Multiple sequence alignment - TraesCS5B01G103500

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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 TraesCS5B01G103500 chr5B 100.000 5836 0 0 1 5836 137992576 137998411 0.000000e+00 10778.0
1 TraesCS5B01G103500 chr5B 92.308 520 26 10 5117 5633 138000556 138001064 0.000000e+00 726.0
2 TraesCS5B01G103500 chr5B 88.144 194 21 2 5644 5836 493699940 493700132 4.550000e-56 230.0
3 TraesCS5B01G103500 chr5B 89.103 156 15 1 2042 2195 170586175 170586020 5.970000e-45 193.0
4 TraesCS5B01G103500 chr5B 79.459 185 17 8 2238 2401 137994628 137994812 1.720000e-20 111.0
5 TraesCS5B01G103500 chr5B 96.491 57 2 0 2246 2302 12846961 12846905 1.730000e-15 95.3
6 TraesCS5B01G103500 chr5B 98.000 50 0 1 410 459 137992856 137992904 1.040000e-12 86.1
7 TraesCS5B01G103500 chr5B 98.000 50 0 1 281 329 137992985 137993034 1.040000e-12 86.1
8 TraesCS5B01G103500 chr5B 97.143 35 1 0 367 401 137992903 137992937 6.320000e-05 60.2
9 TraesCS5B01G103500 chr5B 97.143 35 1 0 328 362 137992942 137992976 6.320000e-05 60.2
10 TraesCS5B01G103500 chr5D 96.778 5493 127 21 367 5836 125505375 125510840 0.000000e+00 9118.0
11 TraesCS5B01G103500 chr5D 95.879 364 12 2 1 362 125505047 125505409 2.340000e-163 586.0
12 TraesCS5B01G103500 chr5D 95.148 371 15 2 5264 5633 125560236 125560604 3.030000e-162 582.0
13 TraesCS5B01G103500 chr5D 95.122 164 8 0 5117 5280 125560060 125560223 5.800000e-65 259.0
14 TraesCS5B01G103500 chr5D 78.919 185 16 9 2238 2401 125507055 125507237 2.880000e-18 104.0
15 TraesCS5B01G103500 chr5D 98.000 50 0 1 281 329 125505418 125505467 1.040000e-12 86.1
16 TraesCS5B01G103500 chr5A 97.220 3993 101 9 1649 5633 140594619 140590629 0.000000e+00 6750.0
17 TraesCS5B01G103500 chr5A 95.901 1488 40 9 410 1890 140596091 140594618 0.000000e+00 2390.0
18 TraesCS5B01G103500 chr5A 90.964 332 17 5 1 329 140596364 140596043 8.980000e-118 435.0
19 TraesCS5B01G103500 chr5A 79.670 182 16 9 2241 2401 140594212 140594031 1.720000e-20 111.0
20 TraesCS5B01G103500 chr5A 98.246 57 1 0 2246 2302 9843191 9843135 3.720000e-17 100.0
21 TraesCS5B01G103500 chr7D 90.045 221 14 2 5624 5836 212242751 212242531 4.450000e-71 279.0
22 TraesCS5B01G103500 chr3D 89.593 221 15 2 5624 5836 141511539 141511759 2.070000e-69 274.0
23 TraesCS5B01G103500 chr3D 89.286 196 19 2 5642 5836 53816020 53815826 1.620000e-60 244.0
24 TraesCS5B01G103500 chr3D 89.809 157 15 1 2042 2197 347590969 347591125 3.570000e-47 200.0
25 TraesCS5B01G103500 chr7B 88.265 196 20 3 5642 5836 705023717 705023910 1.260000e-56 231.0
26 TraesCS5B01G103500 chr7B 88.608 158 16 2 2042 2198 141816121 141815965 2.150000e-44 191.0
27 TraesCS5B01G103500 chr7B 87.059 170 14 6 727 894 604115798 604115961 9.990000e-43 185.0
28 TraesCS5B01G103500 chr2B 92.258 155 11 1 2042 2195 166470895 166470741 9.850000e-53 219.0
29 TraesCS5B01G103500 chr2B 90.446 157 14 1 2042 2197 288943719 288943563 7.670000e-49 206.0
30 TraesCS5B01G103500 chr6D 90.385 156 14 1 2042 2196 365846887 365847042 2.760000e-48 204.0
31 TraesCS5B01G103500 chr6A 89.542 153 15 1 2042 2193 506642832 506642984 5.970000e-45 193.0
32 TraesCS5B01G103500 chr6A 87.209 172 14 6 725 894 214179508 214179673 7.720000e-44 189.0
33 TraesCS5B01G103500 chr3A 86.517 178 18 5 726 901 212770130 212769957 2.150000e-44 191.0
34 TraesCS5B01G103500 chr3A 90.698 86 7 1 5752 5836 92247520 92247605 4.780000e-21 113.0
35 TraesCS5B01G103500 chr3A 93.846 65 4 0 2238 2302 400099435 400099499 1.340000e-16 99.0
36 TraesCS5B01G103500 chr2D 86.364 176 16 5 726 899 420278321 420278152 9.990000e-43 185.0
37 TraesCS5B01G103500 chr2D 86.286 175 16 6 725 897 126335657 126335489 3.590000e-42 183.0
38 TraesCS5B01G103500 chr2D 82.075 212 24 12 719 918 257390821 257390612 1.010000e-37 169.0
39 TraesCS5B01G103500 chr1D 86.550 171 19 3 725 894 124919538 124919371 9.990000e-43 185.0
40 TraesCS5B01G103500 chrUn 93.443 61 4 0 2238 2298 244515713 244515773 2.240000e-14 91.6
41 TraesCS5B01G103500 chr4D 86.076 79 10 1 2225 2302 9438885 9438963 3.750000e-12 84.2
42 TraesCS5B01G103500 chr3B 91.071 56 4 1 5782 5836 661728842 661728787 2.260000e-09 75.0
43 TraesCS5B01G103500 chr3B 91.071 56 4 1 5782 5836 661761531 661761476 2.260000e-09 75.0


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 TraesCS5B01G103500 chr5B 137992576 137998411 5835 False 10778.0 10778 100.00000 1 5836 1 chr5B.!!$F1 5835
1 TraesCS5B01G103500 chr5B 138000556 138001064 508 False 726.0 726 92.30800 5117 5633 1 chr5B.!!$F2 516
2 TraesCS5B01G103500 chr5D 125505047 125510840 5793 False 4852.0 9118 96.32850 1 5836 2 chr5D.!!$F1 5835
3 TraesCS5B01G103500 chr5D 125560060 125560604 544 False 420.5 582 95.13500 5117 5633 2 chr5D.!!$F3 516
4 TraesCS5B01G103500 chr5A 140590629 140596364 5735 True 2421.5 6750 90.93875 1 5633 4 chr5A.!!$R2 5632

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
300 304 0.039618 GGGTTTGCAGGGGAGAATGA 59.960 55.000 0.00 0.00 0.00 2.57 F
368 372 0.110486 TCCCTTGTCAAACCTCAGCC 59.890 55.000 0.00 0.00 0.00 4.85 F
388 392 0.482887 CCCTTGGGTCTGGAAAACCT 59.517 55.000 0.00 0.00 36.97 3.50 F
1619 1630 0.620556 AATTGATGGTGAGGGCGAGT 59.379 50.000 0.00 0.00 0.00 4.18 F
2410 2663 1.214175 CATACCATACCCACCTTGCCA 59.786 52.381 0.00 0.00 0.00 4.92 F
2795 3049 3.133721 CACTAGCTCTACATTTCCTGGCT 59.866 47.826 0.00 0.00 0.00 4.75 F
4047 4301 1.130749 GTGCTGAATCAGAAGCTGCAG 59.869 52.381 15.38 10.11 40.21 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1793 2044 1.985159 ACAGTGCAAAGGGATCCTACA 59.015 47.619 12.58 0.17 31.13 2.74 R
2217 2468 3.183754 GCGGTATTGTATTTTGGTTGGC 58.816 45.455 0.00 0.00 0.00 4.52 R
2357 2610 7.280876 GGTTGAAATATCTGCATGTCAAGTCTA 59.719 37.037 0.00 0.00 0.00 2.59 R
3596 3850 2.154854 TCTCAACAAGGACTTGCGAG 57.845 50.000 18.71 18.71 44.03 5.03 R
4047 4301 2.223294 GCATCAAGTCATCAGAAGCTGC 60.223 50.000 0.00 0.00 0.00 5.25 R
4697 4951 0.749091 TGCTCCTTTGATGCCCATCG 60.749 55.000 4.02 0.00 40.63 3.84 R
5756 6054 0.456653 AGCATGAACAAATTCGCCGC 60.457 50.000 0.00 0.00 37.69 6.53 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
27 28 1.393603 GGCTTTCTAGATTGCCACCC 58.606 55.000 23.56 3.84 44.34 4.61
30 31 2.369394 CTTTCTAGATTGCCACCCACC 58.631 52.381 0.00 0.00 0.00 4.61
31 32 0.623723 TTCTAGATTGCCACCCACCC 59.376 55.000 0.00 0.00 0.00 4.61
186 190 3.577649 TTGTCCTTTGAGAGACGCTAG 57.422 47.619 0.00 0.00 35.71 3.42
231 235 6.728164 TGTGAATATTCAAGGGAATTTTGGGA 59.272 34.615 19.55 0.00 40.87 4.37
272 276 1.375523 CCTCGTTTGACGGAAGGGG 60.376 63.158 0.27 0.00 42.81 4.79
300 304 0.039618 GGGTTTGCAGGGGAGAATGA 59.960 55.000 0.00 0.00 0.00 2.57
311 315 5.508657 GCAGGGGAGAATGAATTAGAAATGC 60.509 44.000 0.00 0.00 0.00 3.56
352 356 0.481128 TTGGGTCTGGAAAACCTCCC 59.519 55.000 0.00 0.00 44.69 4.30
353 357 0.402861 TGGGTCTGGAAAACCTCCCT 60.403 55.000 0.00 0.00 44.69 4.20
354 358 0.778083 GGGTCTGGAAAACCTCCCTT 59.222 55.000 0.00 0.00 44.69 3.95
355 359 1.547901 GGGTCTGGAAAACCTCCCTTG 60.548 57.143 0.00 0.00 44.69 3.61
356 360 1.145119 GGTCTGGAAAACCTCCCTTGT 59.855 52.381 0.00 0.00 44.69 3.16
357 361 2.505405 GTCTGGAAAACCTCCCTTGTC 58.495 52.381 0.00 0.00 44.69 3.18
358 362 2.131854 TCTGGAAAACCTCCCTTGTCA 58.868 47.619 0.00 0.00 44.69 3.58
359 363 2.512056 TCTGGAAAACCTCCCTTGTCAA 59.488 45.455 0.00 0.00 44.69 3.18
360 364 3.053245 TCTGGAAAACCTCCCTTGTCAAA 60.053 43.478 0.00 0.00 44.69 2.69
361 365 3.028130 TGGAAAACCTCCCTTGTCAAAC 58.972 45.455 0.00 0.00 44.69 2.93
362 366 2.364324 GGAAAACCTCCCTTGTCAAACC 59.636 50.000 0.00 0.00 38.44 3.27
363 367 3.296854 GAAAACCTCCCTTGTCAAACCT 58.703 45.455 0.00 0.00 0.00 3.50
364 368 2.658807 AACCTCCCTTGTCAAACCTC 57.341 50.000 0.00 0.00 0.00 3.85
365 369 1.518367 ACCTCCCTTGTCAAACCTCA 58.482 50.000 0.00 0.00 0.00 3.86
366 370 1.421646 ACCTCCCTTGTCAAACCTCAG 59.578 52.381 0.00 0.00 0.00 3.35
367 371 1.528129 CTCCCTTGTCAAACCTCAGC 58.472 55.000 0.00 0.00 0.00 4.26
368 372 0.110486 TCCCTTGTCAAACCTCAGCC 59.890 55.000 0.00 0.00 0.00 4.85
369 373 0.895559 CCCTTGTCAAACCTCAGCCC 60.896 60.000 0.00 0.00 0.00 5.19
370 374 0.895559 CCTTGTCAAACCTCAGCCCC 60.896 60.000 0.00 0.00 0.00 5.80
371 375 0.895559 CTTGTCAAACCTCAGCCCCC 60.896 60.000 0.00 0.00 0.00 5.40
372 376 1.360393 TTGTCAAACCTCAGCCCCCT 61.360 55.000 0.00 0.00 0.00 4.79
373 377 1.360393 TGTCAAACCTCAGCCCCCTT 61.360 55.000 0.00 0.00 0.00 3.95
374 378 0.895559 GTCAAACCTCAGCCCCCTTG 60.896 60.000 0.00 0.00 0.00 3.61
375 379 1.607467 CAAACCTCAGCCCCCTTGG 60.607 63.158 0.00 0.00 37.09 3.61
386 390 3.051617 CCCCTTGGGTCTGGAAAAC 57.948 57.895 4.84 0.00 38.25 2.43
387 391 0.541998 CCCCTTGGGTCTGGAAAACC 60.542 60.000 4.84 0.00 38.25 3.27
388 392 0.482887 CCCTTGGGTCTGGAAAACCT 59.517 55.000 0.00 0.00 36.97 3.50
389 393 1.547901 CCCTTGGGTCTGGAAAACCTC 60.548 57.143 0.00 0.00 36.97 3.85
390 394 1.547901 CCTTGGGTCTGGAAAACCTCC 60.548 57.143 0.00 0.00 45.64 4.30
397 401 1.423921 TCTGGAAAACCTCCCTTGTCC 59.576 52.381 0.00 0.00 44.69 4.02
403 407 0.841289 AACCTCCCTTGTCCAACGAA 59.159 50.000 0.00 0.00 0.00 3.85
626 632 5.994054 ACTACGATCCCATGAATCTTCAATG 59.006 40.000 0.00 0.00 41.13 2.82
715 721 9.668497 ACATCCTAGTAGTTTCCTTAATCAAAC 57.332 33.333 0.00 2.52 33.42 2.93
737 743 3.223435 TGATCATTCTACTCCCTCCGTC 58.777 50.000 0.00 0.00 0.00 4.79
1285 1296 7.473511 GCTCTAACCCTTGACATCCTTATACAT 60.474 40.741 0.00 0.00 0.00 2.29
1619 1630 0.620556 AATTGATGGTGAGGGCGAGT 59.379 50.000 0.00 0.00 0.00 4.18
1723 1734 4.748892 ACATCCTCGTGTTATGAGTCTTG 58.251 43.478 0.00 0.00 29.27 3.02
1835 2086 3.859443 TCCATGCAAAAATTCCCATTCG 58.141 40.909 0.00 0.00 0.00 3.34
2105 2356 7.806180 AGCTACAGTTGAAACCCATAAGATAT 58.194 34.615 0.00 0.00 0.00 1.63
2106 2357 8.275040 AGCTACAGTTGAAACCCATAAGATATT 58.725 33.333 0.00 0.00 0.00 1.28
2217 2468 6.482308 TCAGACATGACATGCAGATATTTCAG 59.518 38.462 15.49 0.62 0.00 3.02
2349 2602 5.076182 TGGCTAAATCTTTGGTGATGTTCA 58.924 37.500 0.00 0.00 0.00 3.18
2357 2610 5.200483 TCTTTGGTGATGTTCAAGTCCTTT 58.800 37.500 0.00 0.00 0.00 3.11
2410 2663 1.214175 CATACCATACCCACCTTGCCA 59.786 52.381 0.00 0.00 0.00 4.92
2507 2760 4.571176 GGTAGATAACTTTCTCTTTGGCCG 59.429 45.833 0.00 0.00 0.00 6.13
2546 2799 9.847224 ATTTTATGTAATTAGTACCAGTGGGAG 57.153 33.333 15.21 0.00 38.05 4.30
2795 3049 3.133721 CACTAGCTCTACATTTCCTGGCT 59.866 47.826 0.00 0.00 0.00 4.75
2995 3249 3.648339 ATTCATGCAACACAGTTCACC 57.352 42.857 0.00 0.00 0.00 4.02
3596 3850 7.148557 GCTACAGAACAATTACAGGAAGAAGAC 60.149 40.741 0.00 0.00 0.00 3.01
3629 3883 5.238214 CCTTGTTGAGAAGGATATTGCTAGC 59.762 44.000 8.10 8.10 44.87 3.42
4047 4301 1.130749 GTGCTGAATCAGAAGCTGCAG 59.869 52.381 15.38 10.11 40.21 4.41
4697 4951 1.878088 GGAAAACCCACCGAGAAGAAC 59.122 52.381 0.00 0.00 34.14 3.01
4714 4968 1.672881 GAACGATGGGCATCAAAGGAG 59.327 52.381 0.00 0.00 37.69 3.69
4828 5082 7.131227 TCCATAATACCTTCCTGGGGAAAAATA 59.869 37.037 0.00 0.00 41.54 1.40
4961 5216 4.905429 TGTGGTTGCATGTAGTATGTTCT 58.095 39.130 0.00 0.00 0.00 3.01
4980 5235 6.413892 TGTTCTTGACATATAACTGCATCCA 58.586 36.000 0.00 0.00 32.00 3.41
5056 5312 7.049754 AGGTACTACTAGTAGTTCTTCTGCTC 58.950 42.308 34.30 17.36 43.35 4.26
5297 5582 0.979187 AGGCTCCATTGCATTTGGGG 60.979 55.000 14.39 12.74 37.81 4.96
5349 5638 4.466828 CGTGATAAGCAACTCAAAACCAG 58.533 43.478 0.00 0.00 0.00 4.00
5655 5953 2.350772 GGAATCAAGCAACCTTCGTGTG 60.351 50.000 0.00 0.00 0.00 3.82
5660 5958 2.530497 GCAACCTTCGTGTGCGTGA 61.530 57.895 0.00 0.00 39.49 4.35
5701 5999 6.538945 ACTAACACCAGATTTTGTGGTTTT 57.461 33.333 0.00 0.00 46.73 2.43
5736 6034 6.091986 GTCCTCAAGTTCAAATCTGATCTGTC 59.908 42.308 0.00 0.00 32.90 3.51
5755 6053 5.876651 TGTCTATACAGGCATGTGAGATT 57.123 39.130 15.48 0.00 40.79 2.40
5756 6054 5.604565 TGTCTATACAGGCATGTGAGATTG 58.395 41.667 15.48 1.01 40.79 2.67
5758 6056 1.655484 TACAGGCATGTGAGATTGCG 58.345 50.000 15.48 0.00 40.79 4.85
5780 6078 2.927871 GCGAATTTGTTCATGCTGGCTT 60.928 45.455 0.00 0.00 0.00 4.35
5793 6091 3.090790 TGCTGGCTTTTGCTGATTGATA 58.909 40.909 0.00 0.00 46.54 2.15
5799 6097 4.381292 GGCTTTTGCTGATTGATACTGCTT 60.381 41.667 0.00 0.00 46.54 3.91
5805 6103 6.225981 TGCTGATTGATACTGCTTCTTCTA 57.774 37.500 0.00 0.00 34.27 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 3.151022 GAGAGAGGTGAGGCCCGG 61.151 72.222 0.00 0.00 38.26 5.73
31 32 2.043450 AGAGAGAGGTGAGGCCCG 60.043 66.667 0.00 0.00 38.26 6.13
96 100 2.290896 CCAGACAACCAATTCTAGGGCA 60.291 50.000 0.00 0.00 0.00 5.36
186 190 0.958382 TAAGCACATCACAACGGGCC 60.958 55.000 0.00 0.00 0.00 5.80
231 235 4.526970 CCTACAAGAGGCCACAAATATGT 58.473 43.478 5.01 2.49 38.96 2.29
249 253 0.037975 TTCCGTCAAACGAGGCCTAC 60.038 55.000 4.42 0.00 46.05 3.18
272 276 1.471829 CCTGCAAACCCTTCCAACCC 61.472 60.000 0.00 0.00 0.00 4.11
300 304 7.283127 ACAGATGTACATTCCGCATTTCTAATT 59.717 33.333 10.30 0.00 0.00 1.40
311 315 1.299541 GGGCACAGATGTACATTCCG 58.700 55.000 10.30 4.31 0.00 4.30
352 356 0.895559 GGGGGCTGAGGTTTGACAAG 60.896 60.000 0.00 0.00 0.00 3.16
353 357 1.152830 GGGGGCTGAGGTTTGACAA 59.847 57.895 0.00 0.00 0.00 3.18
354 358 1.360393 AAGGGGGCTGAGGTTTGACA 61.360 55.000 0.00 0.00 0.00 3.58
355 359 0.895559 CAAGGGGGCTGAGGTTTGAC 60.896 60.000 0.00 0.00 0.00 3.18
356 360 1.460255 CAAGGGGGCTGAGGTTTGA 59.540 57.895 0.00 0.00 0.00 2.69
357 361 1.607467 CCAAGGGGGCTGAGGTTTG 60.607 63.158 0.00 0.00 0.00 2.93
358 362 2.854076 CCAAGGGGGCTGAGGTTT 59.146 61.111 0.00 0.00 0.00 3.27
368 372 0.541998 GGTTTTCCAGACCCAAGGGG 60.542 60.000 10.44 3.34 43.99 4.79
369 373 0.482887 AGGTTTTCCAGACCCAAGGG 59.517 55.000 2.91 2.91 43.73 3.95
370 374 1.547901 GGAGGTTTTCCAGACCCAAGG 60.548 57.143 0.00 0.00 46.01 3.61
371 375 1.911057 GGAGGTTTTCCAGACCCAAG 58.089 55.000 0.00 0.00 46.01 3.61
380 384 1.961394 GTTGGACAAGGGAGGTTTTCC 59.039 52.381 0.00 0.00 46.00 3.13
381 385 1.607148 CGTTGGACAAGGGAGGTTTTC 59.393 52.381 0.00 0.00 0.00 2.29
382 386 1.213430 TCGTTGGACAAGGGAGGTTTT 59.787 47.619 5.09 0.00 0.00 2.43
383 387 0.841289 TCGTTGGACAAGGGAGGTTT 59.159 50.000 5.09 0.00 0.00 3.27
384 388 0.841289 TTCGTTGGACAAGGGAGGTT 59.159 50.000 5.09 0.00 0.00 3.50
385 389 0.396811 CTTCGTTGGACAAGGGAGGT 59.603 55.000 5.36 0.00 30.28 3.85
386 390 0.955919 GCTTCGTTGGACAAGGGAGG 60.956 60.000 13.23 3.81 33.56 4.30
387 391 0.955919 GGCTTCGTTGGACAAGGGAG 60.956 60.000 8.34 8.34 35.48 4.30
388 392 1.072505 GGCTTCGTTGGACAAGGGA 59.927 57.895 5.09 0.00 0.00 4.20
389 393 0.537371 AAGGCTTCGTTGGACAAGGG 60.537 55.000 0.00 0.00 0.00 3.95
390 394 2.076863 CTAAGGCTTCGTTGGACAAGG 58.923 52.381 1.30 0.00 0.00 3.61
397 401 1.068541 GCAAACCCTAAGGCTTCGTTG 60.069 52.381 1.30 3.65 36.11 4.10
403 407 0.251341 CCACTGCAAACCCTAAGGCT 60.251 55.000 0.00 0.00 36.11 4.58
584 590 9.778993 GATCGTAGTATTAGAAAACACTACACA 57.221 33.333 10.37 0.00 42.16 3.72
585 591 9.230932 GGATCGTAGTATTAGAAAACACTACAC 57.769 37.037 10.37 2.86 42.16 2.90
715 721 3.226777 ACGGAGGGAGTAGAATGATCAG 58.773 50.000 0.09 0.00 0.00 2.90
737 743 7.366847 TCTCCAGAAAGACTCATATTTAGGG 57.633 40.000 0.00 0.00 0.00 3.53
767 773 8.080417 TCATTTTGCTCCGTATGTAGTCTATAC 58.920 37.037 0.00 0.00 0.00 1.47
862 872 9.555727 CCTCCGTTCCTAAATATAAATCTTTCA 57.444 33.333 0.00 0.00 0.00 2.69
869 879 7.786464 ACTACTCCCTCCGTTCCTAAATATAAA 59.214 37.037 0.00 0.00 0.00 1.40
1309 1320 2.486203 AGCAGTTTTCACAACACACGAA 59.514 40.909 0.00 0.00 0.00 3.85
1595 1606 3.442273 TCGCCCTCACCATCAATTAAAAC 59.558 43.478 0.00 0.00 0.00 2.43
1619 1630 4.141287 ACAATTCGAAATGGGAGAACACA 58.859 39.130 17.14 0.00 0.00 3.72
1723 1734 7.884877 TGGATTACAATTCATAGGGATCATCAC 59.115 37.037 0.00 0.00 0.00 3.06
1793 2044 1.985159 ACAGTGCAAAGGGATCCTACA 59.015 47.619 12.58 0.17 31.13 2.74
1835 2086 7.291567 GCAGAGTTCTTACAAGACATTTGTAC 58.708 38.462 0.00 0.00 34.93 2.90
2105 2356 4.022068 GCCAGAACCATGACTTGATTTCAA 60.022 41.667 0.00 0.00 0.00 2.69
2106 2357 3.507233 GCCAGAACCATGACTTGATTTCA 59.493 43.478 0.00 0.00 0.00 2.69
2217 2468 3.183754 GCGGTATTGTATTTTGGTTGGC 58.816 45.455 0.00 0.00 0.00 4.52
2357 2610 7.280876 GGTTGAAATATCTGCATGTCAAGTCTA 59.719 37.037 0.00 0.00 0.00 2.59
2410 2663 4.137872 GTGGCCGCTGCATTGCAT 62.138 61.111 12.53 0.00 38.13 3.96
2546 2799 9.609346 TTAAAATATTAGTCCAGTAACTCCAGC 57.391 33.333 0.00 0.00 0.00 4.85
2677 2931 6.377996 TGCCTATATGTCACTTCTGCAAAAAT 59.622 34.615 0.00 0.00 0.00 1.82
2795 3049 6.428295 TGGAAAGAAGACCCAAGAAGTTTAA 58.572 36.000 0.00 0.00 0.00 1.52
2995 3249 7.649705 CGGATAATCAGATACCAAATAGATCCG 59.350 40.741 0.00 0.00 43.26 4.18
3416 3670 9.014297 TCTAATGAGGTTTCAAAATCCTTCTTC 57.986 33.333 0.00 0.00 36.78 2.87
3596 3850 2.154854 TCTCAACAAGGACTTGCGAG 57.845 50.000 18.71 18.71 44.03 5.03
3621 3875 7.667219 AGCCTGTTTATATGTATTGCTAGCAAT 59.333 33.333 37.46 37.46 46.85 3.56
3629 3883 8.902806 TCTTCCAAAGCCTGTTTATATGTATTG 58.097 33.333 0.00 0.00 0.00 1.90
3633 3887 7.451566 AGTTTCTTCCAAAGCCTGTTTATATGT 59.548 33.333 0.00 0.00 0.00 2.29
3916 4170 2.438021 AGTTGACTGTGGTCCTGCTTTA 59.562 45.455 0.00 0.00 41.47 1.85
4047 4301 2.223294 GCATCAAGTCATCAGAAGCTGC 60.223 50.000 0.00 0.00 0.00 5.25
4644 4898 2.076863 GTGTACAGATGAAGGTGTGGC 58.923 52.381 0.00 0.00 0.00 5.01
4651 4905 3.055530 AGGAGCCTTGTGTACAGATGAAG 60.056 47.826 7.40 2.94 0.00 3.02
4697 4951 0.749091 TGCTCCTTTGATGCCCATCG 60.749 55.000 4.02 0.00 40.63 3.84
4828 5082 6.936335 TGAAAAGCCACGATGATATCATACAT 59.064 34.615 18.19 4.28 36.57 2.29
4961 5216 8.785946 CATACATTGGATGCAGTTATATGTCAA 58.214 33.333 4.93 0.00 0.00 3.18
5258 5514 8.040727 GGAGCCTATTTAAAACATTTCCAACAT 58.959 33.333 0.00 0.00 0.00 2.71
5324 5609 2.472695 TTGAGTTGCTTATCACGCCT 57.527 45.000 0.00 0.00 0.00 5.52
5325 5610 3.234386 GTTTTGAGTTGCTTATCACGCC 58.766 45.455 0.00 0.00 0.00 5.68
5655 5953 1.268488 TGCTGAACAACACATTCACGC 60.268 47.619 0.00 0.00 32.67 5.34
5660 5958 7.138736 GTGTTAGTATTGCTGAACAACACATT 58.861 34.615 11.20 0.00 38.18 2.71
5736 6034 3.431233 CGCAATCTCACATGCCTGTATAG 59.569 47.826 0.00 0.00 39.39 1.31
5755 6053 0.732196 GCATGAACAAATTCGCCGCA 60.732 50.000 0.00 0.00 37.69 5.69
5756 6054 0.456653 AGCATGAACAAATTCGCCGC 60.457 50.000 0.00 0.00 37.69 6.53
5758 6056 1.632422 CCAGCATGAACAAATTCGCC 58.368 50.000 0.00 0.00 39.69 5.54
5780 6078 5.942236 AGAAGAAGCAGTATCAATCAGCAAA 59.058 36.000 0.00 0.00 0.00 3.68
5793 6091 5.491982 CAAGTATGGGTTAGAAGAAGCAGT 58.508 41.667 0.00 0.00 0.00 4.40
5799 6097 5.163301 GGATCTGCAAGTATGGGTTAGAAGA 60.163 44.000 0.00 0.00 33.76 2.87
5805 6103 2.846206 TGAGGATCTGCAAGTATGGGTT 59.154 45.455 0.00 0.00 34.92 4.11


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

AutoCloner maintained by Alex Coulton.