Multiple sequence alignment - TraesCS4A01G460600

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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 TraesCS4A01G460600 chr4A 100.000 1908 0 0 1 1908 725837700 725839607 0.000000e+00 3524.0
1 TraesCS4A01G460600 chr4A 100.000 446 0 0 2398 2843 725840097 725840542 0.000000e+00 824.0
2 TraesCS4A01G460600 chr4A 75.117 213 39 9 2404 2611 390876555 390876352 1.400000e-13 87.9
3 TraesCS4A01G460600 chr7A 94.762 840 40 3 1011 1850 11789279 11788444 0.000000e+00 1304.0
4 TraesCS4A01G460600 chr7A 94.762 840 40 3 1011 1850 11792167 11791332 0.000000e+00 1304.0
5 TraesCS4A01G460600 chr7A 94.286 840 44 3 1011 1850 11877426 11876591 0.000000e+00 1282.0
6 TraesCS4A01G460600 chr7A 94.286 840 44 3 1011 1850 11923431 11922596 0.000000e+00 1282.0
7 TraesCS4A01G460600 chr7A 95.445 483 22 0 1426 1908 11982363 11981881 0.000000e+00 771.0
8 TraesCS4A01G460600 chr7A 93.567 342 15 3 3 337 11803189 11802848 1.180000e-138 503.0
9 TraesCS4A01G460600 chr7A 93.567 342 15 3 3 337 11829703 11829362 1.180000e-138 503.0
10 TraesCS4A01G460600 chr7A 92.982 342 17 3 3 337 11883194 11882853 2.540000e-135 492.0
11 TraesCS4A01G460600 chr7A 92.398 342 19 3 3 337 11930174 11929833 5.510000e-132 481.0
12 TraesCS4A01G460600 chr7A 88.594 377 21 11 657 1020 11828948 11828581 3.360000e-119 438.0
13 TraesCS4A01G460600 chr7A 94.035 285 16 1 337 620 11802812 11802528 5.630000e-117 431.0
14 TraesCS4A01G460600 chr7A 94.035 285 16 1 337 620 11829326 11829042 5.630000e-117 431.0
15 TraesCS4A01G460600 chr7A 88.556 367 18 12 667 1020 11802434 11802079 9.420000e-115 424.0
16 TraesCS4A01G460600 chr7A 92.982 285 18 2 337 620 11882817 11882534 5.670000e-112 414.0
17 TraesCS4A01G460600 chr7A 92.982 285 18 2 337 620 11929797 11929514 5.670000e-112 414.0
18 TraesCS4A01G460600 chr7A 88.623 334 22 9 690 1020 11929407 11929087 2.660000e-105 392.0
19 TraesCS4A01G460600 chr7A 87.395 357 23 13 667 1020 11882440 11882103 9.550000e-105 390.0
20 TraesCS4A01G460600 chr7A 90.726 248 21 1 2404 2651 11873554 11873309 2.110000e-86 329.0
21 TraesCS4A01G460600 chr7A 90.566 212 18 1 2440 2651 11919424 11919215 2.160000e-71 279.0
22 TraesCS4A01G460600 chr7A 85.124 242 28 4 2602 2843 11981673 11981440 1.020000e-59 241.0
23 TraesCS4A01G460600 chr7A 88.235 170 17 3 2675 2843 11981278 11981111 1.730000e-47 200.0
24 TraesCS4A01G460600 chr7A 78.161 174 30 6 2404 2575 686005469 686005302 1.390000e-18 104.0
25 TraesCS4A01G460600 chr7A 94.643 56 3 0 584 639 729297439 729297384 1.400000e-13 87.9
26 TraesCS4A01G460600 chrUn 93.567 342 15 3 3 337 341053088 341053429 1.180000e-138 503.0
27 TraesCS4A01G460600 chrUn 88.594 377 21 11 657 1020 341053843 341054210 3.360000e-119 438.0
28 TraesCS4A01G460600 chrUn 94.035 285 16 1 337 620 341053465 341053749 5.630000e-117 431.0
29 TraesCS4A01G460600 chr7D 83.607 183 26 4 584 766 636826553 636826731 4.870000e-38 169.0
30 TraesCS4A01G460600 chr5A 80.347 173 25 8 2404 2573 168240401 168240235 3.850000e-24 122.0
31 TraesCS4A01G460600 chr2D 76.364 220 40 10 2404 2619 16903812 16903601 1.080000e-19 108.0
32 TraesCS4A01G460600 chr7B 75.229 218 44 8 2398 2612 615662838 615663048 8.380000e-16 95.3
33 TraesCS4A01G460600 chr2A 84.615 91 12 2 2404 2493 756138425 756138336 3.900000e-14 89.8
34 TraesCS4A01G460600 chr3A 83.871 93 13 2 2404 2495 12149302 12149393 1.400000e-13 87.9


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 TraesCS4A01G460600 chr4A 725837700 725840542 2842 False 2174.000000 3524 100.000000 1 2843 2 chr4A.!!$F1 2842
1 TraesCS4A01G460600 chr7A 11788444 11792167 3723 True 1304.000000 1304 94.762000 1011 1850 2 chr7A.!!$R3 839
2 TraesCS4A01G460600 chr7A 11873309 11877426 4117 True 805.500000 1282 92.506000 1011 2651 2 chr7A.!!$R6 1640
3 TraesCS4A01G460600 chr7A 11919215 11923431 4216 True 780.500000 1282 92.426000 1011 2651 2 chr7A.!!$R8 1640
4 TraesCS4A01G460600 chr7A 11828581 11829703 1122 True 457.333333 503 92.065333 3 1020 3 chr7A.!!$R5 1017
5 TraesCS4A01G460600 chr7A 11802079 11803189 1110 True 452.666667 503 92.052667 3 1020 3 chr7A.!!$R4 1017
6 TraesCS4A01G460600 chr7A 11882103 11883194 1091 True 432.000000 492 91.119667 3 1020 3 chr7A.!!$R7 1017
7 TraesCS4A01G460600 chr7A 11929087 11930174 1087 True 429.000000 481 91.334333 3 1020 3 chr7A.!!$R9 1017
8 TraesCS4A01G460600 chr7A 11981111 11982363 1252 True 404.000000 771 89.601333 1426 2843 3 chr7A.!!$R10 1417
9 TraesCS4A01G460600 chrUn 341053088 341054210 1122 False 457.333333 503 92.065333 3 1020 3 chrUn.!!$F1 1017


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
560 605 0.250989 TTAGGAAGGGGCGTTGGTTG 60.251 55.0 0.0 0.0 0.0 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2398 5485 0.248498 TATGAGTCTTTCTCGCGCGG 60.248 55.0 31.69 20.6 45.46 6.46 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 7.547722 AGCGTTGATACACAAAAGTCATATGTA 59.452 33.333 1.90 0.00 40.36 2.29
32 33 8.172484 GCGTTGATACACAAAAGTCATATGTAA 58.828 33.333 1.90 0.00 40.36 2.41
51 52 1.680338 AAGCGCACCTTGAAGAAGTT 58.320 45.000 11.47 0.00 30.99 2.66
80 81 2.629137 ACATTCTTGCATGCTTCCAACA 59.371 40.909 20.33 0.00 0.00 3.33
86 87 1.478916 TGCATGCTTCCAACATGATGG 59.521 47.619 20.33 15.64 46.33 3.51
91 92 2.029623 GCTTCCAACATGATGGCTGAT 58.970 47.619 16.87 0.00 40.46 2.90
119 120 1.151668 CTTGGTGTCGGAAGCTTGAG 58.848 55.000 2.10 0.00 0.00 3.02
159 160 5.705397 AGGAGAATGATGACAATTCCAGA 57.295 39.130 0.00 0.00 0.00 3.86
195 196 2.425539 GGTTTGCACCATTTCCATTGG 58.574 47.619 0.00 0.00 43.61 3.16
258 259 5.857471 TGATGAATGGATCAAATGGAACC 57.143 39.130 0.00 0.00 42.54 3.62
296 297 2.835764 TGGGTTGAGGTGGAGTACATAC 59.164 50.000 0.00 0.00 0.00 2.39
309 310 7.180408 GGTGGAGTACATACCTATGATTATGGT 59.820 40.741 0.00 0.00 37.15 3.55
369 413 5.533482 ACTCTTTGCACATATACCTCGATC 58.467 41.667 0.00 0.00 0.00 3.69
378 422 6.382608 CACATATACCTCGATCGAGAATTGT 58.617 40.000 39.64 30.23 44.53 2.71
440 485 4.946157 AGTGTCTCCTAGATGCCATTTTTG 59.054 41.667 0.00 0.00 0.00 2.44
449 494 6.980397 CCTAGATGCCATTTTTGATGTAAACC 59.020 38.462 0.00 0.00 0.00 3.27
500 545 9.649167 ATGCATGTGTATCATATATATCCATCG 57.351 33.333 0.00 0.00 34.67 3.84
503 548 9.971922 CATGTGTATCATATATATCCATCGTGT 57.028 33.333 0.00 0.00 34.67 4.49
526 571 7.387948 GTGTAAGCATATCCTAAATGGGTGTAG 59.612 40.741 0.00 0.00 36.20 2.74
534 579 6.080969 TCCTAAATGGGTGTAGGCAATTAA 57.919 37.500 0.00 0.00 37.41 1.40
544 589 8.908903 TGGGTGTAGGCAATTAAATGTATTTAG 58.091 33.333 0.00 0.00 34.13 1.85
555 600 3.945640 ATGTATTTAGGAAGGGGCGTT 57.054 42.857 0.00 0.00 0.00 4.84
560 605 0.250989 TTAGGAAGGGGCGTTGGTTG 60.251 55.000 0.00 0.00 0.00 3.77
572 617 4.364415 GCGTTGGTTGCCAATTATCTTA 57.636 40.909 3.77 0.00 45.80 2.10
620 665 9.628500 AATTTTTAGGGAGTGCCTAATTAGTAG 57.372 33.333 22.34 0.00 31.08 2.57
621 666 7.983166 TTTTAGGGAGTGCCTAATTAGTAGA 57.017 36.000 22.34 4.46 31.08 2.59
622 667 7.983166 TTTAGGGAGTGCCTAATTAGTAGAA 57.017 36.000 22.34 3.75 31.08 2.10
623 668 7.598759 TTAGGGAGTGCCTAATTAGTAGAAG 57.401 40.000 18.47 0.00 30.50 2.85
624 669 5.530243 AGGGAGTGCCTAATTAGTAGAAGT 58.470 41.667 0.00 0.00 30.50 3.01
625 670 6.680540 AGGGAGTGCCTAATTAGTAGAAGTA 58.319 40.000 0.00 0.00 30.50 2.24
896 1040 5.140177 GCGCATAATCTTCCTTTAATGTCG 58.860 41.667 0.30 0.00 0.00 4.35
909 1053 6.589523 TCCTTTAATGTCGCAAATCCATTTTG 59.410 34.615 0.00 0.00 46.22 2.44
926 1070 8.615360 TCCATTTTGTGATATGGGGAAATAAA 57.385 30.769 0.00 0.00 41.35 1.40
974 1118 3.325293 ACTAGAACACACTCATGCCAG 57.675 47.619 0.00 0.00 0.00 4.85
980 1124 1.550524 ACACACTCATGCCAGACGTAT 59.449 47.619 0.00 0.00 0.00 3.06
1032 1177 8.056407 TCTACATATCTGTGCATATAGTGTCC 57.944 38.462 0.00 0.00 36.79 4.02
1034 1179 3.667497 ATCTGTGCATATAGTGTCCGG 57.333 47.619 0.00 0.00 0.00 5.14
1167 1312 8.230472 ACAAAATCTGACTATCAATTCATCCC 57.770 34.615 0.00 0.00 0.00 3.85
1231 1376 1.735198 CTTGCAGCAATGGCAACCG 60.735 57.895 8.67 0.00 45.57 4.44
1255 1400 3.764466 CGACCGCTGCCTTCTCCT 61.764 66.667 0.00 0.00 0.00 3.69
1256 1401 2.185608 GACCGCTGCCTTCTCCTC 59.814 66.667 0.00 0.00 0.00 3.71
1257 1402 3.708220 GACCGCTGCCTTCTCCTCG 62.708 68.421 0.00 0.00 0.00 4.63
1259 1404 3.764466 CGCTGCCTTCTCCTCGGT 61.764 66.667 0.00 0.00 0.00 4.69
1260 1405 2.665603 GCTGCCTTCTCCTCGGTT 59.334 61.111 0.00 0.00 0.00 4.44
1261 1406 1.743252 GCTGCCTTCTCCTCGGTTG 60.743 63.158 0.00 0.00 0.00 3.77
1262 1407 1.743252 CTGCCTTCTCCTCGGTTGC 60.743 63.158 0.00 0.00 0.00 4.17
1263 1408 2.436824 GCCTTCTCCTCGGTTGCC 60.437 66.667 0.00 0.00 0.00 4.52
1285 1430 1.001487 TCATGCTCCTTTTTGTGTGCG 60.001 47.619 0.00 0.00 0.00 5.34
1329 1474 1.507141 GCGACAAGGTCAAGGTGGTG 61.507 60.000 0.00 0.00 32.09 4.17
1441 1586 0.034896 GTCGGACAAAAGGAGCTCCA 59.965 55.000 33.90 7.59 38.89 3.86
1557 1702 2.180432 AAGCCAAGAAAGGTACGGAC 57.820 50.000 0.00 0.00 0.00 4.79
1563 1708 0.896940 AGAAAGGTACGGACGAGGCA 60.897 55.000 0.00 0.00 0.00 4.75
1770 1915 5.894298 TGGATAGCCAGACACTTATCAAT 57.106 39.130 0.00 0.00 39.92 2.57
1879 4966 6.009115 ACCGGAAACAATCTTCATGTAAAC 57.991 37.500 9.46 0.00 0.00 2.01
2429 5655 2.607187 AGACTCATACCGTGCGAAAAG 58.393 47.619 0.00 0.00 0.00 2.27
2447 5673 9.474920 TGCGAAAAGTCTCAAATATTTTGAAAT 57.525 25.926 0.00 0.00 0.00 2.17
2484 5710 4.680110 CGCTCACCTGATAGTTAAATACGG 59.320 45.833 0.00 0.00 0.00 4.02
2504 6187 3.682718 CGGGGCATCTCTTACTGAACATT 60.683 47.826 0.00 0.00 0.00 2.71
2511 6194 7.280876 GGCATCTCTTACTGAACATTATGACAA 59.719 37.037 0.00 0.00 0.00 3.18
2561 6244 2.357881 CCGCAGCAGCAAGTCTCA 60.358 61.111 0.82 0.00 42.27 3.27
2598 6281 7.826744 TGGTTGCCTTCATTTTTACTTCTTTTT 59.173 29.630 0.00 0.00 0.00 1.94
2653 6724 0.102300 GTTTGACCAAGCGGCAGTTT 59.898 50.000 1.45 0.00 34.57 2.66
2654 6725 0.820871 TTTGACCAAGCGGCAGTTTT 59.179 45.000 1.45 0.00 34.57 2.43
2681 6752 3.423154 CGGCAGCGAAGGGTGAAC 61.423 66.667 0.00 0.00 44.37 3.18
2702 6788 0.179018 GCCAATACAGTAGGGCAGGG 60.179 60.000 17.35 0.94 45.70 4.45
2714 6800 0.111639 GGGCAGGGTTTGTGGTTCTA 59.888 55.000 0.00 0.00 0.00 2.10
2766 6852 9.555727 TGTGTTCTTTAAGAGTAACTAGCAAAT 57.444 29.630 0.00 0.00 0.00 2.32
2799 6885 1.028905 TCAACGGGGCAGAAAAAGTG 58.971 50.000 0.00 0.00 0.00 3.16
2809 7699 2.229784 GCAGAAAAAGTGACCCCTCATG 59.770 50.000 0.00 0.00 0.00 3.07
2823 7713 2.344950 CCTCATGCACACTCTCAAGAC 58.655 52.381 0.00 0.00 0.00 3.01
2831 7721 3.923461 GCACACTCTCAAGACATCAGTAC 59.077 47.826 0.00 0.00 0.00 2.73
2836 7726 5.126869 CACTCTCAAGACATCAGTACATCCT 59.873 44.000 0.00 0.00 0.00 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.518970 ACTTTTGTGTATCAACGCTCCAAT 59.481 37.500 0.00 0.00 37.03 3.16
1 2 3.880490 ACTTTTGTGTATCAACGCTCCAA 59.120 39.130 0.00 0.00 37.03 3.53
31 32 1.680338 ACTTCTTCAAGGTGCGCTTT 58.320 45.000 9.73 0.00 33.37 3.51
32 33 1.680338 AACTTCTTCAAGGTGCGCTT 58.320 45.000 9.73 0.00 33.37 4.68
51 52 3.118992 AGCATGCAAGAATGTCTCGAGTA 60.119 43.478 21.98 3.34 0.00 2.59
80 81 1.822062 GCCCATGTCATCAGCCATCAT 60.822 52.381 0.00 0.00 0.00 2.45
86 87 0.682209 ACCAAGCCCATGTCATCAGC 60.682 55.000 0.00 0.00 0.00 4.26
91 92 1.302431 CGACACCAAGCCCATGTCA 60.302 57.895 4.65 0.00 42.37 3.58
119 120 2.008268 CTTTCCATGGCCATCACCGC 62.008 60.000 17.61 0.00 0.00 5.68
159 160 3.690460 CAAACCACCTCCTTAGCATTCT 58.310 45.455 0.00 0.00 0.00 2.40
195 196 1.247567 TTTTCTAGCAAGCCTGGCAC 58.752 50.000 22.65 9.89 0.00 5.01
227 228 4.500452 TGATCCATTCATCATCTCCCTCT 58.500 43.478 0.00 0.00 0.00 3.69
236 237 4.338964 CGGTTCCATTTGATCCATTCATCA 59.661 41.667 0.00 0.00 33.10 3.07
258 259 1.158484 CCATCCATCTCTGCACTGCG 61.158 60.000 0.00 0.00 0.00 5.18
309 310 6.379133 CCCCTACTCGGTGCACTATATATAAA 59.621 42.308 17.98 0.00 0.00 1.40
325 333 5.243207 AGTTAAACATTGAACCCCTACTCG 58.757 41.667 0.00 0.00 0.00 4.18
378 422 8.448008 ACTGCCCATGATTAAATAGGAGAAATA 58.552 33.333 0.00 0.00 0.00 1.40
416 461 4.414337 AAATGGCATCTAGGAGACACTC 57.586 45.455 0.00 0.00 0.00 3.51
427 472 6.610075 AGGTTTACATCAAAAATGGCATCT 57.390 33.333 0.00 0.00 0.00 2.90
449 494 6.824704 TCATTATTAACCCGGAACACCTTTAG 59.175 38.462 0.73 0.00 0.00 1.85
500 545 6.062095 ACACCCATTTAGGATATGCTTACAC 58.938 40.000 0.65 0.00 41.22 2.90
503 548 6.521770 GCCTACACCCATTTAGGATATGCTTA 60.522 42.308 0.65 0.00 41.22 3.09
526 571 7.441836 CCCCTTCCTAAATACATTTAATTGCC 58.558 38.462 0.00 0.00 32.39 4.52
534 579 3.945640 ACGCCCCTTCCTAAATACATT 57.054 42.857 0.00 0.00 0.00 2.71
544 589 3.680786 GCAACCAACGCCCCTTCC 61.681 66.667 0.00 0.00 0.00 3.46
555 600 9.660180 GGTAAAATTTAAGATAATTGGCAACCA 57.340 29.630 0.00 0.00 0.00 3.67
851 995 6.129273 GCGCATTTTGCACTTGATAATCTATG 60.129 38.462 0.30 0.00 45.36 2.23
909 1053 8.697507 AATCTCACTTTATTTCCCCATATCAC 57.302 34.615 0.00 0.00 0.00 3.06
956 1100 2.352715 CGTCTGGCATGAGTGTGTTCTA 60.353 50.000 0.00 0.00 0.00 2.10
974 1118 6.275335 TGGGTGTGCTAGTATTAAATACGTC 58.725 40.000 0.00 0.00 40.64 4.34
980 1124 6.151985 CCACATTTGGGTGTGCTAGTATTAAA 59.848 38.462 1.65 0.00 46.27 1.52
1032 1177 9.595823 ACGGATATCCAAATAATTAGTATTCCG 57.404 33.333 21.70 4.96 36.44 4.30
1166 1311 1.341482 TGTAGCTGAGAGAGAGGTGGG 60.341 57.143 0.00 0.00 0.00 4.61
1167 1312 2.136298 TGTAGCTGAGAGAGAGGTGG 57.864 55.000 0.00 0.00 0.00 4.61
1204 1349 2.294979 CATTGCTGCAAGGATAGCTGA 58.705 47.619 21.25 0.00 40.52 4.26
1253 1398 1.442526 GAGCATGATGGCAACCGAGG 61.443 60.000 0.00 0.00 35.83 4.63
1254 1399 1.442526 GGAGCATGATGGCAACCGAG 61.443 60.000 0.00 0.00 35.83 4.63
1255 1400 1.451927 GGAGCATGATGGCAACCGA 60.452 57.895 0.00 0.00 35.83 4.69
1256 1401 1.033746 AAGGAGCATGATGGCAACCG 61.034 55.000 0.00 0.00 37.50 4.44
1257 1402 1.188863 AAAGGAGCATGATGGCAACC 58.811 50.000 0.00 0.00 35.83 3.77
1259 1404 2.633967 ACAAAAAGGAGCATGATGGCAA 59.366 40.909 0.00 0.00 35.83 4.52
1260 1405 2.028839 CACAAAAAGGAGCATGATGGCA 60.029 45.455 0.00 0.00 35.83 4.92
1261 1406 2.028748 ACACAAAAAGGAGCATGATGGC 60.029 45.455 0.00 0.00 0.00 4.40
1262 1407 3.581755 CACACAAAAAGGAGCATGATGG 58.418 45.455 0.00 0.00 0.00 3.51
1263 1408 2.991190 GCACACAAAAAGGAGCATGATG 59.009 45.455 0.00 0.00 0.00 3.07
1309 1454 1.966451 CCACCTTGACCTTGTCGCC 60.966 63.158 0.00 0.00 34.95 5.54
1441 1586 2.529389 ACGGAGGTCCTTGGCCTT 60.529 61.111 3.32 0.00 38.01 4.35
1563 1708 1.522569 GCAATACCTGAGGCCGAGT 59.477 57.895 0.00 0.00 0.00 4.18
1770 1915 3.329386 CTTGATCAGCTCCTCGTTTTCA 58.671 45.455 0.00 0.00 0.00 2.69
1856 4943 5.048294 GGTTTACATGAAGATTGTTTCCGGT 60.048 40.000 0.00 0.00 0.00 5.28
1859 4946 6.339587 TGGGTTTACATGAAGATTGTTTCC 57.660 37.500 0.00 0.00 0.00 3.13
1868 4955 7.312899 GGAAGTAATGTTGGGTTTACATGAAG 58.687 38.462 0.00 0.00 36.41 3.02
2397 5484 2.881352 GAGTCTTTCTCGCGCGGG 60.881 66.667 31.69 29.48 33.25 6.13
2398 5485 0.248498 TATGAGTCTTTCTCGCGCGG 60.248 55.000 31.69 20.60 45.46 6.46
2399 5486 0.840729 GTATGAGTCTTTCTCGCGCG 59.159 55.000 26.76 26.76 45.46 6.86
2400 5487 1.201343 GGTATGAGTCTTTCTCGCGC 58.799 55.000 0.00 0.00 45.46 6.86
2401 5488 1.202154 ACGGTATGAGTCTTTCTCGCG 60.202 52.381 0.00 0.00 45.46 5.87
2402 5489 2.186076 CACGGTATGAGTCTTTCTCGC 58.814 52.381 0.00 0.00 45.46 5.03
2447 5673 4.803088 CAGGTGAGCGTTTGAATTCAAAAA 59.197 37.500 30.07 11.41 46.08 1.94
2484 5710 6.203723 GTCATAATGTTCAGTAAGAGATGCCC 59.796 42.308 0.00 0.00 0.00 5.36
2504 6187 5.012046 CACCTATAGGCCATGACTTGTCATA 59.988 44.000 19.25 1.43 39.32 2.15
2511 6194 1.059913 GCCACCTATAGGCCATGACT 58.940 55.000 19.25 0.00 46.50 3.41
2561 6244 0.846693 AGGCAACCAGACTCAAACCT 59.153 50.000 0.00 0.00 37.17 3.50
2573 6256 7.786178 AAAAGAAGTAAAAATGAAGGCAACC 57.214 32.000 0.00 0.00 37.17 3.77
2576 6259 7.710475 CCTCAAAAAGAAGTAAAAATGAAGGCA 59.290 33.333 0.00 0.00 0.00 4.75
2658 6729 3.049674 CCTTCGCTGCCGCTCAAA 61.050 61.111 0.00 0.00 0.00 2.69
2665 6736 2.281484 TGTTCACCCTTCGCTGCC 60.281 61.111 0.00 0.00 0.00 4.85
2668 6739 2.032681 GGCTGTTCACCCTTCGCT 59.967 61.111 0.00 0.00 0.00 4.93
2671 6742 2.749621 CTGTATTGGCTGTTCACCCTTC 59.250 50.000 0.00 0.00 0.00 3.46
2681 6752 1.475751 CCTGCCCTACTGTATTGGCTG 60.476 57.143 21.76 20.61 44.32 4.85
2690 6776 0.609131 CCACAAACCCTGCCCTACTG 60.609 60.000 0.00 0.00 0.00 2.74
2691 6777 1.065997 ACCACAAACCCTGCCCTACT 61.066 55.000 0.00 0.00 0.00 2.57
2721 6807 0.820871 AAAGCGTGCCCTTGTTCAAA 59.179 45.000 0.00 0.00 0.00 2.69
2722 6808 0.102120 CAAAGCGTGCCCTTGTTCAA 59.898 50.000 0.00 0.00 0.00 2.69
2723 6809 1.034838 ACAAAGCGTGCCCTTGTTCA 61.035 50.000 4.57 0.00 0.00 3.18
2735 6821 6.945072 AGTTACTCTTAAAGAACACAAAGCG 58.055 36.000 0.00 0.00 0.00 4.68
2766 6852 0.449786 CGTTGAAACGCATGGGCATA 59.550 50.000 10.10 0.00 46.06 3.14
2789 6875 2.229784 GCATGAGGGGTCACTTTTTCTG 59.770 50.000 0.00 0.00 0.00 3.02
2799 6885 0.107945 GAGAGTGTGCATGAGGGGTC 60.108 60.000 0.00 0.00 0.00 4.46
2809 7699 3.037431 ACTGATGTCTTGAGAGTGTGC 57.963 47.619 0.00 0.00 0.00 4.57



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

AutoCloner maintained by Alex Coulton.