Multiple sequence alignment - TraesCS7D01G204800

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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 TraesCS7D01G204800 chr7D 100.000 2438 0 0 1 2438 162672915 162675352 0.000000e+00 4503
1 TraesCS7D01G204800 chr7D 92.247 503 35 4 320 819 625105870 625105369 0.000000e+00 710
2 TraesCS7D01G204800 chr7B 92.088 1087 55 17 820 1887 124691956 124693030 0.000000e+00 1502
3 TraesCS7D01G204800 chr7B 85.366 533 49 17 1924 2438 124693038 124693559 2.150000e-145 525
4 TraesCS7D01G204800 chr7A 89.760 1084 57 22 820 1887 163380098 163381143 0.000000e+00 1338
5 TraesCS7D01G204800 chr7A 87.030 532 31 15 1936 2438 163381162 163381684 1.270000e-157 566
6 TraesCS7D01G204800 chr3D 93.432 472 29 2 320 789 305634145 305633674 0.000000e+00 699
7 TraesCS7D01G204800 chr3D 93.249 474 27 5 320 789 20398182 20398654 0.000000e+00 693
8 TraesCS7D01G204800 chr3D 83.436 489 66 10 1 479 230842454 230842937 8.000000e-120 440
9 TraesCS7D01G204800 chr2D 93.446 473 28 3 320 789 81323677 81324149 0.000000e+00 699
10 TraesCS7D01G204800 chr2D 84.411 526 65 13 1 513 39434675 39435196 3.620000e-138 501
11 TraesCS7D01G204800 chr5D 93.220 472 30 2 320 789 386063447 386063918 0.000000e+00 693
12 TraesCS7D01G204800 chr5D 92.229 489 33 5 320 804 376182039 376181552 0.000000e+00 688
13 TraesCS7D01G204800 chr5D 93.023 473 30 3 320 789 480982491 480982963 0.000000e+00 688
14 TraesCS7D01G204800 chr6B 91.451 503 39 4 320 819 431707364 431707865 0.000000e+00 688
15 TraesCS7D01G204800 chr1D 93.038 474 28 5 320 789 475847339 475846867 0.000000e+00 688
16 TraesCS7D01G204800 chr1D 84.665 463 54 11 1 451 474007608 474008065 1.720000e-121 446
17 TraesCS7D01G204800 chr4D 84.959 492 60 9 1 479 484467772 484468262 1.010000e-133 486
18 TraesCS7D01G204800 chr1A 83.074 514 73 11 1 502 524140348 524140859 2.860000e-124 455
19 TraesCS7D01G204800 chr1A 82.066 513 84 8 8 513 574220849 574220338 4.820000e-117 431
20 TraesCS7D01G204800 chr2A 83.678 484 72 7 1 479 516199117 516198636 1.330000e-122 449
21 TraesCS7D01G204800 chr1B 83.469 490 64 12 1 479 195377412 195377895 8.000000e-120 440
22 TraesCS7D01G204800 chr6A 81.836 523 81 13 1 513 322084157 322084675 6.230000e-116 427


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 TraesCS7D01G204800 chr7D 162672915 162675352 2437 False 4503.0 4503 100.000 1 2438 1 chr7D.!!$F1 2437
1 TraesCS7D01G204800 chr7D 625105369 625105870 501 True 710.0 710 92.247 320 819 1 chr7D.!!$R1 499
2 TraesCS7D01G204800 chr7B 124691956 124693559 1603 False 1013.5 1502 88.727 820 2438 2 chr7B.!!$F1 1618
3 TraesCS7D01G204800 chr7A 163380098 163381684 1586 False 952.0 1338 88.395 820 2438 2 chr7A.!!$F1 1618
4 TraesCS7D01G204800 chr2D 39434675 39435196 521 False 501.0 501 84.411 1 513 1 chr2D.!!$F1 512
5 TraesCS7D01G204800 chr6B 431707364 431707865 501 False 688.0 688 91.451 320 819 1 chr6B.!!$F1 499
6 TraesCS7D01G204800 chr1A 524140348 524140859 511 False 455.0 455 83.074 1 502 1 chr1A.!!$F1 501
7 TraesCS7D01G204800 chr1A 574220338 574220849 511 True 431.0 431 82.066 8 513 1 chr1A.!!$R1 505
8 TraesCS7D01G204800 chr6A 322084157 322084675 518 False 427.0 427 81.836 1 513 1 chr6A.!!$F1 512

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
873 891 0.109723 TACTTGTGGGTCCACCTTGC 59.89 55.0 16.57 0.0 45.63 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2124 2190 0.108615 CCACGACGGAGCTCAATCTT 60.109 55.0 17.19 2.77 36.56 2.4 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 67 1.609501 CGTCCTGAGGTCTTCCCCA 60.610 63.158 0.00 0.00 0.00 4.96
159 164 3.764049 GTCCACGCGCGTTGACTC 61.764 66.667 42.30 27.26 37.66 3.36
190 195 4.525949 GCCGCCCCGTCTTCCTAC 62.526 72.222 0.00 0.00 0.00 3.18
192 197 3.136123 CGCCCCGTCTTCCTACGA 61.136 66.667 0.00 0.00 45.68 3.43
227 232 2.655364 CGCGCCGATCTTCGTCAT 60.655 61.111 0.00 0.00 38.40 3.06
266 271 1.226323 CTACTTCGAGCACCGTCGG 60.226 63.158 10.48 10.48 40.49 4.79
267 272 2.594119 CTACTTCGAGCACCGTCGGG 62.594 65.000 17.28 5.79 40.49 5.14
350 363 2.089980 GACTACCTCGACACTGGCTAA 58.910 52.381 0.00 0.00 0.00 3.09
357 370 1.669440 GACACTGGCTAACCCGACA 59.331 57.895 0.00 0.00 35.87 4.35
399 412 3.077519 GCACGGCTACCTCGACCAT 62.078 63.158 0.00 0.00 0.00 3.55
425 438 4.208686 CACCCTACGCTCTCGGCC 62.209 72.222 0.00 0.00 40.69 6.13
455 469 1.064758 TCGGCACAAAGGGCTATCATT 60.065 47.619 0.00 0.00 0.00 2.57
479 495 1.080434 GAGCAACTCGTCGGCTTCT 60.080 57.895 0.00 0.00 38.15 2.85
522 539 2.338984 GACACCGTCCACGAGCTT 59.661 61.111 0.00 0.00 43.02 3.74
524 541 2.805353 CACCGTCCACGAGCTTCG 60.805 66.667 0.00 0.00 46.93 3.79
526 543 4.796231 CCGTCCACGAGCTTCGGG 62.796 72.222 0.00 5.82 45.59 5.14
529 546 1.814527 GTCCACGAGCTTCGGGTAT 59.185 57.895 9.75 0.00 42.76 2.73
569 586 1.137872 CCTGTCGGCTGCTATTCTCTT 59.862 52.381 0.00 0.00 0.00 2.85
649 667 6.217693 GGGGGATGTTAGAGATATATTTGGGT 59.782 42.308 0.00 0.00 0.00 4.51
710 728 4.291249 CCTACCTTATCTCTAGGAGAGGCT 59.709 50.000 3.73 0.00 42.26 4.58
769 787 4.899502 CCCTCGAGGCTCAATAATACATT 58.100 43.478 26.87 0.00 0.00 2.71
790 808 7.267128 ACATTCATCATATTCCGCAACAATTT 58.733 30.769 0.00 0.00 0.00 1.82
798 816 7.980662 TCATATTCCGCAACAATTTCATCAATT 59.019 29.630 0.00 0.00 35.24 2.32
802 820 5.863397 TCCGCAACAATTTCATCAATTCTTC 59.137 36.000 0.00 0.00 32.24 2.87
854 872 5.122396 GCGAAAGTAGATGAAAGGTGAACAT 59.878 40.000 0.00 0.00 0.00 2.71
873 891 0.109723 TACTTGTGGGTCCACCTTGC 59.890 55.000 16.57 0.00 45.63 4.01
895 913 1.141053 AGAAAACGTCACCTGCTTCCT 59.859 47.619 0.00 0.00 0.00 3.36
906 924 3.557595 CACCTGCTTCCTTTCTTATAGCG 59.442 47.826 0.00 0.00 34.65 4.26
909 927 4.054671 CTGCTTCCTTTCTTATAGCGGAG 58.945 47.826 0.00 0.00 39.92 4.63
963 985 0.179215 CTGCGCGAACCAAACTCATC 60.179 55.000 12.10 0.00 0.00 2.92
1068 1100 2.035442 GGCAGCACCGAAGAAGTCC 61.035 63.158 0.00 0.00 0.00 3.85
1149 1181 3.121030 CTCAAGCAGAACGCCGGG 61.121 66.667 2.18 0.00 44.04 5.73
1425 1472 3.992317 GCGGGCTATCGGGAGGTC 61.992 72.222 0.00 0.00 0.00 3.85
1511 1558 5.086058 CGGTTTGTGGAATTCAAATACGAG 58.914 41.667 7.93 0.00 38.71 4.18
1542 1589 4.083003 GCAGGATTCACCGTGTAATTTGAA 60.083 41.667 0.00 0.00 44.74 2.69
1543 1590 5.631026 CAGGATTCACCGTGTAATTTGAAG 58.369 41.667 0.00 0.00 44.74 3.02
1545 1592 5.411669 AGGATTCACCGTGTAATTTGAAGAC 59.588 40.000 0.00 0.00 44.74 3.01
1546 1593 5.411669 GGATTCACCGTGTAATTTGAAGACT 59.588 40.000 0.00 0.00 31.72 3.24
1550 1597 7.591006 TCACCGTGTAATTTGAAGACTTATC 57.409 36.000 0.00 0.00 0.00 1.75
1551 1598 7.383687 TCACCGTGTAATTTGAAGACTTATCT 58.616 34.615 0.00 0.00 36.42 1.98
1552 1599 7.544566 TCACCGTGTAATTTGAAGACTTATCTC 59.455 37.037 0.00 0.00 32.34 2.75
1553 1600 7.545965 CACCGTGTAATTTGAAGACTTATCTCT 59.454 37.037 0.00 0.00 32.34 3.10
1555 1602 8.596380 CCGTGTAATTTGAAGACTTATCTCTTC 58.404 37.037 2.54 2.54 44.52 2.87
1556 1603 9.360093 CGTGTAATTTGAAGACTTATCTCTTCT 57.640 33.333 9.68 0.00 44.55 2.85
1558 1605 9.658799 TGTAATTTGAAGACTTATCTCTTCTGG 57.341 33.333 9.68 0.00 44.55 3.86
1596 1643 3.490933 CGTAATCGTGTCTCCATGATGGT 60.491 47.826 11.87 0.00 44.71 3.55
1724 1772 1.439353 GATTGGGTGTGCGATGCGAT 61.439 55.000 0.00 0.00 0.00 4.58
1766 1818 1.221021 GACCCCGTCTGGTTGATCC 59.779 63.158 0.00 0.00 39.24 3.36
1857 1909 2.094724 GCGTGCTTTCTTCGCTCG 59.905 61.111 0.00 0.00 45.29 5.03
1866 1918 3.414700 CTTCGCTCGGTGTGCCAC 61.415 66.667 0.00 0.00 34.09 5.01
1887 1940 1.265635 CATTCCACTTTCAAACGGCGA 59.734 47.619 16.62 0.00 0.00 5.54
1889 1942 0.179067 TCCACTTTCAAACGGCGACT 60.179 50.000 16.62 0.00 0.00 4.18
1890 1943 0.234884 CCACTTTCAAACGGCGACTC 59.765 55.000 16.62 0.00 0.00 3.36
1892 1945 1.597663 CACTTTCAAACGGCGACTCTT 59.402 47.619 16.62 0.00 0.00 2.85
1894 1947 2.681344 ACTTTCAAACGGCGACTCTTTT 59.319 40.909 16.62 0.00 0.00 2.27
1895 1948 3.128068 ACTTTCAAACGGCGACTCTTTTT 59.872 39.130 16.62 0.00 0.00 1.94
1917 1970 6.474140 TTTTTGAGTACCACTAGAGTCACA 57.526 37.500 0.00 0.00 0.00 3.58
1918 1971 6.474140 TTTTGAGTACCACTAGAGTCACAA 57.526 37.500 0.00 0.00 0.00 3.33
1919 1972 6.665992 TTTGAGTACCACTAGAGTCACAAT 57.334 37.500 0.00 0.00 0.00 2.71
1920 1973 7.770366 TTTGAGTACCACTAGAGTCACAATA 57.230 36.000 0.00 0.00 0.00 1.90
1921 1974 7.770366 TTGAGTACCACTAGAGTCACAATAA 57.230 36.000 0.00 0.00 0.00 1.40
1922 1975 7.770366 TGAGTACCACTAGAGTCACAATAAA 57.230 36.000 0.00 0.00 0.00 1.40
1923 1976 8.185506 TGAGTACCACTAGAGTCACAATAAAA 57.814 34.615 0.00 0.00 0.00 1.52
1924 1977 8.644216 TGAGTACCACTAGAGTCACAATAAAAA 58.356 33.333 0.00 0.00 0.00 1.94
1950 2005 0.373716 GTCATCGCGGTAGCAAAAGG 59.626 55.000 6.13 0.00 45.49 3.11
2003 2062 7.715249 AGTCTAATTTTGTGCTTGTGACTCTTA 59.285 33.333 0.00 0.00 0.00 2.10
2008 2067 8.947055 ATTTTGTGCTTGTGACTCTTATTTTT 57.053 26.923 0.00 0.00 0.00 1.94
2009 2068 7.754069 TTTGTGCTTGTGACTCTTATTTTTG 57.246 32.000 0.00 0.00 0.00 2.44
2010 2069 5.280945 TGTGCTTGTGACTCTTATTTTTGC 58.719 37.500 0.00 0.00 0.00 3.68
2012 2071 5.979517 GTGCTTGTGACTCTTATTTTTGCTT 59.020 36.000 0.00 0.00 0.00 3.91
2013 2072 5.978919 TGCTTGTGACTCTTATTTTTGCTTG 59.021 36.000 0.00 0.00 0.00 4.01
2014 2073 5.979517 GCTTGTGACTCTTATTTTTGCTTGT 59.020 36.000 0.00 0.00 0.00 3.16
2015 2074 6.476706 GCTTGTGACTCTTATTTTTGCTTGTT 59.523 34.615 0.00 0.00 0.00 2.83
2018 2077 8.406172 TGTGACTCTTATTTTTGCTTGTTTTC 57.594 30.769 0.00 0.00 0.00 2.29
2028 2087 5.422214 TTTGCTTGTTTTCTAACCCCAAA 57.578 34.783 0.00 0.00 33.15 3.28
2035 2094 9.062524 GCTTGTTTTCTAACCCCAAATATTTTT 57.937 29.630 0.00 0.00 33.15 1.94
2041 2100 8.485578 TTCTAACCCCAAATATTTTTCAGTGT 57.514 30.769 0.00 0.00 0.00 3.55
2044 2103 4.592778 ACCCCAAATATTTTTCAGTGTGCT 59.407 37.500 0.00 0.00 0.00 4.40
2087 2150 9.834628 TGCGACGAGAAATTCTTTTTAATTAAT 57.165 25.926 0.00 0.00 0.00 1.40
2143 2231 0.108615 AAGATTGAGCTCCGTCGTGG 60.109 55.000 12.15 0.00 40.09 4.94
2302 2390 2.066999 GGAGATGGGAGACGGGCTT 61.067 63.158 0.00 0.00 0.00 4.35
2303 2391 1.144936 GAGATGGGAGACGGGCTTG 59.855 63.158 0.00 0.00 0.00 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 2.283529 GGAAGACCTCAGGACGGCA 61.284 63.158 0.00 0.00 0.00 5.69
130 135 2.264794 GTGGACGGCGAAGTGGAT 59.735 61.111 16.62 0.00 0.00 3.41
154 159 0.246360 CGCATACCACACAGGAGTCA 59.754 55.000 0.00 0.00 41.22 3.41
159 164 3.195002 CGGCGCATACCACACAGG 61.195 66.667 10.83 0.00 45.67 4.00
178 183 2.408022 CGCTCGTAGGAAGACGGG 59.592 66.667 0.00 0.00 46.37 5.28
182 187 1.651240 CGTTCCCGCTCGTAGGAAGA 61.651 60.000 0.00 0.00 42.74 2.87
227 232 1.671742 GAGGAAGAACCCGACAGCA 59.328 57.895 0.00 0.00 40.05 4.41
350 363 2.564975 GTCGATGTCGTGTCGGGT 59.435 61.111 2.04 0.00 39.45 5.28
357 370 0.037326 AATGCTGTGGTCGATGTCGT 60.037 50.000 2.04 0.00 40.80 4.34
425 438 0.865111 TTTGTGCCGATGTCGAAGTG 59.135 50.000 3.62 0.00 43.02 3.16
455 469 1.729484 CGACGAGTTGCTCAAGCGA 60.729 57.895 10.43 0.00 45.83 4.93
479 495 0.386352 CGGACGCGTTGACTGTAGAA 60.386 55.000 15.53 0.00 0.00 2.10
522 539 3.151710 CCCCGCAGTCATACCCGA 61.152 66.667 0.00 0.00 0.00 5.14
569 586 3.733960 CGCGGACGGTCAGACTGA 61.734 66.667 16.84 0.00 34.97 3.41
769 787 6.448207 TGAAATTGTTGCGGAATATGATGA 57.552 33.333 0.00 0.00 0.00 2.92
790 808 5.963253 AGAAGGGAGAGAGAAGAATTGATGA 59.037 40.000 0.00 0.00 0.00 2.92
798 816 5.014755 ACTCTGTTAGAAGGGAGAGAGAAGA 59.985 44.000 0.00 0.00 36.92 2.87
802 820 4.594970 TGACTCTGTTAGAAGGGAGAGAG 58.405 47.826 0.00 0.00 38.75 3.20
873 891 1.264288 GAAGCAGGTGACGTTTTCTGG 59.736 52.381 12.55 0.00 0.00 3.86
895 913 1.407618 TGCTCGCTCCGCTATAAGAAA 59.592 47.619 0.00 0.00 0.00 2.52
906 924 1.464376 TACCTATGCCTGCTCGCTCC 61.464 60.000 0.00 0.00 0.00 4.70
909 927 1.301009 GGTACCTATGCCTGCTCGC 60.301 63.158 4.06 0.00 0.00 5.03
963 985 1.081892 CAATTGAGAGCCTCACGTGG 58.918 55.000 17.00 6.38 40.46 4.94
1068 1100 2.081212 GTCAAGGAGCGTCGACGTG 61.081 63.158 35.48 25.69 42.22 4.49
1149 1181 4.864334 CTGGATGCCGTGCCCTCC 62.864 72.222 7.30 7.30 32.34 4.30
1280 1327 4.641645 TCTTGGCAGCCGGTGGTG 62.642 66.667 7.03 0.00 42.91 4.17
1287 1334 2.105466 CGAGAGCTTCTTGGCAGCC 61.105 63.158 3.66 3.66 38.09 4.85
1288 1335 2.105466 CCGAGAGCTTCTTGGCAGC 61.105 63.158 6.54 0.00 40.92 5.25
1416 1463 1.677966 CACCTTCTCGACCTCCCGA 60.678 63.158 0.00 0.00 37.03 5.14
1425 1472 0.038526 ACGGTTGCTACACCTTCTCG 60.039 55.000 0.00 0.00 34.22 4.04
1454 1501 7.254455 GGAAAAGTAGACGTTGATCCATACATG 60.254 40.741 0.00 0.00 0.00 3.21
1457 1504 6.338937 AGGAAAAGTAGACGTTGATCCATAC 58.661 40.000 0.00 0.00 0.00 2.39
1458 1505 6.540438 AGGAAAAGTAGACGTTGATCCATA 57.460 37.500 0.00 0.00 0.00 2.74
1459 1506 5.422214 AGGAAAAGTAGACGTTGATCCAT 57.578 39.130 0.00 0.00 0.00 3.41
1460 1507 4.884668 AGGAAAAGTAGACGTTGATCCA 57.115 40.909 0.00 0.00 0.00 3.41
1511 1558 0.807496 GGTGAATCCTGCAACTGCTC 59.193 55.000 2.95 0.00 42.66 4.26
1550 1597 8.989980 ACGTAAAAGAAAAAGATACCAGAAGAG 58.010 33.333 0.00 0.00 0.00 2.85
1551 1598 8.897872 ACGTAAAAGAAAAAGATACCAGAAGA 57.102 30.769 0.00 0.00 0.00 2.87
1555 1602 9.685005 CGATTACGTAAAAGAAAAAGATACCAG 57.315 33.333 12.81 0.00 34.56 4.00
1569 1616 8.579039 CCATCATGGAGACACGATTACGTAAAA 61.579 40.741 12.81 0.00 41.15 1.52
1596 1643 5.959618 ATCGACCGATCACTCACATTATA 57.040 39.130 0.00 0.00 0.00 0.98
1669 1716 4.406069 CAAGCACAGAACATGTAAATCCG 58.594 43.478 0.00 0.00 41.41 4.18
1724 1772 2.637521 CTCCAAAAGAGCAGCTGCA 58.362 52.632 38.24 15.81 45.16 4.41
1766 1818 0.560240 CGCGTACTACGAGAAAAGCG 59.440 55.000 12.87 0.80 46.05 4.68
1866 1918 1.665735 CGCCGTTTGAAAGTGGAATGG 60.666 52.381 0.66 0.00 33.54 3.16
1874 1926 3.334272 AAAAGAGTCGCCGTTTGAAAG 57.666 42.857 0.00 0.00 0.00 2.62
1894 1947 6.474140 TGTGACTCTAGTGGTACTCAAAAA 57.526 37.500 0.00 0.00 0.00 1.94
1895 1948 6.474140 TTGTGACTCTAGTGGTACTCAAAA 57.526 37.500 0.00 0.00 0.00 2.44
1896 1949 6.665992 ATTGTGACTCTAGTGGTACTCAAA 57.334 37.500 0.00 0.00 0.00 2.69
1897 1950 7.770366 TTATTGTGACTCTAGTGGTACTCAA 57.230 36.000 0.00 0.00 0.00 3.02
1898 1951 7.770366 TTTATTGTGACTCTAGTGGTACTCA 57.230 36.000 0.00 0.00 0.00 3.41
1924 1977 2.000447 GCTACCGCGATGACTCTTTTT 59.000 47.619 8.23 0.00 0.00 1.94
1925 1978 1.067142 TGCTACCGCGATGACTCTTTT 60.067 47.619 8.23 0.00 39.65 2.27
1926 1979 0.530744 TGCTACCGCGATGACTCTTT 59.469 50.000 8.23 0.00 39.65 2.52
1927 1980 0.530744 TTGCTACCGCGATGACTCTT 59.469 50.000 8.23 0.00 39.65 2.85
1928 1981 0.530744 TTTGCTACCGCGATGACTCT 59.469 50.000 8.23 0.00 39.65 3.24
1929 1982 1.324736 CTTTTGCTACCGCGATGACTC 59.675 52.381 8.23 0.00 39.65 3.36
1930 1983 1.359848 CTTTTGCTACCGCGATGACT 58.640 50.000 8.23 0.00 39.65 3.41
1931 1984 0.373716 CCTTTTGCTACCGCGATGAC 59.626 55.000 8.23 0.00 39.65 3.06
1932 1985 1.366111 GCCTTTTGCTACCGCGATGA 61.366 55.000 8.23 0.00 39.65 2.92
1933 1986 1.062525 GCCTTTTGCTACCGCGATG 59.937 57.895 8.23 0.00 39.65 3.84
1934 1987 0.748005 ATGCCTTTTGCTACCGCGAT 60.748 50.000 8.23 0.00 42.00 4.58
1978 2037 6.305693 AGAGTCACAAGCACAAAATTAGAC 57.694 37.500 0.00 0.00 0.00 2.59
1980 2039 9.683069 AAATAAGAGTCACAAGCACAAAATTAG 57.317 29.630 0.00 0.00 0.00 1.73
1986 2045 5.748152 GCAAAAATAAGAGTCACAAGCACAA 59.252 36.000 0.00 0.00 0.00 3.33
2003 2062 5.995446 TGGGGTTAGAAAACAAGCAAAAAT 58.005 33.333 0.00 0.00 37.34 1.82
2008 2067 6.926630 ATATTTGGGGTTAGAAAACAAGCA 57.073 33.333 0.00 0.00 37.34 3.91
2009 2068 8.615878 AAAATATTTGGGGTTAGAAAACAAGC 57.384 30.769 0.39 0.00 37.34 4.01
2012 2071 9.771534 CTGAAAAATATTTGGGGTTAGAAAACA 57.228 29.630 0.39 0.00 37.34 2.83
2013 2072 9.772973 ACTGAAAAATATTTGGGGTTAGAAAAC 57.227 29.630 0.39 0.00 34.66 2.43
2014 2073 9.771534 CACTGAAAAATATTTGGGGTTAGAAAA 57.228 29.630 0.39 0.00 0.00 2.29
2015 2074 8.929487 ACACTGAAAAATATTTGGGGTTAGAAA 58.071 29.630 0.39 0.00 0.00 2.52
2018 2077 6.589907 GCACACTGAAAAATATTTGGGGTTAG 59.410 38.462 0.39 0.00 0.00 2.34
2022 2081 5.151297 AGCACACTGAAAAATATTTGGGG 57.849 39.130 0.39 0.00 0.00 4.96
2110 2175 8.951243 GGAGCTCAATCTTACTAAAATTCAAGT 58.049 33.333 17.19 0.00 0.00 3.16
2111 2176 8.119226 CGGAGCTCAATCTTACTAAAATTCAAG 58.881 37.037 17.19 0.00 0.00 3.02
2113 2178 7.103641 ACGGAGCTCAATCTTACTAAAATTCA 58.896 34.615 17.19 0.00 0.00 2.57
2114 2179 7.515371 CGACGGAGCTCAATCTTACTAAAATTC 60.515 40.741 17.19 0.00 0.00 2.17
2124 2190 0.108615 CCACGACGGAGCTCAATCTT 60.109 55.000 17.19 2.77 36.56 2.40
2125 2191 0.965866 TCCACGACGGAGCTCAATCT 60.966 55.000 17.19 0.00 39.64 2.40
2251 2339 2.824901 GCGTCGATCGAGGAGAGCA 61.825 63.158 34.75 3.30 42.86 4.26
2257 2345 0.451299 CGTGATAGCGTCGATCGAGG 60.451 60.000 28.52 28.52 42.86 4.63
2258 2346 0.507358 TCGTGATAGCGTCGATCGAG 59.493 55.000 20.09 13.60 42.86 4.04
2302 2390 0.248012 TCGTAGGGAAATGCTTCGCA 59.752 50.000 5.70 0.00 44.80 5.10
2303 2391 1.327764 CTTCGTAGGGAAATGCTTCGC 59.672 52.381 0.00 0.00 43.17 4.70


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

AutoCloner maintained by Alex Coulton.