Multiple sequence alignment - TraesCS1D01G237700

Loading Multiple Alignment...

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 TraesCS1D01G237700 chr1D 100.000 2762 0 0 1 2762 326969875 326967114 0.000000e+00 5101.0
1 TraesCS1D01G237700 chr1D 96.482 398 6 6 1911 2307 20542483 20542873 0.000000e+00 651.0
2 TraesCS1D01G237700 chr1D 96.241 399 5 7 1912 2307 21844871 21845262 0.000000e+00 645.0
3 TraesCS1D01G237700 chr1D 97.368 38 1 0 741 778 361353625 361353662 6.380000e-07 65.8
4 TraesCS1D01G237700 chr1D 89.362 47 4 1 693 738 160501777 160501731 1.070000e-04 58.4
5 TraesCS1D01G237700 chr1A 89.755 1142 70 23 780 1912 409834770 409835873 0.000000e+00 1417.0
6 TraesCS1D01G237700 chr1A 96.930 456 14 0 2307 2762 409835864 409836319 0.000000e+00 765.0
7 TraesCS1D01G237700 chr1A 86.828 372 21 14 1 365 409833680 409834030 9.270000e-105 390.0
8 TraesCS1D01G237700 chr1A 87.574 169 14 3 350 512 409834050 409834217 3.630000e-44 189.0
9 TraesCS1D01G237700 chr1A 97.297 37 1 0 741 777 532230638 532230674 2.300000e-06 63.9
10 TraesCS1D01G237700 chr1B 89.819 884 65 5 1041 1915 441632085 441631218 0.000000e+00 1110.0
11 TraesCS1D01G237700 chr1B 90.833 720 25 17 1 696 441654354 441653652 0.000000e+00 926.0
12 TraesCS1D01G237700 chr1B 94.956 456 23 0 2307 2762 441631230 441630775 0.000000e+00 715.0
13 TraesCS1D01G237700 chr1B 95.000 60 3 0 945 1004 441653158 441653099 8.140000e-16 95.3
14 TraesCS1D01G237700 chr1B 90.909 44 4 0 1003 1046 441638279 441638236 2.970000e-05 60.2
15 TraesCS1D01G237700 chr7D 97.475 396 5 4 1912 2304 441862227 441862620 0.000000e+00 671.0
16 TraesCS1D01G237700 chr7D 96.482 398 10 3 1912 2307 151776612 151776217 0.000000e+00 654.0
17 TraesCS1D01G237700 chr3A 96.259 401 12 3 1912 2309 1518126 1518526 0.000000e+00 654.0
18 TraesCS1D01G237700 chr3A 93.333 45 2 1 693 736 531452020 531451976 6.380000e-07 65.8
19 TraesCS1D01G237700 chr3A 93.333 45 2 1 693 736 531452098 531452054 6.380000e-07 65.8
20 TraesCS1D01G237700 chr2D 96.482 398 10 3 1912 2308 308103696 308104090 0.000000e+00 654.0
21 TraesCS1D01G237700 chr2D 95.980 398 12 3 1912 2308 308107976 308108370 0.000000e+00 643.0
22 TraesCS1D01G237700 chr2D 91.489 47 3 1 693 738 637030206 637030252 2.300000e-06 63.9
23 TraesCS1D01G237700 chr2D 88.462 52 4 2 741 791 20649010 20649060 8.260000e-06 62.1
24 TraesCS1D01G237700 chr6D 96.241 399 11 3 1912 2307 61133683 61133286 0.000000e+00 651.0
25 TraesCS1D01G237700 chr6D 96.231 398 6 9 1911 2308 461717150 461716762 0.000000e+00 643.0
26 TraesCS1D01G237700 chrUn 93.333 45 3 0 741 785 394985370 394985326 1.780000e-07 67.6
27 TraesCS1D01G237700 chrUn 97.368 38 1 0 741 778 15373520 15373483 6.380000e-07 65.8
28 TraesCS1D01G237700 chr7B 93.333 45 2 1 693 736 296348674 296348718 6.380000e-07 65.8
29 TraesCS1D01G237700 chr7A 93.182 44 3 0 693 736 482484228 482484271 6.380000e-07 65.8
30 TraesCS1D01G237700 chr5A 97.368 38 1 0 741 778 673214855 673214892 6.380000e-07 65.8
31 TraesCS1D01G237700 chr2B 93.333 45 2 1 693 736 31426010 31426054 6.380000e-07 65.8
32 TraesCS1D01G237700 chr5D 93.182 44 2 1 741 783 78311725 78311768 2.300000e-06 63.9
33 TraesCS1D01G237700 chr5D 97.368 38 0 1 741 778 565094096 565094132 2.300000e-06 63.9
34 TraesCS1D01G237700 chr2A 93.023 43 3 0 741 783 747308154 747308112 2.300000e-06 63.9
35 TraesCS1D01G237700 chr5B 91.111 45 3 1 693 736 128465973 128465929 2.970000e-05 60.2
36 TraesCS1D01G237700 chr3D 91.111 45 3 1 695 738 61553877 61553921 2.970000e-05 60.2


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 TraesCS1D01G237700 chr1D 326967114 326969875 2761 True 5101.00 5101 100.00000 1 2762 1 chr1D.!!$R2 2761
1 TraesCS1D01G237700 chr1A 409833680 409836319 2639 False 690.25 1417 90.27175 1 2762 4 chr1A.!!$F2 2761
2 TraesCS1D01G237700 chr1B 441630775 441632085 1310 True 912.50 1110 92.38750 1041 2762 2 chr1B.!!$R2 1721
3 TraesCS1D01G237700 chr1B 441653099 441654354 1255 True 510.65 926 92.91650 1 1004 2 chr1B.!!$R3 1003
4 TraesCS1D01G237700 chr2D 308103696 308108370 4674 False 648.50 654 96.23100 1912 2308 2 chr2D.!!$F3 396

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
871 1634 0.041312 CTTTCGCCGTTGTCAACCAG 60.041 55.0 10.12 3.33 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1902 2674 0.175073 ACTCCGCGTCCTGTAAATCC 59.825 55.0 4.92 0.0 0.0 3.01 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
122 123 2.419673 TCACAGCATTTAAGCGACATGG 59.580 45.455 0.00 0.00 40.15 3.66
123 124 2.162208 CACAGCATTTAAGCGACATGGT 59.838 45.455 0.00 0.00 40.15 3.55
124 125 3.373748 CACAGCATTTAAGCGACATGGTA 59.626 43.478 0.00 0.00 40.15 3.25
125 126 3.623060 ACAGCATTTAAGCGACATGGTAG 59.377 43.478 0.00 0.00 40.15 3.18
237 238 9.088987 ACTTATGTTTGTTTTTGTCCAGGATAT 57.911 29.630 0.00 0.00 0.00 1.63
295 297 2.796557 TCATGTGCCACCGGAAATTTA 58.203 42.857 9.46 0.00 0.00 1.40
327 329 1.202794 TGGCAGACTCTGAACATTGCA 60.203 47.619 10.45 0.00 32.44 4.08
367 375 0.598065 GGGTTAGCTGTGCAGTTTGG 59.402 55.000 0.00 0.00 0.00 3.28
388 431 1.666054 TACGTTTTTCAGCGTTGGGT 58.334 45.000 0.00 0.00 41.77 4.51
439 486 1.774894 TAGCCAAGGTTCCGGTTGCT 61.775 55.000 0.00 0.00 0.00 3.91
446 493 0.521735 GGTTCCGGTTGCTCATGTTC 59.478 55.000 0.00 0.00 0.00 3.18
452 499 2.419990 CCGGTTGCTCATGTTCTATCCA 60.420 50.000 0.00 0.00 0.00 3.41
453 500 3.470709 CGGTTGCTCATGTTCTATCCAT 58.529 45.455 0.00 0.00 0.00 3.41
479 527 9.659503 TGGATTTCCTCTAAAATGCACATGTGC 62.660 40.741 38.00 38.00 46.03 4.57
504 552 2.556534 GCATCTGGCAATCACTGAAC 57.443 50.000 0.00 0.00 43.97 3.18
517 593 2.124109 TGAACCAAAGGCGCACCA 60.124 55.556 10.83 0.00 39.06 4.17
527 603 3.451894 GCGCACCATTCCCTTGGG 61.452 66.667 0.30 0.00 41.35 4.12
530 606 1.184970 CGCACCATTCCCTTGGGTTT 61.185 55.000 5.51 0.00 41.35 3.27
574 657 1.339727 CCTACTGGGCCTTGTTACCAC 60.340 57.143 4.53 0.00 0.00 4.16
624 707 3.825908 TGCCTCCCAAAAAGAAGGTAT 57.174 42.857 0.00 0.00 0.00 2.73
626 709 4.488770 TGCCTCCCAAAAAGAAGGTATTT 58.511 39.130 0.00 0.00 0.00 1.40
634 717 6.200097 CCCAAAAAGAAGGTATTTGAAACGTG 59.800 38.462 0.00 0.00 36.41 4.49
663 980 4.143494 GCCAAACGGTAAAATAAGCAAACG 60.143 41.667 0.00 0.00 0.00 3.60
685 1002 3.466836 AGTCAGACAAGCACGATTTCAA 58.533 40.909 2.66 0.00 0.00 2.69
688 1005 5.034152 GTCAGACAAGCACGATTTCAAAAA 58.966 37.500 0.00 0.00 0.00 1.94
691 1008 3.453424 ACAAGCACGATTTCAAAAACCC 58.547 40.909 0.00 0.00 0.00 4.11
692 1009 3.118956 ACAAGCACGATTTCAAAAACCCA 60.119 39.130 0.00 0.00 0.00 4.51
694 1011 4.335400 AGCACGATTTCAAAAACCCATT 57.665 36.364 0.00 0.00 0.00 3.16
695 1012 5.461032 AGCACGATTTCAAAAACCCATTA 57.539 34.783 0.00 0.00 0.00 1.90
696 1013 5.848406 AGCACGATTTCAAAAACCCATTAA 58.152 33.333 0.00 0.00 0.00 1.40
697 1014 5.694458 AGCACGATTTCAAAAACCCATTAAC 59.306 36.000 0.00 0.00 0.00 2.01
699 1016 6.201997 GCACGATTTCAAAAACCCATTAACTT 59.798 34.615 0.00 0.00 0.00 2.66
700 1017 7.254624 GCACGATTTCAAAAACCCATTAACTTT 60.255 33.333 0.00 0.00 0.00 2.66
701 1018 9.250624 CACGATTTCAAAAACCCATTAACTTTA 57.749 29.630 0.00 0.00 0.00 1.85
703 1020 9.471084 CGATTTCAAAAACCCATTAACTTTAGT 57.529 29.630 0.00 0.00 0.00 2.24
713 1030 8.756486 ACCCATTAACTTTAGTACAAAGTTGT 57.244 30.769 27.85 20.09 46.41 3.32
714 1031 9.850198 ACCCATTAACTTTAGTACAAAGTTGTA 57.150 29.630 27.85 21.04 46.41 2.41
864 1627 1.156736 CCATCTTCTTTCGCCGTTGT 58.843 50.000 0.00 0.00 0.00 3.32
865 1628 1.128692 CCATCTTCTTTCGCCGTTGTC 59.871 52.381 0.00 0.00 0.00 3.18
866 1629 1.798223 CATCTTCTTTCGCCGTTGTCA 59.202 47.619 0.00 0.00 0.00 3.58
867 1630 1.942677 TCTTCTTTCGCCGTTGTCAA 58.057 45.000 0.00 0.00 0.00 3.18
868 1631 1.595794 TCTTCTTTCGCCGTTGTCAAC 59.404 47.619 5.58 5.58 0.00 3.18
869 1632 0.658897 TTCTTTCGCCGTTGTCAACC 59.341 50.000 10.12 0.00 0.00 3.77
870 1633 0.462225 TCTTTCGCCGTTGTCAACCA 60.462 50.000 10.12 0.00 0.00 3.67
871 1634 0.041312 CTTTCGCCGTTGTCAACCAG 60.041 55.000 10.12 3.33 0.00 4.00
872 1635 0.745128 TTTCGCCGTTGTCAACCAGT 60.745 50.000 10.12 0.00 0.00 4.00
873 1636 0.104487 TTCGCCGTTGTCAACCAGTA 59.896 50.000 10.12 0.00 0.00 2.74
882 1645 6.404293 GCCGTTGTCAACCAGTATCAAATAAT 60.404 38.462 10.12 0.00 0.00 1.28
886 1649 8.730680 GTTGTCAACCAGTATCAAATAATCTGT 58.269 33.333 4.21 0.00 0.00 3.41
892 1655 7.805163 ACCAGTATCAAATAATCTGTCATGGA 58.195 34.615 0.00 0.00 0.00 3.41
893 1656 7.935755 ACCAGTATCAAATAATCTGTCATGGAG 59.064 37.037 0.00 0.00 0.00 3.86
894 1657 8.152898 CCAGTATCAAATAATCTGTCATGGAGA 58.847 37.037 0.00 0.00 0.00 3.71
895 1658 9.722184 CAGTATCAAATAATCTGTCATGGAGAT 57.278 33.333 0.00 0.00 0.00 2.75
898 1661 7.812690 TCAAATAATCTGTCATGGAGATTGG 57.187 36.000 21.81 13.13 39.86 3.16
939 1702 4.436998 CTGGACGTCACTCGGGGC 62.437 72.222 18.91 0.00 44.69 5.80
1029 1792 1.188219 TGGAGCTCGTCTTGCTTCCT 61.188 55.000 7.83 0.00 41.30 3.36
1030 1793 0.459411 GGAGCTCGTCTTGCTTCCTC 60.459 60.000 7.83 0.00 41.30 3.71
1038 1801 0.473694 TCTTGCTTCCTCCCCAGTCA 60.474 55.000 0.00 0.00 0.00 3.41
1050 1813 2.037367 CAGTCAGAGGACCCCGGA 59.963 66.667 0.73 0.00 45.48 5.14
1063 1826 2.679342 CCCGGAAAGGCTCCATGGA 61.679 63.158 15.27 15.27 45.74 3.41
1073 1836 1.368950 CTCCATGGATCGGCGTCAT 59.631 57.895 16.63 7.04 0.00 3.06
1114 1877 4.363990 CGGCGCTGCTCCGGATAT 62.364 66.667 22.48 0.00 42.99 1.63
1139 1902 1.751924 AGACAACCTCTACATCTCCGC 59.248 52.381 0.00 0.00 0.00 5.54
1266 2038 4.335647 AAGGCGGCACTCACCCTG 62.336 66.667 13.08 0.00 0.00 4.45
1368 2140 1.299541 CCATGTCGGTGATGGTTAGC 58.700 55.000 0.00 0.00 36.38 3.09
1397 2169 4.415332 GTTCAGGAGCGTCGGCGA 62.415 66.667 16.53 4.99 46.35 5.54
1425 2197 4.463597 CACATGATGTGCAACGCC 57.536 55.556 13.15 0.00 41.89 5.68
1428 2200 4.164664 ATGATGTGCAACGCCGCG 62.165 61.111 12.14 12.14 42.39 6.46
1551 2323 1.442526 CGTACATAGAGGCCGACGGT 61.443 60.000 16.73 0.00 0.00 4.83
1675 2447 2.595463 GGCTGCAGGACAAGCACA 60.595 61.111 17.12 0.00 37.02 4.57
1762 2534 2.547211 GCATCTGCATCCAGTACATGAC 59.453 50.000 0.00 0.00 40.09 3.06
1765 2537 2.159240 TCTGCATCCAGTACATGACGAC 60.159 50.000 0.00 0.00 40.09 4.34
1771 2543 1.202154 CCAGTACATGACGACTCGGAC 60.202 57.143 0.00 0.00 0.00 4.79
1784 2556 1.735386 CTCGGACTGTCGGAGTAAGA 58.265 55.000 27.62 8.30 38.54 2.10
1786 2558 1.002888 TCGGACTGTCGGAGTAAGAGT 59.997 52.381 13.27 0.00 33.83 3.24
1787 2559 1.811359 CGGACTGTCGGAGTAAGAGTT 59.189 52.381 9.52 0.00 33.83 3.01
1792 2564 3.005578 ACTGTCGGAGTAAGAGTTTGGTC 59.994 47.826 0.00 0.00 30.86 4.02
1864 2636 3.244422 TGTGACCCATGTTACAGAGGTTC 60.244 47.826 9.93 4.32 36.20 3.62
1902 2674 8.562052 TGTGCTATATCTGTATCAGCAAAAATG 58.438 33.333 0.00 0.00 43.34 2.32
1903 2675 8.019669 GTGCTATATCTGTATCAGCAAAAATGG 58.980 37.037 0.00 0.00 43.34 3.16
1904 2676 7.938490 TGCTATATCTGTATCAGCAAAAATGGA 59.062 33.333 0.00 0.00 39.18 3.41
1905 2677 8.954350 GCTATATCTGTATCAGCAAAAATGGAT 58.046 33.333 0.00 0.00 32.46 3.41
1910 2682 8.347004 TCTGTATCAGCAAAAATGGATTTACA 57.653 30.769 0.00 0.00 0.00 2.41
2199 2972 6.040209 TGATGAATTTTTGCAGGCACTTAT 57.960 33.333 0.00 0.00 34.60 1.73
2273 3046 2.991190 TCGATTTTACTGTTCACCGAGC 59.009 45.455 0.00 0.00 0.00 5.03
2527 6507 3.543070 GCTTGTTTCTCGATCATCTTCGC 60.543 47.826 0.00 0.00 38.97 4.70
2731 7331 2.338500 CTTTCGGCAGTAACTCCACTC 58.662 52.381 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
237 238 5.473846 TCATGAACAAAAAGGGTTACGCATA 59.526 36.000 1.60 0.00 0.00 3.14
238 239 4.279671 TCATGAACAAAAAGGGTTACGCAT 59.720 37.500 1.60 0.00 0.00 4.73
295 297 5.130975 TCAGAGTCTGCCACACCATATAATT 59.869 40.000 15.72 0.00 0.00 1.40
327 329 2.351253 CGTCTGCGAGCTAGCATAATCT 60.351 50.000 22.22 0.00 46.97 2.40
341 349 2.094659 CACAGCTAACCCGTCTGCG 61.095 63.158 0.00 0.00 37.95 5.18
367 375 2.223317 ACCCAACGCTGAAAAACGTAAC 60.223 45.455 0.00 0.00 42.68 2.50
388 431 3.181423 ACCCAAGGAGCAAACCAAATAGA 60.181 43.478 0.00 0.00 0.00 1.98
439 486 6.331042 AGAGGAAATCCATGGATAGAACATGA 59.669 38.462 27.54 0.00 46.60 3.07
446 493 7.449395 TGCATTTTAGAGGAAATCCATGGATAG 59.551 37.037 27.54 0.00 38.89 2.08
452 499 6.381994 ACATGTGCATTTTAGAGGAAATCCAT 59.618 34.615 0.00 0.00 38.89 3.41
453 500 5.716228 ACATGTGCATTTTAGAGGAAATCCA 59.284 36.000 0.00 0.00 38.89 3.41
479 527 1.400846 GTGATTGCCAGATGCTGACAG 59.599 52.381 0.00 0.00 42.00 3.51
482 530 1.279846 TCAGTGATTGCCAGATGCTGA 59.720 47.619 0.00 0.00 42.00 4.26
504 552 2.573340 GGAATGGTGCGCCTTTGG 59.427 61.111 21.05 0.00 32.96 3.28
517 593 5.375773 CAACATTCAAAAACCCAAGGGAAT 58.624 37.500 13.15 0.00 38.96 3.01
527 603 7.538303 AATCACTTGACCAACATTCAAAAAC 57.462 32.000 0.00 0.00 32.61 2.43
530 606 7.069331 AGGTTAATCACTTGACCAACATTCAAA 59.931 33.333 2.66 0.00 42.15 2.69
574 657 3.049912 GCAACCGCAAACTAAGAAAAGG 58.950 45.455 0.00 0.00 38.36 3.11
624 707 5.765072 GTTTGGCTAAAACACGTTTCAAA 57.235 34.783 0.00 0.29 46.30 2.69
634 717 6.641723 TGCTTATTTTACCGTTTGGCTAAAAC 59.358 34.615 0.00 1.19 44.04 2.43
663 980 3.059884 TGAAATCGTGCTTGTCTGACTC 58.940 45.455 9.51 0.00 0.00 3.36
688 1005 8.756486 ACAACTTTGTACTAAAGTTAATGGGT 57.244 30.769 23.56 17.73 45.57 4.51
740 1057 9.511144 CCGTCTCAAAATAAGTGTTTTAACTTT 57.489 29.630 0.00 0.00 40.77 2.66
741 1058 8.895737 TCCGTCTCAAAATAAGTGTTTTAACTT 58.104 29.630 0.00 0.00 42.89 2.66
742 1059 8.441312 TCCGTCTCAAAATAAGTGTTTTAACT 57.559 30.769 0.00 0.00 30.56 2.24
743 1060 7.801783 CCTCCGTCTCAAAATAAGTGTTTTAAC 59.198 37.037 0.00 0.00 30.56 2.01
745 1062 6.428771 CCCTCCGTCTCAAAATAAGTGTTTTA 59.571 38.462 0.00 0.00 30.56 1.52
746 1063 5.240844 CCCTCCGTCTCAAAATAAGTGTTTT 59.759 40.000 0.00 0.00 0.00 2.43
747 1064 4.760204 CCCTCCGTCTCAAAATAAGTGTTT 59.240 41.667 0.00 0.00 0.00 2.83
748 1065 4.041198 TCCCTCCGTCTCAAAATAAGTGTT 59.959 41.667 0.00 0.00 0.00 3.32
749 1066 3.581332 TCCCTCCGTCTCAAAATAAGTGT 59.419 43.478 0.00 0.00 0.00 3.55
751 1068 3.838903 ACTCCCTCCGTCTCAAAATAAGT 59.161 43.478 0.00 0.00 0.00 2.24
752 1069 4.473477 ACTCCCTCCGTCTCAAAATAAG 57.527 45.455 0.00 0.00 0.00 1.73
753 1070 5.021458 ACTACTCCCTCCGTCTCAAAATAA 58.979 41.667 0.00 0.00 0.00 1.40
754 1071 4.607239 ACTACTCCCTCCGTCTCAAAATA 58.393 43.478 0.00 0.00 0.00 1.40
755 1072 3.442076 ACTACTCCCTCCGTCTCAAAAT 58.558 45.455 0.00 0.00 0.00 1.82
757 1074 2.599408 ACTACTCCCTCCGTCTCAAA 57.401 50.000 0.00 0.00 0.00 2.69
759 1076 3.009916 AGTTTACTACTCCCTCCGTCTCA 59.990 47.826 0.00 0.00 28.23 3.27
760 1077 3.619419 AGTTTACTACTCCCTCCGTCTC 58.381 50.000 0.00 0.00 28.23 3.36
762 1079 4.891627 GTAGTTTACTACTCCCTCCGTC 57.108 50.000 11.80 0.00 44.06 4.79
786 1549 1.282738 ACTGGGTCATGCACATCATCA 59.717 47.619 0.00 0.00 31.79 3.07
864 1627 9.112725 CATGACAGATTATTTGATACTGGTTGA 57.887 33.333 0.00 0.00 33.57 3.18
865 1628 8.347771 CCATGACAGATTATTTGATACTGGTTG 58.652 37.037 0.00 0.00 33.57 3.77
866 1629 8.274322 TCCATGACAGATTATTTGATACTGGTT 58.726 33.333 0.00 0.00 33.57 3.67
867 1630 7.805163 TCCATGACAGATTATTTGATACTGGT 58.195 34.615 0.00 0.00 33.57 4.00
868 1631 8.152898 TCTCCATGACAGATTATTTGATACTGG 58.847 37.037 0.00 0.00 33.57 4.00
869 1632 9.722184 ATCTCCATGACAGATTATTTGATACTG 57.278 33.333 0.00 0.00 35.14 2.74
872 1635 9.511272 CCAATCTCCATGACAGATTATTTGATA 57.489 33.333 15.63 0.00 38.33 2.15
873 1636 8.222637 TCCAATCTCCATGACAGATTATTTGAT 58.777 33.333 15.63 0.00 38.33 2.57
882 1645 3.198635 GGTTCTCCAATCTCCATGACAGA 59.801 47.826 0.00 0.00 0.00 3.41
886 1649 1.486310 CGGGTTCTCCAATCTCCATGA 59.514 52.381 0.00 0.00 34.36 3.07
892 1655 1.838073 AACGCCGGGTTCTCCAATCT 61.838 55.000 2.18 0.00 31.79 2.40
893 1656 1.376812 AACGCCGGGTTCTCCAATC 60.377 57.895 2.18 0.00 31.79 2.67
894 1657 2.754375 AACGCCGGGTTCTCCAAT 59.246 55.556 2.18 0.00 31.79 3.16
1029 1792 2.450243 GGGTCCTCTGACTGGGGA 59.550 66.667 0.00 0.00 41.47 4.81
1030 1793 2.689034 GGGGTCCTCTGACTGGGG 60.689 72.222 0.00 0.00 41.47 4.96
1038 1801 3.009714 GCCTTTCCGGGGTCCTCT 61.010 66.667 0.00 0.00 0.00 3.69
1050 1813 1.152881 GCCGATCCATGGAGCCTTT 60.153 57.895 23.90 4.22 0.00 3.11
1114 1877 0.608130 ATGTAGAGGTTGTCTGCGCA 59.392 50.000 10.98 10.98 40.67 6.09
1231 1994 2.045926 GGCCACTCTCGCCATGTT 60.046 61.111 0.00 0.00 46.27 2.71
1266 2038 2.585791 CTTCGAGCTCCTCCTTGCCC 62.586 65.000 8.47 0.00 0.00 5.36
1366 2138 0.392193 CTGAACCTGATGGCTTCGCT 60.392 55.000 0.00 0.00 36.63 4.93
1368 2140 0.250234 TCCTGAACCTGATGGCTTCG 59.750 55.000 0.00 0.00 36.63 3.79
1371 2143 1.606531 GCTCCTGAACCTGATGGCT 59.393 57.895 0.00 0.00 36.63 4.75
1551 2323 1.567357 TGTGGCCATAGTGCTGACTA 58.433 50.000 9.72 0.00 39.07 2.59
1719 2491 1.172180 TTTCCCTGTCAAGCTTGCGG 61.172 55.000 21.99 19.39 0.00 5.69
1753 2525 1.738350 CAGTCCGAGTCGTCATGTACT 59.262 52.381 12.31 2.38 0.00 2.73
1765 2537 1.666700 CTCTTACTCCGACAGTCCGAG 59.333 57.143 15.18 15.18 36.43 4.63
1771 2543 3.005472 TGACCAAACTCTTACTCCGACAG 59.995 47.826 0.00 0.00 0.00 3.51
1784 2556 3.498774 AGCATGTTCTCTGACCAAACT 57.501 42.857 0.00 0.00 0.00 2.66
1786 2558 3.569701 GGAAAGCATGTTCTCTGACCAAA 59.430 43.478 0.00 0.00 0.00 3.28
1787 2559 3.149196 GGAAAGCATGTTCTCTGACCAA 58.851 45.455 0.00 0.00 0.00 3.67
1792 2564 5.757320 CAGGTATAGGAAAGCATGTTCTCTG 59.243 44.000 0.00 0.00 0.00 3.35
1864 2636 6.210385 ACAGATATAGCACATTACCAGAGGAG 59.790 42.308 0.00 0.00 0.00 3.69
1902 2674 0.175073 ACTCCGCGTCCTGTAAATCC 59.825 55.000 4.92 0.00 0.00 3.01
1903 2675 2.005971 AACTCCGCGTCCTGTAAATC 57.994 50.000 4.92 0.00 0.00 2.17
1904 2676 2.028385 AGAAACTCCGCGTCCTGTAAAT 60.028 45.455 4.92 0.00 0.00 1.40
1905 2677 1.342174 AGAAACTCCGCGTCCTGTAAA 59.658 47.619 4.92 0.00 0.00 2.01
1906 2678 0.963962 AGAAACTCCGCGTCCTGTAA 59.036 50.000 4.92 0.00 0.00 2.41
1907 2679 0.242825 CAGAAACTCCGCGTCCTGTA 59.757 55.000 4.92 0.00 0.00 2.74
1908 2680 1.006102 CAGAAACTCCGCGTCCTGT 60.006 57.895 4.92 0.00 0.00 4.00
1909 2681 2.383527 GCAGAAACTCCGCGTCCTG 61.384 63.158 4.92 3.96 0.00 3.86
1910 2682 2.048127 GCAGAAACTCCGCGTCCT 60.048 61.111 4.92 0.00 0.00 3.85
2008 2780 8.406297 ACTTAGAACTTTTGTCAATGTTTCTCC 58.594 33.333 6.42 0.00 31.96 3.71
2100 2872 7.704789 ATGCTTTTGAAAGTAGCTTTTTCAG 57.295 32.000 19.21 12.77 43.22 3.02
2527 6507 5.181622 ACAAGAGAACTAAGAGTACCAGACG 59.818 44.000 0.00 0.00 0.00 4.18
2731 7331 3.649073 TGTGAGAGTTCAACACATACCG 58.351 45.455 0.00 0.00 39.17 4.02


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

AutoCloner maintained by Alex Coulton.