Multiple sequence alignment - TraesCS2D01G136800

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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 TraesCS2D01G136800 chr2D 100.000 2423 0 0 1 2423 80315490 80317912 0.000000e+00 4475.0
1 TraesCS2D01G136800 chr2D 89.149 470 35 7 1458 1919 80326195 80326656 2.700000e-159 571.0
2 TraesCS2D01G136800 chr2A 88.946 1945 152 31 3 1919 81042925 81044834 0.000000e+00 2342.0
3 TraesCS2D01G136800 chr2A 80.000 155 23 6 247 400 643025138 643025285 9.160000e-20 108.0
4 TraesCS2D01G136800 chr2B 89.879 1324 84 25 395 1702 132040906 132042195 0.000000e+00 1657.0
5 TraesCS2D01G136800 chr2B 97.585 704 13 2 1688 2388 132042371 132043073 0.000000e+00 1203.0
6 TraesCS2D01G136800 chr2B 92.508 307 19 4 796 1098 129199850 129200156 1.030000e-118 436.0
7 TraesCS2D01G136800 chr2B 87.458 295 32 5 395 687 129199542 129199833 3.860000e-88 335.0
8 TraesCS2D01G136800 chr2B 81.752 411 55 9 1 400 132040478 132040879 2.320000e-85 326.0
9 TraesCS2D01G136800 chr2B 79.177 413 69 10 1 400 161226265 161225857 1.100000e-68 270.0
10 TraesCS2D01G136800 chr2B 97.414 116 3 0 1096 1211 129205617 129205732 5.280000e-47 198.0
11 TraesCS2D01G136800 chr5D 81.034 406 57 14 2 400 280388760 280388368 3.030000e-79 305.0
12 TraesCS2D01G136800 chr5D 88.312 154 18 0 247 400 7912476 7912323 4.110000e-43 185.0
13 TraesCS2D01G136800 chr5D 74.286 420 84 18 2 401 554335186 554335601 3.230000e-34 156.0
14 TraesCS2D01G136800 chr5D 74.684 395 70 23 6 384 372450211 372449831 5.400000e-32 148.0
15 TraesCS2D01G136800 chr4B 78.109 402 70 17 1965 2358 420250734 420251125 3.110000e-59 239.0
16 TraesCS2D01G136800 chr6A 79.494 356 46 16 1 335 263841243 263840894 6.740000e-56 228.0
17 TraesCS2D01G136800 chr3D 75.714 420 72 19 2 400 332644440 332644030 1.480000e-42 183.0
18 TraesCS2D01G136800 chr3D 81.879 149 19 6 253 400 156639721 156639580 4.230000e-23 119.0
19 TraesCS2D01G136800 chr1B 74.442 493 81 25 1 454 328834451 328834937 1.150000e-38 171.0
20 TraesCS2D01G136800 chr7D 74.458 415 76 20 9 400 480043400 480043807 4.170000e-33 152.0
21 TraesCS2D01G136800 chrUn 81.564 179 24 6 449 621 135306663 135306488 3.250000e-29 139.0
22 TraesCS2D01G136800 chrUn 81.564 179 24 6 449 621 155972835 155973010 3.250000e-29 139.0
23 TraesCS2D01G136800 chr7B 82.394 142 20 3 1 139 505976119 505976258 4.230000e-23 119.0
24 TraesCS2D01G136800 chr3B 78.378 185 30 8 3 180 411197201 411197382 7.080000e-21 111.0
25 TraesCS2D01G136800 chr1D 82.524 103 15 3 449 549 491871888 491871787 1.190000e-13 87.9
26 TraesCS2D01G136800 chr1D 82.524 103 15 3 449 549 491873411 491873310 1.190000e-13 87.9
27 TraesCS2D01G136800 chr7A 83.333 102 8 7 2 97 403892482 403892384 4.290000e-13 86.1


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 TraesCS2D01G136800 chr2D 80315490 80317912 2422 False 4475.0 4475 100.000000 1 2423 1 chr2D.!!$F1 2422
1 TraesCS2D01G136800 chr2A 81042925 81044834 1909 False 2342.0 2342 88.946000 3 1919 1 chr2A.!!$F1 1916
2 TraesCS2D01G136800 chr2B 132040478 132043073 2595 False 1062.0 1657 89.738667 1 2388 3 chr2B.!!$F3 2387
3 TraesCS2D01G136800 chr2B 129199542 129200156 614 False 385.5 436 89.983000 395 1098 2 chr2B.!!$F2 703

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
120 126 0.102481 AGACGGTGTATCATGCGACC 59.898 55.000 0.0 0.0 0.0 4.79 F
237 246 0.617413 AACCATGAGAGGAGCCACAG 59.383 55.000 0.0 0.0 0.0 3.66 F
300 320 1.062198 TCTCCATAGCCACCATCTCCA 60.062 52.381 0.0 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1224 1310 0.749049 GGTACGGGGAGATGGTGTAC 59.251 60.000 0.0 0.0 35.75 2.90 R
1229 1315 1.759299 TTCGGGTACGGGGAGATGG 60.759 63.158 0.0 0.0 41.39 3.51 R
1637 1723 2.090267 AGAGGCTGGGAGGAGATACATT 60.090 50.000 0.0 0.0 0.00 2.71 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
31 32 5.531287 GGGCTATTTATGGACGAAATCAAGT 59.469 40.000 0.00 0.00 0.00 3.16
34 35 7.041098 GGCTATTTATGGACGAAATCAAGTCAT 60.041 37.037 0.00 0.00 39.01 3.06
36 37 5.484173 TTATGGACGAAATCAAGTCATGC 57.516 39.130 0.00 0.00 39.01 4.06
50 55 3.539604 AGTCATGCCATGAGAGTAAAGC 58.460 45.455 7.83 0.00 40.53 3.51
57 62 3.740764 GCCATGAGAGTAAAGCAGGAGAG 60.741 52.174 0.00 0.00 0.00 3.20
120 126 0.102481 AGACGGTGTATCATGCGACC 59.898 55.000 0.00 0.00 0.00 4.79
124 130 2.279186 TGTATCATGCGACCGCGG 60.279 61.111 26.86 26.86 45.51 6.46
146 155 1.068083 CTCGCATGAGCCGTATGGT 59.932 57.895 2.17 0.00 37.52 3.55
168 177 1.338105 TGGAAACTGATGCCTCTCGTG 60.338 52.381 0.00 0.00 0.00 4.35
180 189 1.581934 CTCTCGTGCACCTGAACAAA 58.418 50.000 12.15 0.00 0.00 2.83
190 199 7.921214 TCGTGCACCTGAACAAATTTTATAAAA 59.079 29.630 12.15 12.85 0.00 1.52
237 246 0.617413 AACCATGAGAGGAGCCACAG 59.383 55.000 0.00 0.00 0.00 3.66
249 258 2.289945 GGAGCCACAGAACAGAGTCATT 60.290 50.000 0.00 0.00 0.00 2.57
270 290 1.078708 CATCAACCCTAACCGCCGT 60.079 57.895 0.00 0.00 0.00 5.68
286 306 3.393800 CGCCGTCATTTTCTATCTCCAT 58.606 45.455 0.00 0.00 0.00 3.41
287 307 4.556233 CGCCGTCATTTTCTATCTCCATA 58.444 43.478 0.00 0.00 0.00 2.74
288 308 4.623167 CGCCGTCATTTTCTATCTCCATAG 59.377 45.833 0.00 0.00 34.24 2.23
289 309 4.390297 GCCGTCATTTTCTATCTCCATAGC 59.610 45.833 0.00 0.00 33.10 2.97
290 310 4.932200 CCGTCATTTTCTATCTCCATAGCC 59.068 45.833 0.00 0.00 33.10 3.93
291 311 5.511373 CCGTCATTTTCTATCTCCATAGCCA 60.511 44.000 0.00 0.00 33.10 4.75
292 312 5.406780 CGTCATTTTCTATCTCCATAGCCAC 59.593 44.000 0.00 0.00 33.10 5.01
293 313 5.703130 GTCATTTTCTATCTCCATAGCCACC 59.297 44.000 0.00 0.00 33.10 4.61
294 314 5.369404 TCATTTTCTATCTCCATAGCCACCA 59.631 40.000 0.00 0.00 33.10 4.17
295 315 5.912149 TTTTCTATCTCCATAGCCACCAT 57.088 39.130 0.00 0.00 33.10 3.55
296 316 5.489792 TTTCTATCTCCATAGCCACCATC 57.510 43.478 0.00 0.00 33.10 3.51
297 317 4.410481 TCTATCTCCATAGCCACCATCT 57.590 45.455 0.00 0.00 33.10 2.90
298 318 4.348486 TCTATCTCCATAGCCACCATCTC 58.652 47.826 0.00 0.00 33.10 2.75
299 319 1.722034 TCTCCATAGCCACCATCTCC 58.278 55.000 0.00 0.00 0.00 3.71
300 320 1.062198 TCTCCATAGCCACCATCTCCA 60.062 52.381 0.00 0.00 0.00 3.86
341 376 8.865090 CATCCTCCTCTAGTCATACTTGTAATT 58.135 37.037 0.00 0.00 0.00 1.40
347 382 9.737427 CCTCTAGTCATACTTGTAATTGTGTAG 57.263 37.037 0.00 0.00 0.00 2.74
374 409 4.631377 ACACGACATCCATTGTAAGACATG 59.369 41.667 0.00 0.00 39.18 3.21
420 487 2.519377 TCCACGTGTGAGTAGTTTGG 57.481 50.000 15.65 0.00 0.00 3.28
431 498 7.156673 GTGTGAGTAGTTTGGTAAGGTATGAA 58.843 38.462 0.00 0.00 0.00 2.57
468 536 4.550577 TGCAACCAATAGATGTATTGCG 57.449 40.909 15.44 11.58 45.43 4.85
661 730 2.202298 GGTCAAAATGCGTCGGCG 60.202 61.111 4.29 4.29 44.10 6.46
680 749 2.607187 CGAGTTGAGCGAACTGGTTAT 58.393 47.619 8.69 0.00 45.48 1.89
687 756 3.185594 TGAGCGAACTGGTTATCAAAACG 59.814 43.478 0.00 0.00 0.00 3.60
692 761 1.802365 ACTGGTTATCAAAACGCGGAC 59.198 47.619 12.47 0.00 0.00 4.79
706 775 2.654877 GGACGGAGCCGAACTTCA 59.345 61.111 16.83 0.00 42.83 3.02
707 776 1.218316 GGACGGAGCCGAACTTCAT 59.782 57.895 16.83 0.00 42.83 2.57
715 784 3.119101 GGAGCCGAACTTCATCTTACAGA 60.119 47.826 0.00 0.00 0.00 3.41
730 799 5.305585 TCTTACAGACCAATCCAAACAGAC 58.694 41.667 0.00 0.00 0.00 3.51
818 896 3.598562 GCGTCGCTCACATCGTCG 61.599 66.667 10.68 0.00 40.31 5.12
839 917 1.808343 TGCAAGCAGACAAGCATACAG 59.192 47.619 0.00 0.00 36.85 2.74
917 999 1.409427 CCGTCCTATCTTCCCACTCAC 59.591 57.143 0.00 0.00 0.00 3.51
966 1048 1.431440 CACCAACAACCACACACCG 59.569 57.895 0.00 0.00 0.00 4.94
997 1082 2.300967 TTGCCCAAGATCGGAGGCT 61.301 57.895 19.39 0.00 45.94 4.58
1347 1433 1.003355 CCAGATGAACGCCACCTGT 60.003 57.895 0.00 0.00 0.00 4.00
1392 1478 1.809619 GCTCGTGGATTGCAGCGTA 60.810 57.895 0.00 0.00 0.00 4.42
1595 1681 6.597262 CACACATGTGTTCTAGTGTTTGTA 57.403 37.500 28.64 0.00 42.79 2.41
1618 1704 7.869937 TGTATCCCAATTTGTATTGTGTTGTTG 59.130 33.333 0.00 0.00 39.62 3.33
1621 1707 6.758886 TCCCAATTTGTATTGTGTTGTTGTTC 59.241 34.615 0.00 0.00 39.62 3.18
1760 2036 3.243569 CGACTAAGTCATCATCCTCCCAC 60.244 52.174 0.00 0.00 32.09 4.61
1839 2117 7.016361 AGTACAAGAACACTAAAAGCAACAG 57.984 36.000 0.00 0.00 0.00 3.16
1936 2222 4.248859 CAAACTGTGACATCCCTAGTCTG 58.751 47.826 0.00 0.00 36.94 3.51
1948 2234 2.900546 CCCTAGTCTGGTAATGGCCTAG 59.099 54.545 3.32 0.00 0.00 3.02
1988 2274 9.577110 GAATGCATCATGTTCAAATTTCTCTTA 57.423 29.630 0.00 0.00 0.00 2.10
2251 2537 0.110486 TGAAACTTGGTGAGGGCCTC 59.890 55.000 26.95 26.95 0.00 4.70
2273 2559 4.081087 TCTGGAATAGTTCAGTTAGTGCCC 60.081 45.833 0.00 0.00 33.13 5.36
2386 2674 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
2387 2675 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2388 2676 4.877773 AGAGAGAGAGAGAGAGAGAGAGT 58.122 47.826 0.00 0.00 0.00 3.24
2389 2677 4.648762 AGAGAGAGAGAGAGAGAGAGAGTG 59.351 50.000 0.00 0.00 0.00 3.51
2390 2678 4.357325 AGAGAGAGAGAGAGAGAGAGTGT 58.643 47.826 0.00 0.00 0.00 3.55
2391 2679 4.161189 AGAGAGAGAGAGAGAGAGAGTGTG 59.839 50.000 0.00 0.00 0.00 3.82
2392 2680 3.840666 AGAGAGAGAGAGAGAGAGTGTGT 59.159 47.826 0.00 0.00 0.00 3.72
2393 2681 3.935203 GAGAGAGAGAGAGAGAGTGTGTG 59.065 52.174 0.00 0.00 0.00 3.82
2394 2682 3.327757 AGAGAGAGAGAGAGAGTGTGTGT 59.672 47.826 0.00 0.00 0.00 3.72
2395 2683 3.411446 AGAGAGAGAGAGAGTGTGTGTG 58.589 50.000 0.00 0.00 0.00 3.82
2396 2684 1.885887 AGAGAGAGAGAGTGTGTGTGC 59.114 52.381 0.00 0.00 0.00 4.57
2397 2685 1.885887 GAGAGAGAGAGTGTGTGTGCT 59.114 52.381 0.00 0.00 0.00 4.40
2398 2686 1.885887 AGAGAGAGAGTGTGTGTGCTC 59.114 52.381 0.00 0.00 0.00 4.26
2399 2687 1.611006 GAGAGAGAGTGTGTGTGCTCA 59.389 52.381 0.00 0.00 34.39 4.26
2400 2688 1.339610 AGAGAGAGTGTGTGTGCTCAC 59.660 52.381 11.94 11.94 44.08 3.51
2401 2689 0.390860 AGAGAGTGTGTGTGCTCACC 59.609 55.000 15.83 8.17 43.26 4.02
2402 2690 0.390860 GAGAGTGTGTGTGCTCACCT 59.609 55.000 15.83 6.20 43.26 4.00
2403 2691 0.105593 AGAGTGTGTGTGCTCACCTG 59.894 55.000 15.83 0.00 43.26 4.00
2404 2692 0.882042 GAGTGTGTGTGCTCACCTGG 60.882 60.000 15.83 0.00 43.26 4.45
2405 2693 2.203195 TGTGTGTGCTCACCTGGC 60.203 61.111 15.83 5.02 43.26 4.85
2406 2694 2.980233 GTGTGTGCTCACCTGGCC 60.980 66.667 15.83 0.00 43.26 5.36
2407 2695 3.487626 TGTGTGCTCACCTGGCCA 61.488 61.111 15.83 4.71 43.26 5.36
2408 2696 2.980233 GTGTGCTCACCTGGCCAC 60.980 66.667 0.00 0.00 38.51 5.01
2409 2697 4.269523 TGTGCTCACCTGGCCACC 62.270 66.667 0.00 0.00 0.00 4.61
2421 2709 4.828296 GCCACCCAGCCCATCAGG 62.828 72.222 0.00 0.00 39.47 3.86
2422 2710 3.016971 CCACCCAGCCCATCAGGA 61.017 66.667 0.00 0.00 38.24 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 3.538591 CTGCTTTACTCTCATGGCATGA 58.461 45.455 27.24 27.24 37.76 3.07
34 35 1.908619 TCCTGCTTTACTCTCATGGCA 59.091 47.619 0.00 0.00 0.00 4.92
36 37 3.703556 TCTCTCCTGCTTTACTCTCATGG 59.296 47.826 0.00 0.00 0.00 3.66
50 55 5.046735 TCCACTTGATTTCTTCTCTCTCCTG 60.047 44.000 0.00 0.00 0.00 3.86
57 62 2.675348 CGCCTCCACTTGATTTCTTCTC 59.325 50.000 0.00 0.00 0.00 2.87
124 130 2.978452 ATACGGCTCATGCGAGTGGC 62.978 60.000 0.00 0.00 41.71 5.01
146 155 1.338105 CGAGAGGCATCAGTTTCCACA 60.338 52.381 0.00 0.00 0.00 4.17
168 177 7.659799 ACCCTTTTATAAAATTTGTTCAGGTGC 59.340 33.333 10.97 0.00 0.00 5.01
180 189 3.881089 CGGCCTCGACCCTTTTATAAAAT 59.119 43.478 10.97 0.00 39.00 1.82
190 199 1.838073 AATGTTTCGGCCTCGACCCT 61.838 55.000 0.00 0.00 45.92 4.34
206 215 5.939883 TCCTCTCATGGTTGTTCTGTTAATG 59.060 40.000 0.00 0.00 0.00 1.90
207 216 6.126863 TCCTCTCATGGTTGTTCTGTTAAT 57.873 37.500 0.00 0.00 0.00 1.40
237 246 5.474876 AGGGTTGATGAAAATGACTCTGTTC 59.525 40.000 0.00 0.00 0.00 3.18
249 258 1.828979 GGCGGTTAGGGTTGATGAAA 58.171 50.000 0.00 0.00 0.00 2.69
270 290 5.369404 TGGTGGCTATGGAGATAGAAAATGA 59.631 40.000 0.00 0.00 34.44 2.57
286 306 2.435805 GTGAAGATGGAGATGGTGGCTA 59.564 50.000 0.00 0.00 0.00 3.93
287 307 1.211457 GTGAAGATGGAGATGGTGGCT 59.789 52.381 0.00 0.00 0.00 4.75
288 308 1.673168 GTGAAGATGGAGATGGTGGC 58.327 55.000 0.00 0.00 0.00 5.01
289 309 1.561076 TGGTGAAGATGGAGATGGTGG 59.439 52.381 0.00 0.00 0.00 4.61
290 310 3.572632 ATGGTGAAGATGGAGATGGTG 57.427 47.619 0.00 0.00 0.00 4.17
291 311 4.302067 ACTATGGTGAAGATGGAGATGGT 58.698 43.478 0.00 0.00 0.00 3.55
292 312 4.970860 ACTATGGTGAAGATGGAGATGG 57.029 45.455 0.00 0.00 0.00 3.51
293 313 5.922053 TGAACTATGGTGAAGATGGAGATG 58.078 41.667 0.00 0.00 0.00 2.90
294 314 6.239829 GGATGAACTATGGTGAAGATGGAGAT 60.240 42.308 0.00 0.00 0.00 2.75
295 315 5.070981 GGATGAACTATGGTGAAGATGGAGA 59.929 44.000 0.00 0.00 0.00 3.71
296 316 5.071519 AGGATGAACTATGGTGAAGATGGAG 59.928 44.000 0.00 0.00 0.00 3.86
297 317 4.971282 AGGATGAACTATGGTGAAGATGGA 59.029 41.667 0.00 0.00 0.00 3.41
298 318 5.301835 AGGATGAACTATGGTGAAGATGG 57.698 43.478 0.00 0.00 0.00 3.51
299 319 5.071519 AGGAGGATGAACTATGGTGAAGATG 59.928 44.000 0.00 0.00 0.00 2.90
300 320 5.222870 AGGAGGATGAACTATGGTGAAGAT 58.777 41.667 0.00 0.00 0.00 2.40
347 382 4.688879 TCTTACAATGGATGTCGTGTGTTC 59.311 41.667 0.00 0.00 42.70 3.18
390 425 6.465439 ACTCACACGTGGATATCATAAAGA 57.535 37.500 21.57 0.00 0.00 2.52
405 472 3.986277 ACCTTACCAAACTACTCACACG 58.014 45.455 0.00 0.00 0.00 4.49
420 487 5.449177 GCTCTTGCCACAATTCATACCTTAC 60.449 44.000 0.00 0.00 0.00 2.34
588 657 5.659463 TGCATACAAATCTTAACATTGCCC 58.341 37.500 0.00 0.00 0.00 5.36
639 708 0.041663 CGACGCATTTTGACCGTTGT 60.042 50.000 0.00 0.00 35.06 3.32
641 710 1.572447 CCGACGCATTTTGACCGTT 59.428 52.632 0.00 0.00 35.06 4.44
646 715 1.225376 AACTCGCCGACGCATTTTGA 61.225 50.000 0.00 0.00 39.84 2.69
661 730 3.585862 TGATAACCAGTTCGCTCAACTC 58.414 45.455 0.00 0.00 44.14 3.01
680 749 3.039588 GCTCCGTCCGCGTTTTGA 61.040 61.111 4.92 0.00 36.15 2.69
692 761 2.194271 GTAAGATGAAGTTCGGCTCCG 58.806 52.381 1.14 1.14 41.35 4.63
707 776 5.163248 TGTCTGTTTGGATTGGTCTGTAAGA 60.163 40.000 0.00 0.00 43.69 2.10
738 807 5.622007 GCTCAAACGGATTTGGATTTGATCA 60.622 40.000 0.00 0.00 44.61 2.92
739 808 4.800471 GCTCAAACGGATTTGGATTTGATC 59.200 41.667 0.00 0.00 44.61 2.92
750 819 1.156736 CTCCAACGCTCAAACGGATT 58.843 50.000 0.00 0.00 37.37 3.01
751 820 0.034896 ACTCCAACGCTCAAACGGAT 59.965 50.000 0.00 0.00 37.37 4.18
803 881 2.778997 GCACGACGATGTGAGCGAC 61.779 63.158 14.34 0.00 42.55 5.19
818 896 1.536766 TGTATGCTTGTCTGCTTGCAC 59.463 47.619 0.00 0.00 38.29 4.57
839 917 2.049063 ACTGCTCGTCCGCTTGTC 60.049 61.111 0.00 0.00 0.00 3.18
966 1048 1.449070 GGGCAACGGGTGTAGTAGC 60.449 63.158 0.00 0.00 37.60 3.58
1022 1107 3.855853 GGAGGAAGAGGAGCCGGC 61.856 72.222 21.89 21.89 0.00 6.13
1051 1137 1.305718 AGGAGGAGAGGAGGTGCAC 60.306 63.158 8.80 8.80 0.00 4.57
1224 1310 0.749049 GGTACGGGGAGATGGTGTAC 59.251 60.000 0.00 0.00 35.75 2.90
1229 1315 1.759299 TTCGGGTACGGGGAGATGG 60.759 63.158 0.00 0.00 41.39 3.51
1392 1478 2.482374 GCGTACTGCTCGTACCGT 59.518 61.111 10.06 0.00 44.52 4.83
1635 1721 3.126453 AGGCTGGGAGGAGATACATTTT 58.874 45.455 0.00 0.00 0.00 1.82
1637 1723 2.090267 AGAGGCTGGGAGGAGATACATT 60.090 50.000 0.00 0.00 0.00 2.71
1640 1726 2.982339 TAGAGGCTGGGAGGAGATAC 57.018 55.000 0.00 0.00 0.00 2.24
1682 1768 5.179452 AGTGTACCCTGCTCATAAAATGT 57.821 39.130 0.00 0.00 0.00 2.71
1683 1769 7.624360 TTTAGTGTACCCTGCTCATAAAATG 57.376 36.000 0.00 0.00 0.00 2.32
1839 2117 5.871396 TTAGATGGTCTATGAACCTGGAC 57.129 43.478 0.00 0.00 40.20 4.02
1936 2222 5.248705 AGAATAGCTAACCTAGGCCATTACC 59.751 44.000 9.30 0.00 0.00 2.85
1948 2234 6.624352 TGATGCATTCAAGAATAGCTAACC 57.376 37.500 0.00 0.00 0.00 2.85
1988 2274 7.388500 GGTTTGATCATTCACCATTTCATGTTT 59.612 33.333 12.34 0.00 0.00 2.83
2105 2391 7.338449 GCATAATCTCTGGTTAAGGGTTTTACA 59.662 37.037 0.00 0.00 0.00 2.41
2251 2537 4.192317 GGGCACTAACTGAACTATTCCAG 58.808 47.826 0.00 0.00 36.53 3.86
2363 2649 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2391 2679 2.980233 GTGGCCAGGTGAGCACAC 60.980 66.667 5.11 5.63 45.27 3.82
2392 2680 4.269523 GGTGGCCAGGTGAGCACA 62.270 66.667 5.11 0.00 0.00 4.57
2395 2683 4.729918 CTGGGTGGCCAGGTGAGC 62.730 72.222 5.11 0.00 34.47 4.26
2396 2684 4.729918 GCTGGGTGGCCAGGTGAG 62.730 72.222 5.11 0.39 38.18 3.51
2404 2692 4.828296 CCTGATGGGCTGGGTGGC 62.828 72.222 0.00 0.00 40.96 5.01
2405 2693 3.016971 TCCTGATGGGCTGGGTGG 61.017 66.667 0.00 0.00 36.34 4.61


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

AutoCloner maintained by Alex Coulton.