Multiple sequence alignment - TraesCS1B01G110500

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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 TraesCS1B01G110500 chr1B 100.000 4453 0 0 1 4453 123960909 123965361 0.000000e+00 8224.0
1 TraesCS1B01G110500 chr1D 94.902 3060 141 11 1 3049 78974335 78977390 0.000000e+00 4772.0
2 TraesCS1B01G110500 chr1D 92.267 763 46 8 3697 4453 78979861 78980616 0.000000e+00 1070.0
3 TraesCS1B01G110500 chr1D 93.069 404 13 5 2980 3373 78977387 78977785 1.070000e-160 577.0
4 TraesCS1B01G110500 chr1D 92.787 305 14 2 3408 3711 78978889 78979186 6.840000e-118 435.0
5 TraesCS1B01G110500 chr1A 93.750 2720 125 14 918 3632 96477827 96475148 0.000000e+00 4039.0
6 TraesCS1B01G110500 chr1A 95.018 542 23 3 3627 4167 96473961 96473423 0.000000e+00 848.0
7 TraesCS1B01G110500 chr1A 88.646 687 70 5 1 680 96480183 96479498 0.000000e+00 830.0
8 TraesCS1B01G110500 chr1A 90.357 280 23 3 4174 4453 96473333 96473058 9.100000e-97 364.0
9 TraesCS1B01G110500 chr1A 84.840 343 44 6 4113 4453 96465585 96465249 5.520000e-89 339.0
10 TraesCS1B01G110500 chr1A 91.724 145 10 2 680 823 96479038 96478895 2.720000e-47 200.0
11 TraesCS1B01G110500 chr6B 81.785 549 61 22 3909 4453 3822782 3823295 1.480000e-114 424.0
12 TraesCS1B01G110500 chr6B 88.776 294 31 2 4161 4453 4407158 4406866 4.240000e-95 359.0
13 TraesCS1B01G110500 chr6B 77.679 336 26 21 3797 4129 4407449 4407160 4.610000e-35 159.0
14 TraesCS1B01G110500 chrUn 88.119 303 34 2 4152 4453 217763946 217764247 4.240000e-95 359.0
15 TraesCS1B01G110500 chrUn 88.119 303 34 2 4152 4453 246305124 246305425 4.240000e-95 359.0
16 TraesCS1B01G110500 chrUn 88.776 294 31 2 4161 4453 260129565 260129273 4.240000e-95 359.0
17 TraesCS1B01G110500 chrUn 88.776 294 31 2 4161 4453 313907843 313907551 4.240000e-95 359.0
18 TraesCS1B01G110500 chrUn 88.119 303 34 2 4152 4453 327118839 327119140 4.240000e-95 359.0
19 TraesCS1B01G110500 chrUn 82.870 216 15 11 3797 4009 217763664 217763860 1.650000e-39 174.0
20 TraesCS1B01G110500 chrUn 82.870 216 15 11 3797 4009 246304842 246305038 1.650000e-39 174.0
21 TraesCS1B01G110500 chrUn 82.870 216 15 11 3797 4009 327118557 327118753 1.650000e-39 174.0
22 TraesCS1B01G110500 chrUn 77.679 336 26 21 3797 4129 260129856 260129567 4.610000e-35 159.0
23 TraesCS1B01G110500 chrUn 77.679 336 26 21 3797 4129 313908134 313907845 4.610000e-35 159.0
24 TraesCS1B01G110500 chrUn 87.234 94 10 2 4036 4129 217763862 217763953 6.090000e-19 106.0
25 TraesCS1B01G110500 chrUn 87.234 94 10 2 4036 4129 246305040 246305131 6.090000e-19 106.0
26 TraesCS1B01G110500 chrUn 87.234 94 10 2 4036 4129 327118755 327118846 6.090000e-19 106.0
27 TraesCS1B01G110500 chr3A 79.075 411 79 6 35 442 635487318 635487724 4.390000e-70 276.0
28 TraesCS1B01G110500 chr5D 77.971 345 64 11 34 370 415275879 415275539 5.840000e-49 206.0
29 TraesCS1B01G110500 chr7D 87.500 64 8 0 135 198 12621665 12621728 1.720000e-09 75.0
30 TraesCS1B01G110500 chr7D 87.500 64 8 0 135 198 12641574 12641637 1.720000e-09 75.0
31 TraesCS1B01G110500 chr7D 78.899 109 22 1 90 198 12602585 12602692 6.180000e-09 73.1
32 TraesCS1B01G110500 chr7D 78.899 109 22 1 90 198 12616558 12616665 6.180000e-09 73.1
33 TraesCS1B01G110500 chr7D 87.931 58 7 0 135 192 12631430 12631487 7.990000e-08 69.4
34 TraesCS1B01G110500 chr3D 100.000 28 0 0 832 859 448267241 448267214 8.000000e-03 52.8


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 TraesCS1B01G110500 chr1B 123960909 123965361 4452 False 8224.0 8224 100.000000 1 4453 1 chr1B.!!$F1 4452
1 TraesCS1B01G110500 chr1D 78974335 78980616 6281 False 1713.5 4772 93.256250 1 4453 4 chr1D.!!$F1 4452
2 TraesCS1B01G110500 chr1A 96473058 96480183 7125 True 1256.2 4039 91.899000 1 4453 5 chr1A.!!$R2 4452
3 TraesCS1B01G110500 chr6B 3822782 3823295 513 False 424.0 424 81.785000 3909 4453 1 chr6B.!!$F1 544
4 TraesCS1B01G110500 chr6B 4406866 4407449 583 True 259.0 359 83.227500 3797 4453 2 chr6B.!!$R1 656
5 TraesCS1B01G110500 chrUn 260129273 260129856 583 True 259.0 359 83.227500 3797 4453 2 chrUn.!!$R1 656
6 TraesCS1B01G110500 chrUn 313907551 313908134 583 True 259.0 359 83.227500 3797 4453 2 chrUn.!!$R2 656
7 TraesCS1B01G110500 chrUn 217763664 217764247 583 False 213.0 359 86.074333 3797 4453 3 chrUn.!!$F1 656
8 TraesCS1B01G110500 chrUn 246304842 246305425 583 False 213.0 359 86.074333 3797 4453 3 chrUn.!!$F2 656
9 TraesCS1B01G110500 chrUn 327118557 327119140 583 False 213.0 359 86.074333 3797 4453 3 chrUn.!!$F3 656

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
120 126 0.037419 CCAAATCCAAAGTTGGGGCG 60.037 55.0 10.16 0.0 44.94 6.13 F
213 220 1.321474 CCGCACATTTGGCCATATCT 58.679 50.0 6.09 0.0 0.00 1.98 F
1803 3249 0.671251 CCGACCTCCATGTAGAGAGC 59.329 60.0 0.93 0.0 35.82 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1803 3249 0.465705 AGTACACATCCATGAGCCCG 59.534 55.000 0.0 0.0 0.00 6.13 R
1842 3288 1.337167 CGGAACACACTCAGAGCATCA 60.337 52.381 0.0 0.0 37.82 3.07 R
3453 6049 0.165944 GTCATCCCACGCTTTGTTCG 59.834 55.000 0.0 0.0 0.00 3.95 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 37 1.394697 CGTGTGCAAAACATTCGGAC 58.605 50.000 0.00 0.00 41.97 4.79
32 38 1.268285 CGTGTGCAAAACATTCGGACA 60.268 47.619 0.00 0.00 41.97 4.02
68 74 4.460683 TGGTGCCGCATACGTCCC 62.461 66.667 0.00 0.00 37.70 4.46
79 85 3.968837 TACGTCCCCGGGCATGTCT 62.969 63.158 14.12 0.00 38.78 3.41
103 109 1.269309 CGTTCAAAATCCCGCAAACCA 60.269 47.619 0.00 0.00 0.00 3.67
107 113 3.658709 TCAAAATCCCGCAAACCAAATC 58.341 40.909 0.00 0.00 0.00 2.17
119 125 3.933879 CCAAATCCAAAGTTGGGGC 57.066 52.632 10.16 0.00 44.94 5.80
120 126 0.037419 CCAAATCCAAAGTTGGGGCG 60.037 55.000 10.16 0.00 44.94 6.13
133 139 4.483243 GGGCGGATTTGCGGGAGA 62.483 66.667 0.00 0.00 35.06 3.71
188 195 2.038813 CCACCCAAATCCCCACCC 59.961 66.667 0.00 0.00 0.00 4.61
213 220 1.321474 CCGCACATTTGGCCATATCT 58.679 50.000 6.09 0.00 0.00 1.98
228 235 3.005050 CCATATCTGCATTGTTTCCGCAT 59.995 43.478 0.00 0.00 34.63 4.73
242 249 4.619140 GCATCAAGCCCGCGCATC 62.619 66.667 8.75 0.00 37.52 3.91
262 269 2.370445 CCACCCTCTCCAGCCGATT 61.370 63.158 0.00 0.00 0.00 3.34
433 441 4.040461 TGTCGAAAGGATCAAGGAGAAAGT 59.960 41.667 0.00 0.00 0.00 2.66
456 464 2.349722 GCTTTGGCCATTTTCGCAAAAG 60.350 45.455 6.09 4.79 46.01 2.27
561 569 4.291540 TGCGAGAATGCATGATTTAACC 57.708 40.909 0.00 0.00 40.62 2.85
568 576 6.860080 AGAATGCATGATTTAACCTTGACTG 58.140 36.000 0.00 0.00 0.00 3.51
814 1284 9.908152 AAAAGTAAAATCCTATTTCTTTCACCG 57.092 29.630 0.00 0.00 0.00 4.94
847 2263 9.892130 ATATCGATGAAAAATAATACTCCCTCC 57.108 33.333 8.54 0.00 0.00 4.30
851 2267 6.555463 TGAAAAATAATACTCCCTCCGTCT 57.445 37.500 0.00 0.00 0.00 4.18
854 2270 6.749036 AAAATAATACTCCCTCCGTCTCAT 57.251 37.500 0.00 0.00 0.00 2.90
865 2281 7.558444 ACTCCCTCCGTCTCATAATATAGATTC 59.442 40.741 0.00 0.00 0.00 2.52
1131 2577 2.902759 TTCACGCCACCGTCGTCAAA 62.903 55.000 0.00 0.00 46.39 2.69
1452 2898 4.769063 CCCGCGTGTGCCATGGTA 62.769 66.667 14.67 5.86 38.08 3.25
1641 3087 1.745232 CAGAGCTCTACGAGGACAGT 58.255 55.000 17.75 0.00 0.00 3.55
1803 3249 0.671251 CCGACCTCCATGTAGAGAGC 59.329 60.000 0.93 0.00 35.82 4.09
1818 3264 1.890979 GAGCGGGCTCATGGATGTG 60.891 63.158 15.45 0.00 42.31 3.21
1842 3288 4.718961 ACTCTAAATGCGGCTTAATGGAT 58.281 39.130 0.00 0.00 0.00 3.41
1863 3309 0.681733 ATGCTCTGAGTGTGTTCCGT 59.318 50.000 6.53 0.00 0.00 4.69
2272 3718 3.057315 ACTGTTTGAATCCATGAAAGCCG 60.057 43.478 0.00 0.00 0.00 5.52
2273 3719 3.153130 TGTTTGAATCCATGAAAGCCGA 58.847 40.909 0.00 0.00 0.00 5.54
2298 3744 1.372582 CCAATCCCACAGATGTCACG 58.627 55.000 0.00 0.00 34.56 4.35
2308 3754 5.111989 CCACAGATGTCACGTTCTTATCAT 58.888 41.667 0.00 0.00 0.00 2.45
2313 3759 8.035394 ACAGATGTCACGTTCTTATCATTACTT 58.965 33.333 0.00 0.00 0.00 2.24
2319 3765 7.277981 GTCACGTTCTTATCATTACTTCATGGT 59.722 37.037 0.00 0.00 0.00 3.55
2322 3768 6.907212 CGTTCTTATCATTACTTCATGGTTGC 59.093 38.462 0.00 0.00 0.00 4.17
2349 3795 2.108075 TGTTGGATCAGCAAAGAAGGGA 59.892 45.455 0.00 0.00 0.00 4.20
2367 3813 4.369872 AGGGACTGGAGATCTTGAATTCT 58.630 43.478 7.05 0.00 37.18 2.40
2388 3834 0.450583 TGTCATCGCAGTACGGAGTC 59.549 55.000 0.00 0.00 43.93 3.36
2400 3846 2.660064 CGGAGTCCTCCCAAGGGTG 61.660 68.421 7.77 2.33 46.96 4.61
2475 3921 2.868583 CGCAAAGTCATTCATCGAGGAT 59.131 45.455 0.00 0.00 0.00 3.24
2634 4080 5.343307 TGCTATCAAACATCTACTCAGCA 57.657 39.130 0.00 0.00 34.36 4.41
2658 4104 1.445066 CCGATGGGATGATCGAGCG 60.445 63.158 4.53 0.00 46.72 5.03
2736 4182 0.322636 TCGAGCTCGAGAAGGAGGTT 60.323 55.000 33.84 0.00 44.25 3.50
2749 4195 4.040461 AGAAGGAGGTTCATTCTTTCGTCA 59.960 41.667 0.56 0.00 44.01 4.35
2775 4221 0.805614 CACTCACGTCTCGTCCTGAT 59.194 55.000 0.00 0.00 38.32 2.90
2875 4321 1.546029 CTCTGTGAATGGGACGTCTGA 59.454 52.381 16.46 2.25 0.00 3.27
3163 4688 2.086869 GAAGCATAGGTTTGAGCAGCA 58.913 47.619 0.00 0.00 0.00 4.41
3318 4844 7.838079 TGTAAAAGGTTACAGAGGTAGTACA 57.162 36.000 2.06 0.00 43.71 2.90
3319 4845 8.426569 TGTAAAAGGTTACAGAGGTAGTACAT 57.573 34.615 2.06 0.00 43.71 2.29
3324 4850 6.978261 AGGTTACAGAGGTAGTACATAAGGA 58.022 40.000 2.06 0.00 0.00 3.36
3355 4881 4.084276 TGGAACACATGATACGAAAACACG 60.084 41.667 0.00 0.00 39.31 4.49
3358 4884 3.678072 ACACATGATACGAAAACACGGAG 59.322 43.478 0.00 0.00 37.61 4.63
3420 6016 6.204688 AGACAAATCGTTCTGTAATGCTGAAA 59.795 34.615 0.00 0.00 36.91 2.69
3426 6022 5.935206 TCGTTCTGTAATGCTGAAATTGGTA 59.065 36.000 0.00 0.00 36.91 3.25
3453 6049 9.185192 CAAAGTGATGATTCTGAAACTTAAACC 57.815 33.333 5.20 0.00 0.00 3.27
3460 6057 7.763356 TGATTCTGAAACTTAAACCGAACAAA 58.237 30.769 0.00 0.00 0.00 2.83
3492 6089 5.518812 TGACACGTTGATGAAAGGAAAATG 58.481 37.500 0.00 0.00 0.00 2.32
3521 6118 4.301628 CCTTGCAGTTTTTGGCTTTCTAG 58.698 43.478 0.00 0.00 0.00 2.43
3565 6162 5.590259 GCATCATTTTCTATGTACACCCAGT 59.410 40.000 0.00 0.00 0.00 4.00
3594 6191 9.591404 GAGTTCGAAAATACATTGATCATCATC 57.409 33.333 0.00 0.00 0.00 2.92
3693 7482 3.900966 ATGAGATGCTGCTTCAGTGTA 57.099 42.857 16.56 0.43 33.43 2.90
3717 8195 5.899547 AGACCATCAGTGAGGTATGATTACA 59.100 40.000 12.50 0.00 38.50 2.41
3986 8470 6.210385 TGGAAAGGCTGCAAATTAACTATTGA 59.790 34.615 0.50 0.00 0.00 2.57
3987 8471 7.093377 TGGAAAGGCTGCAAATTAACTATTGAT 60.093 33.333 0.50 0.00 0.00 2.57
3995 8479 8.854979 TGCAAATTAACTATTGATGTACATGC 57.145 30.769 14.43 7.22 0.00 4.06
4009 8518 3.312146 TGTACATGCATTTGTATGAGCCG 59.688 43.478 14.39 0.00 39.98 5.52
4010 8519 1.066002 ACATGCATTTGTATGAGCCGC 59.934 47.619 14.39 0.00 39.98 6.53
4016 8525 3.189080 GCATTTGTATGAGCCGCATATCA 59.811 43.478 0.00 0.00 41.29 2.15
4030 8539 5.812642 GCCGCATATCACAGCTAATAATACT 59.187 40.000 0.00 0.00 0.00 2.12
4067 8576 4.084287 CAGCAGCAATACCATAATCCCAT 58.916 43.478 0.00 0.00 0.00 4.00
4069 8578 4.768968 AGCAGCAATACCATAATCCCATTC 59.231 41.667 0.00 0.00 0.00 2.67
4106 8615 2.093447 ACTGAAGATAACCTTGGAGGCG 60.093 50.000 0.00 0.00 39.63 5.52
4107 8616 1.906574 TGAAGATAACCTTGGAGGCGT 59.093 47.619 0.00 0.00 39.63 5.68
4108 8617 2.280628 GAAGATAACCTTGGAGGCGTG 58.719 52.381 0.00 0.00 39.63 5.34
4194 8812 9.962783 AAGACAGTAAAGTAACACTAGTACAAG 57.037 33.333 0.00 0.00 0.00 3.16
4201 8819 6.170846 AGTAACACTAGTACAAGCTGGTTT 57.829 37.500 0.00 0.00 0.00 3.27
4275 8893 0.512952 CGAGGACGCCACTTTTGAAG 59.487 55.000 0.00 0.00 0.00 3.02
4295 8913 7.360113 TGAAGTATTATCACTGCATCCACTA 57.640 36.000 0.00 0.00 28.52 2.74
4296 8914 7.210174 TGAAGTATTATCACTGCATCCACTAC 58.790 38.462 0.00 0.00 28.52 2.73
4352 8970 1.287730 GACGAGCACTCTGGTTGCTG 61.288 60.000 0.67 0.00 39.21 4.41
4367 8985 1.081094 TGCTGAGCATGACATTCACG 58.919 50.000 1.40 0.00 31.71 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 85 2.558821 CGGGATTTTGAACGCGCA 59.441 55.556 5.73 0.00 35.93 6.09
83 89 1.269309 TGGTTTGCGGGATTTTGAACG 60.269 47.619 0.00 0.00 0.00 3.95
213 220 1.669502 GCTTGATGCGGAAACAATGCA 60.670 47.619 0.00 0.00 43.67 3.96
262 269 0.764369 AAGGGTGGAGAGTGACAGCA 60.764 55.000 0.00 0.00 36.86 4.41
403 411 1.068588 TGATCCTTTCGACATAGCGGG 59.931 52.381 0.00 0.00 0.00 6.13
456 464 5.236695 GCTTTCTAACTTAACGATCATCCCC 59.763 44.000 0.00 0.00 0.00 4.81
985 2431 7.173907 GGTCATGTACATGCTCAGCTTTTATAT 59.826 37.037 27.71 0.00 38.65 0.86
1113 2559 2.902759 TTTTGACGACGGTGGCGTGA 62.903 55.000 0.80 0.00 42.77 4.35
1131 2577 1.303282 GAGGAAGTGGGCGGGATTT 59.697 57.895 0.00 0.00 0.00 2.17
1243 2689 0.953960 ATTTCGTCGAACACCCTGGC 60.954 55.000 7.29 0.00 0.00 4.85
1452 2898 3.681835 GAGACGACCAGCCCGTGT 61.682 66.667 0.00 0.00 40.67 4.49
1590 3036 0.596083 CAGAGATCATCGCCGTCCAC 60.596 60.000 0.00 0.00 0.00 4.02
1641 3087 5.400066 TCATCTGTCGAAACAACAGGATA 57.600 39.130 3.65 0.00 43.48 2.59
1803 3249 0.465705 AGTACACATCCATGAGCCCG 59.534 55.000 0.00 0.00 0.00 6.13
1818 3264 5.054477 TCCATTAAGCCGCATTTAGAGTAC 58.946 41.667 0.00 0.00 0.00 2.73
1842 3288 1.337167 CGGAACACACTCAGAGCATCA 60.337 52.381 0.00 0.00 37.82 3.07
1863 3309 4.019312 TCAGGCTGCCGACATGCA 62.019 61.111 13.96 0.00 39.37 3.96
1885 3331 5.180117 CGACCAGAATGACTGTCAAGAAAAT 59.820 40.000 15.31 0.00 44.40 1.82
1970 3416 7.010738 CCATGTTTGTATCAATGCAAATTCCTC 59.989 37.037 9.04 0.00 42.66 3.71
2229 3675 3.492102 TGAAAGACTTCAGAACCCTGG 57.508 47.619 0.00 0.00 40.76 4.45
2232 3678 4.200092 ACAGTTGAAAGACTTCAGAACCC 58.800 43.478 0.00 0.00 42.48 4.11
2272 3718 2.033448 TGTGGGATTGGCACCGTC 59.967 61.111 0.00 0.00 0.00 4.79
2273 3719 1.852157 ATCTGTGGGATTGGCACCGT 61.852 55.000 0.00 0.00 0.00 4.83
2298 3744 7.761409 TGCAACCATGAAGTAATGATAAGAAC 58.239 34.615 0.00 0.00 0.00 3.01
2308 3754 2.284754 TGGCTGCAACCATGAAGTAA 57.715 45.000 4.25 0.00 34.33 2.24
2319 3765 1.179152 CTGATCCAACATGGCTGCAA 58.821 50.000 0.50 0.00 37.47 4.08
2322 3768 1.179152 TTGCTGATCCAACATGGCTG 58.821 50.000 0.00 0.00 37.47 4.85
2349 3795 7.429374 TGACATAGAATTCAAGATCTCCAGT 57.571 36.000 8.44 0.00 0.00 4.00
2367 3813 2.289820 GACTCCGTACTGCGATGACATA 59.710 50.000 0.00 0.00 44.77 2.29
2388 3834 0.409484 AATGTTCCACCCTTGGGAGG 59.591 55.000 14.90 14.90 44.11 4.30
2475 3921 1.476833 GCACTGTCCTTGAAAGGTCCA 60.477 52.381 8.91 6.53 46.54 4.02
2634 4080 0.689623 GATCATCCCATCGGCCTTCT 59.310 55.000 0.00 0.00 0.00 2.85
2658 4104 6.098982 TCTCCCTCATCTTCTTCATAACCTTC 59.901 42.308 0.00 0.00 0.00 3.46
2736 4182 2.232696 TGACCCGATGACGAAAGAATGA 59.767 45.455 0.00 0.00 42.66 2.57
2775 4221 3.340928 CACATCATCAACAGGAGCAGAA 58.659 45.455 0.00 0.00 0.00 3.02
2818 4264 1.793414 TCATCCTGATGATCACCGGT 58.207 50.000 0.00 0.00 42.42 5.28
2875 4321 5.220989 GCATCAGAATCAAGTATGCACACAT 60.221 40.000 0.00 0.00 41.94 3.21
2940 4390 2.046892 CTGGGGTTCTGCTCACCG 60.047 66.667 0.00 0.00 34.79 4.94
3119 4641 1.592669 CGAGGCGCTACCAATCCAG 60.593 63.158 7.64 0.00 43.14 3.86
3149 4674 0.397941 AGTGCTGCTGCTCAAACCTA 59.602 50.000 17.00 0.00 40.48 3.08
3278 4804 8.272545 ACCTTTTACAAGACGTTTTTAGAGTT 57.727 30.769 0.00 0.00 30.57 3.01
3317 4843 9.123902 TCATGTGTTCCAAAATAGATCCTTATG 57.876 33.333 0.00 0.00 0.00 1.90
3318 4844 9.872684 ATCATGTGTTCCAAAATAGATCCTTAT 57.127 29.630 0.00 0.00 0.00 1.73
3321 4847 7.442364 CGTATCATGTGTTCCAAAATAGATCCT 59.558 37.037 0.00 0.00 0.00 3.24
3324 4850 8.731275 TTCGTATCATGTGTTCCAAAATAGAT 57.269 30.769 0.00 0.00 0.00 1.98
3336 4862 3.655486 TCCGTGTTTTCGTATCATGTGT 58.345 40.909 0.00 0.00 0.00 3.72
3405 4931 7.517614 TTGTACCAATTTCAGCATTACAGAA 57.482 32.000 0.00 0.00 0.00 3.02
3420 6016 8.299570 GTTTCAGAATCATCACTTTGTACCAAT 58.700 33.333 0.00 0.00 0.00 3.16
3426 6022 9.736023 GTTTAAGTTTCAGAATCATCACTTTGT 57.264 29.630 3.11 0.00 0.00 2.83
3442 6038 4.203563 CACGCTTTGTTCGGTTTAAGTTTC 59.796 41.667 0.00 0.00 0.00 2.78
3453 6049 0.165944 GTCATCCCACGCTTTGTTCG 59.834 55.000 0.00 0.00 0.00 3.95
3479 6076 4.617593 AGGCAGATCCATTTTCCTTTCAT 58.382 39.130 0.00 0.00 37.29 2.57
3565 6162 9.773328 GATGATCAATGTATTTTCGAACTCAAA 57.227 29.630 0.00 0.00 0.00 2.69
3594 6191 5.913137 TTAACATGGGTCAAATTGCTAGG 57.087 39.130 0.00 0.00 0.00 3.02
3693 7482 5.899547 TGTAATCATACCTCACTGATGGTCT 59.100 40.000 4.09 0.00 37.74 3.85
3717 8195 8.072422 CCCTAAAACCTAGATAGGGCCCTTTT 62.072 46.154 34.04 23.12 46.92 2.27
3943 8424 7.201947 GCCTTTCCATTTTGGCTATCTTCTAAT 60.202 37.037 0.00 0.00 41.92 1.73
3986 8470 4.023792 CGGCTCATACAAATGCATGTACAT 60.024 41.667 1.41 1.41 38.53 2.29
3987 8471 3.312146 CGGCTCATACAAATGCATGTACA 59.688 43.478 0.00 0.00 38.53 2.90
3995 8479 4.213906 TGTGATATGCGGCTCATACAAATG 59.786 41.667 0.00 0.00 40.22 2.32
4030 8539 3.244526 TGCTGCTGGAGAAAATGTCAGTA 60.245 43.478 0.00 0.00 0.00 2.74
4067 8576 2.423185 CAGTGTCAGTTTTGCTGTGGAA 59.577 45.455 0.00 0.00 45.23 3.53
4069 8578 2.016318 TCAGTGTCAGTTTTGCTGTGG 58.984 47.619 0.00 0.00 45.23 4.17
4106 8615 8.946085 TCATGGTTATGATGAAAAGTCTTACAC 58.054 33.333 0.00 0.00 38.37 2.90
4107 8616 9.513906 TTCATGGTTATGATGAAAAGTCTTACA 57.486 29.630 0.00 0.00 42.60 2.41
4139 8670 0.391661 AGCTTGATGTACCTGGTGCG 60.392 55.000 10.23 0.00 0.00 5.34
4208 8826 2.376109 CCAAGATGAGGCTTGAAGCAT 58.624 47.619 19.89 12.65 46.31 3.79
4218 8836 0.177604 AAGCTCGAGCCAAGATGAGG 59.822 55.000 32.94 0.00 43.38 3.86
4275 8893 6.591834 GGATGTAGTGGATGCAGTGATAATAC 59.408 42.308 4.57 0.00 0.00 1.89
4295 8913 0.534412 CAGCCTTCTCTGACGGATGT 59.466 55.000 1.02 0.00 33.61 3.06
4296 8914 0.179089 CCAGCCTTCTCTGACGGATG 60.179 60.000 2.03 2.03 37.17 3.51
4352 8970 0.647410 CGTCCGTGAATGTCATGCTC 59.353 55.000 0.00 0.00 32.19 4.26


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

AutoCloner maintained by Alex Coulton.