Multiple sequence alignment - TraesCS2B01G226400

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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 TraesCS2B01G226400 chr2B 100.000 2540 0 0 1 2540 216966509 216963970 0.000000e+00 4691
1 TraesCS2B01G226400 chr2B 81.529 471 75 9 1771 2238 555836968 555837429 6.630000e-101 377
2 TraesCS2B01G226400 chr2B 77.381 336 50 16 1143 1456 448695069 448695400 2.600000e-40 176
3 TraesCS2B01G226400 chr2D 92.781 1690 111 8 671 2356 160211934 160210252 0.000000e+00 2435
4 TraesCS2B01G226400 chr2D 85.629 668 55 16 7 668 160212599 160211967 0.000000e+00 664
5 TraesCS2B01G226400 chr2D 85.326 368 49 3 1771 2137 532289698 532290061 2.390000e-100 375
6 TraesCS2B01G226400 chr2D 81.971 416 66 7 1772 2184 485744063 485744472 6.730000e-91 344
7 TraesCS2B01G226400 chr2D 91.061 179 11 3 2362 2540 160210208 160210035 1.170000e-58 237
8 TraesCS2B01G226400 chr2D 77.286 339 51 16 1143 1459 377122188 377122522 2.600000e-40 176
9 TraesCS2B01G226400 chr2A 90.992 1210 64 24 669 1867 171608985 171610160 0.000000e+00 1589
10 TraesCS2B01G226400 chr2A 84.169 379 53 5 1772 2148 447336868 447337241 6.680000e-96 361
11 TraesCS2B01G226400 chr2A 87.347 245 31 0 170 414 171607413 171607657 5.350000e-72 281
12 TraesCS2B01G226400 chr2A 77.419 341 47 21 1143 1459 511076399 511076733 2.600000e-40 176
13 TraesCS2B01G226400 chr2A 93.151 73 5 0 430 502 171607643 171607715 9.610000e-20 108
14 TraesCS2B01G226400 chr4A 85.185 405 53 4 1771 2175 574924200 574924597 2.350000e-110 409
15 TraesCS2B01G226400 chr3A 82.090 469 75 7 1771 2237 545909148 545908687 2.370000e-105 392
16 TraesCS2B01G226400 chr6B 83.960 399 45 10 1792 2178 49893811 49894202 5.160000e-97 364
17 TraesCS2B01G226400 chr5B 81.553 412 65 7 1771 2178 660654590 660654186 1.880000e-86 329


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 TraesCS2B01G226400 chr2B 216963970 216966509 2539 True 4691.000000 4691 100.000000 1 2540 1 chr2B.!!$R1 2539
1 TraesCS2B01G226400 chr2D 160210035 160212599 2564 True 1112.000000 2435 89.823667 7 2540 3 chr2D.!!$R1 2533
2 TraesCS2B01G226400 chr2A 171607413 171610160 2747 False 659.333333 1589 90.496667 170 1867 3 chr2A.!!$F3 1697

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
996 2116 0.250295 TTTCTGCTCAACTCACCGGG 60.25 55.0 6.32 0.0 0.0 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2209 3348 0.671251 AGCCTCTATACGTCAGCAGC 59.329 55.0 0.0 0.0 0.0 5.25 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
37 38 5.540911 TGCATCCTTCAAAAGATGGAAAAC 58.459 37.500 4.50 0.00 33.05 2.43
123 125 9.462174 CATCTTAGCTTCAAAACATACAACAAA 57.538 29.630 0.00 0.00 0.00 2.83
129 131 9.328845 AGCTTCAAAACATACAACAAATTTGAT 57.671 25.926 24.64 10.35 36.85 2.57
215 218 1.307647 GGATTGAGCCACCACCCAT 59.692 57.895 0.00 0.00 0.00 4.00
225 228 1.533753 ACCACCCATGCACCTTTGG 60.534 57.895 0.00 0.00 0.00 3.28
265 268 5.368230 GGGAGAATAAAGGAGAGGATGTTCT 59.632 44.000 0.00 0.00 0.00 3.01
305 308 4.335315 AGCGAACAATTCTGAAAACTGACA 59.665 37.500 0.00 0.00 0.00 3.58
336 339 4.152625 GCGCTGCGATTCGTGCTT 62.153 61.111 28.07 0.00 34.05 3.91
343 346 2.545526 CTGCGATTCGTGCTTGGATATT 59.454 45.455 8.03 0.00 0.00 1.28
347 350 4.319766 GCGATTCGTGCTTGGATATTGAAT 60.320 41.667 8.03 0.00 0.00 2.57
359 362 7.924412 GCTTGGATATTGAATGACAATCAACAT 59.076 33.333 8.09 2.34 44.77 2.71
375 378 1.308047 ACATGTTTGCTGCGAGAACA 58.692 45.000 15.11 15.11 37.64 3.18
376 379 1.002468 ACATGTTTGCTGCGAGAACAC 60.002 47.619 15.08 1.23 36.25 3.32
396 399 8.746530 AGAACACTATCATTTCCGTAGTCTAAA 58.253 33.333 0.00 0.00 0.00 1.85
401 404 9.182214 ACTATCATTTCCGTAGTCTAAAGTACA 57.818 33.333 0.00 0.00 31.77 2.90
527 1607 7.589395 AGTAATATCATGTCTGAGAAGTAGCG 58.411 38.462 0.00 0.00 34.12 4.26
529 1609 3.766676 TCATGTCTGAGAAGTAGCGTC 57.233 47.619 0.00 0.00 0.00 5.19
545 1626 3.081061 AGCGTCAGTGCCAATTGAAATA 58.919 40.909 7.12 0.00 34.65 1.40
662 1745 5.069119 TGGCATCAGTTCGATAATACTCAGT 59.931 40.000 0.00 0.00 31.20 3.41
663 1746 5.631512 GGCATCAGTTCGATAATACTCAGTC 59.368 44.000 0.00 0.00 31.20 3.51
664 1747 5.631512 GCATCAGTTCGATAATACTCAGTCC 59.368 44.000 0.00 0.00 31.20 3.85
665 1748 6.515862 GCATCAGTTCGATAATACTCAGTCCT 60.516 42.308 0.00 0.00 31.20 3.85
666 1749 7.429633 CATCAGTTCGATAATACTCAGTCCTT 58.570 38.462 0.00 0.00 31.20 3.36
743 1859 2.009681 TGGAAGAGACAGCTACACCA 57.990 50.000 0.00 0.00 0.00 4.17
757 1873 4.193893 ACCAGCAGCACCAGCACA 62.194 61.111 0.00 0.00 45.49 4.57
759 1875 2.593725 CAGCAGCACCAGCACACT 60.594 61.111 0.00 0.00 45.49 3.55
786 1902 5.348833 ACATCCTCTATCTGCTATCCCAAT 58.651 41.667 0.00 0.00 0.00 3.16
996 2116 0.250295 TTTCTGCTCAACTCACCGGG 60.250 55.000 6.32 0.00 0.00 5.73
997 2117 2.046892 CTGCTCAACTCACCGGGG 60.047 66.667 6.32 0.00 0.00 5.73
1080 2215 3.233980 CCGATGGCTCCGATGGGA 61.234 66.667 0.00 0.00 41.08 4.37
1252 2387 2.279120 GCCTCCTCATCGTGCTCG 60.279 66.667 0.81 0.81 38.55 5.03
1541 2676 1.547901 GGCTGAGCCCAAACCTTAAGT 60.548 52.381 13.77 0.00 44.06 2.24
1542 2677 2.239400 GCTGAGCCCAAACCTTAAGTT 58.761 47.619 0.97 0.00 41.81 2.66
1607 2742 7.571983 CGGATGGATACTGAATATGAAAAGCAC 60.572 40.741 0.00 0.00 37.61 4.40
1706 2843 6.199937 AGAGTTATAAGAAACGCGAACCTA 57.800 37.500 15.93 0.00 34.75 3.08
1711 2848 2.358939 AGAAACGCGAACCTAACGAT 57.641 45.000 15.93 0.00 0.00 3.73
1722 2859 4.504461 CGAACCTAACGATGGAATTCTCAG 59.496 45.833 5.23 0.00 0.00 3.35
1760 2897 2.588856 ATTAGTCCCCACGCGAAGGC 62.589 60.000 15.93 6.63 0.00 4.35
1779 2917 2.357569 GGCCTCTTCCCTCATGATTGTT 60.358 50.000 0.00 0.00 0.00 2.83
1829 2967 2.006888 GCATGATTTCGAGAAACCCGA 58.993 47.619 0.00 0.00 32.51 5.14
1848 2986 1.488705 ATGTTCAGGTCCGCCTTCCA 61.489 55.000 0.00 0.00 44.18 3.53
1881 3019 2.818432 AGAGAGCATTGCCAACTTTCTG 59.182 45.455 4.70 0.00 0.00 3.02
1891 3029 4.309099 TGCCAACTTTCTGAAAATGCATC 58.691 39.130 0.00 0.00 0.00 3.91
1892 3030 4.202233 TGCCAACTTTCTGAAAATGCATCA 60.202 37.500 0.00 0.00 0.00 3.07
1911 3049 4.556942 TCAACAACTGCAAGATCAACAG 57.443 40.909 7.79 7.79 37.43 3.16
1912 3050 3.316029 TCAACAACTGCAAGATCAACAGG 59.684 43.478 12.50 1.33 37.43 4.00
1947 3085 7.325660 CAACTTATGCATTATCTTGTGGAGT 57.674 36.000 3.54 0.00 0.00 3.85
1952 3090 9.710900 CTTATGCATTATCTTGTGGAGTACATA 57.289 33.333 3.54 0.00 39.48 2.29
1954 3092 7.967890 TGCATTATCTTGTGGAGTACATATG 57.032 36.000 0.00 0.00 39.48 1.78
1967 3105 4.101114 AGTACATATGGGGTTCACACTGA 58.899 43.478 7.80 0.00 0.00 3.41
1972 3110 5.779771 ACATATGGGGTTCACACTGAAAATT 59.220 36.000 7.80 0.00 38.22 1.82
1978 3116 6.834451 TGGGGTTCACACTGAAAATTAGTAAA 59.166 34.615 0.00 0.00 38.22 2.01
1979 3117 7.013846 TGGGGTTCACACTGAAAATTAGTAAAG 59.986 37.037 0.00 0.00 38.22 1.85
2079 3217 8.094798 AGTATGAACAATTTGTATTCGTGTGT 57.905 30.769 1.76 0.00 0.00 3.72
2080 3218 8.015087 AGTATGAACAATTTGTATTCGTGTGTG 58.985 33.333 1.76 0.00 0.00 3.82
2081 3219 6.125327 TGAACAATTTGTATTCGTGTGTGT 57.875 33.333 1.76 0.00 0.00 3.72
2104 3242 6.708054 TGTAAAACTATGTTTGGCCAAAATGG 59.292 34.615 31.92 26.20 41.55 3.16
2106 3244 4.535526 ACTATGTTTGGCCAAAATGGTC 57.464 40.909 31.92 19.26 43.98 4.02
2116 3254 1.735018 CCAAAATGGTCGACGTGCATA 59.265 47.619 9.92 0.00 31.35 3.14
2141 3279 6.990798 TGTTTGCATGGATTTGATGTCTTAA 58.009 32.000 0.00 0.00 0.00 1.85
2145 3283 9.504708 TTTGCATGGATTTGATGTCTTAAAAAT 57.495 25.926 0.00 0.00 0.00 1.82
2147 3285 9.806203 TGCATGGATTTGATGTCTTAAAAATAG 57.194 29.630 0.00 0.00 0.00 1.73
2161 3300 7.806014 GTCTTAAAAATAGAAACGGTGATTGCA 59.194 33.333 0.00 0.00 0.00 4.08
2188 3327 3.689649 ACAAGATTTGATACCCGTTCAGC 59.310 43.478 0.00 0.00 0.00 4.26
2191 3330 2.799126 TTTGATACCCGTTCAGCCAT 57.201 45.000 0.00 0.00 0.00 4.40
2193 3332 3.916359 TTGATACCCGTTCAGCCATTA 57.084 42.857 0.00 0.00 0.00 1.90
2199 3338 0.813610 CCGTTCAGCCATTATCCGCA 60.814 55.000 0.00 0.00 0.00 5.69
2200 3339 1.229428 CGTTCAGCCATTATCCGCAT 58.771 50.000 0.00 0.00 0.00 4.73
2201 3340 2.412870 CGTTCAGCCATTATCCGCATA 58.587 47.619 0.00 0.00 0.00 3.14
2209 3348 1.324435 CATTATCCGCATACGCATCCG 59.676 52.381 0.00 0.00 38.40 4.18
2210 3349 1.011968 TTATCCGCATACGCATCCGC 61.012 55.000 0.00 0.00 38.40 5.54
2211 3350 1.873270 TATCCGCATACGCATCCGCT 61.873 55.000 0.00 0.00 38.40 5.52
2230 3369 1.950216 CTGCTGACGTATAGAGGCTCA 59.050 52.381 18.26 3.05 0.00 4.26
2231 3370 1.950216 TGCTGACGTATAGAGGCTCAG 59.050 52.381 18.26 4.49 32.97 3.35
2238 3377 4.399219 ACGTATAGAGGCTCAGATTAGCA 58.601 43.478 18.26 0.00 44.64 3.49
2302 3441 5.453339 CCCGATTCTATTCTTGGTAAGCAGA 60.453 44.000 0.00 0.00 0.00 4.26
2307 3446 3.788227 ATTCTTGGTAAGCAGACACCA 57.212 42.857 0.00 0.00 43.07 4.17
2310 3449 1.072331 CTTGGTAAGCAGACACCAGGT 59.928 52.381 0.00 0.00 45.29 4.00
2347 3486 1.726853 ATTGCTCCACTGCGAGTTAC 58.273 50.000 0.00 0.00 35.36 2.50
2349 3488 0.608130 TGCTCCACTGCGAGTTACAT 59.392 50.000 0.00 0.00 35.36 2.29
2350 3489 1.281899 GCTCCACTGCGAGTTACATC 58.718 55.000 0.00 0.00 32.11 3.06
2356 3495 5.131067 TCCACTGCGAGTTACATCTAGTAT 58.869 41.667 0.00 0.00 31.53 2.12
2358 3497 6.940867 TCCACTGCGAGTTACATCTAGTATAT 59.059 38.462 0.00 0.00 31.53 0.86
2359 3498 8.098912 TCCACTGCGAGTTACATCTAGTATATA 58.901 37.037 0.00 0.00 31.53 0.86
2360 3499 8.391859 CCACTGCGAGTTACATCTAGTATATAG 58.608 40.741 0.00 0.00 31.53 1.31
2385 3562 7.915923 AGTTACACACTGTATCATAGATTCGTG 59.084 37.037 0.00 0.00 32.20 4.35
2439 3616 5.942872 AGTTCATCGAATTTTCCACATGAC 58.057 37.500 0.00 0.00 0.00 3.06
2441 3618 4.000325 TCATCGAATTTTCCACATGACGT 59.000 39.130 0.00 0.00 0.00 4.34
2442 3619 5.172205 TCATCGAATTTTCCACATGACGTA 58.828 37.500 0.00 0.00 0.00 3.57
2443 3620 5.815222 TCATCGAATTTTCCACATGACGTAT 59.185 36.000 0.00 0.00 0.00 3.06
2444 3621 6.981559 TCATCGAATTTTCCACATGACGTATA 59.018 34.615 0.00 0.00 0.00 1.47
2486 3663 7.589954 ACTGTTACAAAATCGCTGATTTAACAC 59.410 33.333 17.26 12.44 40.77 3.32
2522 3699 2.731217 CACAAGGCCAAAAGAAACTCG 58.269 47.619 5.01 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 7.115378 CGAAAGTTTTCCATCTTTTGAAGGATG 59.885 37.037 8.41 8.41 44.61 3.51
17 18 7.014230 TCGAAAGTTTTCCATCTTTTGAAGGAT 59.986 33.333 0.00 0.00 44.61 3.24
20 21 7.985634 TTCGAAAGTTTTCCATCTTTTGAAG 57.014 32.000 13.08 0.00 43.29 3.02
86 88 7.523293 TTGAAGCTAAGATGTTTTGAATCCA 57.477 32.000 0.00 0.00 0.00 3.41
97 99 9.462174 TTTGTTGTATGTTTTGAAGCTAAGATG 57.538 29.630 0.00 0.00 0.00 2.90
153 155 1.138266 GGCGGCTTACCAGTTGATCTA 59.862 52.381 0.00 0.00 34.57 1.98
215 218 4.514441 CACAAAAATTATGCCAAAGGTGCA 59.486 37.500 0.00 0.00 43.97 4.57
225 228 4.799564 TCTCCCCACACAAAAATTATGC 57.200 40.909 0.00 0.00 0.00 3.14
289 292 5.474532 TGCTGCTATGTCAGTTTTCAGAATT 59.525 36.000 0.00 0.00 36.49 2.17
325 328 4.794248 TTCAATATCCAAGCACGAATCG 57.206 40.909 0.00 0.00 0.00 3.34
335 338 8.751242 ACATGTTGATTGTCATTCAATATCCAA 58.249 29.630 13.61 0.00 45.49 3.53
336 339 8.296211 ACATGTTGATTGTCATTCAATATCCA 57.704 30.769 13.61 8.14 45.49 3.41
343 346 5.692654 CAGCAAACATGTTGATTGTCATTCA 59.307 36.000 12.82 0.00 33.40 2.57
347 350 3.382855 GCAGCAAACATGTTGATTGTCA 58.617 40.909 12.82 0.00 33.40 3.58
359 362 2.232756 TAGTGTTCTCGCAGCAAACA 57.767 45.000 0.00 0.00 31.26 2.83
375 378 9.182214 TGTACTTTAGACTACGGAAATGATAGT 57.818 33.333 0.00 0.00 31.79 2.12
418 421 9.562408 TGTATTCTAATATTATTTCCCGCACAA 57.438 29.630 0.00 0.00 0.00 3.33
419 422 8.995220 GTGTATTCTAATATTATTTCCCGCACA 58.005 33.333 0.00 0.00 0.00 4.57
420 423 8.995220 TGTGTATTCTAATATTATTTCCCGCAC 58.005 33.333 0.00 1.92 0.00 5.34
421 424 9.733556 ATGTGTATTCTAATATTATTTCCCGCA 57.266 29.630 0.00 0.00 0.00 5.69
422 425 9.988350 CATGTGTATTCTAATATTATTTCCCGC 57.012 33.333 0.00 0.00 0.00 6.13
437 440 9.077885 AGTTGTATTTTGAACCATGTGTATTCT 57.922 29.630 0.00 0.00 0.00 2.40
477 480 9.189156 CTATTATCTTGGGAATTTTTGGACAGA 57.811 33.333 0.00 0.00 0.00 3.41
509 1589 3.081804 TGACGCTACTTCTCAGACATGA 58.918 45.455 0.00 0.00 0.00 3.07
527 1607 5.207768 CGCTATATTTCAATTGGCACTGAC 58.792 41.667 5.42 0.00 0.00 3.51
529 1609 3.976942 GCGCTATATTTCAATTGGCACTG 59.023 43.478 5.42 0.00 0.00 3.66
545 1626 3.378427 GGATTTCCAAGTTTGAGCGCTAT 59.622 43.478 11.50 0.00 35.64 2.97
569 1650 9.647797 GTTCCAACTAAAAACCAATTATTAGGG 57.352 33.333 0.00 0.00 31.25 3.53
605 1686 2.427506 AGAGTTCCAACTTTCCATCGC 58.572 47.619 0.00 0.00 39.88 4.58
606 1687 4.065088 TCAAGAGTTCCAACTTTCCATCG 58.935 43.478 0.00 0.00 39.88 3.84
607 1688 6.391227 TTTCAAGAGTTCCAACTTTCCATC 57.609 37.500 0.00 0.00 39.88 3.51
662 1745 8.537728 TTTATATTGACCTACGGACTAAAGGA 57.462 34.615 0.00 0.00 34.34 3.36
663 1746 7.871463 CCTTTATATTGACCTACGGACTAAAGG 59.129 40.741 0.00 0.00 37.43 3.11
664 1747 7.384387 GCCTTTATATTGACCTACGGACTAAAG 59.616 40.741 0.00 0.00 0.00 1.85
665 1748 7.070322 AGCCTTTATATTGACCTACGGACTAAA 59.930 37.037 0.00 0.00 0.00 1.85
666 1749 6.552350 AGCCTTTATATTGACCTACGGACTAA 59.448 38.462 0.00 0.00 0.00 2.24
743 1859 0.604780 CTTAGTGTGCTGGTGCTGCT 60.605 55.000 0.00 0.00 40.48 4.24
757 1873 6.889722 GGATAGCAGATAGAGGATGTCTTAGT 59.110 42.308 0.00 0.00 36.64 2.24
759 1875 6.191315 GGGATAGCAGATAGAGGATGTCTTA 58.809 44.000 0.00 0.00 36.64 2.10
786 1902 1.070134 GGGCATTAGATACCGTGAGCA 59.930 52.381 0.00 0.00 0.00 4.26
1024 2150 4.552365 CATCGGAGGCATGCCCGT 62.552 66.667 33.14 16.48 45.48 5.28
1061 2196 2.341543 CCATCGGAGCCATCGGAG 59.658 66.667 0.00 0.00 38.09 4.63
1080 2215 3.161450 CCCATCGGTCCCATCGGT 61.161 66.667 0.00 0.00 0.00 4.69
1341 2476 4.166011 GCCATCTTCACCGCGTGC 62.166 66.667 4.92 0.00 32.98 5.34
1434 2569 2.901042 GCGAGGAGGAACCCGATT 59.099 61.111 0.00 0.00 40.05 3.34
1494 2629 1.363744 GAATGAGAGCACCGTTCTGG 58.636 55.000 0.00 0.00 46.41 3.86
1541 2676 7.649533 ATTTCCAGCATCTAATCATGTCAAA 57.350 32.000 0.00 0.00 0.00 2.69
1542 2677 7.123098 ACAATTTCCAGCATCTAATCATGTCAA 59.877 33.333 0.00 0.00 0.00 3.18
1577 2712 4.844085 TCATATTCAGTATCCATCCGGGTT 59.156 41.667 0.00 0.00 38.11 4.11
1635 2770 9.984190 GGACGAGGAGTAATAGAATTAATCTTT 57.016 33.333 6.96 0.00 39.71 2.52
1658 2795 3.056035 AGGAGTTATGTCGAACCAAGGAC 60.056 47.826 0.00 0.00 0.00 3.85
1760 2897 4.197750 CTCAACAATCATGAGGGAAGAGG 58.802 47.826 0.09 0.00 40.48 3.69
1779 2917 0.621571 CCCCTTCACCCTCATCCTCA 60.622 60.000 0.00 0.00 0.00 3.86
1848 2986 1.346062 TGCTCTCTGCCTCTTGTTCT 58.654 50.000 0.00 0.00 42.00 3.01
1868 3006 4.134379 TGCATTTTCAGAAAGTTGGCAA 57.866 36.364 0.00 0.00 0.00 4.52
1869 3007 3.815856 TGCATTTTCAGAAAGTTGGCA 57.184 38.095 8.09 8.09 0.00 4.92
1891 3029 3.067180 ACCTGTTGATCTTGCAGTTGTTG 59.933 43.478 0.00 0.00 0.00 3.33
1892 3030 3.067180 CACCTGTTGATCTTGCAGTTGTT 59.933 43.478 0.00 0.00 0.00 2.83
1947 3085 5.506730 TTTCAGTGTGAACCCCATATGTA 57.493 39.130 1.24 0.00 35.89 2.29
1952 3090 5.393866 ACTAATTTTCAGTGTGAACCCCAT 58.606 37.500 0.00 0.00 35.89 4.00
1954 3092 6.887626 TTACTAATTTTCAGTGTGAACCCC 57.112 37.500 0.00 0.00 35.89 4.95
2002 3140 9.612066 TCAAACATAGATATTGTTCATAGTGCA 57.388 29.630 0.00 0.00 36.32 4.57
2058 3196 6.125327 ACACACACGAATACAAATTGTTCA 57.875 33.333 3.17 0.00 0.00 3.18
2059 3197 8.549777 TTTACACACACGAATACAAATTGTTC 57.450 30.769 3.17 0.00 0.00 3.18
2074 3212 4.979815 GGCCAAACATAGTTTTACACACAC 59.020 41.667 0.00 0.00 0.00 3.82
2079 3217 6.708054 CCATTTTGGCCAAACATAGTTTTACA 59.292 34.615 30.43 11.70 0.00 2.41
2080 3218 6.708502 ACCATTTTGGCCAAACATAGTTTTAC 59.291 34.615 30.43 0.00 42.67 2.01
2081 3219 6.831976 ACCATTTTGGCCAAACATAGTTTTA 58.168 32.000 30.43 13.00 42.67 1.52
2104 3242 1.797964 GCAAACATATGCACGTCGAC 58.202 50.000 5.18 5.18 45.70 4.20
2116 3254 5.670792 AGACATCAAATCCATGCAAACAT 57.329 34.783 0.00 0.00 36.79 2.71
2141 3279 7.116233 GTCATTTGCAATCACCGTTTCTATTTT 59.884 33.333 0.00 0.00 0.00 1.82
2145 3283 4.517075 TGTCATTTGCAATCACCGTTTCTA 59.483 37.500 0.00 0.00 0.00 2.10
2146 3284 3.317711 TGTCATTTGCAATCACCGTTTCT 59.682 39.130 0.00 0.00 0.00 2.52
2147 3285 3.637432 TGTCATTTGCAATCACCGTTTC 58.363 40.909 0.00 0.00 0.00 2.78
2151 3289 3.557577 TCTTGTCATTTGCAATCACCG 57.442 42.857 0.00 0.00 0.00 4.94
2152 3290 5.927689 TCAAATCTTGTCATTTGCAATCACC 59.072 36.000 0.00 0.00 41.65 4.02
2161 3300 6.432783 TGAACGGGTATCAAATCTTGTCATTT 59.567 34.615 0.00 0.00 0.00 2.32
2209 3348 0.671251 AGCCTCTATACGTCAGCAGC 59.329 55.000 0.00 0.00 0.00 5.25
2210 3349 1.950216 TGAGCCTCTATACGTCAGCAG 59.050 52.381 0.00 0.00 0.00 4.24
2211 3350 1.950216 CTGAGCCTCTATACGTCAGCA 59.050 52.381 0.00 0.00 0.00 4.41
2287 3426 3.560025 CCTGGTGTCTGCTTACCAAGAAT 60.560 47.826 0.00 0.00 45.65 2.40
2302 3441 4.530553 TCAACATACTGTATGACCTGGTGT 59.469 41.667 29.17 7.58 39.45 4.16
2307 3446 8.213679 AGCAATATTCAACATACTGTATGACCT 58.786 33.333 29.17 13.35 39.45 3.85
2310 3449 8.210265 TGGAGCAATATTCAACATACTGTATGA 58.790 33.333 29.17 11.25 39.45 2.15
2312 3451 8.213679 AGTGGAGCAATATTCAACATACTGTAT 58.786 33.333 0.00 0.00 0.00 2.29
2315 3454 6.722301 CAGTGGAGCAATATTCAACATACTG 58.278 40.000 0.00 0.00 0.00 2.74
2358 3497 9.117183 ACGAATCTATGATACAGTGTGTAACTA 57.883 33.333 5.88 0.00 36.83 2.24
2359 3498 7.915923 CACGAATCTATGATACAGTGTGTAACT 59.084 37.037 5.88 0.00 40.93 2.24
2360 3499 7.167635 CCACGAATCTATGATACAGTGTGTAAC 59.832 40.741 5.88 0.00 36.31 2.50
2366 3543 4.920340 GCTCCACGAATCTATGATACAGTG 59.080 45.833 0.00 0.00 0.00 3.66
2371 3548 4.667573 AGGAGCTCCACGAATCTATGATA 58.332 43.478 33.90 0.00 38.89 2.15
2379 3556 1.418334 AGCATAGGAGCTCCACGAAT 58.582 50.000 33.90 18.10 42.18 3.34
2382 3559 0.749649 AGAAGCATAGGAGCTCCACG 59.250 55.000 33.90 21.55 45.89 4.94
2385 3562 1.270252 GCAGAGAAGCATAGGAGCTCC 60.270 57.143 26.22 26.22 45.89 4.70
2450 3627 9.554724 AGCGATTTTGTAACAGTGTTTATTATG 57.445 29.630 14.90 0.00 0.00 1.90
2458 3635 5.689383 AATCAGCGATTTTGTAACAGTGT 57.311 34.783 0.00 0.00 0.00 3.55
2461 3638 7.201149 CGTGTTAAATCAGCGATTTTGTAACAG 60.201 37.037 19.43 14.10 41.64 3.16
2471 3648 1.924524 CGACCGTGTTAAATCAGCGAT 59.075 47.619 0.00 0.00 0.00 4.58
2486 3663 4.056125 TGCTCTGGCTGTCGACCG 62.056 66.667 14.12 8.02 39.59 4.79


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

AutoCloner maintained by Alex Coulton.