Multiple sequence alignment - TraesCS2B01G398100

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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 TraesCS2B01G398100 chr2B 100.000 4063 0 0 1 4063 565038719 565042781 0.000000e+00 7504.0
1 TraesCS2B01G398100 chr2B 95.781 3532 95 20 566 4063 564920574 564924085 0.000000e+00 5648.0
2 TraesCS2B01G398100 chr2B 87.821 2529 254 22 804 3303 565210003 565212506 0.000000e+00 2915.0
3 TraesCS2B01G398100 chr2B 88.470 451 27 10 799 1225 565076403 565076852 4.650000e-144 521.0
4 TraesCS2B01G398100 chr2B 86.990 392 29 15 1 377 565061112 565061496 4.860000e-114 422.0
5 TraesCS2B01G398100 chr2B 91.480 223 17 2 42 263 564988944 564989165 5.100000e-79 305.0
6 TraesCS2B01G398100 chr2B 88.158 152 13 3 258 406 564919900 564920049 4.170000e-40 176.0
7 TraesCS2B01G398100 chr2B 93.182 44 3 0 440 483 564989385 564989428 9.430000e-07 65.8
8 TraesCS2B01G398100 chr2A 93.400 3106 144 27 585 3648 624359334 624362420 0.000000e+00 4543.0
9 TraesCS2B01G398100 chr2A 87.125 2532 257 36 817 3302 624458274 624460782 0.000000e+00 2806.0
10 TraesCS2B01G398100 chr2A 86.436 2632 271 48 755 3328 624394258 624396861 0.000000e+00 2804.0
11 TraesCS2B01G398100 chr2A 86.210 2625 270 45 757 3323 624447081 624449671 0.000000e+00 2758.0
12 TraesCS2B01G398100 chr2A 91.304 207 15 1 42 248 624367870 624368073 3.090000e-71 279.0
13 TraesCS2B01G398100 chr2A 87.349 166 17 1 42 203 624358353 624358518 1.930000e-43 187.0
14 TraesCS2B01G398100 chr2A 78.333 300 44 13 3713 4009 624356153 624356434 1.500000e-39 174.0
15 TraesCS2B01G398100 chr2A 87.261 157 11 3 257 406 624358600 624358754 1.940000e-38 171.0
16 TraesCS2B01G398100 chr2A 96.226 53 2 0 431 483 624358742 624358794 2.010000e-13 87.9
17 TraesCS2B01G398100 chr2A 100.000 35 0 0 449 483 624368291 624368325 9.430000e-07 65.8
18 TraesCS2B01G398100 chr2A 100.000 34 0 0 10 43 624358279 624358312 3.390000e-06 63.9
19 TraesCS2B01G398100 chr2D 92.871 3114 164 22 566 3643 481599366 481602457 0.000000e+00 4468.0
20 TraesCS2B01G398100 chr2D 86.703 2602 256 46 757 3303 481961412 481963978 0.000000e+00 2806.0
21 TraesCS2B01G398100 chr2D 85.512 2761 294 58 631 3328 481655900 481658617 0.000000e+00 2785.0
22 TraesCS2B01G398100 chr2D 87.064 2497 243 39 854 3303 481988424 481990887 0.000000e+00 2748.0
23 TraesCS2B01G398100 chr2D 85.758 2633 281 43 755 3323 481688562 481691164 0.000000e+00 2699.0
24 TraesCS2B01G398100 chr2D 92.105 304 18 5 3713 4013 481602455 481602755 1.350000e-114 424.0
25 TraesCS2B01G398100 chr2D 91.518 224 16 3 42 263 481605442 481605664 5.100000e-79 305.0
26 TraesCS2B01G398100 chr2D 84.967 153 10 6 257 406 481598657 481598799 4.230000e-30 143.0
27 TraesCS2B01G398100 chr2D 98.113 53 1 0 431 483 481598787 481598839 4.320000e-15 93.5
28 TraesCS2B01G398100 chr2D 95.455 44 2 0 1 44 481605359 481605402 2.030000e-08 71.3
29 TraesCS2B01G398100 chr2D 91.489 47 3 1 440 485 481605857 481605903 3.390000e-06 63.9
30 TraesCS2B01G398100 chr1A 82.967 2824 373 65 599 3369 20935360 20938128 0.000000e+00 2451.0
31 TraesCS2B01G398100 chr1B 83.762 2642 366 41 778 3372 28483648 28486273 0.000000e+00 2444.0


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 TraesCS2B01G398100 chr2B 565038719 565042781 4062 False 7504.000000 7504 100.000000 1 4063 1 chr2B.!!$F1 4062
1 TraesCS2B01G398100 chr2B 565210003 565212506 2503 False 2915.000000 2915 87.821000 804 3303 1 chr2B.!!$F4 2499
2 TraesCS2B01G398100 chr2B 564919900 564924085 4185 False 2912.000000 5648 91.969500 258 4063 2 chr2B.!!$F5 3805
3 TraesCS2B01G398100 chr2A 624458274 624460782 2508 False 2806.000000 2806 87.125000 817 3302 1 chr2A.!!$F3 2485
4 TraesCS2B01G398100 chr2A 624394258 624396861 2603 False 2804.000000 2804 86.436000 755 3328 1 chr2A.!!$F1 2573
5 TraesCS2B01G398100 chr2A 624447081 624449671 2590 False 2758.000000 2758 86.210000 757 3323 1 chr2A.!!$F2 2566
6 TraesCS2B01G398100 chr2A 624356153 624362420 6267 False 871.133333 4543 90.428167 10 4009 6 chr2A.!!$F4 3999
7 TraesCS2B01G398100 chr2D 481961412 481963978 2566 False 2806.000000 2806 86.703000 757 3303 1 chr2D.!!$F3 2546
8 TraesCS2B01G398100 chr2D 481655900 481658617 2717 False 2785.000000 2785 85.512000 631 3328 1 chr2D.!!$F1 2697
9 TraesCS2B01G398100 chr2D 481988424 481990887 2463 False 2748.000000 2748 87.064000 854 3303 1 chr2D.!!$F4 2449
10 TraesCS2B01G398100 chr2D 481688562 481691164 2602 False 2699.000000 2699 85.758000 755 3323 1 chr2D.!!$F2 2568
11 TraesCS2B01G398100 chr2D 481598657 481605903 7246 False 795.528571 4468 92.359714 1 4013 7 chr2D.!!$F5 4012
12 TraesCS2B01G398100 chr1A 20935360 20938128 2768 False 2451.000000 2451 82.967000 599 3369 1 chr1A.!!$F1 2770
13 TraesCS2B01G398100 chr1B 28483648 28486273 2625 False 2444.000000 2444 83.762000 778 3372 1 chr1B.!!$F1 2594

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
414 2625 0.035820 GATGGTGTAAGTTCCCCGCA 60.036 55.0 0.00 0.0 0.00 5.69 F
416 2627 0.183014 TGGTGTAAGTTCCCCGCAAA 59.817 50.0 0.00 0.0 0.00 3.68 F
1434 4246 0.249657 GCATCCGCTTCGAGATCCTT 60.250 55.0 0.00 0.0 34.30 3.36 F
2051 4863 0.462789 AACTCCGTCAACGACAACCT 59.537 50.0 3.71 0.0 43.02 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2051 4863 0.928922 GCGAGAGACGTCGATGAGTA 59.071 55.000 12.58 0.00 42.85 2.59 R
2237 5049 1.066143 CATAGTCCAAGCTCGGGTTGT 60.066 52.381 12.62 0.96 39.09 3.32 R
2908 5721 1.835531 TCTTCTCCCCGGTCAAATACC 59.164 52.381 0.00 0.00 45.77 2.73 R
4029 6864 1.503818 GCGTTTGAGGAGCGTTTGGA 61.504 55.000 0.00 0.00 34.15 3.53 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
76 2236 4.767255 GCCTGGCAGGACTGACCG 62.767 72.222 37.07 8.29 44.74 4.79
83 2243 4.680537 AGGACTGACCGGCGGACT 62.681 66.667 35.78 11.88 44.74 3.85
99 2259 4.464112 GCGGACTGTCTCATTTTAAACAC 58.536 43.478 7.85 0.00 0.00 3.32
102 2262 5.907391 CGGACTGTCTCATTTTAAACACAAC 59.093 40.000 7.85 0.00 0.00 3.32
108 2268 7.254852 TGTCTCATTTTAAACACAACTGTTCC 58.745 34.615 0.00 0.00 39.88 3.62
114 2274 2.348411 AACACAACTGTTCCTCCCAG 57.652 50.000 0.00 0.00 35.57 4.45
121 2281 2.242043 ACTGTTCCTCCCAGCAAATTG 58.758 47.619 0.00 0.00 33.09 2.32
124 2284 4.263905 ACTGTTCCTCCCAGCAAATTGATA 60.264 41.667 0.00 0.00 33.09 2.15
133 2293 7.177921 CCTCCCAGCAAATTGATATCATAATGT 59.822 37.037 6.17 0.00 0.00 2.71
137 2297 7.541091 CCAGCAAATTGATATCATAATGTCTGC 59.459 37.037 6.17 8.81 0.00 4.26
146 2306 8.738106 TGATATCATAATGTCTGCAAAACAACA 58.262 29.630 0.00 0.00 0.00 3.33
160 2320 5.502220 GCAAAACAACATGAAAGCGTCAAAT 60.502 36.000 0.00 0.00 40.50 2.32
161 2321 6.476896 CAAAACAACATGAAAGCGTCAAATT 58.523 32.000 0.00 0.00 40.50 1.82
169 2329 5.369685 TGAAAGCGTCAAATTGCATTAGA 57.630 34.783 0.00 0.00 31.51 2.10
198 2362 4.447290 TGAAGGTCACGAGTTCAATCAAA 58.553 39.130 0.00 0.00 0.00 2.69
203 2367 4.023193 GGTCACGAGTTCAATCAAAACCAT 60.023 41.667 0.00 0.00 0.00 3.55
205 2369 6.128007 GGTCACGAGTTCAATCAAAACCATAT 60.128 38.462 0.00 0.00 0.00 1.78
206 2370 6.742718 GTCACGAGTTCAATCAAAACCATATG 59.257 38.462 0.00 0.00 0.00 1.78
207 2371 6.652900 TCACGAGTTCAATCAAAACCATATGA 59.347 34.615 3.65 0.00 0.00 2.15
209 2373 6.128007 ACGAGTTCAATCAAAACCATATGACC 60.128 38.462 3.65 0.00 0.00 4.02
211 2375 7.415541 CGAGTTCAATCAAAACCATATGACCAT 60.416 37.037 3.65 0.00 0.00 3.55
212 2376 7.549839 AGTTCAATCAAAACCATATGACCATG 58.450 34.615 3.65 0.00 0.00 3.66
213 2377 7.178983 AGTTCAATCAAAACCATATGACCATGT 59.821 33.333 3.65 0.00 0.00 3.21
214 2378 6.865411 TCAATCAAAACCATATGACCATGTG 58.135 36.000 3.65 0.49 0.00 3.21
215 2379 4.717233 TCAAAACCATATGACCATGTGC 57.283 40.909 3.65 0.00 0.00 4.57
216 2380 3.128415 TCAAAACCATATGACCATGTGCG 59.872 43.478 3.65 0.00 0.00 5.34
217 2381 1.679139 AACCATATGACCATGTGCGG 58.321 50.000 3.65 0.00 0.00 5.69
218 2382 0.819259 ACCATATGACCATGTGCGGC 60.819 55.000 3.65 0.00 0.00 6.53
219 2383 1.518056 CCATATGACCATGTGCGGCC 61.518 60.000 3.65 0.00 0.00 6.13
220 2384 1.228245 ATATGACCATGTGCGGCCC 60.228 57.895 0.00 0.00 0.00 5.80
221 2385 1.708993 ATATGACCATGTGCGGCCCT 61.709 55.000 0.00 0.00 0.00 5.19
222 2386 2.607411 TATGACCATGTGCGGCCCTG 62.607 60.000 0.00 0.00 0.00 4.45
228 2392 0.247185 CATGTGCGGCCCTGAATTTT 59.753 50.000 0.00 0.00 0.00 1.82
234 2398 2.955660 TGCGGCCCTGAATTTTAATAGG 59.044 45.455 0.00 0.00 0.00 2.57
240 2404 6.659242 CGGCCCTGAATTTTAATAGGATATGT 59.341 38.462 0.00 0.00 31.91 2.29
242 2406 7.093771 GGCCCTGAATTTTAATAGGATATGTGG 60.094 40.741 0.00 0.00 31.91 4.17
248 2412 9.362151 GAATTTTAATAGGATATGTGGGGTTCA 57.638 33.333 0.00 0.00 0.00 3.18
274 2482 4.256920 CACCCAGAAGATAACAACTCCTG 58.743 47.826 0.00 0.00 0.00 3.86
363 2571 4.450080 GGACCGTGTAACTGTTTTCTAAGG 59.550 45.833 0.00 0.00 33.17 2.69
376 2584 8.803235 ACTGTTTTCTAAGGTTTCTTTTCTTGT 58.197 29.630 0.00 0.00 34.59 3.16
387 2595 8.847196 AGGTTTCTTTTCTTGTAGATTTACACC 58.153 33.333 0.00 0.00 39.44 4.16
409 2620 5.903810 CCAGTAGTAGATGGTGTAAGTTCC 58.096 45.833 0.00 0.00 0.00 3.62
410 2621 5.163437 CCAGTAGTAGATGGTGTAAGTTCCC 60.163 48.000 0.00 0.00 0.00 3.97
411 2622 4.961099 AGTAGTAGATGGTGTAAGTTCCCC 59.039 45.833 0.00 0.00 0.00 4.81
412 2623 2.764572 AGTAGATGGTGTAAGTTCCCCG 59.235 50.000 0.00 0.00 0.00 5.73
413 2624 0.252197 AGATGGTGTAAGTTCCCCGC 59.748 55.000 0.00 0.00 0.00 6.13
414 2625 0.035820 GATGGTGTAAGTTCCCCGCA 60.036 55.000 0.00 0.00 0.00 5.69
415 2626 0.402504 ATGGTGTAAGTTCCCCGCAA 59.597 50.000 0.00 0.00 0.00 4.85
416 2627 0.183014 TGGTGTAAGTTCCCCGCAAA 59.817 50.000 0.00 0.00 0.00 3.68
417 2628 1.320507 GGTGTAAGTTCCCCGCAAAA 58.679 50.000 0.00 0.00 0.00 2.44
418 2629 1.268625 GGTGTAAGTTCCCCGCAAAAG 59.731 52.381 0.00 0.00 0.00 2.27
419 2630 1.268625 GTGTAAGTTCCCCGCAAAAGG 59.731 52.381 0.00 0.00 0.00 3.11
426 2637 4.865865 CCCGCAAAAGGGCAAAAA 57.134 50.000 0.00 0.00 45.72 1.94
483 2694 7.922505 TTTAAATGTTCCAATGTCGACAAAG 57.077 32.000 24.13 17.20 0.00 2.77
486 2697 1.068541 GTTCCAATGTCGACAAAGGGC 60.069 52.381 28.67 20.99 0.00 5.19
491 2731 0.400213 ATGTCGACAAAGGGCCTTCA 59.600 50.000 24.13 12.46 0.00 3.02
527 2768 1.135402 CGTTTCTGGCACCAATTAGGC 60.135 52.381 0.00 0.00 43.14 3.93
559 2800 1.429423 GCAACCCGCTGTAGAATGC 59.571 57.895 0.00 0.00 37.77 3.56
560 2801 1.305219 GCAACCCGCTGTAGAATGCA 61.305 55.000 0.00 0.00 37.77 3.96
567 2808 3.164026 CTGTAGAATGCAGCAGCCA 57.836 52.632 0.00 0.00 43.16 4.75
597 3304 2.360475 GCCTTCCAGCTCCACACC 60.360 66.667 0.00 0.00 0.00 4.16
617 3339 3.024356 ACACCAACCCACCCACCA 61.024 61.111 0.00 0.00 0.00 4.17
652 3374 4.404715 TCTCCCTATTTAACCCGTCTTCTG 59.595 45.833 0.00 0.00 0.00 3.02
678 3400 2.030027 TTCCTCTCCAAGAAGAGCCA 57.970 50.000 0.00 0.00 41.27 4.75
721 3443 2.989253 TCTTCAGCGCCACTCCGA 60.989 61.111 2.29 0.00 0.00 4.55
753 3475 2.488891 CCACCACCACTTCCAGAATTCA 60.489 50.000 8.44 0.00 0.00 2.57
763 3485 5.884232 CACTTCCAGAATTCATCCAGAATCA 59.116 40.000 8.44 0.00 46.09 2.57
791 3516 2.297895 ATACACCTGCCCGGCTTCA 61.298 57.895 11.61 0.00 35.61 3.02
797 3522 2.672996 TGCCCGGCTTCAAGCTTC 60.673 61.111 9.83 0.00 41.99 3.86
1202 3956 1.415659 CCAGAGGGAGCTCATTAGGTG 59.584 57.143 17.19 4.67 35.59 4.00
1228 3991 7.745594 GCGAATTAAACCACGAACAAGTTATAA 59.254 33.333 0.00 0.00 0.00 0.98
1275 4078 9.220767 GTCTGTGAGTTATGGAAGACTTATTTT 57.779 33.333 0.00 0.00 33.02 1.82
1434 4246 0.249657 GCATCCGCTTCGAGATCCTT 60.250 55.000 0.00 0.00 34.30 3.36
1548 4360 2.234300 ATATTGCGGGACTGGTAACG 57.766 50.000 0.00 0.00 42.51 3.18
1755 4567 1.679898 CCTTCTTGCCGAGGTCCTT 59.320 57.895 0.00 0.00 0.00 3.36
1780 4592 2.462456 TGTCTTCTGTGAGGTCATGC 57.538 50.000 0.00 0.00 0.00 4.06
1834 4646 3.308117 CCATAAGTTGAAGCACCACCCTA 60.308 47.826 0.00 0.00 0.00 3.53
2022 4834 1.619654 CTGCCACCAAGTCCATTGAA 58.380 50.000 0.00 0.00 41.83 2.69
2051 4863 0.462789 AACTCCGTCAACGACAACCT 59.537 50.000 3.71 0.00 43.02 3.50
2199 5011 0.859232 CGGAGTTGGTGAACGACTTG 59.141 55.000 0.00 0.00 44.02 3.16
2502 5314 4.356405 TGAGGAGAATGTCAAGAAAGCA 57.644 40.909 0.00 0.00 0.00 3.91
2650 5463 4.101448 GGATGACCCCTGCAGCGT 62.101 66.667 8.66 6.26 0.00 5.07
2908 5721 1.580845 CGCAAGGAGCTTGGAACTGG 61.581 60.000 0.00 0.00 41.31 4.00
2981 5794 0.251916 TCGTTGCTATGAACCAGGGG 59.748 55.000 0.00 0.00 0.00 4.79
3039 5852 2.240162 GAACGGTGAGCCCCTACCTG 62.240 65.000 0.00 0.00 34.77 4.00
3046 5859 1.681486 GAGCCCCTACCTGTCTGCTC 61.681 65.000 0.00 0.00 38.51 4.26
3265 6094 9.490379 AGAACTACTGTCATGTAAGTTAAAAGG 57.510 33.333 8.07 0.00 0.00 3.11
3425 6255 5.105554 GGCATGTTATATGGTGTGTGGAAAA 60.106 40.000 0.00 0.00 0.00 2.29
3457 6287 1.250328 TAGACCGCGGACAAGAAAGA 58.750 50.000 35.90 3.29 0.00 2.52
3776 6608 9.705290 TTGAATAATAACTTGCCTTTTCCTTTC 57.295 29.630 0.00 0.00 0.00 2.62
3837 6670 7.310609 CCCAGTTCCCACTTTGATATTGAAAAT 60.311 37.037 0.00 0.00 0.00 1.82
3838 6671 8.748412 CCAGTTCCCACTTTGATATTGAAAATA 58.252 33.333 0.00 0.00 0.00 1.40
4029 6864 0.467384 AGCATCTACAGCCGAGCATT 59.533 50.000 0.00 0.00 0.00 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 5.565439 GCAAGCACCACTGATCTACAAAAAT 60.565 40.000 0.00 0.00 0.00 1.82
3 4 4.261572 GCAAGCACCACTGATCTACAAAAA 60.262 41.667 0.00 0.00 0.00 1.94
5 6 2.813754 GCAAGCACCACTGATCTACAAA 59.186 45.455 0.00 0.00 0.00 2.83
6 7 2.038952 AGCAAGCACCACTGATCTACAA 59.961 45.455 0.00 0.00 0.00 2.41
7 8 1.625315 AGCAAGCACCACTGATCTACA 59.375 47.619 0.00 0.00 0.00 2.74
8 9 2.393271 AGCAAGCACCACTGATCTAC 57.607 50.000 0.00 0.00 0.00 2.59
9 10 4.507710 CTTTAGCAAGCACCACTGATCTA 58.492 43.478 0.00 0.00 0.00 1.98
11 12 2.421424 CCTTTAGCAAGCACCACTGATC 59.579 50.000 0.00 0.00 0.00 2.92
12 13 2.040278 TCCTTTAGCAAGCACCACTGAT 59.960 45.455 0.00 0.00 0.00 2.90
13 14 1.419762 TCCTTTAGCAAGCACCACTGA 59.580 47.619 0.00 0.00 0.00 3.41
76 2236 3.500680 TGTTTAAAATGAGACAGTCCGCC 59.499 43.478 0.00 0.00 0.00 6.13
78 2238 5.666969 TGTGTTTAAAATGAGACAGTCCG 57.333 39.130 0.00 0.00 0.00 4.79
99 2259 1.691196 TTTGCTGGGAGGAACAGTTG 58.309 50.000 0.00 0.00 38.22 3.16
102 2262 2.517959 TCAATTTGCTGGGAGGAACAG 58.482 47.619 0.00 0.00 38.95 3.16
108 2268 8.118976 ACATTATGATATCAATTTGCTGGGAG 57.881 34.615 9.99 0.00 0.00 4.30
114 2274 8.806177 TTGCAGACATTATGATATCAATTTGC 57.194 30.769 9.99 12.54 0.00 3.68
121 2281 9.740239 ATGTTGTTTTGCAGACATTATGATATC 57.260 29.630 0.00 0.00 30.40 1.63
124 2284 7.604549 TCATGTTGTTTTGCAGACATTATGAT 58.395 30.769 17.85 0.00 31.05 2.45
133 2293 3.114809 CGCTTTCATGTTGTTTTGCAGA 58.885 40.909 0.00 0.00 0.00 4.26
137 2297 5.447478 TTTGACGCTTTCATGTTGTTTTG 57.553 34.783 0.00 0.00 32.84 2.44
144 2304 3.367992 TGCAATTTGACGCTTTCATGT 57.632 38.095 0.00 0.00 32.84 3.21
146 2306 5.953183 TCTAATGCAATTTGACGCTTTCAT 58.047 33.333 0.00 0.00 37.87 2.57
160 2320 7.360861 CGTGACCTTCAGTATTTTCTAATGCAA 60.361 37.037 0.00 0.00 0.00 4.08
161 2321 6.092122 CGTGACCTTCAGTATTTTCTAATGCA 59.908 38.462 0.00 0.00 0.00 3.96
169 2329 5.607477 TGAACTCGTGACCTTCAGTATTTT 58.393 37.500 0.00 0.00 0.00 1.82
198 2362 1.679139 CCGCACATGGTCATATGGTT 58.321 50.000 2.13 0.00 32.32 3.67
203 2367 2.191908 GGGCCGCACATGGTCATA 59.808 61.111 0.00 0.00 34.42 2.15
205 2369 4.720902 CAGGGCCGCACATGGTCA 62.721 66.667 0.00 0.00 34.42 4.02
206 2370 3.918253 TTCAGGGCCGCACATGGTC 62.918 63.158 0.00 0.00 0.00 4.02
207 2371 2.786512 AATTCAGGGCCGCACATGGT 62.787 55.000 0.00 0.00 0.00 3.55
209 2373 0.247185 AAAATTCAGGGCCGCACATG 59.753 50.000 0.00 0.00 0.00 3.21
211 2375 1.621992 TTAAAATTCAGGGCCGCACA 58.378 45.000 0.00 0.00 0.00 4.57
212 2376 2.959507 ATTAAAATTCAGGGCCGCAC 57.040 45.000 0.00 0.00 0.00 5.34
213 2377 2.955660 CCTATTAAAATTCAGGGCCGCA 59.044 45.455 0.00 0.00 0.00 5.69
214 2378 3.219281 TCCTATTAAAATTCAGGGCCGC 58.781 45.455 0.00 0.00 0.00 6.53
215 2379 6.659242 ACATATCCTATTAAAATTCAGGGCCG 59.341 38.462 0.00 0.00 0.00 6.13
216 2380 7.093771 CCACATATCCTATTAAAATTCAGGGCC 60.094 40.741 0.00 0.00 0.00 5.80
217 2381 7.093771 CCCACATATCCTATTAAAATTCAGGGC 60.094 40.741 0.00 0.00 0.00 5.19
218 2382 7.397192 CCCCACATATCCTATTAAAATTCAGGG 59.603 40.741 0.00 0.00 0.00 4.45
219 2383 7.950124 ACCCCACATATCCTATTAAAATTCAGG 59.050 37.037 0.00 0.00 0.00 3.86
220 2384 8.940397 ACCCCACATATCCTATTAAAATTCAG 57.060 34.615 0.00 0.00 0.00 3.02
221 2385 9.362151 GAACCCCACATATCCTATTAAAATTCA 57.638 33.333 0.00 0.00 0.00 2.57
222 2386 9.362151 TGAACCCCACATATCCTATTAAAATTC 57.638 33.333 0.00 0.00 0.00 2.17
228 2392 6.733334 TGCTATGAACCCCACATATCCTATTA 59.267 38.462 0.00 0.00 31.26 0.98
234 2398 3.412386 GGTGCTATGAACCCCACATATC 58.588 50.000 0.00 0.00 31.26 1.63
248 2412 5.396884 GGAGTTGTTATCTTCTGGGTGCTAT 60.397 44.000 0.00 0.00 0.00 2.97
250 2414 3.307762 GGAGTTGTTATCTTCTGGGTGCT 60.308 47.826 0.00 0.00 0.00 4.40
274 2482 1.090052 GTGGCGTTCTGCTATCCACC 61.090 60.000 0.00 0.00 45.43 4.61
306 2514 5.580297 CAGAGTAGCTTGGATTGTTTCTCTC 59.420 44.000 0.00 0.00 0.00 3.20
307 2515 5.012561 ACAGAGTAGCTTGGATTGTTTCTCT 59.987 40.000 0.00 0.00 0.00 3.10
363 2571 9.665264 CTGGTGTAAATCTACAAGAAAAGAAAC 57.335 33.333 0.00 0.00 39.75 2.78
387 2595 5.163437 GGGGAACTTACACCATCTACTACTG 60.163 48.000 0.00 0.00 32.85 2.74
407 2618 1.338136 TTTTTGCCCTTTTGCGGGGA 61.338 50.000 2.62 0.00 46.50 4.81
408 2619 1.147153 TTTTTGCCCTTTTGCGGGG 59.853 52.632 0.00 0.00 44.83 5.73
424 2635 5.538118 GGCTGCTTACACCATTTAGTTTTT 58.462 37.500 0.00 0.00 0.00 1.94
425 2636 4.320935 CGGCTGCTTACACCATTTAGTTTT 60.321 41.667 0.00 0.00 0.00 2.43
426 2637 3.190535 CGGCTGCTTACACCATTTAGTTT 59.809 43.478 0.00 0.00 0.00 2.66
427 2638 2.747446 CGGCTGCTTACACCATTTAGTT 59.253 45.455 0.00 0.00 0.00 2.24
428 2639 2.356135 CGGCTGCTTACACCATTTAGT 58.644 47.619 0.00 0.00 0.00 2.24
429 2640 1.064060 GCGGCTGCTTACACCATTTAG 59.936 52.381 11.21 0.00 38.39 1.85
430 2641 1.091537 GCGGCTGCTTACACCATTTA 58.908 50.000 11.21 0.00 38.39 1.40
431 2642 1.595093 GGCGGCTGCTTACACCATTT 61.595 55.000 18.85 0.00 42.25 2.32
432 2643 2.046285 GGCGGCTGCTTACACCATT 61.046 57.895 18.85 0.00 42.25 3.16
433 2644 2.438434 GGCGGCTGCTTACACCAT 60.438 61.111 18.85 0.00 42.25 3.55
434 2645 4.715523 GGGCGGCTGCTTACACCA 62.716 66.667 18.85 0.00 42.25 4.17
483 2694 0.915364 ACTTGGAGATCTGAAGGCCC 59.085 55.000 0.00 0.00 0.00 5.80
486 2697 3.736433 CGCTGTACTTGGAGATCTGAAGG 60.736 52.174 0.00 0.00 0.00 3.46
491 2731 3.511934 AGAAACGCTGTACTTGGAGATCT 59.488 43.478 0.00 0.00 0.00 2.75
549 2790 1.015109 CTGGCTGCTGCATTCTACAG 58.985 55.000 17.89 9.97 41.91 2.74
552 2793 0.746923 CTGCTGGCTGCTGCATTCTA 60.747 55.000 17.89 0.00 43.37 2.10
553 2794 2.035155 TGCTGGCTGCTGCATTCT 59.965 55.556 17.89 0.00 43.37 2.40
559 2800 3.432588 GTCTGCTGCTGGCTGCTG 61.433 66.667 21.19 20.19 43.37 4.41
560 2801 4.719106 GGTCTGCTGCTGGCTGCT 62.719 66.667 21.19 0.00 43.37 4.24
571 2812 4.785453 CTGGAAGGCGGGGTCTGC 62.785 72.222 0.00 0.00 0.00 4.26
574 2815 4.475135 GAGCTGGAAGGCGGGGTC 62.475 72.222 0.00 0.00 37.29 4.46
597 3304 3.826822 TGGGTGGGTTGGTGTGGG 61.827 66.667 0.00 0.00 0.00 4.61
623 3345 2.037381 GGGTTAAATAGGGAGAGGAGCG 59.963 54.545 0.00 0.00 0.00 5.03
627 3349 3.306613 AGACGGGTTAAATAGGGAGAGG 58.693 50.000 0.00 0.00 0.00 3.69
629 3351 4.404715 CAGAAGACGGGTTAAATAGGGAGA 59.595 45.833 0.00 0.00 0.00 3.71
652 3374 1.207791 TCTTGGAGAGGAATGGAGGC 58.792 55.000 0.00 0.00 0.00 4.70
678 3400 3.505293 GCTCAAATTGGAGAAGAAGCTGT 59.495 43.478 14.40 0.00 37.05 4.40
721 3443 0.475632 TGGTGGTGGATTCTGGAGGT 60.476 55.000 0.00 0.00 0.00 3.85
724 3446 1.351017 GAAGTGGTGGTGGATTCTGGA 59.649 52.381 0.00 0.00 0.00 3.86
726 3448 1.073763 TGGAAGTGGTGGTGGATTCTG 59.926 52.381 0.00 0.00 0.00 3.02
727 3449 1.352352 CTGGAAGTGGTGGTGGATTCT 59.648 52.381 0.00 0.00 0.00 2.40
753 3475 4.613925 ATGCGTATCTGTGATTCTGGAT 57.386 40.909 0.00 0.00 0.00 3.41
763 3485 2.225068 GCAGGTGTATGCGTATCTGT 57.775 50.000 12.37 0.00 36.28 3.41
1202 3956 3.880610 ACTTGTTCGTGGTTTAATTCGC 58.119 40.909 0.00 0.00 0.00 4.70
1228 3991 6.985059 CAGACAGAGATGATCAACATGTGTAT 59.015 38.462 15.45 7.41 39.56 2.29
1282 4087 1.933181 TCTGAACAGACAAGCAACACG 59.067 47.619 0.00 0.00 31.41 4.49
1434 4246 3.396911 GAGCGTGGCGATCGTCTCA 62.397 63.158 21.85 12.04 31.50 3.27
1548 4360 4.759205 ATGGAGTTTGGGCGGCCC 62.759 66.667 31.41 31.41 45.71 5.80
1755 4567 1.760613 ACCTCACAGAAGACAACCGAA 59.239 47.619 0.00 0.00 0.00 4.30
1760 4572 2.104622 TGCATGACCTCACAGAAGACAA 59.895 45.455 0.00 0.00 0.00 3.18
1780 4592 2.813908 GTACTCCGGCTTGCCGTG 60.814 66.667 28.61 22.68 0.00 4.94
1834 4646 1.220206 CGGCAGCCTCAATCTGTCT 59.780 57.895 10.54 0.00 34.23 3.41
2051 4863 0.928922 GCGAGAGACGTCGATGAGTA 59.071 55.000 12.58 0.00 42.85 2.59
2199 5011 2.804527 GGAAGGAAGACCGTTGTTGTAC 59.195 50.000 0.00 0.00 41.83 2.90
2237 5049 1.066143 CATAGTCCAAGCTCGGGTTGT 60.066 52.381 12.62 0.96 39.09 3.32
2499 5311 2.988010 TCACACAACTCTTCACTGCT 57.012 45.000 0.00 0.00 0.00 4.24
2502 5314 4.081420 ACAGTCTTCACACAACTCTTCACT 60.081 41.667 0.00 0.00 0.00 3.41
2650 5463 2.256306 TCTGCATCAGTGGGTAGTTGA 58.744 47.619 0.00 0.00 32.61 3.18
2908 5721 1.835531 TCTTCTCCCCGGTCAAATACC 59.164 52.381 0.00 0.00 45.77 2.73
2981 5794 2.069273 AGTAGTGCGTCAATGTGCTTC 58.931 47.619 2.51 0.00 0.00 3.86
3039 5852 3.608316 AGTTCTTGATCCTGAGCAGAC 57.392 47.619 0.00 0.00 0.00 3.51
3046 5859 6.462500 TCTTCTCTTCAAGTTCTTGATCCTG 58.538 40.000 14.67 7.29 0.00 3.86
3425 6255 2.487934 GCGGTCTATGTTGATGCATCT 58.512 47.619 26.32 9.68 0.00 2.90
4029 6864 1.503818 GCGTTTGAGGAGCGTTTGGA 61.504 55.000 0.00 0.00 34.15 3.53


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

AutoCloner maintained by Alex Coulton.