Multiple sequence alignment - TraesCS5A01G490100

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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 TraesCS5A01G490100 chr5A 100.000 3393 0 0 1 3393 659719662 659723054 0.000000e+00 6266.0
1 TraesCS5A01G490100 chr5A 94.340 53 2 1 560 612 533944284 533944233 2.810000e-11 80.5
2 TraesCS5A01G490100 chr4D 91.128 2694 119 55 743 3393 482779331 482776715 0.000000e+00 3541.0
3 TraesCS5A01G490100 chr4D 89.205 352 30 4 410 759 482779694 482779349 1.870000e-117 433.0
4 TraesCS5A01G490100 chr4D 91.765 85 6 1 264 347 211388332 211388248 2.140000e-22 117.0
5 TraesCS5A01G490100 chr4B 90.265 1921 110 38 704 2610 612765744 612763887 0.000000e+00 2440.0
6 TraesCS5A01G490100 chr4B 93.218 634 35 6 2608 3240 612763694 612763068 0.000000e+00 926.0
7 TraesCS5A01G490100 chr4B 85.040 742 74 20 1 715 612766782 612766051 0.000000e+00 721.0
8 TraesCS5A01G490100 chr4B 88.776 98 10 1 264 360 282886665 282886568 5.950000e-23 119.0
9 TraesCS5A01G490100 chr4B 86.047 86 11 1 264 348 598409387 598409302 1.300000e-14 91.6
10 TraesCS5A01G490100 chr2D 85.714 98 13 1 264 360 9395967 9395870 5.990000e-18 102.0
11 TraesCS5A01G490100 chr2B 87.356 87 10 1 263 348 12879046 12878960 7.750000e-17 99.0
12 TraesCS5A01G490100 chr1B 84.884 86 12 1 264 348 484131791 484131876 6.030000e-13 86.1
13 TraesCS5A01G490100 chr1B 84.884 86 12 1 264 348 484198003 484198088 6.030000e-13 86.1
14 TraesCS5A01G490100 chr7D 82.609 92 15 1 270 360 135337614 135337523 2.810000e-11 80.5
15 TraesCS5A01G490100 chr5D 95.918 49 2 0 560 608 420277226 420277178 2.810000e-11 80.5
16 TraesCS5A01G490100 chr5D 88.710 62 4 3 381 440 274701193 274701253 4.700000e-09 73.1
17 TraesCS5A01G490100 chr5D 83.117 77 11 2 532 608 252217164 252217238 6.080000e-08 69.4
18 TraesCS5A01G490100 chr4A 95.918 49 2 0 559 607 330086769 330086817 2.810000e-11 80.5
19 TraesCS5A01G490100 chr3D 95.918 49 2 0 560 608 157099356 157099404 2.810000e-11 80.5
20 TraesCS5A01G490100 chr7A 92.727 55 3 1 554 608 627610614 627610561 1.010000e-10 78.7
21 TraesCS5A01G490100 chr7A 91.228 57 3 2 554 610 625430290 625430236 3.630000e-10 76.8


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 TraesCS5A01G490100 chr5A 659719662 659723054 3392 False 6266.000000 6266 100.000000 1 3393 1 chr5A.!!$F1 3392
1 TraesCS5A01G490100 chr4D 482776715 482779694 2979 True 1987.000000 3541 90.166500 410 3393 2 chr4D.!!$R2 2983
2 TraesCS5A01G490100 chr4B 612763068 612766782 3714 True 1362.333333 2440 89.507667 1 3240 3 chr4B.!!$R3 3239

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
954 1333 0.239879 CACGGGAAAACACCAATCCG 59.760 55.0 0.0 0.0 42.69 4.18 F
987 1367 0.889186 GCAGGGGCGAGTGAGAAAAA 60.889 55.0 0.0 0.0 0.00 1.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2271 2678 0.033366 TTCGCAGTAGCAGCAAGTGA 59.967 50.0 0.00 0.00 42.27 3.41 R
2404 2815 0.036577 CTGAAGAGGTCCTGGCAGTG 60.037 60.0 14.43 5.19 0.00 3.66 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 1.760086 CGTCCCCTGAGCTGAGGAT 60.760 63.158 22.21 0.00 34.69 3.24
50 51 4.722700 ATTGCTTGGCCGAGGCGT 62.723 61.111 22.06 4.46 43.06 5.68
67 68 2.740826 TAAGTCACGGCCAAGCGC 60.741 61.111 2.24 0.00 0.00 5.92
87 88 2.263852 CAAGGAGCAGAGCGAGCA 59.736 61.111 0.00 0.00 0.00 4.26
92 93 1.373999 GAGCAGAGCGAGCACAAGT 60.374 57.895 0.00 0.00 0.00 3.16
106 107 2.980233 AAGTGCCACGAGCTTGCC 60.980 61.111 0.00 0.00 44.23 4.52
140 141 0.992802 GCGTGAGAAGATGTTCGACC 59.007 55.000 0.00 0.00 37.79 4.79
148 149 2.376808 AGATGTTCGACCAGCTTGAG 57.623 50.000 0.00 0.00 0.00 3.02
172 173 5.065731 GGAGGATGATGAGATGTTTGACAAC 59.934 44.000 0.00 0.00 0.00 3.32
174 175 4.201851 GGATGATGAGATGTTTGACAACGG 60.202 45.833 0.00 0.00 35.40 4.44
176 177 1.960417 TGAGATGTTTGACAACGGCA 58.040 45.000 0.00 0.00 35.40 5.69
236 237 6.204882 GTGTAGCTAGTTTTGGTCTCAATGTT 59.795 38.462 0.00 0.00 32.28 2.71
260 261 6.489603 TGTGGTAGGGATGTTTAATTGTGAT 58.510 36.000 0.00 0.00 0.00 3.06
302 319 9.699703 GAGTCATCTCCACTAACTTATTTATCC 57.300 37.037 0.00 0.00 34.87 2.59
305 322 8.651389 TCATCTCCACTAACTTATTTATCCCAG 58.349 37.037 0.00 0.00 0.00 4.45
307 324 6.385759 TCTCCACTAACTTATTTATCCCAGCA 59.614 38.462 0.00 0.00 0.00 4.41
309 326 7.224297 TCCACTAACTTATTTATCCCAGCATC 58.776 38.462 0.00 0.00 0.00 3.91
310 327 6.998074 CCACTAACTTATTTATCCCAGCATCA 59.002 38.462 0.00 0.00 0.00 3.07
312 329 8.562892 CACTAACTTATTTATCCCAGCATCAAG 58.437 37.037 0.00 0.00 0.00 3.02
313 330 6.396829 AACTTATTTATCCCAGCATCAAGC 57.603 37.500 0.00 0.00 46.19 4.01
327 344 0.745486 TCAAGCATGCCACCTCATCG 60.745 55.000 15.66 0.00 0.00 3.84
335 352 3.897141 TGCCACCTCATCGTACAATTA 57.103 42.857 0.00 0.00 0.00 1.40
342 359 6.705825 CCACCTCATCGTACAATTATGAATGA 59.294 38.462 0.00 0.00 0.00 2.57
361 378 4.576216 TGAGATAAGACTCGCCTCAATC 57.424 45.455 0.00 0.00 39.49 2.67
365 382 2.100605 AAGACTCGCCTCAATCCAAC 57.899 50.000 0.00 0.00 0.00 3.77
366 383 1.270907 AGACTCGCCTCAATCCAACT 58.729 50.000 0.00 0.00 0.00 3.16
367 384 1.066573 AGACTCGCCTCAATCCAACTG 60.067 52.381 0.00 0.00 0.00 3.16
475 494 8.220559 ACTTTGGCTGTCATATTATGAACCTAT 58.779 33.333 7.93 0.00 41.69 2.57
494 513 9.750125 GAACCTATATTTTCATCAACCAATTCC 57.250 33.333 0.00 0.00 0.00 3.01
536 561 9.897744 ATACATGTTTTATGTATAATGTGCAGC 57.102 29.630 2.30 0.00 41.77 5.25
539 564 5.355630 TGTTTTATGTATAATGTGCAGCGGT 59.644 36.000 0.00 0.00 0.00 5.68
550 575 3.891324 TGTGCAGCGGTTGTTTAATTAC 58.109 40.909 0.00 0.00 0.00 1.89
588 613 1.129811 CCGTCCCAAAATAAGTGTCGC 59.870 52.381 0.00 0.00 0.00 5.19
609 635 7.438757 TGTCGCTGATTTAGTACAACTTTGTTA 59.561 33.333 0.00 0.00 42.35 2.41
759 1101 3.119280 TCGATCGTTTTCATACTGAGCCA 60.119 43.478 15.94 0.00 0.00 4.75
760 1136 3.000322 CGATCGTTTTCATACTGAGCCAC 60.000 47.826 7.03 0.00 0.00 5.01
772 1148 2.205074 CTGAGCCACGGATGATGTTAC 58.795 52.381 0.00 0.00 0.00 2.50
774 1150 2.027653 TGAGCCACGGATGATGTTACAA 60.028 45.455 0.00 0.00 0.00 2.41
791 1167 2.635443 AATTGTCGCCAAAGCCCGG 61.635 57.895 0.00 0.00 33.44 5.73
822 1198 2.048597 ATGTTGAACGAGCGGCGA 60.049 55.556 12.98 0.00 44.57 5.54
855 1231 2.047179 GTGGCCACGAACTCCCTC 60.047 66.667 22.49 0.00 0.00 4.30
906 1285 1.972660 CTTTCCCCTCGATCGGCCTT 61.973 60.000 16.41 0.00 0.00 4.35
907 1286 2.252072 TTTCCCCTCGATCGGCCTTG 62.252 60.000 16.41 0.82 0.00 3.61
908 1287 3.154473 CCCCTCGATCGGCCTTGA 61.154 66.667 16.41 0.00 0.00 3.02
909 1288 2.419198 CCCTCGATCGGCCTTGAG 59.581 66.667 16.41 3.64 0.00 3.02
910 1289 2.279784 CCTCGATCGGCCTTGAGC 60.280 66.667 16.41 0.00 42.60 4.26
954 1333 0.239879 CACGGGAAAACACCAATCCG 59.760 55.000 0.00 0.00 42.69 4.18
987 1367 0.889186 GCAGGGGCGAGTGAGAAAAA 60.889 55.000 0.00 0.00 0.00 1.94
1317 1710 4.513442 ACTGAACTGCACACTGAAACTTA 58.487 39.130 0.00 0.00 0.00 2.24
1636 2029 3.065306 CCACCGCCTTCACCTACA 58.935 61.111 0.00 0.00 0.00 2.74
1821 2217 4.468689 GAGCAGTGGTACGGCCCC 62.469 72.222 0.00 0.00 40.20 5.80
2241 2646 2.358369 TCGACGTGCGTCCTCTCT 60.358 61.111 17.47 0.00 41.76 3.10
2284 2691 2.213499 ACTTGTGTCACTTGCTGCTAC 58.787 47.619 4.27 0.00 0.00 3.58
2288 2695 0.945743 TGTCACTTGCTGCTACTGCG 60.946 55.000 0.00 0.00 43.34 5.18
2295 2702 3.751175 ACTTGCTGCTACTGCGAAAATAA 59.249 39.130 0.00 0.00 43.34 1.40
2297 2704 4.757799 TGCTGCTACTGCGAAAATAAAA 57.242 36.364 0.00 0.00 43.34 1.52
2298 2705 4.472286 TGCTGCTACTGCGAAAATAAAAC 58.528 39.130 0.00 0.00 43.34 2.43
2300 2707 4.788609 GCTGCTACTGCGAAAATAAAACTC 59.211 41.667 0.00 0.00 43.34 3.01
2306 2713 6.481954 ACTGCGAAAATAAAACTCCTACAG 57.518 37.500 0.00 0.00 0.00 2.74
2325 2736 8.529476 TCCTACAGTTCTTTCTTAATACTGACC 58.471 37.037 0.00 0.00 38.74 4.02
2359 2770 1.598183 CGTGTGTAGGAGATAGCTGCG 60.598 57.143 0.00 0.00 37.57 5.18
2397 2808 4.416738 GGAGGCCACCTGACCTGC 62.417 72.222 12.67 0.00 36.05 4.85
2456 2867 9.996554 TCACATCTTTACATAGAAAGTGAAGAA 57.003 29.630 4.95 0.00 42.42 2.52
2504 2916 6.226787 AGCCATACTCATACTGTAAATCTGC 58.773 40.000 0.00 0.00 0.00 4.26
2509 2921 6.491714 ACTCATACTGTAAATCTGCCATCT 57.508 37.500 0.00 0.00 0.00 2.90
2510 2922 6.286758 ACTCATACTGTAAATCTGCCATCTG 58.713 40.000 0.00 0.00 0.00 2.90
2511 2923 5.614308 TCATACTGTAAATCTGCCATCTGG 58.386 41.667 0.00 0.00 38.53 3.86
2516 2941 4.769688 TGTAAATCTGCCATCTGGTACTG 58.230 43.478 0.00 0.00 37.57 2.74
2553 2978 3.243805 TGCAAAATCATGAACTGGTGTGG 60.244 43.478 0.00 0.00 0.00 4.17
2569 2994 2.521708 GGTGTGCCAGCCCTTTGT 60.522 61.111 0.00 0.00 34.09 2.83
2570 2995 2.133641 GGTGTGCCAGCCCTTTGTT 61.134 57.895 0.00 0.00 34.09 2.83
2571 2996 1.067916 GTGTGCCAGCCCTTTGTTG 59.932 57.895 0.00 0.00 0.00 3.33
2572 2997 2.029518 GTGCCAGCCCTTTGTTGC 59.970 61.111 0.00 0.00 0.00 4.17
2573 2998 3.233231 TGCCAGCCCTTTGTTGCC 61.233 61.111 0.00 0.00 0.00 4.52
2574 2999 4.007644 GCCAGCCCTTTGTTGCCC 62.008 66.667 0.00 0.00 0.00 5.36
2730 3362 8.739972 AGACAAGTTTTTCATTAGACACAAAGT 58.260 29.630 0.00 0.00 0.00 2.66
2765 3397 3.917985 ACACAAAGAACAAACGAACTTGC 59.082 39.130 0.00 0.00 0.00 4.01
2847 3481 7.069578 ACCAGGACACAACTACTTACTATATGG 59.930 40.741 0.00 0.00 0.00 2.74
2941 3575 3.878160 AGAATCGACCTGTTCTCTTCC 57.122 47.619 0.00 0.00 28.93 3.46
3102 3736 2.042297 TCCAAGTCCAATATTGCCACCA 59.958 45.455 10.11 0.00 0.00 4.17
3105 3739 4.648762 CCAAGTCCAATATTGCCACCATTA 59.351 41.667 10.11 0.00 0.00 1.90
3249 3883 6.054860 AGGTCATGCTGAAAGTAACACTAT 57.945 37.500 0.00 0.00 35.30 2.12
3285 3920 9.800433 CATAGTATTATCCAGCTAAGATCACTG 57.200 37.037 1.82 0.00 0.00 3.66
3298 3933 7.171678 AGCTAAGATCACTGTTACAAAGTTGAC 59.828 37.037 0.00 0.00 0.00 3.18
3299 3934 7.042051 GCTAAGATCACTGTTACAAAGTTGACA 60.042 37.037 0.00 0.00 0.00 3.58
3302 3937 8.225603 AGATCACTGTTACAAAGTTGACATTT 57.774 30.769 0.00 0.00 0.00 2.32
3370 4005 8.213679 ACATTATGCAGATACCAAAGTCTGTAT 58.786 33.333 10.07 10.07 45.53 2.29
3378 4013 9.046296 CAGATACCAAAGTCTGTATTGTAATCC 57.954 37.037 0.00 0.00 37.62 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 3.737850 CAATGGTCCTTATCCTCAGCTC 58.262 50.000 0.00 0.00 0.00 4.09
50 51 2.740826 GCGCTTGGCCGTGACTTA 60.741 61.111 0.00 0.00 34.80 2.24
67 68 4.441695 TCGCTCTGCTCCTTGGCG 62.442 66.667 0.00 0.00 45.93 5.69
87 88 2.546494 GCAAGCTCGTGGCACTTGT 61.546 57.895 16.72 0.00 42.20 3.16
123 124 1.996191 GCTGGTCGAACATCTTCTCAC 59.004 52.381 2.20 0.00 0.00 3.51
140 141 2.699321 TCTCATCATCCTCCTCAAGCTG 59.301 50.000 0.00 0.00 0.00 4.24
148 149 4.774124 TGTCAAACATCTCATCATCCTCC 58.226 43.478 0.00 0.00 0.00 4.30
174 175 1.014564 GTCGTAGTGTCTGGCCTTGC 61.015 60.000 3.32 0.00 0.00 4.01
176 177 0.317479 GTGTCGTAGTGTCTGGCCTT 59.683 55.000 3.32 0.00 0.00 4.35
184 185 5.532406 TGACTAAAACTAGGTGTCGTAGTGT 59.468 40.000 0.00 0.00 35.62 3.55
187 188 7.909121 CACTATGACTAAAACTAGGTGTCGTAG 59.091 40.741 18.02 18.02 45.38 3.51
236 237 5.882040 TCACAATTAAACATCCCTACCACA 58.118 37.500 0.00 0.00 0.00 4.17
260 261 8.915036 GGAGATGACTCTCTTAGGTTTATACAA 58.085 37.037 2.91 0.00 46.11 2.41
267 284 4.941713 AGTGGAGATGACTCTCTTAGGTT 58.058 43.478 2.91 0.00 46.11 3.50
307 324 1.688772 GATGAGGTGGCATGCTTGAT 58.311 50.000 18.92 1.35 0.00 2.57
309 326 1.028330 ACGATGAGGTGGCATGCTTG 61.028 55.000 18.92 1.90 0.00 4.01
310 327 0.541392 TACGATGAGGTGGCATGCTT 59.459 50.000 18.92 0.65 0.00 3.91
312 329 0.461870 TGTACGATGAGGTGGCATGC 60.462 55.000 9.90 9.90 0.00 4.06
313 330 2.022764 TTGTACGATGAGGTGGCATG 57.977 50.000 0.00 0.00 0.00 4.06
314 331 3.281727 AATTGTACGATGAGGTGGCAT 57.718 42.857 0.00 0.00 0.00 4.40
315 332 2.779755 AATTGTACGATGAGGTGGCA 57.220 45.000 0.00 0.00 0.00 4.92
316 333 4.377021 TCATAATTGTACGATGAGGTGGC 58.623 43.478 0.00 0.00 0.00 5.01
317 334 6.705825 TCATTCATAATTGTACGATGAGGTGG 59.294 38.462 0.00 0.00 31.50 4.61
318 335 7.653311 TCTCATTCATAATTGTACGATGAGGTG 59.347 37.037 15.29 3.23 35.17 4.00
335 352 4.586421 TGAGGCGAGTCTTATCTCATTCAT 59.414 41.667 0.00 0.00 34.46 2.57
342 359 3.300388 TGGATTGAGGCGAGTCTTATCT 58.700 45.455 0.00 0.00 0.00 1.98
351 368 4.503123 CCATATACAGTTGGATTGAGGCGA 60.503 45.833 0.00 0.00 34.81 5.54
468 487 9.750125 GGAATTGGTTGATGAAAATATAGGTTC 57.250 33.333 0.00 0.00 0.00 3.62
475 494 7.013846 GGATACCGGAATTGGTTGATGAAAATA 59.986 37.037 9.46 0.00 43.56 1.40
494 513 9.760077 AAAACATGTATAAACTAGAGGATACCG 57.240 33.333 0.00 0.00 37.17 4.02
536 561 6.677027 TTTCATTGCGTAATTAAACAACCG 57.323 33.333 0.00 0.00 0.00 4.44
566 591 3.068560 CGACACTTATTTTGGGACGGAA 58.931 45.455 0.00 0.00 0.00 4.30
570 595 3.071479 TCAGCGACACTTATTTTGGGAC 58.929 45.455 0.00 0.00 0.00 4.46
613 639 7.526041 TCTGCATACCCATATTTTCATAACCT 58.474 34.615 0.00 0.00 0.00 3.50
649 676 4.335037 GGAGAGAGAAATTTTAGCTGCCTG 59.665 45.833 0.00 0.00 0.00 4.85
655 682 5.762711 GGATGGAGGAGAGAGAAATTTTAGC 59.237 44.000 0.00 0.00 0.00 3.09
759 1101 3.063452 GCGACAATTGTAACATCATCCGT 59.937 43.478 11.95 0.00 0.00 4.69
760 1136 3.546020 GGCGACAATTGTAACATCATCCG 60.546 47.826 11.95 8.52 0.00 4.18
855 1231 3.061848 GTGGGCGTGGTTGGGATG 61.062 66.667 0.00 0.00 0.00 3.51
891 1270 3.154473 TCAAGGCCGATCGAGGGG 61.154 66.667 18.66 0.00 0.00 4.79
912 1291 0.531532 CGGGCTATCCTGTTGCTCAG 60.532 60.000 3.18 3.18 43.27 3.35
1257 1647 3.055675 CGTAACCCTACCCATTGTCTTGA 60.056 47.826 0.00 0.00 0.00 3.02
1689 2085 1.451028 GATGCAGTGCTCCACCTCC 60.451 63.158 17.60 0.00 34.49 4.30
2266 2673 2.212652 CAGTAGCAGCAAGTGACACAA 58.787 47.619 8.59 0.00 0.00 3.33
2268 2675 0.514691 GCAGTAGCAGCAAGTGACAC 59.485 55.000 0.00 0.00 41.58 3.67
2271 2678 0.033366 TTCGCAGTAGCAGCAAGTGA 59.967 50.000 0.00 0.00 42.27 3.41
2273 2680 1.593196 TTTTCGCAGTAGCAGCAAGT 58.407 45.000 0.00 0.00 42.27 3.16
2284 2691 6.481954 ACTGTAGGAGTTTTATTTTCGCAG 57.518 37.500 0.00 0.00 0.00 5.18
2297 2704 9.310449 TCAGTATTAAGAAAGAACTGTAGGAGT 57.690 33.333 0.00 0.00 38.88 3.85
2298 2705 9.575783 GTCAGTATTAAGAAAGAACTGTAGGAG 57.424 37.037 0.00 0.00 38.88 3.69
2300 2707 7.488471 CGGTCAGTATTAAGAAAGAACTGTAGG 59.512 40.741 0.00 0.00 38.88 3.18
2306 2713 5.638234 AGCACGGTCAGTATTAAGAAAGAAC 59.362 40.000 0.00 0.00 0.00 3.01
2342 2753 0.319125 GCCGCAGCTATCTCCTACAC 60.319 60.000 0.00 0.00 35.50 2.90
2402 2813 2.811542 GAAGAGGTCCTGGCAGTGGC 62.812 65.000 14.43 10.30 40.13 5.01
2403 2814 1.298014 GAAGAGGTCCTGGCAGTGG 59.702 63.158 14.43 0.00 0.00 4.00
2404 2815 0.036577 CTGAAGAGGTCCTGGCAGTG 60.037 60.000 14.43 5.19 0.00 3.66
2405 2816 1.197430 CCTGAAGAGGTCCTGGCAGT 61.197 60.000 14.43 0.00 34.16 4.40
2406 2817 1.601171 CCTGAAGAGGTCCTGGCAG 59.399 63.158 7.75 7.75 34.16 4.85
2504 2916 4.766891 ACCAATTTGTTCAGTACCAGATGG 59.233 41.667 0.00 0.00 42.17 3.51
2509 2921 5.063204 CAGAGACCAATTTGTTCAGTACCA 58.937 41.667 0.00 0.00 0.00 3.25
2510 2922 4.083271 GCAGAGACCAATTTGTTCAGTACC 60.083 45.833 0.00 0.00 0.00 3.34
2511 2923 4.515191 TGCAGAGACCAATTTGTTCAGTAC 59.485 41.667 0.00 0.00 0.00 2.73
2516 2941 5.984926 TGATTTTGCAGAGACCAATTTGTTC 59.015 36.000 0.00 0.00 0.00 3.18
2553 2978 1.067916 CAACAAAGGGCTGGCACAC 59.932 57.895 2.88 0.00 0.00 3.82
2569 2994 1.602323 CGTTGGTAAGCCAGGGCAA 60.602 57.895 13.63 0.00 46.91 4.52
2570 2995 2.033448 CGTTGGTAAGCCAGGGCA 59.967 61.111 13.63 0.00 46.91 5.36
2571 2996 2.038837 GTCGTTGGTAAGCCAGGGC 61.039 63.158 0.97 0.97 46.91 5.19
2572 2997 0.673644 CTGTCGTTGGTAAGCCAGGG 60.674 60.000 0.00 0.00 46.91 4.45
2573 2998 1.298859 GCTGTCGTTGGTAAGCCAGG 61.299 60.000 0.00 0.00 46.91 4.45
2574 2999 2.162716 GCTGTCGTTGGTAAGCCAG 58.837 57.895 0.00 0.00 46.91 4.85
2604 3037 3.252701 CACAGATCATAATCAAGCAGGCC 59.747 47.826 0.00 0.00 34.07 5.19
2606 3235 3.881089 TGCACAGATCATAATCAAGCAGG 59.119 43.478 0.00 0.00 33.30 4.85
2654 3286 6.736110 TGGTCTTGGTAGTTAGTACTGTTT 57.264 37.500 5.39 0.00 35.78 2.83
2675 3307 7.364939 ATGAAATGTCATATTCCCCAAGTTTGG 60.365 37.037 0.00 3.85 42.94 3.28
2730 3362 5.877564 TGTTCTTTGTGTGATCAGTTGTGTA 59.122 36.000 0.00 0.00 0.00 2.90
2765 3397 1.810030 GAAGTAAGAGGGCGTGCGG 60.810 63.158 0.00 0.00 0.00 5.69
2847 3481 1.733399 GAGACAGCGTCGTGGGTTC 60.733 63.158 0.00 0.00 37.67 3.62
2930 3564 2.864968 CGAAGTACGGGAAGAGAACAG 58.135 52.381 0.00 0.00 38.46 3.16
2979 3613 4.598022 TCTCATTGCCATTATGTCCACAA 58.402 39.130 0.00 0.00 0.00 3.33
2980 3614 4.233632 TCTCATTGCCATTATGTCCACA 57.766 40.909 0.00 0.00 0.00 4.17
3081 3715 2.042297 TGGTGGCAATATTGGACTTGGA 59.958 45.455 17.02 0.00 0.00 3.53
3102 3736 1.462616 TGATGCAAGGCAACGCTAAT 58.537 45.000 0.00 0.00 43.62 1.73
3105 3739 1.509463 CATGATGCAAGGCAACGCT 59.491 52.632 0.00 0.00 43.62 5.07
3266 3901 7.418337 TGTAACAGTGATCTTAGCTGGATAA 57.582 36.000 0.00 0.00 34.79 1.75
3361 3996 7.589958 AGATCTCGGATTACAATACAGACTT 57.410 36.000 0.00 0.00 0.00 3.01
3363 3998 8.516234 ACATAGATCTCGGATTACAATACAGAC 58.484 37.037 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.