Multiple sequence alignment - TraesCS6D01G005800

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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 TraesCS6D01G005800 chr6D 100.000 4311 0 0 498 4808 2506682 2502372 0.000000e+00 7962.0
1 TraesCS6D01G005800 chr6D 84.997 1813 243 18 2040 3838 2518808 2520605 0.000000e+00 1814.0
2 TraesCS6D01G005800 chr6D 94.618 1152 49 7 2187 3335 2525082 2523941 0.000000e+00 1772.0
3 TraesCS6D01G005800 chr6D 82.780 1806 292 15 2041 3838 2508903 2510697 0.000000e+00 1594.0
4 TraesCS6D01G005800 chr6D 86.842 1026 107 7 1177 2200 2526160 2525161 0.000000e+00 1122.0
5 TraesCS6D01G005800 chr6D 81.692 934 146 18 1115 2046 2517835 2518745 0.000000e+00 754.0
6 TraesCS6D01G005800 chr6D 80.919 566 98 4 2532 3097 2634524 2635079 5.710000e-119 438.0
7 TraesCS6D01G005800 chr6D 100.000 140 0 0 1 140 2507179 2507040 4.770000e-65 259.0
8 TraesCS6D01G005800 chr6D 79.297 256 34 9 3961 4205 2520705 2520952 1.380000e-35 161.0
9 TraesCS6D01G005800 chr6B 94.467 3741 165 18 764 4472 296351 292621 0.000000e+00 5723.0
10 TraesCS6D01G005800 chr6B 83.638 1748 258 15 2099 3828 443211 444948 0.000000e+00 1618.0
11 TraesCS6D01G005800 chr6B 86.624 628 84 0 3182 3809 3782351 3781724 0.000000e+00 695.0
12 TraesCS6D01G005800 chr6B 80.604 629 111 5 2470 3097 463118 463736 4.350000e-130 475.0
13 TraesCS6D01G005800 chr6B 92.632 95 5 2 4300 4392 19321890 19321796 8.390000e-28 135.0
14 TraesCS6D01G005800 chr6A 89.835 1761 142 13 648 2389 1679020 1677278 0.000000e+00 2226.0
15 TraesCS6D01G005800 chr6A 93.223 1269 55 9 3055 4293 1677088 1675821 0.000000e+00 1838.0
16 TraesCS6D01G005800 chr6A 82.773 743 116 8 2043 2776 1679994 1680733 0.000000e+00 652.0
17 TraesCS6D01G005800 chr6A 80.114 875 155 9 2230 3097 1698328 1699190 6.790000e-178 634.0
18 TraesCS6D01G005800 chr6A 80.535 822 148 8 1232 2046 1679112 1679928 5.290000e-174 621.0
19 TraesCS6D01G005800 chr6A 86.592 537 35 11 4300 4808 1675616 1675089 4.200000e-155 558.0
20 TraesCS6D01G005800 chr6A 94.247 365 18 3 499 860 1681165 1680801 5.440000e-154 555.0
21 TraesCS6D01G005800 chr6A 81.940 598 96 8 1162 1756 1686029 1686617 3.340000e-136 496.0
22 TraesCS6D01G005800 chr6A 93.571 140 8 1 1 140 1681327 1681189 1.750000e-49 207.0
23 TraesCS6D01G005800 chr5B 73.858 1729 406 36 2098 3792 662599400 662597684 0.000000e+00 647.0
24 TraesCS6D01G005800 chr5B 79.126 618 118 8 3169 3780 689491108 689491720 2.680000e-112 416.0
25 TraesCS6D01G005800 chr5B 83.448 145 22 2 4443 4585 530036445 530036301 3.020000e-27 134.0
26 TraesCS6D01G005800 chr5D 80.990 626 112 7 3169 3792 546381771 546382391 1.560000e-134 490.0
27 TraesCS6D01G005800 chr5A 75.416 541 129 4 2493 3031 653867450 653866912 4.770000e-65 259.0
28 TraesCS6D01G005800 chr5A 94.000 50 3 0 4536 4585 550274852 550274803 5.160000e-10 76.8
29 TraesCS6D01G005800 chr1B 77.344 256 30 14 4331 4584 296288388 296288159 5.050000e-25 126.0
30 TraesCS6D01G005800 chr1B 88.776 98 10 1 498 594 158005189 158005286 8.450000e-23 119.0
31 TraesCS6D01G005800 chr4B 88.660 97 10 1 498 593 573297638 573297542 3.040000e-22 117.0
32 TraesCS6D01G005800 chr4A 88.542 96 11 0 498 593 531107779 531107874 3.040000e-22 117.0
33 TraesCS6D01G005800 chr7D 91.045 67 6 0 498 564 43074170 43074236 1.840000e-14 91.6
34 TraesCS6D01G005800 chr2B 93.750 48 3 0 3846 3893 89705383 89705430 6.670000e-09 73.1


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 TraesCS6D01G005800 chr6D 2502372 2507179 4807 True 4110.500000 7962 100.000000 1 4808 2 chr6D.!!$R1 4807
1 TraesCS6D01G005800 chr6D 2508903 2510697 1794 False 1594.000000 1594 82.780000 2041 3838 1 chr6D.!!$F1 1797
2 TraesCS6D01G005800 chr6D 2523941 2526160 2219 True 1447.000000 1772 90.730000 1177 3335 2 chr6D.!!$R2 2158
3 TraesCS6D01G005800 chr6D 2517835 2520952 3117 False 909.666667 1814 81.995333 1115 4205 3 chr6D.!!$F3 3090
4 TraesCS6D01G005800 chr6D 2634524 2635079 555 False 438.000000 438 80.919000 2532 3097 1 chr6D.!!$F2 565
5 TraesCS6D01G005800 chr6B 292621 296351 3730 True 5723.000000 5723 94.467000 764 4472 1 chr6B.!!$R1 3708
6 TraesCS6D01G005800 chr6B 443211 444948 1737 False 1618.000000 1618 83.638000 2099 3828 1 chr6B.!!$F1 1729
7 TraesCS6D01G005800 chr6B 3781724 3782351 627 True 695.000000 695 86.624000 3182 3809 1 chr6B.!!$R2 627
8 TraesCS6D01G005800 chr6B 463118 463736 618 False 475.000000 475 80.604000 2470 3097 1 chr6B.!!$F2 627
9 TraesCS6D01G005800 chr6A 1675089 1681327 6238 True 1076.800000 2226 91.493600 1 4808 5 chr6A.!!$R1 4807
10 TraesCS6D01G005800 chr6A 1679112 1680733 1621 False 636.500000 652 81.654000 1232 2776 2 chr6A.!!$F3 1544
11 TraesCS6D01G005800 chr6A 1698328 1699190 862 False 634.000000 634 80.114000 2230 3097 1 chr6A.!!$F2 867
12 TraesCS6D01G005800 chr6A 1686029 1686617 588 False 496.000000 496 81.940000 1162 1756 1 chr6A.!!$F1 594
13 TraesCS6D01G005800 chr5B 662597684 662599400 1716 True 647.000000 647 73.858000 2098 3792 1 chr5B.!!$R2 1694
14 TraesCS6D01G005800 chr5B 689491108 689491720 612 False 416.000000 416 79.126000 3169 3780 1 chr5B.!!$F1 611
15 TraesCS6D01G005800 chr5D 546381771 546382391 620 False 490.000000 490 80.990000 3169 3792 1 chr5D.!!$F1 623
16 TraesCS6D01G005800 chr5A 653866912 653867450 538 True 259.000000 259 75.416000 2493 3031 1 chr5A.!!$R2 538

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
31 32 0.034767 TGGATGAAGGCAGGCTTCAG 60.035 55.000 34.94 0.0 43.00 3.02 F
969 2985 0.457851 CCAACCAACGAACCAAAGCA 59.542 50.000 0.00 0.0 0.00 3.91 F
1272 3290 0.821301 TCATTTGCAGCAACCGGACA 60.821 50.000 9.46 0.0 0.00 4.02 F
1664 3685 1.001764 CCACCAGCTGGCTTCATGA 60.002 57.895 33.06 0.0 39.32 3.07 F
3248 5491 1.008538 GCAACAGTTTGACAGGGCG 60.009 57.895 0.00 0.0 34.24 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1467 3488 0.909610 AATTGGAGCCGGAGAGGTCA 60.910 55.000 5.05 0.0 43.70 4.02 R
2031 4053 1.765904 TGCCCTAACCGATGCATTAGA 59.234 47.619 0.00 0.0 31.20 2.10 R
3248 5491 4.502087 GCATGCCAATTTCCTTAGGAATCC 60.502 45.833 15.09 0.0 41.71 3.01 R
3553 5796 2.487762 TGTCAATTCGTGAGCAATTCCC 59.512 45.455 0.00 0.0 36.74 3.97 R
4530 7045 0.671796 TCAACTCACGCCTCGAGAAA 59.328 50.000 15.71 0.0 34.47 2.52 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
31 32 0.034767 TGGATGAAGGCAGGCTTCAG 60.035 55.000 34.94 0.00 43.00 3.02
42 43 1.743958 CAGGCTTCAGAAATGGAGCAG 59.256 52.381 10.53 0.00 0.00 4.24
61 62 0.548031 GGGGAGGACATGAGCATGAA 59.452 55.000 16.70 0.00 41.20 2.57
94 95 7.709269 TGCGAAACAATAATCCTACATCTAC 57.291 36.000 0.00 0.00 0.00 2.59
96 97 6.420008 GCGAAACAATAATCCTACATCTACGT 59.580 38.462 0.00 0.00 0.00 3.57
125 126 4.201851 GCTACGAAGACCTACGTAACATGA 60.202 45.833 0.00 0.00 42.77 3.07
540 541 7.698506 AATGATCCACTAATATTGCTCCATG 57.301 36.000 0.00 0.00 0.00 3.66
645 646 2.486907 CGGTCGGTACCTCTCTATCCTT 60.487 54.545 10.90 0.00 44.35 3.36
661 662 0.727398 CCTTCCCGCTCGTTTTCATC 59.273 55.000 0.00 0.00 0.00 2.92
662 663 1.438651 CTTCCCGCTCGTTTTCATCA 58.561 50.000 0.00 0.00 0.00 3.07
674 675 1.869774 TTTCATCAGGATCGCCATCG 58.130 50.000 0.00 0.00 36.29 3.84
681 682 2.726180 GATCGCCATCGTCGTCGG 60.726 66.667 1.55 0.00 37.69 4.79
687 688 2.409055 CCATCGTCGTCGGGTGGTA 61.409 63.158 15.15 0.00 37.94 3.25
699 700 0.672711 GGGTGGTAGAAGCGTTCCAC 60.673 60.000 11.69 11.69 46.46 4.02
721 722 4.141756 ACAGAGCCTGTGATATCCAAAGAG 60.142 45.833 7.00 0.00 43.63 2.85
727 728 5.936956 GCCTGTGATATCCAAAGAGAATAGG 59.063 44.000 0.00 0.00 31.48 2.57
882 2880 2.423577 GGCATTTCCTTGTCACGTACT 58.576 47.619 0.00 0.00 0.00 2.73
883 2881 2.812011 GGCATTTCCTTGTCACGTACTT 59.188 45.455 0.00 0.00 0.00 2.24
924 2922 1.078848 AATCTGCTGACCCGCACTC 60.079 57.895 0.00 0.00 35.74 3.51
925 2923 2.527951 AATCTGCTGACCCGCACTCC 62.528 60.000 0.00 0.00 35.74 3.85
926 2924 3.699894 CTGCTGACCCGCACTCCT 61.700 66.667 0.00 0.00 35.74 3.69
969 2985 0.457851 CCAACCAACGAACCAAAGCA 59.542 50.000 0.00 0.00 0.00 3.91
976 2992 1.172812 ACGAACCAAAGCAAGAGGCC 61.173 55.000 0.00 0.00 46.50 5.19
1110 3126 4.856801 CCCCGCCACCCGAGATTG 62.857 72.222 0.00 0.00 40.02 2.67
1241 3259 2.851102 AGGTGTGGAGTGCTGCCT 60.851 61.111 0.00 0.00 0.00 4.75
1272 3290 0.821301 TCATTTGCAGCAACCGGACA 60.821 50.000 9.46 0.00 0.00 4.02
1369 3390 1.279271 GCTCCTCCTTGCTCACCTTAA 59.721 52.381 0.00 0.00 0.00 1.85
1652 3673 2.821366 CCTTAGCGCTGCCACCAG 60.821 66.667 22.90 5.90 42.13 4.00
1664 3685 1.001764 CCACCAGCTGGCTTCATGA 60.002 57.895 33.06 0.00 39.32 3.07
1687 3708 1.606313 AACATGCTCCCCCGTTTGG 60.606 57.895 0.00 0.00 0.00 3.28
2031 4053 3.073946 TCATCATCATGGACATGGCAGAT 59.926 43.478 11.98 9.80 39.24 2.90
2116 4207 4.340097 TGTATGGAGATGTACCCGTTAGTG 59.660 45.833 0.00 0.00 0.00 2.74
2649 4854 8.268850 TCCTTCTCTTCAATAATTCCTTTTCG 57.731 34.615 0.00 0.00 0.00 3.46
3248 5491 1.008538 GCAACAGTTTGACAGGGCG 60.009 57.895 0.00 0.00 34.24 6.13
3553 5796 1.492133 ATGTGGTCCACCTGTCCCAG 61.492 60.000 19.57 0.00 36.82 4.45
3569 5812 1.683011 CCCAGGGAATTGCTCACGAAT 60.683 52.381 0.00 0.00 30.05 3.34
3698 5945 5.184864 TCTTTTGTGGCTTCTTGTTCAAGAA 59.815 36.000 21.51 21.51 37.27 2.52
3718 5965 1.474330 AAAATGGAGGATCGGTTGGC 58.526 50.000 0.00 0.00 34.37 4.52
3859 6107 4.072839 CCTACTTTCCTCTGTCCCAAAAC 58.927 47.826 0.00 0.00 0.00 2.43
3984 6254 5.216566 TGTACGTGTATTCGGTAGTGTAC 57.783 43.478 0.00 0.00 34.94 2.90
4043 6326 2.093106 TGTGTTGTTGTGGGTGGTTAC 58.907 47.619 0.00 0.00 0.00 2.50
4058 6341 4.487019 GTGGTTACTTAGCTGAGACTGAC 58.513 47.826 13.21 4.90 0.00 3.51
4076 6359 5.645201 ACTGACCCATATCTCTGTATAGCA 58.355 41.667 0.00 0.00 0.00 3.49
4086 6369 9.322773 CATATCTCTGTATAGCAAATATGTGGG 57.677 37.037 0.00 0.00 0.00 4.61
4122 6405 8.367911 AGCTAACGATCCAAATCTATGTAATCA 58.632 33.333 0.00 0.00 0.00 2.57
4176 6459 2.749044 CGGCACATGCTTCCAGCT 60.749 61.111 3.48 0.00 42.97 4.24
4214 6497 0.749049 TCGAGGCCACATCATCTCTG 59.251 55.000 5.01 0.00 0.00 3.35
4266 6566 1.667236 CTGCACTCAACCACAACTCA 58.333 50.000 0.00 0.00 0.00 3.41
4274 6575 5.584649 CACTCAACCACAACTCAAGAAACTA 59.415 40.000 0.00 0.00 0.00 2.24
4298 6797 4.658063 ACCCGAACCATTTTCTTACATCA 58.342 39.130 0.00 0.00 0.00 3.07
4385 6887 8.428186 TCTAACGTGTTACAAAATTTCAGTCT 57.572 30.769 0.00 0.00 0.00 3.24
4425 6937 5.574443 GCAAGAGAAACAAGCATACCATTTC 59.426 40.000 0.00 0.00 0.00 2.17
4472 6987 0.593128 GGCTGTGGTAGTGCAAACAG 59.407 55.000 8.38 8.38 42.35 3.16
4478 6993 1.244019 GGTAGTGCAAACAGGCCCAG 61.244 60.000 0.00 0.00 0.00 4.45
4492 7007 0.250727 GCCCAGTTCACAGCCAAGTA 60.251 55.000 0.00 0.00 0.00 2.24
4521 7036 5.878332 AACAGCATTCATGTCACGATTTA 57.122 34.783 0.00 0.00 0.00 1.40
4524 7039 5.585844 ACAGCATTCATGTCACGATTTATCA 59.414 36.000 0.00 0.00 0.00 2.15
4526 7041 7.442062 ACAGCATTCATGTCACGATTTATCATA 59.558 33.333 0.00 0.00 0.00 2.15
4551 7066 0.888619 TCTCGAGGCGTGAGTTGAAT 59.111 50.000 13.56 0.00 34.99 2.57
4594 7109 8.940397 TGACATGATAGATATAACTCACCTCA 57.060 34.615 0.00 0.00 0.00 3.86
4595 7110 9.367160 TGACATGATAGATATAACTCACCTCAA 57.633 33.333 0.00 0.00 0.00 3.02
4596 7111 9.632807 GACATGATAGATATAACTCACCTCAAC 57.367 37.037 0.00 0.00 0.00 3.18
4597 7112 9.373450 ACATGATAGATATAACTCACCTCAACT 57.627 33.333 0.00 0.00 0.00 3.16
4635 7152 5.588648 CAGTCACTAACAAACTCAAGGGAAA 59.411 40.000 0.00 0.00 0.00 3.13
4638 7155 5.104277 TCACTAACAAACTCAAGGGAAAGGA 60.104 40.000 0.00 0.00 0.00 3.36
4649 7171 1.990614 GGAAAGGACCCTCCGCTCT 60.991 63.158 0.00 0.00 42.75 4.09
4650 7172 1.219393 GAAAGGACCCTCCGCTCTG 59.781 63.158 0.00 0.00 42.75 3.35
4699 7229 5.218065 TCCATATCTATCTGCCTCCTCAT 57.782 43.478 0.00 0.00 0.00 2.90
4700 7230 5.207354 TCCATATCTATCTGCCTCCTCATC 58.793 45.833 0.00 0.00 0.00 2.92
4701 7231 4.037803 CCATATCTATCTGCCTCCTCATCG 59.962 50.000 0.00 0.00 0.00 3.84
4728 7258 2.286365 AAAGGGTTGCGAATCCTTCA 57.714 45.000 12.11 0.00 39.72 3.02
4730 7260 1.534729 AGGGTTGCGAATCCTTCAAC 58.465 50.000 0.00 0.00 39.32 3.18
4731 7261 0.168128 GGGTTGCGAATCCTTCAACG 59.832 55.000 0.00 0.00 40.53 4.10
4732 7262 0.872388 GGTTGCGAATCCTTCAACGT 59.128 50.000 0.00 0.00 40.53 3.99
4733 7263 1.136057 GGTTGCGAATCCTTCAACGTC 60.136 52.381 0.00 0.00 40.53 4.34
4734 7264 1.798813 GTTGCGAATCCTTCAACGTCT 59.201 47.619 0.00 0.00 32.10 4.18
4735 7265 1.710013 TGCGAATCCTTCAACGTCTC 58.290 50.000 0.00 0.00 0.00 3.36
4736 7266 1.000394 TGCGAATCCTTCAACGTCTCA 60.000 47.619 0.00 0.00 0.00 3.27
4774 7304 7.852550 AACCTACCTACCTATTGATTAGACC 57.147 40.000 0.00 0.00 0.00 3.85
4796 7326 1.275573 GTACACCTTGTCAGACTCCCC 59.724 57.143 1.31 0.00 0.00 4.81
4798 7328 1.913762 ACCTTGTCAGACTCCCCCG 60.914 63.158 1.31 0.00 0.00 5.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 0.106967 GTCCTCCCCTGCTCCATTTC 60.107 60.000 0.00 0.00 0.00 2.17
42 43 0.548031 TTCATGCTCATGTCCTCCCC 59.452 55.000 9.41 0.00 39.72 4.81
94 95 3.213249 AGGTCTTCGTAGCAGTTTACG 57.787 47.619 0.00 0.00 45.79 3.18
96 97 3.753272 ACGTAGGTCTTCGTAGCAGTTTA 59.247 43.478 0.96 0.00 38.52 2.01
101 102 3.073678 TGTTACGTAGGTCTTCGTAGCA 58.926 45.455 17.30 17.30 45.65 3.49
574 575 1.376609 GGGGCAATGCTAGACCAACG 61.377 60.000 4.82 0.00 0.00 4.10
577 578 0.034186 CAAGGGGCAATGCTAGACCA 60.034 55.000 4.82 0.00 0.00 4.02
645 646 0.391130 CCTGATGAAAACGAGCGGGA 60.391 55.000 0.00 0.00 0.00 5.14
661 662 1.658717 GACGACGATGGCGATCCTG 60.659 63.158 0.00 0.00 41.64 3.86
662 663 2.722487 GACGACGATGGCGATCCT 59.278 61.111 0.00 0.00 41.64 3.24
674 675 1.153881 GCTTCTACCACCCGACGAC 60.154 63.158 0.00 0.00 0.00 4.34
681 682 2.836944 GTGGAACGCTTCTACCACC 58.163 57.895 0.00 0.00 44.59 4.61
687 688 1.004440 GGCTCTGTGGAACGCTTCT 60.004 57.895 0.00 0.00 42.39 2.85
699 700 4.100653 TCTCTTTGGATATCACAGGCTCTG 59.899 45.833 4.83 1.16 37.52 3.35
721 722 9.878599 CGTATACAACATTCCATTTTCCTATTC 57.121 33.333 3.32 0.00 0.00 1.75
727 728 6.687081 TCCCGTATACAACATTCCATTTTC 57.313 37.500 3.32 0.00 0.00 2.29
733 734 4.989168 GTCTCATCCCGTATACAACATTCC 59.011 45.833 3.32 0.00 0.00 3.01
737 738 2.359848 CGGTCTCATCCCGTATACAACA 59.640 50.000 3.32 0.00 40.59 3.33
882 2880 2.954684 ATTCCTCGCAGCCCGTCAA 61.955 57.895 0.00 0.00 38.35 3.18
883 2881 3.390521 ATTCCTCGCAGCCCGTCA 61.391 61.111 0.00 0.00 38.35 4.35
893 2891 2.283617 CAGCAGATTCGTTCATTCCTCG 59.716 50.000 0.00 0.00 0.00 4.63
976 2992 1.154672 GTGTGTATGCGTGTGTGCG 60.155 57.895 0.00 0.00 37.81 5.34
1173 3189 1.079057 GAGGCCGTCCTTGAAGTCC 60.079 63.158 0.00 0.00 44.46 3.85
1241 3259 2.565647 CAAATGATGCCCGTCCACA 58.434 52.632 0.00 0.00 0.00 4.17
1369 3390 2.289945 GGTCCAACTGCTTCAGATGTCT 60.290 50.000 0.29 0.00 33.37 3.41
1467 3488 0.909610 AATTGGAGCCGGAGAGGTCA 60.910 55.000 5.05 0.00 43.70 4.02
1652 3673 4.795268 CATGTTGATATCATGAAGCCAGC 58.205 43.478 6.17 0.66 43.47 4.85
1664 3685 1.140312 ACGGGGGAGCATGTTGATAT 58.860 50.000 0.00 0.00 0.00 1.63
1687 3708 6.528072 GCACAATAACTTAAATCAAGGTCTGC 59.472 38.462 0.00 0.00 38.70 4.26
2031 4053 1.765904 TGCCCTAACCGATGCATTAGA 59.234 47.619 0.00 0.00 31.20 2.10
2116 4207 6.149807 TGGTTCAAATTTATGAGTTCCCGTAC 59.850 38.462 0.00 0.00 0.00 3.67
2351 4534 8.196802 TGTGTTCGAAACATCAAGATAATAGG 57.803 34.615 0.00 0.00 44.35 2.57
2649 4854 4.618515 GCATGGAGCATGGAATAGTTCCC 61.619 52.174 6.29 0.00 45.95 3.97
3248 5491 4.502087 GCATGCCAATTTCCTTAGGAATCC 60.502 45.833 15.09 0.00 41.71 3.01
3553 5796 2.487762 TGTCAATTCGTGAGCAATTCCC 59.512 45.455 0.00 0.00 36.74 3.97
3569 5812 5.163001 TGGGGAGCATATGGAATTATGTCAA 60.163 40.000 4.56 0.00 33.07 3.18
3698 5945 1.824852 GCCAACCGATCCTCCATTTTT 59.175 47.619 0.00 0.00 0.00 1.94
3711 5958 2.673368 GTCTGTAAATGAGAGCCAACCG 59.327 50.000 0.00 0.00 0.00 4.44
3718 5965 7.267857 TCATACATGTGGTCTGTAAATGAGAG 58.732 38.462 9.11 0.00 33.12 3.20
3812 6059 5.570320 ACCTACATAAGCTCCAACATTTGT 58.430 37.500 0.00 0.00 0.00 2.83
3859 6107 5.437289 TTGAACTAAAGCCATGACACTTG 57.563 39.130 0.00 0.00 0.00 3.16
3915 6163 5.348164 ACCAAAGAAAAGCATTACACACAC 58.652 37.500 0.00 0.00 0.00 3.82
3984 6254 9.099454 GGCCTTCTAGATTATATATTCGGTTTG 57.901 37.037 0.00 0.00 0.00 2.93
4043 6326 4.832266 AGATATGGGTCAGTCTCAGCTAAG 59.168 45.833 0.00 0.00 0.00 2.18
4058 6341 9.322773 CACATATTTGCTATACAGAGATATGGG 57.677 37.037 0.00 0.00 34.95 4.00
4076 6359 3.445096 GCTTGAGCTTGACCCACATATTT 59.555 43.478 0.00 0.00 38.21 1.40
4105 6388 7.663081 GGAGCAATCTGATTACATAGATTTGGA 59.337 37.037 1.98 0.00 40.62 3.53
4122 6405 5.220381 CGTACGTGTTATATGGAGCAATCT 58.780 41.667 7.22 0.00 0.00 2.40
4176 6459 6.708949 GCCTCGATACCATATAAGGTTTTGAA 59.291 38.462 4.72 0.00 43.08 2.69
4214 6497 3.181465 ACAAGGGATGATGGATACGACAC 60.181 47.826 0.00 0.00 42.51 3.67
4266 6566 4.635699 AATGGTTCGGGTCTAGTTTCTT 57.364 40.909 0.00 0.00 0.00 2.52
4274 6575 4.360951 TGTAAGAAAATGGTTCGGGTCT 57.639 40.909 0.00 0.00 0.00 3.85
4298 6797 9.457436 TTCTCCAGAACTTTAGTACAAGTTTTT 57.543 29.630 11.42 3.15 45.23 1.94
4385 6887 6.795098 TCTCTTGCTGCGAGTTTAATTTAA 57.205 33.333 16.18 0.00 0.00 1.52
4398 6900 2.719426 ATGCTTGTTTCTCTTGCTGC 57.281 45.000 0.00 0.00 0.00 5.25
4425 6937 5.132897 TGGTATGCTTGTTTTGCCTAAAG 57.867 39.130 0.00 0.00 0.00 1.85
4472 6987 2.203480 TTGGCTGTGAACTGGGCC 60.203 61.111 0.00 0.00 44.31 5.80
4478 6993 7.484959 GCTGTTAATTTATACTTGGCTGTGAAC 59.515 37.037 0.00 0.00 0.00 3.18
4492 7007 7.984391 TCGTGACATGAATGCTGTTAATTTAT 58.016 30.769 0.00 0.00 0.00 1.40
4530 7045 0.671796 TCAACTCACGCCTCGAGAAA 59.328 50.000 15.71 0.00 34.47 2.52
4535 7050 2.969443 AAAATTCAACTCACGCCTCG 57.031 45.000 0.00 0.00 0.00 4.63
4539 7054 7.617533 TTTTAGCTAAAAATTCAACTCACGC 57.382 32.000 25.65 0.00 32.05 5.34
4591 7106 2.301902 GATGGCGAGCGCAAGTTGAG 62.302 60.000 17.16 4.30 44.11 3.02
4592 7107 2.358615 ATGGCGAGCGCAAGTTGA 60.359 55.556 17.16 0.00 44.11 3.18
4594 7109 3.127533 GGATGGCGAGCGCAAGTT 61.128 61.111 17.16 0.00 44.11 2.66
4595 7110 4.393155 TGGATGGCGAGCGCAAGT 62.393 61.111 17.16 1.44 44.11 3.16
4596 7111 3.570638 CTGGATGGCGAGCGCAAG 61.571 66.667 17.16 3.48 44.11 4.01
4597 7112 4.393155 ACTGGATGGCGAGCGCAA 62.393 61.111 17.16 5.69 44.11 4.85
4635 7152 4.390556 AGCAGAGCGGAGGGTCCT 62.391 66.667 0.00 0.00 41.62 3.85
4649 7171 3.459227 TGAGGATGTGAATATTGGGAGCA 59.541 43.478 0.00 0.00 0.00 4.26
4650 7172 4.090761 TGAGGATGTGAATATTGGGAGC 57.909 45.455 0.00 0.00 0.00 4.70
4655 7177 5.709164 GGAAGGGATGAGGATGTGAATATTG 59.291 44.000 0.00 0.00 0.00 1.90
4719 7249 5.066126 CGGCATGAGACGTTGAAGGATTC 62.066 52.174 0.00 0.00 43.63 2.52
4720 7250 2.359900 GGCATGAGACGTTGAAGGATT 58.640 47.619 0.00 0.00 0.00 3.01
4764 7294 5.790593 GACAAGGTGTACTGGTCTAATCAA 58.209 41.667 0.00 0.00 45.20 2.57
4774 7304 2.028930 GGGAGTCTGACAAGGTGTACTG 60.029 54.545 10.88 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.