Multiple sequence alignment - TraesCS3A01G241700

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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 TraesCS3A01G241700 chr3A 100.000 4275 0 0 1 4275 453939643 453935369 0.000000e+00 7895.0
1 TraesCS3A01G241700 chr3D 96.010 3784 116 16 465 4229 336594640 336590873 0.000000e+00 6119.0
2 TraesCS3A01G241700 chr3D 91.814 452 17 15 1 451 336595054 336594622 2.830000e-171 612.0
3 TraesCS3A01G241700 chr3B 95.133 1911 70 6 467 2355 434427082 434425173 0.000000e+00 2992.0
4 TraesCS3A01G241700 chr3B 94.315 1935 65 18 2350 4275 434425062 434423164 0.000000e+00 2922.0
5 TraesCS3A01G241700 chr3B 97.214 323 9 0 126 448 434427389 434427067 8.080000e-152 547.0
6 TraesCS3A01G241700 chr3B 94.937 79 3 1 1 78 434427753 434427675 5.810000e-24 122.0
7 TraesCS3A01G241700 chr2B 90.566 53 3 2 4223 4275 41072678 41072628 7.670000e-08 69.4
8 TraesCS3A01G241700 chr2B 91.667 48 2 2 4227 4274 717105466 717105421 9.920000e-07 65.8
9 TraesCS3A01G241700 chr2A 97.436 39 0 1 4233 4270 528490371 528490333 9.920000e-07 65.8
10 TraesCS3A01G241700 chr7B 93.023 43 3 0 4228 4270 5156563 5156521 3.570000e-06 63.9
11 TraesCS3A01G241700 chr1B 91.489 47 3 1 4228 4274 376117099 376117054 3.570000e-06 63.9
12 TraesCS3A01G241700 chr4D 92.857 42 1 2 4233 4273 420484796 420484756 4.620000e-05 60.2
13 TraesCS3A01G241700 chr7D 90.909 44 2 2 4233 4275 417439467 417439425 1.660000e-04 58.4
14 TraesCS3A01G241700 chr2D 90.909 44 2 2 4233 4275 351554955 351554997 1.660000e-04 58.4


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 TraesCS3A01G241700 chr3A 453935369 453939643 4274 True 7895.00 7895 100.00000 1 4275 1 chr3A.!!$R1 4274
1 TraesCS3A01G241700 chr3D 336590873 336595054 4181 True 3365.50 6119 93.91200 1 4229 2 chr3D.!!$R1 4228
2 TraesCS3A01G241700 chr3B 434423164 434427753 4589 True 1645.75 2992 95.39975 1 4275 4 chr3B.!!$R1 4274

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
87 95 0.105709 CCTCTTCTCCTCCTCCCCTC 60.106 65.000 0.0 0.0 0.00 4.30 F
448 688 0.188342 GCATCTCCCTCTCCCTCTCT 59.812 60.000 0.0 0.0 0.00 3.10 F
452 692 1.010793 TCTCCCTCTCCCTCTCTCTCT 59.989 57.143 0.0 0.0 0.00 3.10 F
1168 1436 1.153127 AACAAGGCGGTGAACGGAA 60.153 52.632 0.0 0.0 44.51 4.30 F
1738 2006 0.469144 GTTGGGTTTCCAGAGGGCAA 60.469 55.000 0.0 0.0 45.04 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1247 1515 0.094216 CACTTCGCTGCTGTCATTCG 59.906 55.000 0.00 0.0 0.00 3.34 R
1350 1618 0.170561 CTGAGCTGCATTGGCTGAAC 59.829 55.000 3.32 0.0 41.06 3.18 R
1719 1987 0.469144 TTGCCCTCTGGAAACCCAAC 60.469 55.000 0.00 0.0 32.40 3.77 R
2999 3386 1.215382 CTTGTCGGCGTCAGGATCA 59.785 57.895 10.43 0.0 0.00 2.92 R
3625 4020 1.075536 TCCTGGTAGCTCACTGAGACA 59.924 52.381 10.45 2.3 0.00 3.41 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
70 72 2.143876 AACTCCAAACACTGCAACCT 57.856 45.000 0.00 0.00 0.00 3.50
87 95 0.105709 CCTCTTCTCCTCCTCCCCTC 60.106 65.000 0.00 0.00 0.00 4.30
119 127 4.116113 TCCCCTTTACTCTCTCTCTCTCT 58.884 47.826 0.00 0.00 0.00 3.10
120 128 4.165372 TCCCCTTTACTCTCTCTCTCTCTC 59.835 50.000 0.00 0.00 0.00 3.20
121 129 4.166144 CCCCTTTACTCTCTCTCTCTCTCT 59.834 50.000 0.00 0.00 0.00 3.10
122 130 5.368989 CCCTTTACTCTCTCTCTCTCTCTC 58.631 50.000 0.00 0.00 0.00 3.20
123 131 5.131142 CCCTTTACTCTCTCTCTCTCTCTCT 59.869 48.000 0.00 0.00 0.00 3.10
124 132 6.284459 CCTTTACTCTCTCTCTCTCTCTCTC 58.716 48.000 0.00 0.00 0.00 3.20
219 459 2.225467 GAGAAGCAAAGGTCACTTGCT 58.775 47.619 4.28 4.28 40.39 3.91
442 682 1.670590 CATCCGCATCTCCCTCTCC 59.329 63.158 0.00 0.00 0.00 3.71
443 683 1.535202 ATCCGCATCTCCCTCTCCC 60.535 63.158 0.00 0.00 0.00 4.30
444 684 2.029892 ATCCGCATCTCCCTCTCCCT 62.030 60.000 0.00 0.00 0.00 4.20
445 685 2.206536 CCGCATCTCCCTCTCCCTC 61.207 68.421 0.00 0.00 0.00 4.30
446 686 1.152567 CGCATCTCCCTCTCCCTCT 60.153 63.158 0.00 0.00 0.00 3.69
447 687 1.178534 CGCATCTCCCTCTCCCTCTC 61.179 65.000 0.00 0.00 0.00 3.20
448 688 0.188342 GCATCTCCCTCTCCCTCTCT 59.812 60.000 0.00 0.00 0.00 3.10
449 689 1.823250 GCATCTCCCTCTCCCTCTCTC 60.823 61.905 0.00 0.00 0.00 3.20
450 690 1.782752 CATCTCCCTCTCCCTCTCTCT 59.217 57.143 0.00 0.00 0.00 3.10
451 691 1.518367 TCTCCCTCTCCCTCTCTCTC 58.482 60.000 0.00 0.00 0.00 3.20
452 692 1.010793 TCTCCCTCTCCCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
453 693 1.421646 CTCCCTCTCCCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
454 694 1.010793 TCCCTCTCCCTCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
455 695 1.421646 CCCTCTCCCTCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
456 696 2.412591 CCTCTCCCTCTCTCTCTCTCT 58.587 57.143 0.00 0.00 0.00 3.10
457 697 2.370189 CCTCTCCCTCTCTCTCTCTCTC 59.630 59.091 0.00 0.00 0.00 3.20
458 698 3.312890 CTCTCCCTCTCTCTCTCTCTCT 58.687 54.545 0.00 0.00 0.00 3.10
459 699 3.713764 CTCTCCCTCTCTCTCTCTCTCTT 59.286 52.174 0.00 0.00 0.00 2.85
460 700 4.111577 TCTCCCTCTCTCTCTCTCTCTTT 58.888 47.826 0.00 0.00 0.00 2.52
461 701 4.164221 TCTCCCTCTCTCTCTCTCTCTTTC 59.836 50.000 0.00 0.00 0.00 2.62
462 702 4.111577 TCCCTCTCTCTCTCTCTCTTTCT 58.888 47.826 0.00 0.00 0.00 2.52
463 703 4.164221 TCCCTCTCTCTCTCTCTCTTTCTC 59.836 50.000 0.00 0.00 0.00 2.87
464 704 4.164988 CCCTCTCTCTCTCTCTCTTTCTCT 59.835 50.000 0.00 0.00 0.00 3.10
465 705 5.363939 CCTCTCTCTCTCTCTCTTTCTCTC 58.636 50.000 0.00 0.00 0.00 3.20
466 706 5.130145 CCTCTCTCTCTCTCTCTTTCTCTCT 59.870 48.000 0.00 0.00 0.00 3.10
467 707 6.227298 TCTCTCTCTCTCTCTTTCTCTCTC 57.773 45.833 0.00 0.00 0.00 3.20
468 708 5.960811 TCTCTCTCTCTCTCTTTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
469 709 6.097554 TCTCTCTCTCTCTCTTTCTCTCTCTC 59.902 46.154 0.00 0.00 0.00 3.20
470 710 5.960811 TCTCTCTCTCTCTTTCTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
471 711 6.097554 TCTCTCTCTCTCTTTCTCTCTCTCTC 59.902 46.154 0.00 0.00 0.00 3.20
472 712 5.960811 TCTCTCTCTCTTTCTCTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
473 713 7.126061 TCTCTCTCTCTTTCTCTCTCTCTCTA 58.874 42.308 0.00 0.00 0.00 2.43
531 771 2.884012 TGTTGGTTCTTGCGATTCATGT 59.116 40.909 0.00 0.00 0.00 3.21
662 905 2.338500 GATTCACGGTTCAGACTCCAC 58.662 52.381 0.00 0.00 0.00 4.02
712 974 1.702182 TGATTGGTTTGCTTGCTCCA 58.298 45.000 0.00 0.00 0.00 3.86
714 976 2.433604 TGATTGGTTTGCTTGCTCCAAA 59.566 40.909 15.91 0.00 42.10 3.28
786 1049 1.704387 TTGTGCTATCATGTGCGGCG 61.704 55.000 0.51 0.51 0.00 6.46
972 1240 2.102070 TTCGCAAACATCCCATACGT 57.898 45.000 0.00 0.00 0.00 3.57
1168 1436 1.153127 AACAAGGCGGTGAACGGAA 60.153 52.632 0.00 0.00 44.51 4.30
1247 1515 1.342819 AGGAGTTGACTCACAGAGTGC 59.657 52.381 12.76 0.00 43.53 4.40
1336 1604 3.450457 ACCTTTGGCAGAGACTAGATCTG 59.550 47.826 19.20 19.20 45.71 2.90
1344 1612 3.244345 CAGAGACTAGATCTGTCGACGTC 59.756 52.174 11.62 5.18 38.00 4.34
1383 1651 4.245660 GCAGCTCAGTGTACAACATAGAA 58.754 43.478 0.00 0.00 0.00 2.10
1440 1708 2.361737 GGTCCAAAGAGGGCAGGC 60.362 66.667 0.00 0.00 46.80 4.85
1458 1726 3.567164 CAGGCAGTTCACCATATGGATTC 59.433 47.826 28.77 14.23 38.94 2.52
1464 1732 5.824097 CAGTTCACCATATGGATTCACATCA 59.176 40.000 28.77 0.00 38.94 3.07
1467 1735 5.132502 TCACCATATGGATTCACATCAACC 58.867 41.667 28.77 0.00 38.94 3.77
1470 1738 4.453478 CCATATGGATTCACATCAACCTCG 59.547 45.833 17.49 0.00 37.39 4.63
1738 2006 0.469144 GTTGGGTTTCCAGAGGGCAA 60.469 55.000 0.00 0.00 45.04 4.52
1813 2081 4.362476 CTGGTGCGGCTTTTGGGC 62.362 66.667 0.00 0.00 37.12 5.36
1862 2130 7.384932 GGTGACACATTTCTTCCCTTTATTTTG 59.615 37.037 8.08 0.00 0.00 2.44
1870 2139 9.797642 ATTTCTTCCCTTTATTTTGCTTTCATT 57.202 25.926 0.00 0.00 0.00 2.57
1960 2229 5.565509 TCATCATATCTCCGCTAGACTTCT 58.434 41.667 0.00 0.00 36.93 2.85
2282 2552 1.199097 CGTAAGTTTGGCATGTGGACC 59.801 52.381 0.00 0.00 0.00 4.46
2636 3023 6.098124 ACACATCTCCTAATCTTCCTCTTGAG 59.902 42.308 0.00 0.00 0.00 3.02
2879 3266 3.119531 TGTTGCTTCAGTCAAACCTTGTG 60.120 43.478 0.00 0.00 0.00 3.33
2999 3386 0.033601 TGGTTGGCCTCAAGTGTGTT 60.034 50.000 3.32 0.00 32.92 3.32
3005 3392 1.271597 GGCCTCAAGTGTGTTGATCCT 60.272 52.381 0.00 0.00 0.00 3.24
3059 3446 0.881118 TCCAAATGCTTGAAGCGGTC 59.119 50.000 13.05 0.00 46.26 4.79
3106 3496 3.858238 CGGTTTCTTATCCGTGTTCTCTC 59.142 47.826 0.00 0.00 41.58 3.20
3163 3553 4.196193 TGCCACATAACTAACTGTATGCC 58.804 43.478 0.00 0.00 0.00 4.40
3301 3692 3.932089 CCAGTTGTGAACAAACCCAAAAG 59.068 43.478 0.00 0.00 37.63 2.27
3451 3843 0.381801 CAAGCTGCTTGTTTCCGTGT 59.618 50.000 29.38 0.00 36.79 4.49
3452 3844 1.102978 AAGCTGCTTGTTTCCGTGTT 58.897 45.000 15.16 0.00 0.00 3.32
3537 3932 4.338118 TGTTTGTTTTCTGTGGATGAGTCC 59.662 41.667 0.00 0.00 45.31 3.85
3621 4016 6.153067 CACTCTCTTCGTCTTGAGTTATTGT 58.847 40.000 0.00 0.00 37.64 2.71
3622 4017 6.306837 CACTCTCTTCGTCTTGAGTTATTGTC 59.693 42.308 0.00 0.00 37.64 3.18
3623 4018 6.016192 ACTCTCTTCGTCTTGAGTTATTGTCA 60.016 38.462 0.00 0.00 36.50 3.58
3624 4019 6.382608 TCTCTTCGTCTTGAGTTATTGTCAG 58.617 40.000 0.00 0.00 0.00 3.51
3625 4020 6.016192 TCTCTTCGTCTTGAGTTATTGTCAGT 60.016 38.462 0.00 0.00 0.00 3.41
3626 4021 5.920840 TCTTCGTCTTGAGTTATTGTCAGTG 59.079 40.000 0.00 0.00 0.00 3.66
3627 4022 5.196341 TCGTCTTGAGTTATTGTCAGTGT 57.804 39.130 0.00 0.00 0.00 3.55
3628 4023 5.220381 TCGTCTTGAGTTATTGTCAGTGTC 58.780 41.667 0.00 0.00 0.00 3.67
3795 4190 5.880054 TGTGAGAAGCCTTATTTACTTGC 57.120 39.130 0.00 0.00 0.00 4.01
3809 4205 1.898574 CTTGCGGCCAAAGGTGTCT 60.899 57.895 2.24 0.00 0.00 3.41
3811 4207 0.037590 TTGCGGCCAAAGGTGTCTAT 59.962 50.000 2.24 0.00 0.00 1.98
3841 4238 1.134401 CGTGCAGGGTGTATCTTCCAT 60.134 52.381 0.00 0.00 0.00 3.41
3926 4323 0.388391 CGTGGCCAATCATTTGCGTT 60.388 50.000 7.24 0.00 0.00 4.84
3939 4336 4.269603 TCATTTGCGTTTTTCACATGTTGG 59.730 37.500 0.00 0.00 0.00 3.77
3976 4374 5.239306 TGATTGCGAAAACTGAAAGACATCT 59.761 36.000 0.00 0.00 37.43 2.90
4029 4427 1.074319 GGCTTGTGCACATGATTGCG 61.074 55.000 30.70 11.37 46.20 4.85
4046 4444 2.484062 CGGGGTGCCAATGATCAGC 61.484 63.158 0.09 0.00 0.00 4.26
4122 4521 3.326836 TCGTTGATCATTGGTGCAGTA 57.673 42.857 0.00 0.00 0.00 2.74
4150 4549 2.292267 CACTTGTCCAACTTGCACTCT 58.708 47.619 0.00 0.00 0.00 3.24
4190 4589 0.323178 CACCATTCAGCAAGGCTCCT 60.323 55.000 0.00 0.00 36.40 3.69
4192 4591 1.065126 ACCATTCAGCAAGGCTCCTAC 60.065 52.381 0.00 0.00 36.40 3.18
4230 4629 7.979537 TGCACAAATCTTATGTCGATAAGTACT 59.020 33.333 5.85 0.00 41.33 2.73
4234 4633 7.834881 AATCTTATGTCGATAAGTACTCCCA 57.165 36.000 0.00 0.00 41.33 4.37
4235 4634 6.630444 TCTTATGTCGATAAGTACTCCCAC 57.370 41.667 0.00 0.00 41.33 4.61
4240 4639 4.157289 TGTCGATAAGTACTCCCACTGTTC 59.843 45.833 0.00 0.00 0.00 3.18
4241 4640 3.698040 TCGATAAGTACTCCCACTGTTCC 59.302 47.826 0.00 0.00 0.00 3.62
4250 4649 8.480133 AGTACTCCCACTGTTCCTAAATATAG 57.520 38.462 0.00 0.00 0.00 1.31
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 47 2.360801 TGCAGTGTTTGGAGTTAAAGGC 59.639 45.455 0.00 0.00 0.00 4.35
70 72 1.595058 GGGAGGGGAGGAGGAGAAGA 61.595 65.000 0.00 0.00 0.00 2.87
87 95 1.077169 AGTAAAGGGGAAGCAAAGGGG 59.923 52.381 0.00 0.00 0.00 4.79
119 127 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
120 128 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
121 129 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
122 130 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
123 131 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
124 132 5.362143 TGAAGAGAGAGAGAGAGAGAGAGAG 59.638 48.000 0.00 0.00 0.00 3.20
289 529 1.203523 CCTCGGAAGTCAGAACTGGAG 59.796 57.143 1.93 0.42 35.36 3.86
292 532 0.247736 CCCCTCGGAAGTCAGAACTG 59.752 60.000 0.00 0.00 35.36 3.16
293 533 0.905337 CCCCCTCGGAAGTCAGAACT 60.905 60.000 0.00 0.00 37.32 3.01
327 567 0.613260 TTGGACAGGGATTCCGTCAG 59.387 55.000 14.45 0.00 37.89 3.51
442 682 5.130145 AGAGAGAAAGAGAGAGAGAGAGAGG 59.870 48.000 0.00 0.00 0.00 3.69
443 683 6.098124 AGAGAGAGAAAGAGAGAGAGAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
444 684 5.960811 AGAGAGAGAAAGAGAGAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
445 685 6.098124 AGAGAGAGAGAAAGAGAGAGAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
446 686 5.960811 AGAGAGAGAGAAAGAGAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
447 687 6.098124 AGAGAGAGAGAGAAAGAGAGAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
448 688 5.960811 AGAGAGAGAGAGAAAGAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
449 689 6.232581 AGAGAGAGAGAGAAAGAGAGAGAG 57.767 45.833 0.00 0.00 0.00 3.20
450 690 7.786943 AGATAGAGAGAGAGAGAAAGAGAGAGA 59.213 40.741 0.00 0.00 0.00 3.10
451 691 7.961351 AGATAGAGAGAGAGAGAAAGAGAGAG 58.039 42.308 0.00 0.00 0.00 3.20
452 692 7.786943 AGAGATAGAGAGAGAGAGAAAGAGAGA 59.213 40.741 0.00 0.00 0.00 3.10
453 693 7.961351 AGAGATAGAGAGAGAGAGAAAGAGAG 58.039 42.308 0.00 0.00 0.00 3.20
454 694 7.786943 AGAGAGATAGAGAGAGAGAGAAAGAGA 59.213 40.741 0.00 0.00 0.00 3.10
455 695 7.961351 AGAGAGATAGAGAGAGAGAGAAAGAG 58.039 42.308 0.00 0.00 0.00 2.85
456 696 7.786943 AGAGAGAGATAGAGAGAGAGAGAAAGA 59.213 40.741 0.00 0.00 0.00 2.52
457 697 7.961351 AGAGAGAGATAGAGAGAGAGAGAAAG 58.039 42.308 0.00 0.00 0.00 2.62
458 698 7.921041 AGAGAGAGATAGAGAGAGAGAGAAA 57.079 40.000 0.00 0.00 0.00 2.52
459 699 9.434275 TTTAGAGAGAGATAGAGAGAGAGAGAA 57.566 37.037 0.00 0.00 0.00 2.87
460 700 9.083422 CTTTAGAGAGAGATAGAGAGAGAGAGA 57.917 40.741 0.00 0.00 0.00 3.10
461 701 9.083422 TCTTTAGAGAGAGATAGAGAGAGAGAG 57.917 40.741 0.00 0.00 0.00 3.20
462 702 9.607333 ATCTTTAGAGAGAGATAGAGAGAGAGA 57.393 37.037 0.00 0.00 34.85 3.10
473 713 9.651913 GAACAAGTCAAATCTTTAGAGAGAGAT 57.348 33.333 0.00 0.00 34.85 2.75
531 771 0.542333 TCAGTTCCGGTCCAACACAA 59.458 50.000 0.00 0.00 0.00 3.33
662 905 2.232452 AGAACTCGTGATGAACTCTGGG 59.768 50.000 0.00 0.00 0.00 4.45
712 974 8.370182 ACTTGCATATTGATGGAGAAAAAGTTT 58.630 29.630 0.00 0.00 34.53 2.66
714 976 7.177216 TCACTTGCATATTGATGGAGAAAAAGT 59.823 33.333 0.00 0.00 34.53 2.66
794 1057 4.079253 GGGGTAAATTTGTCTCTGCAAGA 58.921 43.478 0.00 0.00 43.69 3.02
928 1196 2.904866 GTCCTGTGCCGTTTGCCA 60.905 61.111 0.00 0.00 40.16 4.92
1095 1363 3.294214 GAACAGGATTGCCATCAGGATT 58.706 45.455 0.00 0.00 36.89 3.01
1168 1436 2.923655 CTGTTTGCGATGTAGTGTCGAT 59.076 45.455 0.00 0.00 41.40 3.59
1247 1515 0.094216 CACTTCGCTGCTGTCATTCG 59.906 55.000 0.00 0.00 0.00 3.34
1281 1549 7.160726 TCTTCATCTGTGTGTATTTGTCATGA 58.839 34.615 0.00 0.00 0.00 3.07
1344 1612 2.096406 CATTGGCTGAACGCGTCG 59.904 61.111 14.44 5.39 40.44 5.12
1350 1618 0.170561 CTGAGCTGCATTGGCTGAAC 59.829 55.000 3.32 0.00 41.06 3.18
1383 1651 2.843113 AGAGTATGAGCTTCCAGCCTTT 59.157 45.455 0.00 0.00 43.77 3.11
1410 1678 3.135712 TCTTTGGACCTGAGCTGTTGTAA 59.864 43.478 0.00 0.00 0.00 2.41
1440 1708 5.824097 TGATGTGAATCCATATGGTGAACTG 59.176 40.000 21.28 0.00 36.34 3.16
1458 1726 2.434884 AGCGGCGAGGTTGATGTG 60.435 61.111 12.98 0.00 0.00 3.21
1488 1756 2.422519 CCAGCCCAAATGTGATAGCTCT 60.423 50.000 0.00 0.00 0.00 4.09
1494 1762 1.686800 GCCCCAGCCCAAATGTGAT 60.687 57.895 0.00 0.00 0.00 3.06
1710 1978 6.321435 CCCTCTGGAAACCCAACTAATAAATC 59.679 42.308 0.00 0.00 32.40 2.17
1711 1979 6.194967 CCCTCTGGAAACCCAACTAATAAAT 58.805 40.000 0.00 0.00 32.40 1.40
1715 1983 2.291605 GCCCTCTGGAAACCCAACTAAT 60.292 50.000 0.00 0.00 32.40 1.73
1719 1987 0.469144 TTGCCCTCTGGAAACCCAAC 60.469 55.000 0.00 0.00 32.40 3.77
1738 2006 6.365970 TCAACTCTAAATTCCTTCTCTGCT 57.634 37.500 0.00 0.00 0.00 4.24
1813 2081 3.187700 GTGTATCCCTTCAACGCAGTAG 58.812 50.000 0.00 0.00 45.00 2.57
2041 2311 5.531287 ACAGGAAAAACACAAACTAGCTAGG 59.469 40.000 24.35 9.60 0.00 3.02
2201 2471 4.881850 CCAACTAAGGATACCATGTTGACC 59.118 45.833 15.80 0.00 34.67 4.02
2282 2552 4.720649 TCAGGAGATGGTCGTAAAAGAG 57.279 45.455 0.00 0.00 0.00 2.85
2369 2756 5.221880 CAAGCCTGAAAATCATGAACGAAA 58.778 37.500 0.00 0.00 0.00 3.46
2636 3023 2.254459 CGCGACATACCTATCATCAGC 58.746 52.381 0.00 0.00 0.00 4.26
2855 3242 3.281727 AGGTTTGACTGAAGCAACAGA 57.718 42.857 15.20 0.00 40.63 3.41
2873 3260 3.826157 TCATTTTAAGCCACTCCACAAGG 59.174 43.478 0.00 0.00 0.00 3.61
2879 3266 5.450550 GCTAACCATCATTTTAAGCCACTCC 60.451 44.000 0.00 0.00 0.00 3.85
2999 3386 1.215382 CTTGTCGGCGTCAGGATCA 59.785 57.895 10.43 0.00 0.00 2.92
3059 3446 6.369059 CATACTTCTTGGTATGCTTTCTGG 57.631 41.667 0.00 0.00 41.33 3.86
3106 3496 4.994852 TCTGAAATTCGGTGGTAAAGACAG 59.005 41.667 1.33 0.00 0.00 3.51
3469 3861 3.002759 GCATAGAAGCAATCCTCGGAAAC 59.997 47.826 0.00 0.00 0.00 2.78
3537 3932 9.103048 CAAAACACTAAAGCAAACGAGTTATAG 57.897 33.333 0.00 0.00 0.00 1.31
3621 4016 2.163509 GGTAGCTCACTGAGACACTGA 58.836 52.381 10.45 0.00 0.00 3.41
3622 4017 1.889170 TGGTAGCTCACTGAGACACTG 59.111 52.381 10.45 0.00 0.00 3.66
3623 4018 2.166829 CTGGTAGCTCACTGAGACACT 58.833 52.381 10.45 0.45 0.00 3.55
3624 4019 1.203523 CCTGGTAGCTCACTGAGACAC 59.796 57.143 10.45 6.14 0.00 3.67
3625 4020 1.075536 TCCTGGTAGCTCACTGAGACA 59.924 52.381 10.45 2.30 0.00 3.41
3626 4021 1.748493 CTCCTGGTAGCTCACTGAGAC 59.252 57.143 10.45 0.00 0.00 3.36
3627 4022 1.341482 CCTCCTGGTAGCTCACTGAGA 60.341 57.143 10.45 0.00 0.00 3.27
3628 4023 1.110442 CCTCCTGGTAGCTCACTGAG 58.890 60.000 1.21 1.21 0.00 3.35
3795 4190 1.705337 CGCATAGACACCTTTGGCCG 61.705 60.000 0.00 0.00 0.00 6.13
3939 4336 2.552315 TCGCAATCAAAGGTGGAAGTTC 59.448 45.455 0.00 0.00 0.00 3.01
3976 4374 0.309302 CCGAACGCAATGACCAAACA 59.691 50.000 0.00 0.00 0.00 2.83
4029 4427 2.484062 CGCTGATCATTGGCACCCC 61.484 63.158 0.00 0.00 0.00 4.95
4122 4521 0.740737 GTTGGACAAGTGCAGCAACT 59.259 50.000 0.00 0.00 32.78 3.16
4150 4549 5.457140 GTGCGTAGATTTGTGAATTCCAAA 58.543 37.500 18.35 18.35 36.34 3.28
4192 4591 5.712152 AGATTTGTGCACCTAAAAAGAGG 57.288 39.130 15.69 0.00 42.89 3.69


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

AutoCloner maintained by Alex Coulton.