Multiple sequence alignment - TraesCS2B01G187300

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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 TraesCS2B01G187300 chr2B 100.000 4091 0 0 1 4091 162629411 162625321 0.000000e+00 7555
1 TraesCS2B01G187300 chr2D 94.866 2571 106 13 74 2632 112525892 112523336 0.000000e+00 3993
2 TraesCS2B01G187300 chr2D 96.714 700 23 0 3392 4091 112522052 112521353 0.000000e+00 1166
3 TraesCS2B01G187300 chr2D 96.944 589 12 2 2685 3267 112523058 112522470 0.000000e+00 983
4 TraesCS2B01G187300 chr2D 94.366 71 4 0 3268 3338 112522119 112522049 4.320000e-20 110
5 TraesCS2B01G187300 chr2A 95.934 1943 52 14 1331 3270 113599391 113597473 0.000000e+00 3125
6 TraesCS2B01G187300 chr2A 93.776 1189 51 10 116 1300 113600559 113599390 0.000000e+00 1764
7 TraesCS2B01G187300 chr2A 96.247 826 29 2 3268 4091 113597125 113596300 0.000000e+00 1352
8 TraesCS2B01G187300 chr2A 91.275 149 11 2 1235 1383 141506324 141506470 6.930000e-48 202
9 TraesCS2B01G187300 chr6B 92.414 145 10 1 1246 1390 537553977 537553834 5.360000e-49 206
10 TraesCS2B01G187300 chr3D 90.728 151 13 1 1237 1387 288550465 288550614 2.490000e-47 200
11 TraesCS2B01G187300 chr3D 90.476 147 13 1 1237 1383 441388812 441388667 4.170000e-45 193
12 TraesCS2B01G187300 chr6D 89.308 159 14 2 1232 1390 356594216 356594061 3.230000e-46 196
13 TraesCS2B01G187300 chr3B 90.604 149 13 1 1240 1387 328715588 328715440 3.230000e-46 196
14 TraesCS2B01G187300 chr1D 90.476 147 13 1 1241 1387 156133351 156133496 4.170000e-45 193
15 TraesCS2B01G187300 chr7B 89.474 152 15 1 1240 1391 44939696 44939546 1.500000e-44 191


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 TraesCS2B01G187300 chr2B 162625321 162629411 4090 True 7555.000000 7555 100.0000 1 4091 1 chr2B.!!$R1 4090
1 TraesCS2B01G187300 chr2D 112521353 112525892 4539 True 1563.000000 3993 95.7225 74 4091 4 chr2D.!!$R1 4017
2 TraesCS2B01G187300 chr2A 113596300 113600559 4259 True 2080.333333 3125 95.3190 116 4091 3 chr2A.!!$R1 3975

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
283 284 0.753479 GCAGATCTGACGAGGAGGGA 60.753 60.000 27.04 0.00 0.00 4.20 F
628 633 1.757118 TCCTGCCTTTGTATCTCTCCG 59.243 52.381 0.00 0.00 0.00 4.63 F
2346 2363 0.318869 TTTCGCCTGCATTTGTGCTG 60.319 50.000 1.86 1.39 35.49 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1102 1111 0.944386 AGTGTGCCTTTGTAGCAACG 59.056 50.000 0.0 0.0 43.02 4.10 R
2386 2403 0.804989 GAAACCTCATTGCGTCCCAG 59.195 55.000 0.0 0.0 0.00 4.45 R
3311 3914 1.070134 CAAGAGGGGAGTTCGTCAACA 59.930 52.381 0.0 0.0 34.60 3.33 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
27 28 3.728373 GACCCCTCCACCGGCATT 61.728 66.667 0.00 0.00 0.00 3.56
28 29 3.699134 GACCCCTCCACCGGCATTC 62.699 68.421 0.00 0.00 0.00 2.67
29 30 4.856801 CCCCTCCACCGGCATTCG 62.857 72.222 0.00 0.00 38.88 3.34
30 31 3.781307 CCCTCCACCGGCATTCGA 61.781 66.667 0.00 0.00 42.43 3.71
31 32 2.505982 CCTCCACCGGCATTCGAT 59.494 61.111 0.00 0.00 42.43 3.59
32 33 1.153168 CCTCCACCGGCATTCGATT 60.153 57.895 0.00 0.00 42.43 3.34
33 34 1.160329 CCTCCACCGGCATTCGATTC 61.160 60.000 0.00 0.00 42.43 2.52
34 35 1.490693 CTCCACCGGCATTCGATTCG 61.491 60.000 0.00 0.00 42.43 3.34
35 36 2.534019 CCACCGGCATTCGATTCGG 61.534 63.158 0.00 12.49 46.95 4.30
36 37 1.520564 CACCGGCATTCGATTCGGA 60.521 57.895 18.42 0.00 44.69 4.55
37 38 1.227263 ACCGGCATTCGATTCGGAG 60.227 57.895 18.42 0.00 44.69 4.63
38 39 2.598632 CCGGCATTCGATTCGGAGC 61.599 63.158 6.18 7.84 44.69 4.70
39 40 2.598632 CGGCATTCGATTCGGAGCC 61.599 63.158 20.04 20.04 42.43 4.70
40 41 2.254464 GGCATTCGATTCGGAGCCC 61.254 63.158 19.59 7.84 34.43 5.19
41 42 1.523711 GCATTCGATTCGGAGCCCA 60.524 57.895 6.18 0.00 0.00 5.36
42 43 1.502163 GCATTCGATTCGGAGCCCAG 61.502 60.000 6.18 0.00 0.00 4.45
43 44 1.227674 ATTCGATTCGGAGCCCAGC 60.228 57.895 6.18 0.00 0.00 4.85
44 45 1.690219 ATTCGATTCGGAGCCCAGCT 61.690 55.000 6.18 0.00 43.88 4.24
70 71 4.849329 GGCGCGGAGGTACGTGAG 62.849 72.222 8.83 0.00 46.47 3.51
71 72 3.807538 GCGCGGAGGTACGTGAGA 61.808 66.667 8.83 0.00 46.47 3.27
72 73 3.108343 CGCGGAGGTACGTGAGAT 58.892 61.111 0.00 0.00 46.47 2.75
98 99 1.078848 GCCCTGTTGCGAGATCTGT 60.079 57.895 0.00 0.00 0.00 3.41
107 108 2.508891 CGAGATCTGTCGGCGTTGC 61.509 63.158 6.85 0.00 36.26 4.17
219 220 1.221909 GGGGGTTGAGGGAAGGGATT 61.222 60.000 0.00 0.00 0.00 3.01
283 284 0.753479 GCAGATCTGACGAGGAGGGA 60.753 60.000 27.04 0.00 0.00 4.20
341 342 3.582647 TCATTGCACTGGGAGTTTAGAGA 59.417 43.478 4.01 0.00 0.00 3.10
357 358 5.991933 TTAGAGAGGTGGATGATCTATGC 57.008 43.478 0.00 0.00 0.00 3.14
363 364 2.289945 GGTGGATGATCTATGCTGTCCC 60.290 54.545 0.00 0.00 0.00 4.46
381 384 7.031975 GCTGTCCCAATCAAAATAGAGAAAAG 58.968 38.462 0.00 0.00 0.00 2.27
414 417 2.109126 GCGGTGGGTGATCTGCTTC 61.109 63.158 0.00 0.00 33.68 3.86
516 519 7.496920 TGATCCTTATGTTTGTCTAGCTCATTG 59.503 37.037 0.00 0.00 0.00 2.82
517 520 6.115446 TCCTTATGTTTGTCTAGCTCATTGG 58.885 40.000 0.00 0.00 0.00 3.16
522 527 6.899393 TGTTTGTCTAGCTCATTGGAAATT 57.101 33.333 0.00 0.00 0.00 1.82
533 538 4.594970 TCATTGGAAATTGACCCGTATGT 58.405 39.130 0.43 0.00 0.00 2.29
628 633 1.757118 TCCTGCCTTTGTATCTCTCCG 59.243 52.381 0.00 0.00 0.00 4.63
664 672 3.368323 GGGTCACGAGTAATTTTCGGGTA 60.368 47.826 12.26 0.49 41.95 3.69
693 701 3.001533 TCGGAAACTTGCACGTAGTTTTC 59.998 43.478 14.51 12.12 43.76 2.29
751 759 5.997384 ACAAGTAATTCGGGAGTCTACTT 57.003 39.130 0.00 0.00 0.00 2.24
775 783 3.221771 TCAGTGCAATGCTGTTTAAGGT 58.778 40.909 9.79 0.00 35.60 3.50
799 807 5.826601 ATGTTCATGTGTGTGTTTGTGTA 57.173 34.783 0.00 0.00 0.00 2.90
800 808 5.629079 TGTTCATGTGTGTGTTTGTGTAA 57.371 34.783 0.00 0.00 0.00 2.41
801 809 6.201226 TGTTCATGTGTGTGTTTGTGTAAT 57.799 33.333 0.00 0.00 0.00 1.89
802 810 6.625362 TGTTCATGTGTGTGTTTGTGTAATT 58.375 32.000 0.00 0.00 0.00 1.40
803 811 7.762382 TGTTCATGTGTGTGTTTGTGTAATTA 58.238 30.769 0.00 0.00 0.00 1.40
804 812 7.698550 TGTTCATGTGTGTGTTTGTGTAATTAC 59.301 33.333 8.75 8.75 0.00 1.89
835 843 6.015095 AGTGAATCAAACTCCCTGATTTTTCC 60.015 38.462 0.01 0.00 42.27 3.13
846 854 6.081356 TCCCTGATTTTTCCAAGTGGTTTAT 58.919 36.000 0.00 0.00 36.34 1.40
939 948 9.919348 GTGTTTTTACGTGTTGTATTTCTTCTA 57.081 29.630 0.00 0.00 31.81 2.10
1102 1111 8.540507 TCCCTGGATATATTAGATAAGCACTC 57.459 38.462 0.00 0.00 0.00 3.51
1148 1157 1.179152 TGAGGATGTGCAATGCCTTG 58.821 50.000 1.53 0.00 35.36 3.61
1282 1293 9.878599 GTTTTGGATATTTCAATATGGACTACG 57.121 33.333 0.00 0.00 31.96 3.51
1286 1297 8.862085 TGGATATTTCAATATGGACTACGTACA 58.138 33.333 0.00 0.00 31.96 2.90
1306 1317 8.349245 ACGTACAGATTGAAATGAATGAACAAA 58.651 29.630 0.00 0.00 0.00 2.83
1320 1331 8.996988 TGAATGAACAAACATACTAAAACGTC 57.003 30.769 0.00 0.00 0.00 4.34
1335 1346 4.487714 AAACGTCTCCATACACATCCAT 57.512 40.909 0.00 0.00 0.00 3.41
1341 1352 5.674525 GTCTCCATACACATCCATTTCAGA 58.325 41.667 0.00 0.00 0.00 3.27
1550 1561 5.893824 ACTCCCTTGTCTCACAGAAATTTTT 59.106 36.000 0.00 0.00 0.00 1.94
1576 1587 9.159364 TCTATTCATGATTCTCTGTTTGTCTTG 57.841 33.333 0.00 0.00 0.00 3.02
1581 1592 5.192927 TGATTCTCTGTTTGTCTTGTGGTT 58.807 37.500 0.00 0.00 0.00 3.67
1582 1593 6.353323 TGATTCTCTGTTTGTCTTGTGGTTA 58.647 36.000 0.00 0.00 0.00 2.85
1695 1707 9.460019 TTGATAAATGTCTGACCATCAAATACA 57.540 29.630 15.65 0.00 31.41 2.29
1760 1773 2.811431 TGCACCTGACCAAGAATTTACG 59.189 45.455 0.00 0.00 0.00 3.18
1896 1909 6.599638 GCTCTGAGAATGGGTATGTTAGTTTT 59.400 38.462 9.28 0.00 0.00 2.43
2001 2014 9.855021 ATGCACCTATGTTTATTTTTACACTTC 57.145 29.630 0.00 0.00 0.00 3.01
2207 2220 5.107760 CCTTGCACTTCAAAATTGATGTTCG 60.108 40.000 10.85 4.35 41.76 3.95
2219 2232 7.684062 AAATTGATGTTCGTTCACTTTTCAG 57.316 32.000 0.00 0.00 0.00 3.02
2240 2253 5.874810 TCAGTGCCAACTCACATAATAGTTC 59.125 40.000 0.00 0.00 39.35 3.01
2241 2254 5.643348 CAGTGCCAACTCACATAATAGTTCA 59.357 40.000 0.00 0.00 39.35 3.18
2242 2255 5.877012 AGTGCCAACTCACATAATAGTTCAG 59.123 40.000 0.00 0.00 39.35 3.02
2346 2363 0.318869 TTTCGCCTGCATTTGTGCTG 60.319 50.000 1.86 1.39 35.49 4.41
2386 2403 4.081917 AGGAAGAGATGGAAAGACGTCTTC 60.082 45.833 29.82 21.39 39.36 2.87
2424 2441 6.435277 AGGTTTCATTCTTCACATATGTGCTT 59.565 34.615 27.71 9.76 45.25 3.91
2451 2468 6.998074 TGTTTGGCCTATGTATCCTTATCAAG 59.002 38.462 3.32 0.00 0.00 3.02
2712 2954 8.109634 ACATTTAGGGAACATGTTAGTCTGAAT 58.890 33.333 11.95 13.41 0.00 2.57
2774 3016 8.547967 TTTGATTGTAATGAGTTACTGAGGAC 57.452 34.615 0.00 0.00 40.66 3.85
2777 3019 6.665992 TTGTAATGAGTTACTGAGGACTGT 57.334 37.500 0.00 0.00 40.66 3.55
3297 3900 7.177878 ACATGAGATTTCTGAACCCAAGTTAT 58.822 34.615 0.00 0.00 35.94 1.89
3341 3944 3.185455 ACTCCCCTCTTGCTTTCACTAT 58.815 45.455 0.00 0.00 0.00 2.12
3350 3953 9.396022 CCCTCTTGCTTTCACTATATTCTAAAA 57.604 33.333 0.00 0.00 0.00 1.52
3469 4072 3.641437 TGAGAAAACAAAATGCCCTCG 57.359 42.857 0.00 0.00 0.00 4.63
3489 4092 3.876914 TCGTGCTTTTCACTTTCATCAGT 59.123 39.130 0.00 0.00 43.46 3.41
3597 4201 3.143807 TCACACTGTTTTCTTTTGCCG 57.856 42.857 0.00 0.00 0.00 5.69
3637 4242 4.918810 TTTTTCAGTTCTTCCCTTCAGC 57.081 40.909 0.00 0.00 0.00 4.26
3821 4426 5.445964 AGTTAGATCTGGTTTGTGGTGTTT 58.554 37.500 5.18 0.00 0.00 2.83
3848 4453 6.149807 TGCTAGAAGTTTTTATTTACCACCCG 59.850 38.462 0.00 0.00 0.00 5.28
3898 4503 6.150474 ACCTGTACCATTGTGTAATTTACTGC 59.850 38.462 7.99 2.36 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 3.699134 GAATGCCGGTGGAGGGGTC 62.699 68.421 1.90 0.00 0.00 4.46
11 12 3.728373 GAATGCCGGTGGAGGGGT 61.728 66.667 1.90 0.00 0.00 4.95
12 13 4.856801 CGAATGCCGGTGGAGGGG 62.857 72.222 1.90 0.00 33.91 4.79
13 14 2.608970 AATCGAATGCCGGTGGAGGG 62.609 60.000 1.90 0.00 39.14 4.30
14 15 1.153168 AATCGAATGCCGGTGGAGG 60.153 57.895 1.90 0.00 39.14 4.30
15 16 1.490693 CGAATCGAATGCCGGTGGAG 61.491 60.000 1.90 0.00 39.14 3.86
16 17 1.520564 CGAATCGAATGCCGGTGGA 60.521 57.895 1.90 0.00 39.14 4.02
17 18 2.534019 CCGAATCGAATGCCGGTGG 61.534 63.158 3.36 0.00 39.14 4.61
18 19 1.490693 CTCCGAATCGAATGCCGGTG 61.491 60.000 3.36 10.33 42.34 4.94
19 20 1.227263 CTCCGAATCGAATGCCGGT 60.227 57.895 3.36 0.00 42.34 5.28
20 21 2.598632 GCTCCGAATCGAATGCCGG 61.599 63.158 3.36 0.00 43.02 6.13
21 22 2.598632 GGCTCCGAATCGAATGCCG 61.599 63.158 3.36 0.00 40.25 5.69
22 23 2.254464 GGGCTCCGAATCGAATGCC 61.254 63.158 19.21 19.21 36.33 4.40
23 24 1.502163 CTGGGCTCCGAATCGAATGC 61.502 60.000 3.36 5.10 0.00 3.56
24 25 1.502163 GCTGGGCTCCGAATCGAATG 61.502 60.000 3.36 0.00 0.00 2.67
25 26 1.227674 GCTGGGCTCCGAATCGAAT 60.228 57.895 3.36 0.00 0.00 3.34
26 27 2.186903 GCTGGGCTCCGAATCGAA 59.813 61.111 3.36 0.00 0.00 3.71
27 28 2.759973 AGCTGGGCTCCGAATCGA 60.760 61.111 3.36 0.00 30.62 3.59
53 54 4.849329 CTCACGTACCTCCGCGCC 62.849 72.222 0.00 0.00 0.00 6.53
54 55 2.985486 GATCTCACGTACCTCCGCGC 62.985 65.000 0.00 0.00 0.00 6.86
55 56 1.009900 GATCTCACGTACCTCCGCG 60.010 63.158 0.00 0.00 0.00 6.46
56 57 1.359475 GGATCTCACGTACCTCCGC 59.641 63.158 0.00 0.00 0.00 5.54
57 58 1.783031 CGGGATCTCACGTACCTCCG 61.783 65.000 0.00 0.00 38.11 4.63
58 59 1.453762 CCGGGATCTCACGTACCTCC 61.454 65.000 0.00 0.00 42.08 4.30
59 60 2.031360 CCGGGATCTCACGTACCTC 58.969 63.158 0.00 0.00 42.08 3.85
60 61 2.125961 GCCGGGATCTCACGTACCT 61.126 63.158 2.18 0.00 42.08 3.08
61 62 2.416260 GCCGGGATCTCACGTACC 59.584 66.667 2.18 0.00 42.08 3.34
62 63 2.416260 GGCCGGGATCTCACGTAC 59.584 66.667 2.18 0.00 42.08 3.67
63 64 3.214123 CGGCCGGGATCTCACGTA 61.214 66.667 20.10 0.00 42.08 3.57
179 180 2.279502 GATCACGCGGACTACAGCCA 62.280 60.000 12.47 0.00 33.92 4.75
283 284 4.547367 GGCGCGCAACCCTAGGAT 62.547 66.667 34.42 0.00 0.00 3.24
341 342 2.636893 GGACAGCATAGATCATCCACCT 59.363 50.000 0.00 0.00 0.00 4.00
357 358 8.115490 ACTTTTCTCTATTTTGATTGGGACAG 57.885 34.615 0.00 0.00 42.39 3.51
381 384 5.007332 CACCCACCGCTAATACTATTTCAAC 59.993 44.000 0.00 0.00 0.00 3.18
414 417 8.725148 ACAGCTAACATAAACAAAGATCAGAAG 58.275 33.333 0.00 0.00 0.00 2.85
498 501 7.177216 TCAATTTCCAATGAGCTAGACAAACAT 59.823 33.333 0.00 0.00 0.00 2.71
516 519 4.776795 ACAAACATACGGGTCAATTTCC 57.223 40.909 0.00 0.00 0.00 3.13
517 520 5.798434 GCTTACAAACATACGGGTCAATTTC 59.202 40.000 0.00 0.00 0.00 2.17
522 527 3.404224 TGCTTACAAACATACGGGTCA 57.596 42.857 0.00 0.00 0.00 4.02
533 538 6.198687 GCATATTCGCTGTTATGCTTACAAA 58.801 36.000 11.95 0.00 44.62 2.83
600 605 1.901591 ACAAAGGCAGGATCACACAG 58.098 50.000 0.00 0.00 0.00 3.66
628 633 0.183492 TGACCCATGCCTAGCAATCC 59.817 55.000 0.00 0.00 43.62 3.01
664 672 1.537202 GTGCAAGTTTCCGAGCTCATT 59.463 47.619 15.40 0.00 0.00 2.57
693 701 7.636150 ATCAGTATTCTCATTTCCAACCAAG 57.364 36.000 0.00 0.00 0.00 3.61
751 759 5.476599 ACCTTAAACAGCATTGCACTGATTA 59.523 36.000 11.91 4.98 38.55 1.75
775 783 6.201226 ACACAAACACACACATGAACATAA 57.799 33.333 0.00 0.00 0.00 1.90
801 809 9.667107 CAGGGAGTTTGATTCACTAATTAGTAA 57.333 33.333 17.62 12.35 34.13 2.24
802 810 9.042450 TCAGGGAGTTTGATTCACTAATTAGTA 57.958 33.333 17.62 4.20 34.13 1.82
803 811 7.918076 TCAGGGAGTTTGATTCACTAATTAGT 58.082 34.615 12.50 12.50 36.90 2.24
804 812 8.970859 ATCAGGGAGTTTGATTCACTAATTAG 57.029 34.615 11.05 11.05 31.40 1.73
846 854 3.054655 GGGCTGAGGACACTTTGGTTATA 60.055 47.826 0.00 0.00 0.00 0.98
1102 1111 0.944386 AGTGTGCCTTTGTAGCAACG 59.056 50.000 0.00 0.00 43.02 4.10
1109 1118 3.953612 TCAATGAAGAAGTGTGCCTTTGT 59.046 39.130 0.00 0.00 32.03 2.83
1148 1157 5.796350 ATGTCCGCTAATACTGAAAACAC 57.204 39.130 0.00 0.00 0.00 3.32
1282 1293 9.462174 TGTTTGTTCATTCATTTCAATCTGTAC 57.538 29.630 0.00 0.00 0.00 2.90
1306 1317 6.927416 TGTGTATGGAGACGTTTTAGTATGT 58.073 36.000 0.00 0.00 0.00 2.29
1320 1331 7.395190 TTTTCTGAAATGGATGTGTATGGAG 57.605 36.000 3.31 0.00 0.00 3.86
1550 1561 9.159364 CAAGACAAACAGAGAATCATGAATAGA 57.841 33.333 0.00 0.00 37.82 1.98
1565 1576 7.383843 ACAAAGTTTTAACCACAAGACAAACAG 59.616 33.333 0.00 0.00 0.00 3.16
1576 1587 7.522374 TGCATGAAAAACAAAGTTTTAACCAC 58.478 30.769 8.14 1.08 30.87 4.16
1581 1592 6.314896 CCACCTGCATGAAAAACAAAGTTTTA 59.685 34.615 8.14 0.00 30.87 1.52
1582 1593 5.123661 CCACCTGCATGAAAAACAAAGTTTT 59.876 36.000 0.00 2.26 33.40 2.43
1741 1753 2.811431 TGCGTAAATTCTTGGTCAGGTG 59.189 45.455 0.00 0.00 0.00 4.00
2207 2220 3.128589 TGAGTTGGCACTGAAAAGTGAAC 59.871 43.478 9.97 6.26 42.02 3.18
2219 2232 5.447818 GCTGAACTATTATGTGAGTTGGCAC 60.448 44.000 0.00 0.00 36.04 5.01
2221 2234 4.635765 TGCTGAACTATTATGTGAGTTGGC 59.364 41.667 0.00 0.00 36.04 4.52
2223 2236 5.583854 AGCTGCTGAACTATTATGTGAGTTG 59.416 40.000 0.00 0.00 36.04 3.16
2240 2253 2.483491 GGAAGACAAGAAGAAGCTGCTG 59.517 50.000 1.35 0.00 0.00 4.41
2241 2254 2.105477 TGGAAGACAAGAAGAAGCTGCT 59.895 45.455 0.00 0.00 0.00 4.24
2242 2255 2.498167 TGGAAGACAAGAAGAAGCTGC 58.502 47.619 0.00 0.00 0.00 5.25
2346 2363 4.755123 TCTTCCTCGGAACAATTGAAGAAC 59.245 41.667 13.59 0.00 36.29 3.01
2386 2403 0.804989 GAAACCTCATTGCGTCCCAG 59.195 55.000 0.00 0.00 0.00 4.45
2424 2441 8.213489 TGATAAGGATACATAGGCCAAACATA 57.787 34.615 5.01 0.00 41.41 2.29
2451 2468 1.961394 GGAAACAGGAAAAGGGTGGTC 59.039 52.381 0.00 0.00 0.00 4.02
2700 2942 5.306937 TGTTCCTTCAGGATTCAGACTAACA 59.693 40.000 0.00 0.00 44.98 2.41
2712 2954 5.285401 TCCCAGTATATTGTTCCTTCAGGA 58.715 41.667 0.00 0.00 43.73 3.86
3297 3900 8.771920 AGTTCGTCAACATGAGATATTTACAA 57.228 30.769 0.00 0.00 34.60 2.41
3311 3914 1.070134 CAAGAGGGGAGTTCGTCAACA 59.930 52.381 0.00 0.00 34.60 3.33
3312 3915 1.797025 CAAGAGGGGAGTTCGTCAAC 58.203 55.000 0.00 0.00 0.00 3.18
3350 3953 6.324512 AGCAGATGACTCATTCAGAAGATAGT 59.675 38.462 0.00 0.00 37.77 2.12
3502 4105 3.282021 GCATAAGGCACATTCAGAAGGA 58.718 45.455 0.81 0.00 43.97 3.36
3614 4219 6.068010 TGCTGAAGGGAAGAACTGAAAAATA 58.932 36.000 0.00 0.00 0.00 1.40
3615 4220 4.895297 TGCTGAAGGGAAGAACTGAAAAAT 59.105 37.500 0.00 0.00 0.00 1.82
3821 4426 7.392393 GGGTGGTAAATAAAAACTTCTAGCAGA 59.608 37.037 0.00 0.00 0.00 4.26
3848 4453 4.394920 CACTACATGGGATACACCAACAAC 59.605 45.833 0.00 0.00 45.13 3.32


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

AutoCloner maintained by Alex Coulton.