Multiple sequence alignment - TraesCS5B01G419200

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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 TraesCS5B01G419200 chr5B 100.000 2713 0 0 1 2713 594923222 594920510 0.000000e+00 5011
1 TraesCS5B01G419200 chr5A 88.904 2163 134 43 2 2092 605233928 605231800 0.000000e+00 2567
2 TraesCS5B01G419200 chr5A 85.954 477 41 10 2091 2563 605231757 605231303 1.130000e-133 486
3 TraesCS5B01G419200 chr5A 90.789 152 13 1 2562 2712 605231144 605230993 4.580000e-48 202
4 TraesCS5B01G419200 chr5D 86.540 1679 136 38 469 2092 483717847 483716204 0.000000e+00 1766
5 TraesCS5B01G419200 chr5D 91.693 626 34 9 2091 2713 483716161 483715551 0.000000e+00 852
6 TraesCS5B01G419200 chr5D 79.500 400 32 18 93 473 483718295 483717927 3.490000e-59 239
7 TraesCS5B01G419200 chr4D 79.008 786 114 26 963 1718 201184883 201184119 8.730000e-135 490
8 TraesCS5B01G419200 chr7D 81.818 572 73 11 968 1516 289882463 289881900 4.120000e-123 451


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 TraesCS5B01G419200 chr5B 594920510 594923222 2712 True 5011.000000 5011 100.000 1 2713 1 chr5B.!!$R1 2712
1 TraesCS5B01G419200 chr5A 605230993 605233928 2935 True 1085.000000 2567 88.549 2 2712 3 chr5A.!!$R1 2710
2 TraesCS5B01G419200 chr5D 483715551 483718295 2744 True 952.333333 1766 85.911 93 2713 3 chr5D.!!$R1 2620
3 TraesCS5B01G419200 chr4D 201184119 201184883 764 True 490.000000 490 79.008 963 1718 1 chr4D.!!$R1 755
4 TraesCS5B01G419200 chr7D 289881900 289882463 563 True 451.000000 451 81.818 968 1516 1 chr7D.!!$R1 548

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
245 257 0.169009 GCAGAGCAACCATTTCGACC 59.831 55.0 0.0 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2195 2434 0.03213 GCGTGACCTGTTGAGTCAGA 59.968 55.0 0.0 0.0 44.57 3.27 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
39 40 3.622163 CCAGCATGCTTCAAAAACAAACA 59.378 39.130 19.98 0.00 31.97 2.83
40 41 4.094590 CCAGCATGCTTCAAAAACAAACAA 59.905 37.500 19.98 0.00 31.97 2.83
41 42 5.391736 CCAGCATGCTTCAAAAACAAACAAA 60.392 36.000 19.98 0.00 31.97 2.83
42 43 5.508922 CAGCATGCTTCAAAAACAAACAAAC 59.491 36.000 19.98 0.00 0.00 2.93
43 44 5.180868 AGCATGCTTCAAAAACAAACAAACA 59.819 32.000 16.30 0.00 0.00 2.83
44 45 5.855395 GCATGCTTCAAAAACAAACAAACAA 59.145 32.000 11.37 0.00 0.00 2.83
45 46 6.361748 GCATGCTTCAAAAACAAACAAACAAA 59.638 30.769 11.37 0.00 0.00 2.83
46 47 7.616919 GCATGCTTCAAAAACAAACAAACAAAC 60.617 33.333 11.37 0.00 0.00 2.93
47 48 6.785191 TGCTTCAAAAACAAACAAACAAACA 58.215 28.000 0.00 0.00 0.00 2.83
50 51 8.047283 GCTTCAAAAACAAACAAACAAACAAAC 58.953 29.630 0.00 0.00 0.00 2.93
57 58 7.443218 ACAAACAAACAAACAAACAAAAAGC 57.557 28.000 0.00 0.00 0.00 3.51
81 82 5.852282 ATTAGACCACAAAGCAAACAACT 57.148 34.783 0.00 0.00 0.00 3.16
83 84 3.088532 AGACCACAAAGCAAACAACTCA 58.911 40.909 0.00 0.00 0.00 3.41
88 89 4.925054 CCACAAAGCAAACAACTCATATGG 59.075 41.667 2.13 0.00 0.00 2.74
245 257 0.169009 GCAGAGCAACCATTTCGACC 59.831 55.000 0.00 0.00 0.00 4.79
271 283 0.901827 TCTATTGCGAGTTGGCTGGA 59.098 50.000 0.00 0.00 0.00 3.86
329 342 1.764180 TTTTTGTGCCGTCCGACGTC 61.764 55.000 19.13 5.18 40.58 4.34
330 343 4.986587 TTGTGCCGTCCGACGTCG 62.987 66.667 30.33 30.33 40.58 5.12
374 394 3.356290 CATGTCCAAGGTTTTCCCCTAG 58.644 50.000 0.00 0.00 41.86 3.02
400 420 7.932491 GGGATGTATGAATATGATCTCCAGATG 59.068 40.741 0.00 0.00 34.37 2.90
488 594 2.097036 TGATGGCATCTTTTCCAGCTG 58.903 47.619 26.49 6.78 39.36 4.24
517 623 3.123804 ACGCTTTCACTGTTCACTACTG 58.876 45.455 0.00 0.00 0.00 2.74
523 629 1.528586 CACTGTTCACTACTGCTGTGC 59.471 52.381 6.48 0.00 35.58 4.57
573 679 1.893808 AGCCGTGCACACAAAGGAG 60.894 57.895 18.64 0.00 0.00 3.69
750 864 2.280524 CGCGTTCCACTTCCACCA 60.281 61.111 0.00 0.00 0.00 4.17
753 867 0.741915 GCGTTCCACTTCCACCAAAA 59.258 50.000 0.00 0.00 0.00 2.44
798 927 7.981102 AAATCTACTCAGGTTTCAACTAACC 57.019 36.000 0.00 0.00 46.45 2.85
855 991 2.285977 GTTCAAACGAGGTCACCAACT 58.714 47.619 0.00 0.00 0.00 3.16
879 1015 4.069232 CTCCGCGACCAGCCAAGA 62.069 66.667 8.23 0.00 44.76 3.02
880 1016 3.376935 CTCCGCGACCAGCCAAGAT 62.377 63.158 8.23 0.00 44.76 2.40
912 1051 2.433838 CGTACTGCTGCTGCTGCT 60.434 61.111 27.67 14.24 41.07 4.24
913 1052 2.737688 CGTACTGCTGCTGCTGCTG 61.738 63.158 27.75 27.75 41.07 4.41
959 1098 2.943036 TTCTGTTCCCACCCAAGTAC 57.057 50.000 0.00 0.00 0.00 2.73
960 1099 2.112279 TCTGTTCCCACCCAAGTACT 57.888 50.000 0.00 0.00 0.00 2.73
961 1100 1.975680 TCTGTTCCCACCCAAGTACTC 59.024 52.381 0.00 0.00 0.00 2.59
989 1128 2.237392 GCAGGGGAAAGCTAGAAGAGAA 59.763 50.000 0.00 0.00 0.00 2.87
990 1129 3.307762 GCAGGGGAAAGCTAGAAGAGAAA 60.308 47.826 0.00 0.00 0.00 2.52
997 1141 5.998363 GGAAAGCTAGAAGAGAAAGGAACAA 59.002 40.000 0.00 0.00 0.00 2.83
1050 1194 1.960040 ATTCCATCTGCCGTCTCGCA 61.960 55.000 0.00 0.00 37.19 5.10
1138 1282 0.591659 CCATCCATCATTCTGCAGCG 59.408 55.000 9.47 0.00 0.00 5.18
1139 1283 1.306148 CATCCATCATTCTGCAGCGT 58.694 50.000 9.47 0.00 0.00 5.07
1339 1514 3.251972 GCTGAAGGTTTTCTTGGTCTGAG 59.748 47.826 0.00 0.00 35.50 3.35
1351 1526 3.266510 TGGTCTGAGCGAATAAATGCT 57.733 42.857 2.07 0.00 45.90 3.79
1375 1550 7.162062 GCTAGATTGTTCAGCGTTTTATTTACG 59.838 37.037 0.00 0.00 41.71 3.18
1421 1598 3.860754 GCCATGAAACAAACCTAACCTGC 60.861 47.826 0.00 0.00 0.00 4.85
1434 1611 0.176680 AACCTGCGCATACCTCTGAG 59.823 55.000 12.24 0.00 0.00 3.35
1462 1642 2.514803 ACAACACTGGTATTTCTGGGC 58.485 47.619 0.00 0.00 0.00 5.36
1463 1643 1.468520 CAACACTGGTATTTCTGGGCG 59.531 52.381 0.00 0.00 0.00 6.13
1467 1647 0.947244 CTGGTATTTCTGGGCGATGC 59.053 55.000 0.00 0.00 0.00 3.91
1472 1652 1.312815 ATTTCTGGGCGATGCTTAGC 58.687 50.000 0.00 0.00 0.00 3.09
1559 1740 2.760374 CAGGATCAAGATAACCTCGGC 58.240 52.381 0.00 0.00 0.00 5.54
1575 1756 0.821711 CGGCAGGTTTTCAGACCCAA 60.822 55.000 0.00 0.00 40.73 4.12
1616 1797 2.095919 CCGGTTCGTTCAATTCTTGGAC 60.096 50.000 0.00 0.00 35.75 4.02
1649 1830 1.467920 CCACAAGAAATCCCCAGAGC 58.532 55.000 0.00 0.00 0.00 4.09
1783 1966 4.065088 TGACATGTAAAGTGACCTTGAGC 58.935 43.478 0.00 0.00 0.00 4.26
1845 2028 8.877864 TGTTCAAGTTCTAATTATGGACCAAT 57.122 30.769 0.00 0.00 0.00 3.16
1852 2035 8.647796 AGTTCTAATTATGGACCAATACATCGA 58.352 33.333 0.00 0.00 29.54 3.59
1901 2084 6.959361 TGAGTTAGTTTTCTGCAACTGATTC 58.041 36.000 0.00 0.00 37.57 2.52
1946 2138 7.816995 TGAACTCACAAAAACAAATATATGGCC 59.183 33.333 0.00 0.00 0.00 5.36
1965 2157 4.896482 TGGCCAACCAATTAACTACTGTTT 59.104 37.500 0.61 0.00 45.37 2.83
1966 2158 5.364157 TGGCCAACCAATTAACTACTGTTTT 59.636 36.000 0.61 0.00 45.37 2.43
1970 2162 9.783256 GCCAACCAATTAACTACTGTTTTATAG 57.217 33.333 0.00 0.00 37.59 1.31
2012 2204 9.582431 CTGAAGAGCAAATGTGAATTTTCATAT 57.418 29.630 0.00 0.00 40.17 1.78
2013 2205 9.361315 TGAAGAGCAAATGTGAATTTTCATATG 57.639 29.630 3.69 0.00 38.73 1.78
2015 2207 8.070034 AGAGCAAATGTGAATTTTCATATGGA 57.930 30.769 2.13 0.00 38.73 3.41
2129 2368 7.963981 TCAATTCGATGATACAAGACTTGTTC 58.036 34.615 25.10 20.11 42.22 3.18
2173 2412 7.226128 CAGTAGGGAGAAACGATAAAATTACCC 59.774 40.741 0.00 0.00 0.00 3.69
2269 2508 5.864418 ATCTTGTTTCATAAGCATGCCAT 57.136 34.783 15.66 6.44 31.73 4.40
2282 2521 1.134818 CATGCCATGCTGCTGTGAAAT 60.135 47.619 0.00 0.00 0.00 2.17
2288 2527 2.512485 TGCTGCTGTGAAATTGTTGG 57.488 45.000 0.00 0.00 0.00 3.77
2290 2529 2.034939 TGCTGCTGTGAAATTGTTGGAG 59.965 45.455 0.00 0.00 0.00 3.86
2313 2552 4.024387 GCTCACGTGTTCTTATGGTTTTCA 60.024 41.667 16.51 0.00 0.00 2.69
2314 2553 5.666969 TCACGTGTTCTTATGGTTTTCAG 57.333 39.130 16.51 0.00 0.00 3.02
2315 2554 5.120399 TCACGTGTTCTTATGGTTTTCAGT 58.880 37.500 16.51 0.00 0.00 3.41
2316 2555 5.587043 TCACGTGTTCTTATGGTTTTCAGTT 59.413 36.000 16.51 0.00 0.00 3.16
2317 2556 6.094325 TCACGTGTTCTTATGGTTTTCAGTTT 59.906 34.615 16.51 0.00 0.00 2.66
2318 2557 6.750039 CACGTGTTCTTATGGTTTTCAGTTTT 59.250 34.615 7.58 0.00 0.00 2.43
2319 2558 6.970613 ACGTGTTCTTATGGTTTTCAGTTTTC 59.029 34.615 0.00 0.00 0.00 2.29
2385 2625 1.234821 TTGTGTAGAGGGCAAAAGCG 58.765 50.000 0.00 0.00 0.00 4.68
2409 2649 4.293415 GCAACTCAGAACCAACAGAATTG 58.707 43.478 0.00 0.00 0.00 2.32
2413 2653 5.388654 ACTCAGAACCAACAGAATTGGATT 58.611 37.500 12.55 3.46 42.06 3.01
2414 2654 5.835280 ACTCAGAACCAACAGAATTGGATTT 59.165 36.000 12.55 0.00 42.06 2.17
2415 2655 7.004086 ACTCAGAACCAACAGAATTGGATTTA 58.996 34.615 12.55 0.00 42.06 1.40
2416 2656 7.671398 ACTCAGAACCAACAGAATTGGATTTAT 59.329 33.333 12.55 0.00 42.06 1.40
2417 2657 8.421249 TCAGAACCAACAGAATTGGATTTATT 57.579 30.769 12.55 0.00 42.06 1.40
2418 2658 8.869109 TCAGAACCAACAGAATTGGATTTATTT 58.131 29.630 12.55 0.00 42.06 1.40
2527 2777 8.002984 ACTTTTAGATTTTCTTTTCACCGGAA 57.997 30.769 9.46 0.00 0.00 4.30
2528 2778 8.471609 ACTTTTAGATTTTCTTTTCACCGGAAA 58.528 29.630 9.46 0.00 41.13 3.13
2584 2994 5.574891 AGAACATTATGGCGCACAAATAA 57.425 34.783 10.83 8.07 0.00 1.40
2657 3068 5.765182 CAGAACTTACACAGTCCAAGGAATT 59.235 40.000 0.00 0.00 32.94 2.17
2663 3074 3.821033 ACACAGTCCAAGGAATTAACTGC 59.179 43.478 5.17 0.00 40.74 4.40
2675 3086 4.340381 GGAATTAACTGCCAGCATTGAGAT 59.660 41.667 0.00 0.00 0.00 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.440880 TGCTGGTCAAAAACTGGATTTTG 58.559 39.130 12.11 12.11 46.66 2.44
15 16 3.096489 TGTTTTTGAAGCATGCTGGTC 57.904 42.857 23.48 16.76 0.00 4.02
40 41 9.093970 GGTCTAATAGCTTTTTGTTTGTTTGTT 57.906 29.630 0.00 0.00 0.00 2.83
41 42 8.254508 TGGTCTAATAGCTTTTTGTTTGTTTGT 58.745 29.630 0.00 0.00 0.00 2.83
42 43 8.539674 GTGGTCTAATAGCTTTTTGTTTGTTTG 58.460 33.333 0.00 0.00 0.00 2.93
43 44 8.254508 TGTGGTCTAATAGCTTTTTGTTTGTTT 58.745 29.630 0.00 0.00 0.00 2.83
44 45 7.777095 TGTGGTCTAATAGCTTTTTGTTTGTT 58.223 30.769 0.00 0.00 0.00 2.83
45 46 7.341445 TGTGGTCTAATAGCTTTTTGTTTGT 57.659 32.000 0.00 0.00 0.00 2.83
46 47 8.641499 TTTGTGGTCTAATAGCTTTTTGTTTG 57.359 30.769 0.00 0.00 0.00 2.93
47 48 7.438160 GCTTTGTGGTCTAATAGCTTTTTGTTT 59.562 33.333 0.00 0.00 0.00 2.83
50 51 6.446318 TGCTTTGTGGTCTAATAGCTTTTTG 58.554 36.000 0.00 0.00 0.00 2.44
57 58 6.970484 AGTTGTTTGCTTTGTGGTCTAATAG 58.030 36.000 0.00 0.00 0.00 1.73
245 257 2.797156 CCAACTCGCAATAGATTCTCCG 59.203 50.000 0.00 0.00 0.00 4.63
329 342 2.478894 ACACAGAATTTTACCGACAGCG 59.521 45.455 0.00 0.00 37.24 5.18
330 343 3.364964 CCACACAGAATTTTACCGACAGC 60.365 47.826 0.00 0.00 0.00 4.40
374 394 7.429374 TCTGGAGATCATATTCATACATCCC 57.571 40.000 0.00 0.00 0.00 3.85
400 420 1.707632 CAGAGTCAGTAGCTGCACAC 58.292 55.000 4.12 0.00 0.00 3.82
480 514 0.246635 GCGTAGAGGTTCAGCTGGAA 59.753 55.000 15.13 4.13 0.00 3.53
481 515 0.612174 AGCGTAGAGGTTCAGCTGGA 60.612 55.000 15.13 0.46 36.73 3.86
482 516 0.247736 AAGCGTAGAGGTTCAGCTGG 59.752 55.000 15.13 0.00 38.28 4.85
488 594 3.027974 ACAGTGAAAGCGTAGAGGTTC 57.972 47.619 0.00 0.00 40.06 3.62
517 623 2.145905 GCAATACGCAACGCACAGC 61.146 57.895 0.00 0.00 41.79 4.40
663 777 2.820330 CTTAGTTAGCCTCTGAGCTGC 58.180 52.381 0.00 0.00 44.67 5.25
878 1014 1.502231 ACGCAAGGTATCGCATCATC 58.498 50.000 0.00 0.00 46.39 2.92
879 1015 2.035961 AGTACGCAAGGTATCGCATCAT 59.964 45.455 0.00 0.00 46.39 2.45
880 1016 1.407618 AGTACGCAAGGTATCGCATCA 59.592 47.619 0.00 0.00 46.39 3.07
912 1051 2.691526 CGTCCAGGGTGTATTAGTAGCA 59.308 50.000 0.00 0.00 0.00 3.49
913 1052 2.035576 CCGTCCAGGGTGTATTAGTAGC 59.964 54.545 0.00 0.00 35.97 3.58
914 1053 2.035576 GCCGTCCAGGGTGTATTAGTAG 59.964 54.545 0.00 0.00 41.48 2.57
959 1098 0.034670 CTTTCCCCTGCTCCAAGGAG 60.035 60.000 11.80 11.80 44.56 3.69
960 1099 2.078452 CTTTCCCCTGCTCCAAGGA 58.922 57.895 0.00 0.00 40.02 3.36
961 1100 1.680314 GCTTTCCCCTGCTCCAAGG 60.680 63.158 0.00 0.00 37.05 3.61
989 1128 1.577328 CGACGCCATGCTTGTTCCTT 61.577 55.000 0.00 0.00 0.00 3.36
990 1129 2.034879 CGACGCCATGCTTGTTCCT 61.035 57.895 0.00 0.00 0.00 3.36
997 1141 2.107750 CATCTCCGACGCCATGCT 59.892 61.111 0.00 0.00 0.00 3.79
1138 1282 4.077188 GGCTTGCTCACACGCGAC 62.077 66.667 15.93 0.00 41.77 5.19
1339 1514 5.622856 GCTGAACAATCTAGCATTTATTCGC 59.377 40.000 0.00 0.00 37.40 4.70
1351 1526 7.118101 ACCGTAAATAAAACGCTGAACAATCTA 59.882 33.333 0.00 0.00 39.00 1.98
1375 1550 3.435671 ACCTCATCGTTCGATTTGAAACC 59.564 43.478 4.92 0.00 38.60 3.27
1421 1598 4.332543 TGTTTATTTGCTCAGAGGTATGCG 59.667 41.667 0.00 0.00 0.00 4.73
1434 1611 7.116233 CCAGAAATACCAGTGTTGTTTATTTGC 59.884 37.037 0.00 0.00 0.00 3.68
1559 1740 2.666317 ACCTTTGGGTCTGAAAACCTG 58.334 47.619 0.00 0.00 43.38 4.00
1575 1756 1.742761 CGATCCTCATGTGCAACCTT 58.257 50.000 0.00 0.00 34.36 3.50
1583 1764 1.144057 GAACCGGCGATCCTCATGT 59.856 57.895 9.30 0.00 0.00 3.21
1586 1767 2.552585 GAACGAACCGGCGATCCTCA 62.553 60.000 9.30 0.00 34.83 3.86
1649 1830 3.630148 CGCCGTATCTGCGCAAGG 61.630 66.667 13.05 11.15 46.01 3.61
1757 1940 7.413438 GCTCAAGGTCACTTTACATGTCATAAG 60.413 40.741 0.00 7.64 33.81 1.73
1783 1966 3.005684 TGCTCAAGTTTGGCATGGTTAAG 59.994 43.478 0.00 0.00 32.21 1.85
1884 2067 6.855836 TGATATGGAATCAGTTGCAGAAAAC 58.144 36.000 0.00 0.00 39.12 2.43
1901 2084 9.933723 TGAGTTCATACTTCATACATGATATGG 57.066 33.333 0.00 0.00 36.56 2.74
1928 2111 7.678947 TTGGTTGGCCATATATTTGTTTTTG 57.321 32.000 6.09 0.00 45.56 2.44
2019 2211 9.774742 GACAAGAAATACTATTGTTTCATGACC 57.225 33.333 12.26 0.00 34.98 4.02
2055 2250 5.489792 TTGGAGATATCCAATAGGTCTGC 57.510 43.478 17.86 0.00 44.11 4.26
2111 2350 6.812160 ACCTTACGAACAAGTCTTGTATCATC 59.188 38.462 18.45 11.16 44.59 2.92
2129 2368 4.106029 ACTGCTATGTGTACACCTTACG 57.894 45.455 22.91 9.62 0.00 3.18
2173 2412 7.704047 TCAGACGATCATTTTAACTGATCTGAG 59.296 37.037 18.54 9.26 44.42 3.35
2195 2434 0.032130 GCGTGACCTGTTGAGTCAGA 59.968 55.000 0.00 0.00 44.57 3.27
2269 2508 2.030371 TCCAACAATTTCACAGCAGCA 58.970 42.857 0.00 0.00 0.00 4.41
2282 2521 1.134521 AGAACACGTGAGCTCCAACAA 60.135 47.619 25.01 0.00 0.00 2.83
2288 2527 2.960819 ACCATAAGAACACGTGAGCTC 58.039 47.619 25.01 15.00 0.00 4.09
2290 2529 4.024387 TGAAAACCATAAGAACACGTGAGC 60.024 41.667 25.01 13.33 0.00 4.26
2313 2552 2.024414 GTTGACAGGCCTGTGAAAACT 58.976 47.619 42.40 17.02 45.05 2.66
2314 2553 1.067060 GGTTGACAGGCCTGTGAAAAC 59.933 52.381 42.40 34.84 45.05 2.43
2315 2554 1.064017 AGGTTGACAGGCCTGTGAAAA 60.064 47.619 42.40 28.04 45.05 2.29
2316 2555 0.550914 AGGTTGACAGGCCTGTGAAA 59.449 50.000 42.40 30.48 45.05 2.69
2317 2556 0.179020 CAGGTTGACAGGCCTGTGAA 60.179 55.000 42.40 36.39 45.05 3.18
2318 2557 1.451504 CAGGTTGACAGGCCTGTGA 59.548 57.895 42.40 32.80 45.05 3.58
2319 2558 4.069869 CAGGTTGACAGGCCTGTG 57.930 61.111 42.40 22.94 45.05 3.66
2360 2599 5.527214 GCTTTTGCCCTCTACACAAAATTTT 59.473 36.000 0.00 0.00 41.11 1.82
2364 2603 2.034053 CGCTTTTGCCCTCTACACAAAA 59.966 45.455 0.00 0.00 43.93 2.44
2365 2604 1.606668 CGCTTTTGCCCTCTACACAAA 59.393 47.619 0.00 0.00 43.93 2.83
2380 2620 1.279840 GTTCTGAGTTGCGCGCTTT 59.720 52.632 33.29 17.44 0.00 3.51
2385 2625 0.040958 CTGTTGGTTCTGAGTTGCGC 60.041 55.000 0.00 0.00 0.00 6.09
2414 2654 9.906660 GTCCAGTGACATGAACAAAAATAAATA 57.093 29.630 0.00 0.00 41.37 1.40
2415 2655 8.420222 TGTCCAGTGACATGAACAAAAATAAAT 58.580 29.630 0.00 0.00 46.40 1.40
2416 2656 7.776107 TGTCCAGTGACATGAACAAAAATAAA 58.224 30.769 0.00 0.00 46.40 1.40
2417 2657 7.340122 TGTCCAGTGACATGAACAAAAATAA 57.660 32.000 0.00 0.00 46.40 1.40
2418 2658 6.951062 TGTCCAGTGACATGAACAAAAATA 57.049 33.333 0.00 0.00 46.40 1.40
2419 2659 5.850557 TGTCCAGTGACATGAACAAAAAT 57.149 34.783 0.00 0.00 46.40 1.82
2457 2706 5.950544 AGCTATTGGTGTAGATTGTGGTA 57.049 39.130 0.00 0.00 0.00 3.25
2458 2707 4.844349 AGCTATTGGTGTAGATTGTGGT 57.156 40.909 0.00 0.00 0.00 4.16
2460 2709 8.668510 AATCTAAGCTATTGGTGTAGATTGTG 57.331 34.615 11.87 0.00 39.11 3.33
2465 2714 9.154632 TGGATAAATCTAAGCTATTGGTGTAGA 57.845 33.333 0.00 0.00 0.00 2.59
2466 2715 9.950496 ATGGATAAATCTAAGCTATTGGTGTAG 57.050 33.333 0.00 0.00 0.00 2.74
2501 2751 8.002984 TCCGGTGAAAAGAAAATCTAAAAGTT 57.997 30.769 0.00 0.00 0.00 2.66
2528 2778 9.679661 ATTGGTGTAATTTCTTGGAAAGTTTTT 57.320 25.926 0.00 0.00 46.34 1.94
2584 2994 6.293955 CGTCTTGAACCTGGACAACATTATTT 60.294 38.462 0.00 0.00 0.00 1.40
2657 3068 4.766373 TCAAAATCTCAATGCTGGCAGTTA 59.234 37.500 17.16 6.20 0.00 2.24
2663 3074 3.094572 AGGGTCAAAATCTCAATGCTGG 58.905 45.455 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.