGTTGCACCCAGCTA 58.743 47.619 0.00 0.00 45.94 3.32
1216 1414 3.412237 GGTAACTCTAAGTTGCACCCA 57.588 47.619 9.58 0.00 41.68 4.51
1264 1462 3.186613 GGACGTCTTCTTCCATTGTTCAC 59.813 47.826 16.46 0.00 32.98 3.18
1313 1511 3.618351 CATCCCAAGATGCTTGAGAGTT 58.382 45.455 8.64 0.00 43.35 3.01
1372 1570 0.108186 CTGGTAGCCACATCAAGCGA 60.108 55.000 0.00 0.00 0.00 4.93
1374 1572 1.740025 GTTCTGGTAGCCACATCAAGC 59.260 52.381 0.00 0.00 0.00 4.01
1377 1575 1.977854 AGTGTTCTGGTAGCCACATCA 59.022 47.619 2.62 0.00 0.00 3.07
1390 1612 6.209589 TCTCTGACAATTACTGCTAGTGTTCT 59.790 38.462 0.00 0.00 0.00 3.01
1404 1626 3.906846 AGTCCCTCTGTTCTCTGACAATT 59.093 43.478 0.00 0.00 0.00 2.32
1435 1657 6.038356 GGAATTTGCTTCATACAATCAGTGG 58.962 40.000 0.00 0.00 35.41 4.00
1446 1668 2.494870 GCACCTCAGGAATTTGCTTCAT 59.505 45.455 0.00 0.00 35.41 2.57
1526 1748 6.476706 GGCCAAGCATAGTCATGATTTAAAAC 59.523 38.462 0.00 0.00 38.70 2.43
1568 1790 5.309638 TCGACAAAATGGTAAACATGGAGA 58.690 37.500 0.00 0.00 40.44 3.71
1620 1842 4.282950 TGATCTGAATGCGAGCAATTTC 57.717 40.909 0.57 3.22 0.00 2.17
1689 1911 2.476051 GTGCCTCGACATGCAACG 59.524 61.111 0.00 0.00 39.57 4.10
1699 1921 1.841663 CGACAAACCAAGGTGCCTCG 61.842 60.000 0.00 0.00 0.00 4.63
1740 1962 9.930693 CTACCTATAGAAATCAATAACCTCCAC 57.069 37.037 0.00 0.00 0.00 4.02
1749 1971 8.506196 TTACCCAGCTACCTATAGAAATCAAT 57.494 34.615 0.00 0.00 0.00 2.57
1758 1980 7.338703 CGAACAGATATTACCCAGCTACCTATA 59.661 40.741 0.00 0.00 0.00 1.31
1784 2006 5.845391 ACTCAAGTATCTGAGCCTAAGAC 57.155 43.478 0.56 0.00 45.72 3.01
1785 2007 9.815306 ATATTACTCAAGTATCTGAGCCTAAGA 57.185 33.333 0.56 0.00 45.72 2.10
1806 2028 6.016024 GGGACATTTGCAGCAAGATGATATTA 60.016 38.462 24.91 5.38 0.00 0.98
1811 2033 1.820519 GGGACATTTGCAGCAAGATGA 59.179 47.619 24.91 8.14 0.00 2.92
1824 2046 1.623542 GGCAGTACCTCCGGGACATT 61.624 60.000 0.00 0.00 36.25 2.71
1831 2053 2.183555 GAACCGGCAGTACCTCCG 59.816 66.667 14.45 14.45 44.89 4.63
1832 2054 2.582978 GGAACCGGCAGTACCTCC 59.417 66.667 0.00 0.00 35.61 4.30
1849 2071 2.233271 AGGATGTCAGTGCTTTGTTGG 58.767 47.619 0.00 0.00 0.00 3.77
1850 2072 3.567164 AGAAGGATGTCAGTGCTTTGTTG 59.433 43.478 0.00 0.00 29.32 3.33
1851 2073 3.825328 AGAAGGATGTCAGTGCTTTGTT 58.175 40.909 0.00 0.00 29.32 2.83
1852 2074 3.498774 AGAAGGATGTCAGTGCTTTGT 57.501 42.857 0.00 0.00 29.32 2.83
1920 2157 7.851228 TCCGTGGCTATCATAGAATTGATAAT 58.149 34.615 0.00 0.00 37.95 1.28
1934 2171 0.105039 CCTCCAACTCCGTGGCTATC 59.895 60.000 0.00 0.00 38.68 2.08
1964 2201 3.483587 TGGCTCACCACTTCTCCC 58.516 61.111 0.00 0.00 42.67 4.30
1975 2212 0.179048 CTGTCACACCACTTGGCTCA 60.179 55.000 0.00 0.00 39.32 4.26
2018 2255 3.003394 TCATTACCACCATTGCCAGAG 57.997 47.619 0.00 0.00 0.00 3.35
2051 2288 7.791029 TGTAAAGACCTGCATTGTAGATGATA 58.209 34.615 3.03 0.00 0.00 2.15
2068 2305 3.010420 GTGCCAAGGGAGATGTAAAGAC 58.990 50.000 0.00 0.00 0.00 3.01
2078 2315 2.579873 CTGATATTGGTGCCAAGGGAG 58.420 52.381 9.65 0.00 39.47 4.30
2083 2320 1.284491 TCCTGCTGATATTGGTGCCAA 59.716 47.619 6.08 6.08 40.47 4.52
2112 2349 2.562738 TGACTCACTCATTGATCGGTGT 59.437 45.455 4.92 0.00 32.17 4.16
2129 2366 2.101249 CAGGCCAACACATGTTTTGACT 59.899 45.455 23.16 17.50 35.83 3.41
2140 2377 0.890542 TCTGTGCATCAGGCCAACAC 60.891 55.000 5.01 6.09 43.76 3.32
2141 2378 0.178995 TTCTGTGCATCAGGCCAACA 60.179 50.000 5.01 0.00 43.76 3.33
2152 2389 3.505790 ATTGGGCCCGTTCTGTGCA 62.506 57.895 19.37 0.00 0.00 4.57
2177 2414 1.153349 GTCGAAGGGCTGACATCCC 60.153 63.158 6.22 6.22 44.25 3.85
2193 2430 2.107950 TGATTGGACGGTGGATTGTC 57.892 50.000 0.00 0.00 0.00 3.18
2279 2516 4.021456 TCTCTTACAACGATCTGCCTGAAA 60.021 41.667 0.00 0.00 0.00 2.69
2282 2519 3.510388 TCTCTTACAACGATCTGCCTG 57.490 47.619 0.00 0.00 0.00 4.85
2318 2555 2.398252 ATCACTCACCAGCATCACTG 57.602 50.000 0.00 0.00 46.77 3.66
2329 2566 2.056094 GCTTTGCCACAATCACTCAC 57.944 50.000 0.00 0.00 0.00 3.51
2392 2632 2.126882 TGCTCTGTATGCTAACCCCAT 58.873 47.619 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.