Multiple sequence alignment - TraesCS1B01G133600

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 TraesCS1B01G133600 chr1B 100.000 5374 0 0 1 5374 168995334 169000707 0.000000e+00 9925.0
1 TraesCS1B01G133600 chr1B 94.159 5085 200 30 1 5044 527625590 527630618 0.000000e+00 7655.0
2 TraesCS1B01G133600 chr1B 92.204 1411 58 16 3658 5044 654869228 654867846 0.000000e+00 1949.0
3 TraesCS1B01G133600 chr1B 92.473 279 19 2 5095 5372 527630701 527630978 1.080000e-106 398.0
4 TraesCS1B01G133600 chr1B 91.064 235 11 5 5139 5372 654867802 654867577 5.230000e-80 309.0
5 TraesCS1B01G133600 chr2B 95.722 5283 151 36 2 5244 335418288 335413041 0.000000e+00 8434.0
6 TraesCS1B01G133600 chr2B 93.641 2642 108 12 2 2624 689745716 689748316 0.000000e+00 3893.0
7 TraesCS1B01G133600 chr2B 97.395 2188 54 1 2 2189 9627487 9629671 0.000000e+00 3722.0
8 TraesCS1B01G133600 chr2B 96.269 268 9 1 5106 5372 335413007 335412740 6.390000e-119 438.0
9 TraesCS1B01G133600 chr2B 93.548 279 16 2 5095 5372 689748522 689748799 1.080000e-111 414.0
10 TraesCS1B01G133600 chr2B 98.077 104 2 0 5271 5374 9629673 9629776 1.190000e-41 182.0
11 TraesCS1B01G133600 chr2B 86.777 121 4 6 4932 5044 689748325 689748441 2.030000e-24 124.0
12 TraesCS1B01G133600 chr2B 86.747 83 5 6 5092 5170 335412936 335412856 2.670000e-13 87.9
13 TraesCS1B01G133600 chr2B 100.000 31 0 0 4057 4087 335414184 335414154 2.090000e-04 58.4
14 TraesCS1B01G133600 chr4D 90.662 4594 281 83 834 5344 504107911 504103383 0.000000e+00 5971.0
15 TraesCS1B01G133600 chr4D 90.204 2450 157 46 2605 5001 115129529 115127110 0.000000e+00 3118.0
16 TraesCS1B01G133600 chr4D 90.447 806 61 13 2 800 176600351 176601147 0.000000e+00 1048.0
17 TraesCS1B01G133600 chr4D 89.778 812 67 12 1 800 115132017 115131210 0.000000e+00 1026.0
18 TraesCS1B01G133600 chr4D 93.750 48 3 0 5163 5210 176605383 176605430 7.470000e-09 73.1
19 TraesCS1B01G133600 chr3A 90.959 4225 266 54 834 5001 513527835 513532000 0.000000e+00 5579.0
20 TraesCS1B01G133600 chr3A 90.403 4189 279 60 834 4956 206097624 206093493 0.000000e+00 5395.0
21 TraesCS1B01G133600 chr3A 89.938 805 65 10 1 800 513527071 513527864 0.000000e+00 1024.0
22 TraesCS1B01G133600 chr7D 92.048 4024 231 42 834 4832 405195471 405191512 0.000000e+00 5576.0
23 TraesCS1B01G133600 chr7D 88.811 143 5 6 4869 5001 405191432 405191291 1.200000e-36 165.0
24 TraesCS1B01G133600 chr1A 90.342 4297 279 61 834 5044 127300264 127296018 0.000000e+00 5511.0
25 TraesCS1B01G133600 chr5B 93.404 3654 210 16 6 3641 538577661 538574021 0.000000e+00 5384.0
26 TraesCS1B01G133600 chr5B 86.461 1780 119 61 3637 5372 538556045 538554344 0.000000e+00 1840.0
27 TraesCS1B01G133600 chr5A 89.075 4183 279 104 1252 5372 111564601 111560535 0.000000e+00 5029.0
28 TraesCS1B01G133600 chr7B 92.842 1830 90 20 2 1829 687674270 687676060 0.000000e+00 2615.0
29 TraesCS1B01G133600 chr7B 86.505 289 19 6 5095 5372 687676265 687676544 3.150000e-77 300.0
30 TraesCS1B01G133600 chr7B 93.396 106 6 1 5139 5244 687676224 687676328 7.210000e-34 156.0
31 TraesCS1B01G133600 chr7B 96.250 80 2 1 4965 5044 687676102 687676180 4.370000e-26 130.0
32 TraesCS1B01G133600 chr2D 88.810 1841 128 43 3215 5001 240220935 240222751 0.000000e+00 2187.0
33 TraesCS1B01G133600 chr2D 85.725 1324 99 49 3732 5001 136751712 136750425 0.000000e+00 1315.0
34 TraesCS1B01G133600 chr2D 83.254 209 16 10 5164 5372 240222955 240223144 1.990000e-39 174.0
35 TraesCS1B01G133600 chr5D 87.384 1395 98 45 3661 5001 520902794 520904164 0.000000e+00 1530.0
36 TraesCS1B01G133600 chr5D 90.299 804 64 8 2 800 520899326 520900120 0.000000e+00 1040.0
37 TraesCS1B01G133600 chr5D 84.487 780 104 10 862 1632 398889234 398890005 0.000000e+00 754.0
38 TraesCS1B01G133600 chr5D 82.775 209 17 11 5164 5372 520904367 520904556 9.260000e-38 169.0
39 TraesCS1B01G133600 chr1D 86.188 1267 100 41 4143 5372 458804888 458803660 0.000000e+00 1301.0
40 TraesCS1B01G133600 chr1D 82.775 209 17 10 5164 5372 118577331 118577520 9.260000e-38 169.0


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 TraesCS1B01G133600 chr1B 168995334 169000707 5373 False 9925.000000 9925 100.000000 1 5374 1 chr1B.!!$F1 5373
1 TraesCS1B01G133600 chr1B 527625590 527630978 5388 False 4026.500000 7655 93.316000 1 5372 2 chr1B.!!$F2 5371
2 TraesCS1B01G133600 chr1B 654867577 654869228 1651 True 1129.000000 1949 91.634000 3658 5372 2 chr1B.!!$R1 1714
3 TraesCS1B01G133600 chr2B 335412740 335418288 5548 True 2986.633333 8434 92.912667 2 5372 3 chr2B.!!$R2 5370
4 TraesCS1B01G133600 chr2B 9627487 9629776 2289 False 1952.000000 3722 97.736000 2 5374 2 chr2B.!!$F1 5372
5 TraesCS1B01G133600 chr2B 689745716 689748799 3083 False 1477.000000 3893 91.322000 2 5372 3 chr2B.!!$F2 5370
6 TraesCS1B01G133600 chr4D 504103383 504107911 4528 True 5971.000000 5971 90.662000 834 5344 1 chr4D.!!$R1 4510
7 TraesCS1B01G133600 chr4D 115127110 115132017 4907 True 2072.000000 3118 89.991000 1 5001 2 chr4D.!!$R2 5000
8 TraesCS1B01G133600 chr4D 176600351 176601147 796 False 1048.000000 1048 90.447000 2 800 1 chr4D.!!$F1 798
9 TraesCS1B01G133600 chr3A 206093493 206097624 4131 True 5395.000000 5395 90.403000 834 4956 1 chr3A.!!$R1 4122
10 TraesCS1B01G133600 chr3A 513527071 513532000 4929 False 3301.500000 5579 90.448500 1 5001 2 chr3A.!!$F1 5000
11 TraesCS1B01G133600 chr7D 405191291 405195471 4180 True 2870.500000 5576 90.429500 834 5001 2 chr7D.!!$R1 4167
12 TraesCS1B01G133600 chr1A 127296018 127300264 4246 True 5511.000000 5511 90.342000 834 5044 1 chr1A.!!$R1 4210
13 TraesCS1B01G133600 chr5B 538574021 538577661 3640 True 5384.000000 5384 93.404000 6 3641 1 chr5B.!!$R2 3635
14 TraesCS1B01G133600 chr5B 538554344 538556045 1701 True 1840.000000 1840 86.461000 3637 5372 1 chr5B.!!$R1 1735
15 TraesCS1B01G133600 chr5A 111560535 111564601 4066 True 5029.000000 5029 89.075000 1252 5372 1 chr5A.!!$R1 4120
16 TraesCS1B01G133600 chr7B 687674270 687676544 2274 False 800.250000 2615 92.248250 2 5372 4 chr7B.!!$F1 5370
17 TraesCS1B01G133600 chr2D 136750425 136751712 1287 True 1315.000000 1315 85.725000 3732 5001 1 chr2D.!!$R1 1269
18 TraesCS1B01G133600 chr2D 240220935 240223144 2209 False 1180.500000 2187 86.032000 3215 5372 2 chr2D.!!$F1 2157
19 TraesCS1B01G133600 chr5D 520899326 520904556 5230 False 913.000000 1530 86.819333 2 5372 3 chr5D.!!$F2 5370
20 TraesCS1B01G133600 chr5D 398889234 398890005 771 False 754.000000 754 84.487000 862 1632 1 chr5D.!!$F1 770
21 TraesCS1B01G133600 chr1D 458803660 458804888 1228 True 1301.000000 1301 86.188000 4143 5372 1 chr1D.!!$R1 1229

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
214 215 1.000717 GCGGTAGCATGGTGTTTTTGT 60.001 47.619 7.89 0.00 44.35 2.83 F
401 410 4.093952 GCTGCATCGCGTTGCTGT 62.094 61.111 34.27 6.11 43.18 4.40 F
693 709 4.756642 TGTTTGTAGGTCATTCTGAAGCAG 59.243 41.667 0.00 0.00 0.00 4.24 F
2273 2406 5.263599 TGTTCAAAAGGAGTGGCATATGAT 58.736 37.500 6.97 0.00 0.00 2.45 F
2545 2680 2.530701 AGACAAGGTACAGAGGACAGG 58.469 52.381 0.00 0.00 0.00 4.00 F
3241 3423 2.578021 AGAAAGGATCAAAGGCCAGCTA 59.422 45.455 5.01 0.00 0.00 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1833 1966 0.035056 CCCACAAGTCATCACCCTCC 60.035 60.000 0.00 0.0 0.00 4.30 R
2273 2406 0.184933 CAACTTGGTCCTGGTTGGGA 59.815 55.000 15.22 0.0 37.32 4.37 R
2384 2519 2.634639 TGAGCTCCCAGGGTTACTTA 57.365 50.000 12.15 0.0 0.00 2.24 R
3791 3974 0.250513 GGTACTCCTGCCTTGAGGTG 59.749 60.000 0.00 0.0 37.57 4.00 R
4355 4605 5.756849 CTTCTTCAGCCTTCTTTTCTTGTC 58.243 41.667 0.00 0.0 0.00 3.18 R
4660 4926 1.025647 GCAGCAGCCTCTTTCTCTGG 61.026 60.000 0.00 0.0 33.58 3.86 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
132 133 1.745115 ACTGTTGCGCGTATGCCAT 60.745 52.632 8.43 0.00 38.08 4.40
161 162 2.609350 GCTCGGTTTGACCACGTATTA 58.391 47.619 0.00 0.00 38.47 0.98
202 203 2.940890 GCATTAGGCAGGCGGTAGCA 62.941 60.000 0.00 0.00 44.00 3.49
214 215 1.000717 GCGGTAGCATGGTGTTTTTGT 60.001 47.619 7.89 0.00 44.35 2.83
401 410 4.093952 GCTGCATCGCGTTGCTGT 62.094 61.111 34.27 6.11 43.18 4.40
693 709 4.756642 TGTTTGTAGGTCATTCTGAAGCAG 59.243 41.667 0.00 0.00 0.00 4.24
1117 1219 6.841229 TGGCTTGAGAGAAATAAGAGGAGATA 59.159 38.462 0.00 0.00 0.00 1.98
1208 1311 7.420002 CATGAAGACAGTCTGAATTCAAACAA 58.580 34.615 20.53 0.00 32.47 2.83
1209 1312 7.572523 TGAAGACAGTCTGAATTCAAACAAT 57.427 32.000 14.17 1.40 0.00 2.71
1210 1313 7.420002 TGAAGACAGTCTGAATTCAAACAATG 58.580 34.615 14.17 10.28 0.00 2.82
2136 2269 5.533903 GGTCAAGAAATATGTGGATGAGCAT 59.466 40.000 0.00 0.00 34.82 3.79
2273 2406 5.263599 TGTTCAAAAGGAGTGGCATATGAT 58.736 37.500 6.97 0.00 0.00 2.45
2384 2519 6.386927 TGGGACTATGGTAATGAGTTGAGAAT 59.613 38.462 0.00 0.00 0.00 2.40
2545 2680 2.530701 AGACAAGGTACAGAGGACAGG 58.469 52.381 0.00 0.00 0.00 4.00
2601 2736 7.938140 TTGTATTTTTCCTATTGCAGTAGCT 57.062 32.000 10.62 0.00 42.74 3.32
2602 2737 7.320443 TGTATTTTTCCTATTGCAGTAGCTG 57.680 36.000 10.62 0.00 42.74 4.24
2603 2738 6.884295 TGTATTTTTCCTATTGCAGTAGCTGT 59.116 34.615 10.62 0.00 42.74 4.40
3181 3363 8.200792 TCAGTTTTGTTTTGCATTTGTAGGTAT 58.799 29.630 0.00 0.00 0.00 2.73
3241 3423 2.578021 AGAAAGGATCAAAGGCCAGCTA 59.422 45.455 5.01 0.00 0.00 3.32
3365 3547 3.580022 CCTGTGCTATGTGGATGGATCTA 59.420 47.826 0.00 0.00 0.00 1.98
3374 3556 3.142787 TGTGGATGGATCTAGAGATGGGA 59.857 47.826 0.00 0.00 34.37 4.37
3564 3747 5.360429 TGAGCATGTACAAAATGGCATACAT 59.640 36.000 0.00 3.50 43.07 2.29
3791 3974 4.808558 TCACAACATTAAAGGATGCAAGC 58.191 39.130 0.00 0.00 0.00 4.01
3899 4103 5.363562 ACATGTGCAAGATGAAGATCCTA 57.636 39.130 12.76 0.00 40.63 2.94
4058 4292 9.581289 TCAAATGATAGAAAGGGTAAGTTTTCA 57.419 29.630 0.56 0.00 36.11 2.69
4217 4466 5.415221 ACATTCTTTACTACTGCTCAGCTC 58.585 41.667 0.00 0.00 0.00 4.09
4355 4605 1.303074 TTGCAGCAAGGAGAGCAGG 60.303 57.895 2.83 0.00 38.35 4.85
4524 4774 4.382470 GCAGAGACAAGGCAGATTCTTCTA 60.382 45.833 0.00 0.00 0.00 2.10
4550 4800 6.116126 AGGTTAAGAAAACTATAGCTGCTGG 58.884 40.000 13.43 5.05 28.05 4.85
4577 4830 1.278699 AGCAAAGAAGGAGGCTGAGAG 59.721 52.381 0.00 0.00 34.83 3.20
4707 4973 7.135467 CACAAAGAAAAGAAGAACTTAGGCTC 58.865 38.462 0.00 0.00 37.93 4.70
4822 5090 2.046292 TCAGGTGATGACAGTGGACAA 58.954 47.619 0.00 0.00 31.12 3.18
4843 5112 7.985184 GGACAACCAGAACATCATTGTACTATA 59.015 37.037 0.00 0.00 33.76 1.31
4865 5160 7.772332 ATACAAGCTTCTTATTCGTAACCAG 57.228 36.000 0.00 0.00 0.00 4.00
4930 5245 8.923270 TGTAGACACATGAGTATGGATCAATTA 58.077 33.333 0.00 0.00 38.66 1.40
4956 5271 6.296026 TGCTCATTTTGTAACCAGTTCTACT 58.704 36.000 0.00 0.00 0.00 2.57
4959 5274 8.391106 GCTCATTTTGTAACCAGTTCTACTATG 58.609 37.037 0.00 0.00 0.00 2.23
4960 5275 8.263940 TCATTTTGTAACCAGTTCTACTATGC 57.736 34.615 0.00 0.00 0.00 3.14
4962 5277 8.511321 CATTTTGTAACCAGTTCTACTATGCAA 58.489 33.333 0.00 0.00 0.00 4.08
4963 5278 7.667043 TTTGTAACCAGTTCTACTATGCAAG 57.333 36.000 0.00 0.00 0.00 4.01
5215 5792 3.441572 ACACAAGCCAAATATGACAGAGC 59.558 43.478 0.00 0.00 0.00 4.09
5254 5831 4.193865 TGACAGCATCACCATAAGACATG 58.806 43.478 0.00 0.00 29.99 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
202 203 4.093743 GGGGGATTCTACAAAAACACCAT 58.906 43.478 0.00 0.00 0.00 3.55
396 405 3.646715 GGTGCCCCTACCACAGCA 61.647 66.667 0.00 0.00 40.54 4.41
401 410 3.792736 GATGCGGTGCCCCTACCA 61.793 66.667 0.00 0.00 40.89 3.25
693 709 6.569179 TCAAACATCTAAAAGGCCTACAAC 57.431 37.500 5.16 0.00 0.00 3.32
1117 1219 5.268387 AGTTATCATCTGGTCTGTGTCTCT 58.732 41.667 0.00 0.00 0.00 3.10
1208 1311 5.876357 TGACCACATCATCATCATCATCAT 58.124 37.500 0.00 0.00 29.99 2.45
1209 1312 5.298989 TGACCACATCATCATCATCATCA 57.701 39.130 0.00 0.00 29.99 3.07
1210 1313 6.819397 ATTGACCACATCATCATCATCATC 57.181 37.500 0.00 0.00 37.11 2.92
1833 1966 0.035056 CCCACAAGTCATCACCCTCC 60.035 60.000 0.00 0.00 0.00 4.30
2136 2269 7.732025 TGATCTTCCACTTCTTGTTACAAGTA 58.268 34.615 22.36 13.66 31.41 2.24
2273 2406 0.184933 CAACTTGGTCCTGGTTGGGA 59.815 55.000 15.22 0.00 37.32 4.37
2330 2465 5.263599 TGTTGTATTGGCCTTCTTCATCAT 58.736 37.500 3.32 0.00 0.00 2.45
2384 2519 2.634639 TGAGCTCCCAGGGTTACTTA 57.365 50.000 12.15 0.00 0.00 2.24
2545 2680 2.770164 ATCCCAACAGCAGTGAGTAC 57.230 50.000 0.00 0.00 0.00 2.73
2575 2710 9.627123 AGCTACTGCAATAGGAAAAATACAATA 57.373 29.630 4.09 0.00 42.74 1.90
2576 2711 8.408601 CAGCTACTGCAATAGGAAAAATACAAT 58.591 33.333 4.09 0.00 42.74 2.71
2577 2712 7.393234 ACAGCTACTGCAATAGGAAAAATACAA 59.607 33.333 4.09 0.00 42.74 2.41
2578 2713 6.884295 ACAGCTACTGCAATAGGAAAAATACA 59.116 34.615 4.09 0.00 42.74 2.29
2579 2714 7.321745 ACAGCTACTGCAATAGGAAAAATAC 57.678 36.000 4.09 0.00 42.74 1.89
2580 2715 8.265055 ACTACAGCTACTGCAATAGGAAAAATA 58.735 33.333 4.09 0.00 42.74 1.40
2581 2716 7.112779 ACTACAGCTACTGCAATAGGAAAAAT 58.887 34.615 4.09 0.00 42.74 1.82
2582 2717 6.472887 ACTACAGCTACTGCAATAGGAAAAA 58.527 36.000 4.09 0.00 42.74 1.94
2583 2718 6.049955 ACTACAGCTACTGCAATAGGAAAA 57.950 37.500 4.09 0.00 42.74 2.29
2584 2719 5.677319 ACTACAGCTACTGCAATAGGAAA 57.323 39.130 4.09 0.00 42.74 3.13
2585 2720 5.186992 TCAACTACAGCTACTGCAATAGGAA 59.813 40.000 4.09 0.00 42.74 3.36
2586 2721 4.709886 TCAACTACAGCTACTGCAATAGGA 59.290 41.667 4.09 0.00 42.74 2.94
2587 2722 5.011090 TCAACTACAGCTACTGCAATAGG 57.989 43.478 4.09 0.00 42.74 2.57
2588 2723 6.035435 CACTTCAACTACAGCTACTGCAATAG 59.965 42.308 0.00 0.00 42.74 1.73
2589 2724 5.869344 CACTTCAACTACAGCTACTGCAATA 59.131 40.000 0.00 0.00 42.74 1.90
2590 2725 4.692625 CACTTCAACTACAGCTACTGCAAT 59.307 41.667 0.00 0.00 42.74 3.56
2591 2726 4.058124 CACTTCAACTACAGCTACTGCAA 58.942 43.478 0.00 0.00 42.74 4.08
2592 2727 3.554960 CCACTTCAACTACAGCTACTGCA 60.555 47.826 0.00 0.00 42.74 4.41
2593 2728 2.996621 CCACTTCAACTACAGCTACTGC 59.003 50.000 0.00 0.00 34.37 4.40
2594 2729 4.521130 TCCACTTCAACTACAGCTACTG 57.479 45.455 0.00 0.00 37.52 2.74
2595 2730 4.833380 TCTTCCACTTCAACTACAGCTACT 59.167 41.667 0.00 0.00 0.00 2.57
2596 2731 4.924462 GTCTTCCACTTCAACTACAGCTAC 59.076 45.833 0.00 0.00 0.00 3.58
2597 2732 4.587262 TGTCTTCCACTTCAACTACAGCTA 59.413 41.667 0.00 0.00 0.00 3.32
2598 2733 3.388024 TGTCTTCCACTTCAACTACAGCT 59.612 43.478 0.00 0.00 0.00 4.24
2599 2734 3.728845 TGTCTTCCACTTCAACTACAGC 58.271 45.455 0.00 0.00 0.00 4.40
2600 2735 4.212214 GCTTGTCTTCCACTTCAACTACAG 59.788 45.833 0.00 0.00 0.00 2.74
2601 2736 4.127171 GCTTGTCTTCCACTTCAACTACA 58.873 43.478 0.00 0.00 0.00 2.74
2602 2737 3.498777 GGCTTGTCTTCCACTTCAACTAC 59.501 47.826 0.00 0.00 0.00 2.73
2603 2738 3.391296 AGGCTTGTCTTCCACTTCAACTA 59.609 43.478 0.00 0.00 0.00 2.24
3028 3209 5.835280 ACTTGGGAAGATCACTTTGAAATGT 59.165 36.000 0.00 0.00 36.39 2.71
3365 3547 2.277008 ACCTGGAACATCCCATCTCT 57.723 50.000 0.00 0.00 38.20 3.10
3374 3556 1.584724 CTGTCCCCTACCTGGAACAT 58.415 55.000 0.00 0.00 38.20 2.71
3549 3732 8.698210 AGATTATGTTCATGTATGCCATTTTGT 58.302 29.630 0.00 0.00 0.00 2.83
3564 3747 9.421399 TGTCTCTACAAGGATAGATTATGTTCA 57.579 33.333 0.00 0.00 30.77 3.18
3791 3974 0.250513 GGTACTCCTGCCTTGAGGTG 59.749 60.000 0.00 0.00 37.57 4.00
3899 4103 7.394359 AGTGCAAAAACATACCTGAGTAATGAT 59.606 33.333 0.00 0.00 30.59 2.45
4295 4544 5.772672 TCTTCTAAGTCTTTGTCTCTCTGCT 59.227 40.000 0.00 0.00 0.00 4.24
4355 4605 5.756849 CTTCTTCAGCCTTCTTTTCTTGTC 58.243 41.667 0.00 0.00 0.00 3.18
4524 4774 7.044798 CAGCAGCTATAGTTTTCTTAACCTCT 58.955 38.462 0.00 0.00 0.00 3.69
4550 4800 2.288457 GCCTCCTTCTTTGCTTTGTTCC 60.288 50.000 0.00 0.00 0.00 3.62
4577 4830 4.918810 TCTTGTTCTTTTTGAGCCTTCC 57.081 40.909 0.00 0.00 0.00 3.46
4660 4926 1.025647 GCAGCAGCCTCTTTCTCTGG 61.026 60.000 0.00 0.00 33.58 3.86
4707 4973 9.671279 TGTCTATTACCCATTGCAATAGATATG 57.329 33.333 12.53 0.00 41.11 1.78
4822 5090 7.495934 GCTTGTATAGTACAATGATGTTCTGGT 59.504 37.037 3.29 0.00 46.51 4.00
4843 5112 5.548406 ACTGGTTACGAATAAGAAGCTTGT 58.452 37.500 2.10 0.00 0.00 3.16
4865 5160 6.019779 TGCAACATTCCTACATTACCAAAC 57.980 37.500 0.00 0.00 0.00 2.93
4930 5245 6.655078 AGAACTGGTTACAAAATGAGCAAT 57.345 33.333 0.00 0.00 0.00 3.56
4956 5271 7.445121 AGCATAAGTCATAAGTAGCTTGCATA 58.555 34.615 0.00 0.00 0.00 3.14
4959 5274 6.610741 AAGCATAAGTCATAAGTAGCTTGC 57.389 37.500 0.00 0.00 39.36 4.01
4962 5277 8.316640 GCATTAAGCATAAGTCATAAGTAGCT 57.683 34.615 0.00 0.00 44.79 3.32
5215 5792 3.991773 CTGTCAATTTGGGCACATTTGAG 59.008 43.478 13.48 2.23 32.87 3.02


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

AutoCloner maintained by Alex Coulton.