Multiple sequence alignment - TraesCS4A01G098900

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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 TraesCS4A01G098900 chr4A 100.000 2691 0 0 1 2691 110911290 110908600 0.000000e+00 4970.0
1 TraesCS4A01G098900 chr4D 94.211 1831 80 13 874 2691 354036576 354038393 0.000000e+00 2771.0
2 TraesCS4A01G098900 chr4D 91.215 683 37 12 201 878 354035879 354036543 0.000000e+00 907.0
3 TraesCS4A01G098900 chr4D 90.476 84 8 0 264 347 190654037 190653954 7.880000e-21 111.0
4 TraesCS4A01G098900 chr4B 89.812 1865 113 31 865 2690 437747662 437749488 0.000000e+00 2320.0
5 TraesCS4A01G098900 chr4B 85.185 891 62 22 1 878 437746804 437747637 0.000000e+00 850.0
6 TraesCS4A01G098900 chr4B 79.327 208 40 3 1887 2092 152242160 152242366 2.790000e-30 143.0
7 TraesCS4A01G098900 chr2D 91.489 611 52 0 1097 1707 323561486 323562096 0.000000e+00 841.0
8 TraesCS4A01G098900 chr2D 91.973 598 48 0 1097 1694 323516937 323516340 0.000000e+00 839.0
9 TraesCS4A01G098900 chr2A 90.998 611 55 0 1097 1707 407092353 407091743 0.000000e+00 824.0
10 TraesCS4A01G098900 chr2A 91.225 604 53 0 1097 1700 406964177 406963574 0.000000e+00 822.0
11 TraesCS4A01G098900 chr2A 91.137 598 53 0 1097 1694 406997065 406997662 0.000000e+00 811.0
12 TraesCS4A01G098900 chr2A 78.995 219 41 5 1887 2101 508840272 508840489 7.760000e-31 145.0
13 TraesCS4A01G098900 chr2A 87.368 95 10 2 260 352 471708166 471708260 1.020000e-19 108.0
14 TraesCS4A01G098900 chr2B 90.671 611 57 0 1097 1707 391523438 391524048 0.000000e+00 813.0
15 TraesCS4A01G098900 chr2B 79.512 205 39 3 1890 2092 364799312 364799109 2.790000e-30 143.0
16 TraesCS4A01G098900 chr3A 86.380 279 18 8 279 553 744052818 744052556 1.220000e-73 287.0
17 TraesCS4A01G098900 chr3A 81.982 111 15 4 2583 2690 4000281 4000173 3.690000e-14 89.8
18 TraesCS4A01G098900 chr7A 87.805 205 21 4 1891 2092 102041317 102041520 1.250000e-58 237.0
19 TraesCS4A01G098900 chr7A 82.727 110 18 1 2583 2691 506334061 506333952 2.210000e-16 97.1
20 TraesCS4A01G098900 chr7A 81.720 93 17 0 2596 2688 421346184 421346276 7.990000e-11 78.7
21 TraesCS4A01G098900 chr1D 82.018 228 37 4 1868 2093 82333087 82332862 9.830000e-45 191.0
22 TraesCS4A01G098900 chr1D 91.667 84 7 0 264 347 104250892 104250975 1.690000e-22 117.0
23 TraesCS4A01G098900 chr1D 91.667 84 7 0 264 347 313916253 313916336 1.690000e-22 117.0
24 TraesCS4A01G098900 chr7D 78.972 214 40 5 1887 2097 289873704 289873915 1.000000e-29 141.0
25 TraesCS4A01G098900 chr5A 91.011 89 8 0 259 347 645133680 645133592 1.310000e-23 121.0
26 TraesCS4A01G098900 chr5A 89.011 91 9 1 264 353 632992764 632992674 7.880000e-21 111.0
27 TraesCS4A01G098900 chr6D 91.667 84 7 0 264 347 288397683 288397600 1.690000e-22 117.0
28 TraesCS4A01G098900 chr3D 91.667 84 7 0 264 347 223683365 223683448 1.690000e-22 117.0
29 TraesCS4A01G098900 chr3D 91.463 82 7 0 266 347 76672246 76672327 2.190000e-21 113.0
30 TraesCS4A01G098900 chr5B 79.503 161 24 7 2536 2690 382067166 382067323 3.660000e-19 106.0
31 TraesCS4A01G098900 chr7B 77.500 160 30 4 2536 2690 628538877 628539035 1.030000e-14 91.6
32 TraesCS4A01G098900 chr6A 79.851 134 20 6 2562 2690 355818772 355818641 1.030000e-14 91.6


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 TraesCS4A01G098900 chr4A 110908600 110911290 2690 True 4970 4970 100.0000 1 2691 1 chr4A.!!$R1 2690
1 TraesCS4A01G098900 chr4D 354035879 354038393 2514 False 1839 2771 92.7130 201 2691 2 chr4D.!!$F1 2490
2 TraesCS4A01G098900 chr4B 437746804 437749488 2684 False 1585 2320 87.4985 1 2690 2 chr4B.!!$F2 2689
3 TraesCS4A01G098900 chr2D 323561486 323562096 610 False 841 841 91.4890 1097 1707 1 chr2D.!!$F1 610
4 TraesCS4A01G098900 chr2D 323516340 323516937 597 True 839 839 91.9730 1097 1694 1 chr2D.!!$R1 597
5 TraesCS4A01G098900 chr2A 407091743 407092353 610 True 824 824 90.9980 1097 1707 1 chr2A.!!$R2 610
6 TraesCS4A01G098900 chr2A 406963574 406964177 603 True 822 822 91.2250 1097 1700 1 chr2A.!!$R1 603
7 TraesCS4A01G098900 chr2A 406997065 406997662 597 False 811 811 91.1370 1097 1694 1 chr2A.!!$F1 597
8 TraesCS4A01G098900 chr2B 391523438 391524048 610 False 813 813 90.6710 1097 1707 1 chr2B.!!$F1 610

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
352 359 0.105607 GGGACGGAGGGAGTTATCCT 60.106 60.0 0.0 0.0 45.85 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2315 2411 0.952497 AGCACCGACAATGTGAGCAG 60.952 55.0 0.0 0.0 35.74 4.24 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
23 24 0.878523 CACTCACGCGGTCCTCAAAA 60.879 55.000 12.47 0.00 0.00 2.44
34 35 4.130118 CGGTCCTCAAAATTGGGAGATAG 58.870 47.826 7.92 0.00 32.87 2.08
35 36 4.384208 CGGTCCTCAAAATTGGGAGATAGT 60.384 45.833 7.92 0.00 32.87 2.12
46 47 5.422214 TTGGGAGATAGTTTCACTTCTCC 57.578 43.478 17.89 17.89 43.68 3.71
71 72 2.431954 ATCAAGCTTGTCCCTCATGG 57.568 50.000 25.19 0.00 0.00 3.66
116 118 7.722949 AAAACATCTTAATGTGTGATCCCAT 57.277 32.000 0.00 0.00 45.48 4.00
119 121 5.824624 ACATCTTAATGTGTGATCCCATCAC 59.175 40.000 9.33 9.33 44.51 3.06
128 130 3.751479 TGATCCCATCACATACGAAGG 57.249 47.619 0.00 0.00 33.59 3.46
150 152 5.903010 AGGTTGGTCCTCAAAAAGGTAAAAT 59.097 36.000 0.00 0.00 44.42 1.82
151 153 5.989168 GGTTGGTCCTCAAAAAGGTAAAATG 59.011 40.000 0.00 0.00 46.32 2.32
189 195 6.529125 CACATGTCAATTCTAGAAATTGCACC 59.471 38.462 9.71 6.93 37.50 5.01
190 196 5.643379 TGTCAATTCTAGAAATTGCACCC 57.357 39.130 9.71 5.02 37.50 4.61
192 198 5.183713 TGTCAATTCTAGAAATTGCACCCAG 59.816 40.000 9.71 0.00 37.50 4.45
210 216 1.200716 CAGGTGATGTGGATGCACAAC 59.799 52.381 24.45 21.36 38.69 3.32
230 236 1.411977 CAGCATGCCTACTACTGAGCT 59.588 52.381 15.66 0.00 0.00 4.09
244 250 6.787225 ACTACTGAGCTAAGTCGACTTAATG 58.213 40.000 31.72 23.81 37.92 1.90
254 260 5.078411 AGTCGACTTAATGTGCAATCTCT 57.922 39.130 13.58 0.00 0.00 3.10
256 262 4.268884 GTCGACTTAATGTGCAATCTCTCC 59.731 45.833 8.70 0.00 0.00 3.71
262 268 0.678950 TGTGCAATCTCTCCGTCACA 59.321 50.000 0.00 0.00 32.78 3.58
289 295 8.742125 ACTCACTCCATCCCATAATATAAGAA 57.258 34.615 0.00 0.00 0.00 2.52
347 354 2.191981 ATTATGGGACGGAGGGAGTT 57.808 50.000 0.00 0.00 0.00 3.01
348 355 2.852714 TTATGGGACGGAGGGAGTTA 57.147 50.000 0.00 0.00 0.00 2.24
349 356 3.339713 TTATGGGACGGAGGGAGTTAT 57.660 47.619 0.00 0.00 0.00 1.89
350 357 1.718280 ATGGGACGGAGGGAGTTATC 58.282 55.000 0.00 0.00 0.00 1.75
351 358 0.398098 TGGGACGGAGGGAGTTATCC 60.398 60.000 0.00 0.00 45.85 2.59
352 359 0.105607 GGGACGGAGGGAGTTATCCT 60.106 60.000 0.00 0.00 45.85 3.24
354 361 1.688627 GGACGGAGGGAGTTATCCTGT 60.689 57.143 0.00 0.00 45.85 4.00
356 363 3.294214 GACGGAGGGAGTTATCCTGTTA 58.706 50.000 0.00 0.00 45.85 2.41
357 364 3.896272 GACGGAGGGAGTTATCCTGTTAT 59.104 47.826 0.00 0.00 45.85 1.89
358 365 3.641906 ACGGAGGGAGTTATCCTGTTATG 59.358 47.826 0.00 0.00 45.85 1.90
359 366 3.555168 CGGAGGGAGTTATCCTGTTATGC 60.555 52.174 0.00 0.00 45.85 3.14
360 367 3.391296 GGAGGGAGTTATCCTGTTATGCA 59.609 47.826 0.00 0.00 45.85 3.96
361 368 4.042187 GGAGGGAGTTATCCTGTTATGCAT 59.958 45.833 3.79 3.79 45.85 3.96
362 369 5.248477 GGAGGGAGTTATCCTGTTATGCATA 59.752 44.000 1.16 1.16 45.85 3.14
363 370 6.365970 AGGGAGTTATCCTGTTATGCATAG 57.634 41.667 6.50 0.00 45.85 2.23
364 371 5.846714 AGGGAGTTATCCTGTTATGCATAGT 59.153 40.000 6.50 0.00 45.85 2.12
365 372 5.934625 GGGAGTTATCCTGTTATGCATAGTG 59.065 44.000 6.50 1.60 45.85 2.74
366 373 5.934625 GGAGTTATCCTGTTATGCATAGTGG 59.065 44.000 6.50 10.29 42.94 4.00
367 374 5.869579 AGTTATCCTGTTATGCATAGTGGG 58.130 41.667 6.50 9.93 0.00 4.61
368 375 5.606749 AGTTATCCTGTTATGCATAGTGGGA 59.393 40.000 18.95 18.95 0.00 4.37
369 376 4.630644 ATCCTGTTATGCATAGTGGGAG 57.369 45.455 20.32 9.57 0.00 4.30
374 381 5.934625 CCTGTTATGCATAGTGGGAGTTATC 59.065 44.000 6.50 0.00 0.00 1.75
433 440 7.750903 GCTCTAACTTAGAAATCAAACGCAAAT 59.249 33.333 0.19 0.00 33.75 2.32
455 462 3.637273 GGTTGGTGAGGGAGCGGT 61.637 66.667 0.00 0.00 0.00 5.68
506 514 6.701841 GTCACGTATGAGTTGGTGATTCATAT 59.298 38.462 0.00 0.00 41.02 1.78
507 515 7.865889 GTCACGTATGAGTTGGTGATTCATATA 59.134 37.037 0.00 0.00 41.02 0.86
508 516 8.082242 TCACGTATGAGTTGGTGATTCATATAG 58.918 37.037 0.00 0.00 38.65 1.31
615 623 6.812879 GGAGTATTTTCTCCCTTTTCGAAA 57.187 37.500 6.47 6.47 45.84 3.46
619 627 8.637196 AGTATTTTCTCCCTTTTCGAAAAGAT 57.363 30.769 39.33 27.70 46.39 2.40
620 628 9.734984 AGTATTTTCTCCCTTTTCGAAAAGATA 57.265 29.630 39.33 28.03 46.39 1.98
668 676 2.048127 GAAGCTTGCGAGGACGGT 60.048 61.111 2.10 0.00 40.15 4.83
796 805 6.671605 TCAACCCAATAATCAATGATCTCCA 58.328 36.000 0.00 0.00 0.00 3.86
832 844 1.142778 CGCTCTTTCTAGGACAGCGC 61.143 60.000 10.02 0.00 45.62 5.92
915 975 2.147150 GTGTCTTCTTCCTTCACCAGC 58.853 52.381 0.00 0.00 0.00 4.85
916 976 1.072331 TGTCTTCTTCCTTCACCAGCC 59.928 52.381 0.00 0.00 0.00 4.85
917 977 1.072331 GTCTTCTTCCTTCACCAGCCA 59.928 52.381 0.00 0.00 0.00 4.75
918 978 1.988107 TCTTCTTCCTTCACCAGCCAT 59.012 47.619 0.00 0.00 0.00 4.40
919 979 3.055094 GTCTTCTTCCTTCACCAGCCATA 60.055 47.826 0.00 0.00 0.00 2.74
920 980 3.198635 TCTTCTTCCTTCACCAGCCATAG 59.801 47.826 0.00 0.00 0.00 2.23
1058 1123 3.117663 TCTTAATTCTTATTGCCCCGGCT 60.118 43.478 7.35 0.00 42.51 5.52
1581 1655 4.467084 CCCGTACGGTGCTGGCAT 62.467 66.667 31.24 0.00 0.00 4.40
1585 1659 1.019278 CGTACGGTGCTGGCATCTTT 61.019 55.000 7.57 0.00 0.00 2.52
1685 1759 1.518056 CGCCAAGAAGCTCAAAGCCA 61.518 55.000 0.00 0.00 43.77 4.75
1695 1769 2.039480 AGCTCAAAGCCATCTGAACTCA 59.961 45.455 0.00 0.00 43.77 3.41
1728 1802 4.453478 CCGTGTCCCATGATTCATATCAAG 59.547 45.833 0.00 0.23 43.67 3.02
1799 1891 9.846248 GCAGATTTACACAATTCTAGACAATTT 57.154 29.630 0.00 0.00 0.00 1.82
1888 1980 3.053917 GGTCTTGGTTTATTAGCCCCTCA 60.054 47.826 0.00 0.00 0.00 3.86
1980 2072 9.896645 ATATCATCGGAAGCTATGTTCAAATAT 57.103 29.630 0.00 0.00 0.00 1.28
2024 2116 7.405469 TTGTGACATGCATTACATTTTGTTC 57.595 32.000 0.00 0.00 36.64 3.18
2083 2175 4.710324 ACAAGACCAATAAAACAGGACGA 58.290 39.130 0.00 0.00 0.00 4.20
2143 2235 5.723672 TTGTTTCTTTTGGTTGTGGTACA 57.276 34.783 0.00 0.00 0.00 2.90
2214 2306 3.554692 CTCATCGCCGGTCGTTGC 61.555 66.667 18.45 0.00 37.69 4.17
2266 2362 1.678728 CCCTCGCATTGCCTACAAAGA 60.679 52.381 2.41 0.00 39.77 2.52
2281 2377 7.289084 TGCCTACAAAGAAAAATTACCCTTCTT 59.711 33.333 0.00 0.00 40.31 2.52
2282 2378 8.799367 GCCTACAAAGAAAAATTACCCTTCTTA 58.201 33.333 0.00 0.00 38.21 2.10
2298 2394 4.141914 CCTTCTTACTTCTTACTCCCGCAT 60.142 45.833 0.00 0.00 0.00 4.73
2315 2411 3.052940 GCATGAAGCGTTTACCTTAGC 57.947 47.619 0.00 0.00 0.00 3.09
2408 2504 1.270305 CCACCTATCATCGCGACCATT 60.270 52.381 12.93 0.00 0.00 3.16
2534 2635 3.188254 CACATCATTGTGTACTTTCGGCA 59.812 43.478 0.00 0.00 46.68 5.69
2595 2699 1.144708 TGGTGGACTTTTGAGCATCCA 59.855 47.619 0.00 0.00 38.94 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 0.034896 ATTTTGAGGACCGCGTGAGT 59.965 50.000 4.92 0.00 0.00 3.41
9 10 1.241315 CCCAATTTTGAGGACCGCGT 61.241 55.000 4.92 0.00 0.00 6.01
10 11 0.958382 TCCCAATTTTGAGGACCGCG 60.958 55.000 0.00 0.00 0.00 6.46
34 35 4.451629 TGATAGTCGGGAGAAGTGAAAC 57.548 45.455 0.00 0.00 42.89 2.78
35 36 4.620803 GCTTGATAGTCGGGAGAAGTGAAA 60.621 45.833 0.00 0.00 42.89 2.69
46 47 1.482593 AGGGACAAGCTTGATAGTCGG 59.517 52.381 32.50 3.89 31.93 4.79
47 48 2.166459 TGAGGGACAAGCTTGATAGTCG 59.834 50.000 32.50 4.70 31.93 4.18
95 97 6.005066 TGATGGGATCACACATTAAGATGT 57.995 37.500 0.00 0.00 40.57 3.06
116 118 2.754946 GGACCAACCTTCGTATGTGA 57.245 50.000 0.00 0.00 35.41 3.58
166 172 6.038356 GGGTGCAATTTCTAGAATTGACATG 58.962 40.000 21.69 10.29 39.36 3.21
175 181 2.642311 TCACCTGGGTGCAATTTCTAGA 59.358 45.455 14.35 0.00 45.04 2.43
189 195 0.322726 TGTGCATCCACATCACCTGG 60.323 55.000 0.00 0.00 46.51 4.45
190 196 3.252979 TGTGCATCCACATCACCTG 57.747 52.632 0.00 0.00 46.51 4.00
210 216 1.411977 AGCTCAGTAGTAGGCATGCTG 59.588 52.381 18.92 6.05 0.00 4.41
215 221 2.943690 CGACTTAGCTCAGTAGTAGGCA 59.056 50.000 0.00 0.00 0.00 4.75
230 236 6.631016 AGAGATTGCACATTAAGTCGACTTA 58.369 36.000 29.57 29.57 37.40 2.24
244 250 2.015736 ATGTGACGGAGAGATTGCAC 57.984 50.000 0.00 0.00 0.00 4.57
254 260 2.209690 TGGAGTGAGTATGTGACGGA 57.790 50.000 0.00 0.00 0.00 4.69
256 262 2.223829 GGGATGGAGTGAGTATGTGACG 60.224 54.545 0.00 0.00 0.00 4.35
335 342 1.777941 ACAGGATAACTCCCTCCGTC 58.222 55.000 0.00 0.00 43.21 4.79
340 347 5.846714 ACTATGCATAACAGGATAACTCCCT 59.153 40.000 8.00 0.00 43.21 4.20
347 354 5.155161 ACTCCCACTATGCATAACAGGATA 58.845 41.667 16.35 6.84 0.00 2.59
348 355 3.976654 ACTCCCACTATGCATAACAGGAT 59.023 43.478 16.35 7.19 0.00 3.24
349 356 3.384168 ACTCCCACTATGCATAACAGGA 58.616 45.455 16.35 15.34 0.00 3.86
350 357 3.845781 ACTCCCACTATGCATAACAGG 57.154 47.619 8.00 9.42 0.00 4.00
351 358 5.934625 GGATAACTCCCACTATGCATAACAG 59.065 44.000 8.00 0.22 35.28 3.16
352 359 5.606749 AGGATAACTCCCACTATGCATAACA 59.393 40.000 8.00 0.00 43.21 2.41
354 361 5.606749 ACAGGATAACTCCCACTATGCATAA 59.393 40.000 8.00 0.00 43.21 1.90
356 363 3.976654 ACAGGATAACTCCCACTATGCAT 59.023 43.478 3.79 3.79 43.21 3.96
357 364 3.134623 CACAGGATAACTCCCACTATGCA 59.865 47.826 0.00 0.00 43.21 3.96
358 365 3.388024 TCACAGGATAACTCCCACTATGC 59.612 47.826 0.00 0.00 43.21 3.14
359 366 5.545588 CATCACAGGATAACTCCCACTATG 58.454 45.833 0.00 0.00 43.21 2.23
360 367 4.040952 GCATCACAGGATAACTCCCACTAT 59.959 45.833 0.00 0.00 43.21 2.12
361 368 3.388024 GCATCACAGGATAACTCCCACTA 59.612 47.826 0.00 0.00 43.21 2.74
362 369 2.171448 GCATCACAGGATAACTCCCACT 59.829 50.000 0.00 0.00 43.21 4.00
363 370 2.092968 TGCATCACAGGATAACTCCCAC 60.093 50.000 0.00 0.00 43.21 4.61
364 371 2.195727 TGCATCACAGGATAACTCCCA 58.804 47.619 0.00 0.00 43.21 4.37
365 372 3.498774 ATGCATCACAGGATAACTCCC 57.501 47.619 0.00 0.00 43.21 4.30
366 373 4.993584 CACTATGCATCACAGGATAACTCC 59.006 45.833 0.19 0.00 42.43 3.85
367 374 5.464722 CACACTATGCATCACAGGATAACTC 59.535 44.000 0.19 0.00 30.87 3.01
368 375 5.363101 CACACTATGCATCACAGGATAACT 58.637 41.667 0.19 0.00 30.87 2.24
369 376 5.663795 CACACTATGCATCACAGGATAAC 57.336 43.478 0.19 0.00 30.87 1.89
401 408 3.564235 TTTCTAAGTTAGAGCGACGCA 57.436 42.857 23.70 0.00 35.96 5.24
433 440 0.110486 GCTCCCTCACCAACCTTGAA 59.890 55.000 0.00 0.00 0.00 2.69
506 514 0.387622 GACGCTTGCACCACGTACTA 60.388 55.000 7.72 0.00 40.69 1.82
507 515 1.663702 GACGCTTGCACCACGTACT 60.664 57.895 7.72 0.00 40.69 2.73
508 516 1.289109 ATGACGCTTGCACCACGTAC 61.289 55.000 7.72 3.73 40.69 3.67
652 660 2.357517 CACCGTCCTCGCAAGCTT 60.358 61.111 0.00 0.00 35.54 3.74
822 834 0.687757 ATCCTCCTTGCGCTGTCCTA 60.688 55.000 9.73 0.00 0.00 2.94
915 975 2.636830 GCTGTATGGCTATGGCTATGG 58.363 52.381 10.26 2.01 39.92 2.74
916 976 2.094026 TCGCTGTATGGCTATGGCTATG 60.094 50.000 10.26 0.00 39.92 2.23
917 977 2.093973 GTCGCTGTATGGCTATGGCTAT 60.094 50.000 5.06 5.06 42.28 2.97
918 978 1.272490 GTCGCTGTATGGCTATGGCTA 59.728 52.381 0.00 0.00 38.73 3.93
919 979 0.034059 GTCGCTGTATGGCTATGGCT 59.966 55.000 0.00 0.00 38.73 4.75
920 980 0.249868 TGTCGCTGTATGGCTATGGC 60.250 55.000 0.00 0.00 37.82 4.40
1084 1149 7.172875 GTCGAGTAGTACCTGCAGAGATAATAA 59.827 40.741 17.39 0.00 0.00 1.40
1085 1150 6.649973 GTCGAGTAGTACCTGCAGAGATAATA 59.350 42.308 17.39 5.54 0.00 0.98
1086 1151 5.470777 GTCGAGTAGTACCTGCAGAGATAAT 59.529 44.000 17.39 6.55 0.00 1.28
1126 1200 2.123854 ATCTCCTCCGCCAGCGTA 60.124 61.111 11.55 0.00 37.81 4.42
1174 1248 4.436998 CGCCAGACGGTGACCTCC 62.437 72.222 0.00 0.00 46.55 4.30
1204 1278 2.203907 AGCACCTCCTCTGGCAGT 60.204 61.111 15.27 0.00 0.00 4.40
1581 1655 1.078214 CCATCGGCTCCAGCAAAGA 60.078 57.895 0.03 0.00 44.36 2.52
1744 1836 7.274904 CACTGAAAATGATGTGTCAAATCATCC 59.725 37.037 17.24 10.91 42.58 3.51
2062 2154 5.334879 CCTTCGTCCTGTTTTATTGGTCTTG 60.335 44.000 0.00 0.00 0.00 3.02
2064 2156 4.202430 ACCTTCGTCCTGTTTTATTGGTCT 60.202 41.667 0.00 0.00 0.00 3.85
2083 2175 9.643735 AACTTCTGTGCTAGTATATACTACCTT 57.356 33.333 17.03 0.00 37.73 3.50
2204 2296 2.046314 ATCCAAGGCAACGACCGG 60.046 61.111 0.00 0.00 46.39 5.28
2214 2306 2.751259 CAACACATGGTGAGATCCAAGG 59.249 50.000 2.98 0.00 41.09 3.61
2215 2307 3.415212 ACAACACATGGTGAGATCCAAG 58.585 45.455 3.38 0.00 41.09 3.61
2281 2377 3.430374 GCTTCATGCGGGAGTAAGAAGTA 60.430 47.826 0.00 0.00 46.89 2.24
2282 2378 2.678190 GCTTCATGCGGGAGTAAGAAGT 60.678 50.000 0.00 0.00 46.89 3.01
2284 2380 2.024176 GCTTCATGCGGGAGTAAGAA 57.976 50.000 0.00 0.00 31.72 2.52
2285 2381 3.760693 GCTTCATGCGGGAGTAAGA 57.239 52.632 0.00 0.00 0.00 2.10
2298 2394 2.073816 GCAGCTAAGGTAAACGCTTCA 58.926 47.619 0.00 0.00 0.00 3.02
2315 2411 0.952497 AGCACCGACAATGTGAGCAG 60.952 55.000 0.00 0.00 35.74 4.24
2358 2454 1.729131 CGGCGCGAAAAATGCAAGT 60.729 52.632 12.10 0.00 0.00 3.16
2379 2475 2.330216 GATGATAGGTGGTGCTAGGGT 58.670 52.381 0.00 0.00 0.00 4.34
2408 2504 1.327303 CAAAACCAACCTAGGCAGCA 58.673 50.000 9.30 0.00 0.00 4.41
2462 2562 1.006162 GGTATTACAAGGTTGGGGGCA 59.994 52.381 0.00 0.00 0.00 5.36
2534 2635 2.363795 TGACGAGGCCCCTTCGAT 60.364 61.111 18.70 4.12 0.00 3.59
2630 2734 1.805428 GCAACCCACAACCTTCGCAT 61.805 55.000 0.00 0.00 0.00 4.73


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

AutoCloner maintained by Alex Coulton.