Multiple sequence alignment - TraesCS4A01G067800

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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 TraesCS4A01G067800 chr4A 100.000 2530 0 0 1 2530 66149267 66146738 0.000000e+00 4673.0
1 TraesCS4A01G067800 chr4B 92.834 935 39 18 726 1650 471338671 471337755 0.000000e+00 1330.0
2 TraesCS4A01G067800 chr4B 93.935 676 29 5 1858 2530 471337472 471336806 0.000000e+00 1011.0
3 TraesCS4A01G067800 chr4B 82.967 728 69 27 2 696 471339359 471338654 7.740000e-170 606.0
4 TraesCS4A01G067800 chr4D 86.076 1106 59 38 797 1863 384271182 384270133 0.000000e+00 1101.0
5 TraesCS4A01G067800 chr4D 93.787 676 19 7 1858 2530 384269870 384269215 0.000000e+00 994.0
6 TraesCS4A01G067800 chr4D 87.576 821 50 23 2 801 384272987 384272198 0.000000e+00 904.0
7 TraesCS4A01G067800 chr5D 96.594 323 11 0 1074 1396 405334719 405334397 1.030000e-148 536.0
8 TraesCS4A01G067800 chr5D 95.758 330 11 3 1068 1396 440375455 440375128 1.720000e-146 529.0
9 TraesCS4A01G067800 chr5D 95.166 331 15 1 1066 1395 331842160 331841830 2.880000e-144 521.0
10 TraesCS4A01G067800 chr5B 95.522 335 13 2 1064 1396 535715432 535715098 3.700000e-148 534.0
11 TraesCS4A01G067800 chr7B 94.880 332 16 1 1066 1396 589740543 589740212 3.730000e-143 518.0
12 TraesCS4A01G067800 chr1A 94.083 338 19 1 1064 1401 62794501 62794165 1.740000e-141 512.0
13 TraesCS4A01G067800 chr5A 93.064 346 22 2 1053 1397 550802046 550802390 2.900000e-139 505.0
14 TraesCS4A01G067800 chr1D 73.529 340 65 18 203 531 413959801 413959476 3.440000e-19 106.0
15 TraesCS4A01G067800 chr2B 92.105 38 3 0 657 694 383143621 383143584 1.000000e-03 54.7


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 TraesCS4A01G067800 chr4A 66146738 66149267 2529 True 4673.000000 4673 100.000000 1 2530 1 chr4A.!!$R1 2529
1 TraesCS4A01G067800 chr4B 471336806 471339359 2553 True 982.333333 1330 89.912000 2 2530 3 chr4B.!!$R1 2528
2 TraesCS4A01G067800 chr4D 384269215 384272987 3772 True 999.666667 1101 89.146333 2 2530 3 chr4D.!!$R1 2528

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
98 99 0.179124 GAGCTCCTAGTTGACGCCTG 60.179 60.0 0.87 0.0 0.0 4.85 F
100 101 0.458716 GCTCCTAGTTGACGCCTGAC 60.459 60.0 0.00 0.0 0.0 3.51 F
991 2085 0.896940 TATATCCCCGCCCACTCGTC 60.897 60.0 0.00 0.0 0.0 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1424 2522 0.107459 GATGAACAGGCACTCCCTCC 60.107 60.000 0.00 0.00 44.09 4.30 R
1427 2525 0.393537 CAGGATGAACAGGCACTCCC 60.394 60.000 0.00 0.00 39.69 4.30 R
2490 3906 1.135257 CATAGGTCGCGATCCTCATCC 60.135 57.143 26.39 15.79 36.60 3.51 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
36 37 0.537188 ACCCTAGTCAACCATCGCAG 59.463 55.000 0.00 0.00 0.00 5.18
50 51 0.592637 TCGCAGCACCAAACATTCTG 59.407 50.000 0.00 0.00 0.00 3.02
64 65 2.042979 ACATTCTGGTTTAGTGGGCCAT 59.957 45.455 10.70 1.02 0.00 4.40
75 76 2.255406 AGTGGGCCATGCACAAAATTA 58.745 42.857 10.70 0.00 46.28 1.40
96 97 1.142097 GGAGCTCCTAGTTGACGCC 59.858 63.158 26.25 0.00 0.00 5.68
97 98 1.324005 GGAGCTCCTAGTTGACGCCT 61.324 60.000 26.25 0.00 0.00 5.52
98 99 0.179124 GAGCTCCTAGTTGACGCCTG 60.179 60.000 0.87 0.00 0.00 4.85
99 100 0.612174 AGCTCCTAGTTGACGCCTGA 60.612 55.000 0.00 0.00 0.00 3.86
100 101 0.458716 GCTCCTAGTTGACGCCTGAC 60.459 60.000 0.00 0.00 0.00 3.51
174 175 0.944386 CACTATACCCCGCATGTTGC 59.056 55.000 0.00 0.00 40.69 4.17
434 455 8.864069 TTGTCCAGTGTGTATTTAAAAATGTG 57.136 30.769 0.00 0.00 0.00 3.21
435 456 8.001881 TGTCCAGTGTGTATTTAAAAATGTGT 57.998 30.769 0.00 0.00 0.00 3.72
437 458 9.607285 GTCCAGTGTGTATTTAAAAATGTGTAG 57.393 33.333 0.00 0.00 0.00 2.74
460 481 6.711277 AGCATATACTGGAAAAGTTCAGTGA 58.289 36.000 6.07 0.00 43.24 3.41
468 489 7.054124 ACTGGAAAAGTTCAGTGAGTATTTGA 58.946 34.615 0.00 0.00 42.00 2.69
502 523 8.092068 TCACCGTATATTGAGAAAAAGTTCAGA 58.908 33.333 0.00 0.00 36.09 3.27
503 524 8.717821 CACCGTATATTGAGAAAAAGTTCAGAA 58.282 33.333 0.00 0.00 36.09 3.02
573 644 7.503521 AAAAAGCTAAAGAGGAAGAAGACTG 57.496 36.000 0.00 0.00 0.00 3.51
808 1900 2.262774 ATTCCCGCTCAGCCCTTCTG 62.263 60.000 0.00 0.00 44.21 3.02
814 1906 1.681666 CTCAGCCCTTCTGCCTGAA 59.318 57.895 0.00 0.00 42.56 3.02
821 1913 2.305009 CCCTTCTGCCTGAATTCCATC 58.695 52.381 2.27 0.00 33.71 3.51
980 2074 4.479158 CTCCTCCAGCTCTATATATCCCC 58.521 52.174 0.00 0.00 0.00 4.81
985 2079 1.291033 AGCTCTATATATCCCCGCCCA 59.709 52.381 0.00 0.00 0.00 5.36
991 2085 0.896940 TATATCCCCGCCCACTCGTC 60.897 60.000 0.00 0.00 0.00 4.20
1051 2145 2.418368 TCCCCAAATCCATCTTCGTG 57.582 50.000 0.00 0.00 0.00 4.35
1062 2156 2.536997 ATCTTCGTGCCCGGGAAAGG 62.537 60.000 29.31 17.37 33.95 3.11
1074 2168 1.136110 CGGGAAAGGAAGAGAGAGAGC 59.864 57.143 0.00 0.00 0.00 4.09
1342 2440 2.813908 GTCACCGCCATGGACGTC 60.814 66.667 18.40 7.13 42.00 4.34
1410 2508 2.622436 CTAGGCTTTCCTTTCCTCGTG 58.378 52.381 0.00 0.00 40.66 4.35
1424 2522 2.172419 CGTGGCGGCTTGTTTACG 59.828 61.111 11.43 6.71 0.00 3.18
1426 2524 1.962306 GTGGCGGCTTGTTTACGGA 60.962 57.895 11.43 0.00 0.00 4.69
1427 2525 1.669760 TGGCGGCTTGTTTACGGAG 60.670 57.895 11.43 0.00 0.00 4.63
1439 2537 0.834687 TTACGGAGGGAGTGCCTGTT 60.835 55.000 8.45 0.00 0.00 3.16
1447 2545 0.326264 GGAGTGCCTGTTCATCCTGT 59.674 55.000 0.00 0.00 0.00 4.00
1453 2551 1.819305 GCCTGTTCATCCTGTTGGTGT 60.819 52.381 0.00 0.00 34.23 4.16
1467 2565 1.394618 TGGTGTTGGTAGTTTGGTGC 58.605 50.000 0.00 0.00 0.00 5.01
1496 2594 1.463444 GTGTTCCTGATGTAACCGTGC 59.537 52.381 0.00 0.00 0.00 5.34
1587 2687 1.499056 CAGAAATGCGTGCGCTTCT 59.501 52.632 17.49 14.97 42.51 2.85
1588 2688 0.519999 CAGAAATGCGTGCGCTTCTC 60.520 55.000 17.49 7.80 42.51 2.87
1589 2689 0.671781 AGAAATGCGTGCGCTTCTCT 60.672 50.000 17.49 9.94 42.51 3.10
1617 2717 2.414691 GCGGCTGATTTCTTCTTTGGAC 60.415 50.000 0.00 0.00 0.00 4.02
1629 2729 3.110447 TCTTTGGACAATTGCTTTGCC 57.890 42.857 5.05 0.36 39.03 4.52
1643 2743 0.396974 TTTGCCCTGGTTCTTGCAGT 60.397 50.000 0.00 0.00 34.81 4.40
1659 2770 1.467374 GCAGTTGCAGTCGTGTTGTTT 60.467 47.619 0.00 0.00 41.59 2.83
1664 2775 4.034048 AGTTGCAGTCGTGTTGTTTTAGAG 59.966 41.667 0.00 0.00 0.00 2.43
1669 2780 5.556570 GCAGTCGTGTTGTTTTAGAGAACTC 60.557 44.000 0.00 0.00 32.96 3.01
1670 2781 5.749109 CAGTCGTGTTGTTTTAGAGAACTCT 59.251 40.000 9.33 9.33 43.40 3.24
1711 2844 0.799534 GTGATGGCGCTTCAACATGC 60.800 55.000 7.64 0.00 0.00 4.06
1717 2850 1.225936 CGCTTCAACATGCTCGCAG 60.226 57.895 0.00 0.00 0.00 5.18
1721 2854 1.129998 CTTCAACATGCTCGCAGAAGG 59.870 52.381 9.49 0.00 34.09 3.46
1728 2861 4.202441 ACATGCTCGCAGAAGGAAATATT 58.798 39.130 0.00 0.00 34.09 1.28
1729 2862 5.368145 ACATGCTCGCAGAAGGAAATATTA 58.632 37.500 0.00 0.00 34.09 0.98
1742 2875 5.891451 AGGAAATATTAGCGGTGCTTTTTC 58.109 37.500 0.00 2.16 40.44 2.29
1753 2886 1.754226 GTGCTTTTTCCCTTGTCACCA 59.246 47.619 0.00 0.00 0.00 4.17
1755 2888 3.037549 TGCTTTTTCCCTTGTCACCAAT 58.962 40.909 0.00 0.00 0.00 3.16
1757 2890 3.181466 GCTTTTTCCCTTGTCACCAATGT 60.181 43.478 0.00 0.00 0.00 2.71
1760 2893 6.546428 TTTTTCCCTTGTCACCAATGTTTA 57.454 33.333 0.00 0.00 0.00 2.01
1761 2894 5.782893 TTTCCCTTGTCACCAATGTTTAG 57.217 39.130 0.00 0.00 0.00 1.85
1762 2895 4.447138 TCCCTTGTCACCAATGTTTAGT 57.553 40.909 0.00 0.00 0.00 2.24
1763 2896 4.798882 TCCCTTGTCACCAATGTTTAGTT 58.201 39.130 0.00 0.00 0.00 2.24
1764 2897 4.582656 TCCCTTGTCACCAATGTTTAGTTG 59.417 41.667 0.00 0.00 0.00 3.16
1786 2919 3.837893 TGGACAACCAGGATTGCAA 57.162 47.368 0.00 0.00 41.77 4.08
1833 2966 6.207614 GGATTGTTGAGAAAGAAAACTAGGCT 59.792 38.462 0.00 0.00 0.00 4.58
1834 2967 6.377327 TTGTTGAGAAAGAAAACTAGGCTG 57.623 37.500 0.00 0.00 0.00 4.85
1838 2971 5.437060 TGAGAAAGAAAACTAGGCTGTTGT 58.563 37.500 0.00 0.00 0.00 3.32
1850 2983 3.261580 AGGCTGTTGTTTTTGCTGTTTC 58.738 40.909 0.00 0.00 0.00 2.78
1858 2991 6.128336 TGTTGTTTTTGCTGTTTCTGAATTGG 60.128 34.615 0.00 0.00 0.00 3.16
1872 3285 9.162764 GTTTCTGAATTGGTATAAGCTGTCTTA 57.837 33.333 0.00 0.00 38.97 2.10
1916 3332 7.390440 TGAGTAACATAGAAGACACAAAATGGG 59.610 37.037 0.00 0.00 0.00 4.00
1987 3403 6.970484 ACACAATGATAACCTTCAAACTGAC 58.030 36.000 0.00 0.00 0.00 3.51
2048 3464 4.280174 ACCAACGACATACACAGACTACTT 59.720 41.667 0.00 0.00 0.00 2.24
2049 3465 4.857588 CCAACGACATACACAGACTACTTC 59.142 45.833 0.00 0.00 0.00 3.01
2192 3608 4.235360 AGATAACGACAGCTAACACACAC 58.765 43.478 0.00 0.00 0.00 3.82
2193 3609 2.303163 AACGACAGCTAACACACACA 57.697 45.000 0.00 0.00 0.00 3.72
2195 3611 1.134936 ACGACAGCTAACACACACACA 60.135 47.619 0.00 0.00 0.00 3.72
2197 3613 2.550978 GACAGCTAACACACACACACT 58.449 47.619 0.00 0.00 0.00 3.55
2199 3615 2.168521 ACAGCTAACACACACACACTCT 59.831 45.455 0.00 0.00 0.00 3.24
2200 3616 2.797156 CAGCTAACACACACACACTCTC 59.203 50.000 0.00 0.00 0.00 3.20
2201 3617 2.695666 AGCTAACACACACACACTCTCT 59.304 45.455 0.00 0.00 0.00 3.10
2202 3618 3.053455 GCTAACACACACACACTCTCTC 58.947 50.000 0.00 0.00 0.00 3.20
2203 3619 3.243569 GCTAACACACACACACTCTCTCT 60.244 47.826 0.00 0.00 0.00 3.10
2204 3620 3.444703 AACACACACACACTCTCTCTC 57.555 47.619 0.00 0.00 0.00 3.20
2205 3621 2.660572 ACACACACACACTCTCTCTCT 58.339 47.619 0.00 0.00 0.00 3.10
2337 3753 3.641906 CTCTATAGAAACCCATGACCCGT 59.358 47.826 3.57 0.00 0.00 5.28
2338 3754 4.035112 TCTATAGAAACCCATGACCCGTT 58.965 43.478 0.00 0.00 0.00 4.44
2352 3768 1.014352 CCCGTTTTCATCCGTCATCC 58.986 55.000 0.00 0.00 0.00 3.51
2389 3805 4.525487 AGAATCAACAAGCCAACATCACAT 59.475 37.500 0.00 0.00 0.00 3.21
2481 3897 0.887933 CGGGCAACTGGTTAGCAAAT 59.112 50.000 0.00 0.00 40.24 2.32
2490 3906 4.583871 ACTGGTTAGCAAATGAGGAAGAG 58.416 43.478 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.875076 ACTAGGGTTGTGAGTATTGATGTAC 58.125 40.000 0.00 0.00 0.00 2.90
50 51 0.897863 TGTGCATGGCCCACTAAACC 60.898 55.000 11.31 0.00 34.38 3.27
64 65 2.819608 GGAGCTCCTGTAATTTTGTGCA 59.180 45.455 26.25 0.00 0.00 4.57
101 102 1.076332 CCTAGTTAACGCACACAGGC 58.924 55.000 0.00 0.00 0.00 4.85
102 103 1.674817 CCCCTAGTTAACGCACACAGG 60.675 57.143 0.00 1.92 0.00 4.00
113 114 0.616679 AGCGAAGGCACCCCTAGTTA 60.617 55.000 0.00 0.00 41.90 2.24
408 429 9.307121 CACATTTTTAAATACACACTGGACAAA 57.693 29.630 0.00 0.00 0.00 2.83
414 435 9.624697 ATGCTACACATTTTTAAATACACACTG 57.375 29.630 0.00 0.00 34.40 3.66
434 455 7.764443 TCACTGAACTTTTCCAGTATATGCTAC 59.236 37.037 0.00 0.00 41.26 3.58
435 456 7.847096 TCACTGAACTTTTCCAGTATATGCTA 58.153 34.615 0.00 0.00 41.26 3.49
437 458 6.595716 ACTCACTGAACTTTTCCAGTATATGC 59.404 38.462 0.00 0.00 41.26 3.14
446 467 9.581099 TTTTTCAAATACTCACTGAACTTTTCC 57.419 29.630 0.00 0.00 0.00 3.13
560 631 8.608844 TTTTTAGATGTTCAGTCTTCTTCCTC 57.391 34.615 0.00 0.00 0.00 3.71
685 759 1.834856 CTGAAGCCAGCCTCCAGACA 61.835 60.000 0.00 0.00 33.07 3.41
712 786 3.564027 GCGGCATACCACAGTCGC 61.564 66.667 0.00 0.00 34.57 5.19
808 1900 4.607080 GGGGGATGGAATTCAGGC 57.393 61.111 7.93 0.00 0.00 4.85
856 1949 0.529992 GTTCCTATTGGTCGAGCGGG 60.530 60.000 10.46 9.40 34.23 6.13
994 2088 0.690744 GGGATTGGATGGTTTGGGGG 60.691 60.000 0.00 0.00 0.00 5.40
995 2089 0.042431 TGGGATTGGATGGTTTGGGG 59.958 55.000 0.00 0.00 0.00 4.96
1011 2105 4.273235 GGATTTTGTTTTCTGTTGCTTGGG 59.727 41.667 0.00 0.00 0.00 4.12
1051 2145 1.222113 CTCTCTTCCTTTCCCGGGC 59.778 63.158 18.49 0.00 0.00 6.13
1062 2156 2.058829 CTCCGCCGCTCTCTCTCTTC 62.059 65.000 0.00 0.00 0.00 2.87
1074 2168 4.899239 GCCCAGACATCTCCGCCG 62.899 72.222 0.00 0.00 0.00 6.46
1410 2508 2.396157 CCTCCGTAAACAAGCCGCC 61.396 63.158 0.00 0.00 0.00 6.13
1424 2522 0.107459 GATGAACAGGCACTCCCTCC 60.107 60.000 0.00 0.00 44.09 4.30
1426 2524 2.796968 CAGGATGAACAGGCACTCCCT 61.797 57.143 0.00 0.00 42.45 4.20
1427 2525 0.393537 CAGGATGAACAGGCACTCCC 60.394 60.000 0.00 0.00 39.69 4.30
1439 2537 2.708861 ACTACCAACACCAACAGGATGA 59.291 45.455 0.00 0.00 39.69 2.92
1447 2545 1.751924 GCACCAAACTACCAACACCAA 59.248 47.619 0.00 0.00 0.00 3.67
1453 2551 1.883275 CATTCGGCACCAAACTACCAA 59.117 47.619 0.00 0.00 0.00 3.67
1467 2565 2.813754 ACATCAGGAACACAACATTCGG 59.186 45.455 0.00 0.00 0.00 4.30
1496 2594 3.191371 GGATTTACTTCACTGCAACAGGG 59.809 47.826 0.00 0.00 36.00 4.45
1587 2687 3.149196 AGAAATCAGCCGCAAAAGAAGA 58.851 40.909 0.00 0.00 0.00 2.87
1588 2688 3.565905 AGAAATCAGCCGCAAAAGAAG 57.434 42.857 0.00 0.00 0.00 2.85
1589 2689 3.569701 AGAAGAAATCAGCCGCAAAAGAA 59.430 39.130 0.00 0.00 0.00 2.52
1617 2717 1.345415 AGAACCAGGGCAAAGCAATTG 59.655 47.619 0.00 0.00 42.21 2.32
1643 2743 4.185394 TCTCTAAAACAACACGACTGCAA 58.815 39.130 0.00 0.00 0.00 4.08
1659 2770 8.925338 GGGAGGTCATAATTTAGAGTTCTCTAA 58.075 37.037 15.58 15.58 0.00 2.10
1664 2775 8.753497 ATTTGGGAGGTCATAATTTAGAGTTC 57.247 34.615 0.00 0.00 0.00 3.01
1669 2780 7.341769 TCACCAATTTGGGAGGTCATAATTTAG 59.658 37.037 19.39 0.00 43.37 1.85
1670 2781 7.185565 TCACCAATTTGGGAGGTCATAATTTA 58.814 34.615 19.39 0.00 43.37 1.40
1679 2790 1.896755 GCCATCACCAATTTGGGAGGT 60.897 52.381 19.39 5.32 43.37 3.85
1680 2791 0.826062 GCCATCACCAATTTGGGAGG 59.174 55.000 19.39 14.69 43.37 4.30
1683 2816 1.153588 GCGCCATCACCAATTTGGG 60.154 57.895 19.39 8.68 43.37 4.12
1711 2844 3.430218 CCGCTAATATTTCCTTCTGCGAG 59.570 47.826 0.00 0.00 44.02 5.03
1717 2850 5.500645 AAAGCACCGCTAATATTTCCTTC 57.499 39.130 0.00 0.00 38.25 3.46
1721 2854 5.041287 GGGAAAAAGCACCGCTAATATTTC 58.959 41.667 0.00 0.00 38.25 2.17
1728 2861 1.243902 CAAGGGAAAAAGCACCGCTA 58.756 50.000 0.00 0.00 38.25 4.26
1729 2862 0.755327 ACAAGGGAAAAAGCACCGCT 60.755 50.000 0.00 0.00 42.56 5.52
1753 2886 5.600484 TGGTTGTCCATTCCAACTAAACATT 59.400 36.000 0.00 0.00 41.47 2.71
1755 2888 4.537751 TGGTTGTCCATTCCAACTAAACA 58.462 39.130 0.00 0.00 41.47 2.83
1757 2890 4.141135 TCCTGGTTGTCCATTCCAACTAAA 60.141 41.667 0.00 0.00 43.43 1.85
1760 2893 1.780309 TCCTGGTTGTCCATTCCAACT 59.220 47.619 0.00 0.00 43.43 3.16
1761 2894 2.286365 TCCTGGTTGTCCATTCCAAC 57.714 50.000 0.00 0.00 43.43 3.77
1762 2895 3.164268 CAATCCTGGTTGTCCATTCCAA 58.836 45.455 0.00 0.00 43.43 3.53
1763 2896 2.806434 CAATCCTGGTTGTCCATTCCA 58.194 47.619 0.00 0.00 43.43 3.53
1764 2897 1.478105 GCAATCCTGGTTGTCCATTCC 59.522 52.381 9.63 0.00 43.43 3.01
1765 2898 2.170166 TGCAATCCTGGTTGTCCATTC 58.830 47.619 9.63 0.00 43.43 2.67
1766 2899 2.307496 TGCAATCCTGGTTGTCCATT 57.693 45.000 9.63 0.00 43.43 3.16
1767 2900 2.307496 TTGCAATCCTGGTTGTCCAT 57.693 45.000 0.00 0.00 43.43 3.41
1768 2901 2.307496 ATTGCAATCCTGGTTGTCCA 57.693 45.000 5.99 0.00 42.05 4.02
1769 2902 3.328505 CAAATTGCAATCCTGGTTGTCC 58.671 45.455 13.38 0.00 0.00 4.02
1770 2903 2.738314 GCAAATTGCAATCCTGGTTGTC 59.262 45.455 13.38 6.05 44.26 3.18
1772 2905 1.727880 CGCAAATTGCAATCCTGGTTG 59.272 47.619 18.65 13.71 45.36 3.77
1774 2907 0.968405 ACGCAAATTGCAATCCTGGT 59.032 45.000 18.65 10.16 45.36 4.00
1775 2908 1.994779 GAACGCAAATTGCAATCCTGG 59.005 47.619 18.65 9.61 45.36 4.45
1776 2909 1.650153 CGAACGCAAATTGCAATCCTG 59.350 47.619 18.65 13.95 45.36 3.86
1777 2910 1.269448 ACGAACGCAAATTGCAATCCT 59.731 42.857 18.65 0.00 45.36 3.24
1778 2911 1.696988 ACGAACGCAAATTGCAATCC 58.303 45.000 18.65 3.63 45.36 3.01
1779 2912 2.470999 ACAACGAACGCAAATTGCAATC 59.529 40.909 18.65 13.35 45.36 2.67
1780 2913 2.468831 ACAACGAACGCAAATTGCAAT 58.531 38.095 18.65 5.99 45.36 3.56
1781 2914 1.914634 ACAACGAACGCAAATTGCAA 58.085 40.000 18.65 0.00 45.36 4.08
1782 2915 2.757686 TACAACGAACGCAAATTGCA 57.242 40.000 18.65 0.00 45.36 4.08
1783 2916 4.623122 AAATACAACGAACGCAAATTGC 57.377 36.364 8.09 8.09 40.69 3.56
1784 2917 6.281056 CAGAAAATACAACGAACGCAAATTG 58.719 36.000 0.00 0.00 0.00 2.32
1785 2918 5.401079 CCAGAAAATACAACGAACGCAAATT 59.599 36.000 0.00 0.00 0.00 1.82
1786 2919 4.915085 CCAGAAAATACAACGAACGCAAAT 59.085 37.500 0.00 0.00 0.00 2.32
1795 2928 6.898041 TCTCAACAATCCAGAAAATACAACG 58.102 36.000 0.00 0.00 0.00 4.10
1801 2934 9.317936 GTTTTCTTTCTCAACAATCCAGAAAAT 57.682 29.630 7.28 0.00 39.61 1.82
1833 2966 6.128336 CCAATTCAGAAACAGCAAAAACAACA 60.128 34.615 0.00 0.00 0.00 3.33
1834 2967 6.128309 ACCAATTCAGAAACAGCAAAAACAAC 60.128 34.615 0.00 0.00 0.00 3.32
1838 2971 9.474920 CTTATACCAATTCAGAAACAGCAAAAA 57.525 29.630 0.00 0.00 0.00 1.94
1850 2983 7.047891 TGGTAAGACAGCTTATACCAATTCAG 58.952 38.462 12.09 0.00 38.94 3.02
1872 3285 1.561076 TCATACATCCTTGCTGCTGGT 59.439 47.619 0.00 0.00 0.00 4.00
1880 3293 9.469807 GTCTTCTATGTTACTCATACATCCTTG 57.530 37.037 0.00 0.00 37.42 3.61
1987 3403 3.581755 TGTACAGCTAAGTTAACCTGCG 58.418 45.455 0.88 4.25 0.00 5.18
2048 3464 4.687901 TGTGTTCCATTCTCTTGTGAGA 57.312 40.909 0.00 0.00 46.58 3.27
2049 3465 5.066375 TGTTTGTGTTCCATTCTCTTGTGAG 59.934 40.000 0.00 0.00 41.51 3.51
2107 3523 5.639506 CCTCACTAAAACCTCACTGTACATG 59.360 44.000 0.00 0.00 0.00 3.21
2166 3582 5.634020 GTGTGTTAGCTGTCGTTATCTTCTT 59.366 40.000 0.00 0.00 0.00 2.52
2192 3608 2.620585 TGTGTGTGAGAGAGAGAGTGTG 59.379 50.000 0.00 0.00 0.00 3.82
2193 3609 2.937519 TGTGTGTGAGAGAGAGAGTGT 58.062 47.619 0.00 0.00 0.00 3.55
2195 3611 2.625790 GGTTGTGTGTGAGAGAGAGAGT 59.374 50.000 0.00 0.00 0.00 3.24
2197 3613 2.625314 CAGGTTGTGTGTGAGAGAGAGA 59.375 50.000 0.00 0.00 0.00 3.10
2199 3615 1.688735 CCAGGTTGTGTGTGAGAGAGA 59.311 52.381 0.00 0.00 0.00 3.10
2200 3616 1.414181 ACCAGGTTGTGTGTGAGAGAG 59.586 52.381 0.00 0.00 0.00 3.20
2201 3617 1.412710 GACCAGGTTGTGTGTGAGAGA 59.587 52.381 0.00 0.00 0.00 3.10
2202 3618 1.138859 TGACCAGGTTGTGTGTGAGAG 59.861 52.381 0.00 0.00 0.00 3.20
2203 3619 1.199615 TGACCAGGTTGTGTGTGAGA 58.800 50.000 0.00 0.00 0.00 3.27
2204 3620 2.260844 ATGACCAGGTTGTGTGTGAG 57.739 50.000 0.00 0.00 0.00 3.51
2205 3621 3.472652 GTTATGACCAGGTTGTGTGTGA 58.527 45.455 0.00 0.00 0.00 3.58
2252 3668 1.227823 CGGTGGTTCAGTTGCTGGA 60.228 57.895 0.00 0.00 31.51 3.86
2282 3698 6.197096 GCGAATCTGCTTGTGTATTATTTTGG 59.803 38.462 0.00 0.00 0.00 3.28
2337 3753 3.643199 TGGATGGATGACGGATGAAAA 57.357 42.857 0.00 0.00 0.00 2.29
2338 3754 3.862877 ATGGATGGATGACGGATGAAA 57.137 42.857 0.00 0.00 0.00 2.69
2352 3768 2.212652 TGATTCTTCGGCGAATGGATG 58.787 47.619 23.96 11.14 33.96 3.51
2389 3805 6.602803 TGAACATTAGCTGGATTGCAAGATTA 59.397 34.615 4.94 0.00 34.99 1.75
2481 3897 2.591923 CGATCCTCATCCTCTTCCTCA 58.408 52.381 0.00 0.00 0.00 3.86
2490 3906 1.135257 CATAGGTCGCGATCCTCATCC 60.135 57.143 26.39 15.79 36.60 3.51


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

AutoCloner maintained by Alex Coulton.