Multiple sequence alignment - TraesCS7D01G292000

Loading Multiple Alignment...

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 TraesCS7D01G292000 chr7D 100.000 4616 0 0 1 4616 353085621 353081006 0.000000e+00 8525.0
1 TraesCS7D01G292000 chr7D 92.562 121 8 1 4365 4485 259829853 259829972 6.140000e-39 172.0
2 TraesCS7D01G292000 chr7D 96.226 53 2 0 3381 3433 599187374 599187322 2.290000e-13 87.9
3 TraesCS7D01G292000 chr7D 88.889 45 4 1 384 427 577705343 577705299 2.000000e-03 54.7
4 TraesCS7D01G292000 chr7B 95.964 3791 99 21 439 4195 299249884 299246114 0.000000e+00 6104.0
5 TraesCS7D01G292000 chr7B 95.592 363 16 0 4254 4616 299245887 299245525 2.390000e-162 582.0
6 TraesCS7D01G292000 chr7B 89.752 322 25 1 1 322 299253154 299252841 5.560000e-109 405.0
7 TraesCS7D01G292000 chr7B 91.189 227 19 1 4097 4323 299246113 299245888 1.610000e-79 307.0
8 TraesCS7D01G292000 chr7A 97.148 2840 56 10 443 3267 402046119 402043290 0.000000e+00 4772.0
9 TraesCS7D01G292000 chr7A 96.419 726 24 2 3254 3978 402041838 402041114 0.000000e+00 1195.0
10 TraesCS7D01G292000 chr7A 91.342 231 19 1 3967 4197 401926621 401926392 9.640000e-82 315.0
11 TraesCS7D01G292000 chr7A 93.171 205 14 0 118 322 402046464 402046260 7.510000e-78 302.0
12 TraesCS7D01G292000 chr7A 90.141 213 18 1 4193 4402 401922208 401921996 1.640000e-69 274.0
13 TraesCS7D01G292000 chr7A 93.182 132 9 0 8 139 402047096 402046965 1.310000e-45 195.0
14 TraesCS7D01G292000 chr1A 91.496 341 17 5 1469 1805 590771834 590772166 4.210000e-125 459.0
15 TraesCS7D01G292000 chr1A 82.677 127 21 1 4222 4347 549242518 549242392 1.360000e-20 111.0
16 TraesCS7D01G292000 chr1A 93.478 46 2 1 379 423 26262213 26262168 2.980000e-07 67.6
17 TraesCS7D01G292000 chr5A 93.701 127 8 0 4490 4616 313911043 313911169 1.700000e-44 191.0
18 TraesCS7D01G292000 chr5A 91.406 128 11 0 4489 4616 633313625 633313498 4.750000e-40 176.0
19 TraesCS7D01G292000 chr5B 92.188 128 10 0 4489 4616 263612658 263612785 1.020000e-41 182.0
20 TraesCS7D01G292000 chr5B 86.111 144 11 9 4352 4491 214858873 214859011 3.720000e-31 147.0
21 TraesCS7D01G292000 chr5B 86.792 53 6 1 380 431 665185876 665185824 1.790000e-04 58.4
22 TraesCS7D01G292000 chr6B 91.538 130 11 0 4485 4614 80138496 80138367 3.670000e-41 180.0
23 TraesCS7D01G292000 chr6B 87.143 140 11 7 4354 4491 474615863 474615997 8.000000e-33 152.0
24 TraesCS7D01G292000 chr6B 85.915 142 12 7 4353 4491 503303827 503303963 1.340000e-30 145.0
25 TraesCS7D01G292000 chr6B 85.816 141 14 6 4353 4491 544608938 544608802 1.340000e-30 145.0
26 TraesCS7D01G292000 chr5D 92.188 128 8 2 4490 4616 264875673 264875799 3.670000e-41 180.0
27 TraesCS7D01G292000 chr5D 85.034 147 15 6 4349 4491 560163855 560163712 4.810000e-30 143.0
28 TraesCS7D01G292000 chr5D 94.545 55 3 0 3381 3435 33062402 33062348 8.230000e-13 86.1
29 TraesCS7D01G292000 chr3B 92.126 127 10 0 4490 4616 241500353 241500479 3.670000e-41 180.0
30 TraesCS7D01G292000 chr1B 92.000 125 10 0 4490 4614 189578162 189578038 4.750000e-40 176.0
31 TraesCS7D01G292000 chr3A 91.406 128 10 1 4489 4616 203672163 203672289 1.710000e-39 174.0
32 TraesCS7D01G292000 chr2B 86.111 144 10 8 4352 4491 476158842 476158705 3.720000e-31 147.0
33 TraesCS7D01G292000 chr2B 85.135 148 15 5 4345 4490 644443183 644443325 1.340000e-30 145.0
34 TraesCS7D01G292000 chrUn 94.340 53 3 0 3381 3433 367858057 367858005 1.060000e-11 82.4
35 TraesCS7D01G292000 chr6A 94.340 53 3 0 3381 3433 93310499 93310551 1.060000e-11 82.4
36 TraesCS7D01G292000 chr6A 94.340 53 3 0 3381 3433 93344636 93344688 1.060000e-11 82.4
37 TraesCS7D01G292000 chr4D 94.340 53 3 0 3381 3433 315903860 315903808 1.060000e-11 82.4
38 TraesCS7D01G292000 chr4D 97.619 42 0 1 383 423 46178962 46179003 2.300000e-08 71.3
39 TraesCS7D01G292000 chr1D 92.857 56 3 1 3378 3433 432549946 432549892 3.830000e-11 80.5
40 TraesCS7D01G292000 chr2A 100.000 31 0 0 1364 1394 655279246 655279276 1.790000e-04 58.4


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 TraesCS7D01G292000 chr7D 353081006 353085621 4615 True 8525.0 8525 100.00000 1 4616 1 chr7D.!!$R1 4615
1 TraesCS7D01G292000 chr7B 299245525 299253154 7629 True 1849.5 6104 93.12425 1 4616 4 chr7B.!!$R1 4615
2 TraesCS7D01G292000 chr7A 402041114 402047096 5982 True 1616.0 4772 94.98000 8 3978 4 chr7A.!!$R3 3970

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
476 3901 0.180642 GGGGAGGGGACGATCTTTTC 59.819 60.000 0.0 0.0 0.0 2.29 F
729 4160 0.250553 ATAGCCTCTCCGTCTCTCCG 60.251 60.000 0.0 0.0 0.0 4.63 F
2087 5539 1.283029 CACATCCTCCTGTTCATGGGT 59.717 52.381 0.0 0.0 0.0 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2150 5602 0.679002 CACCCTGAATCACCAGCCAG 60.679 60.000 0.00 0.00 32.97 4.85 R
2204 5656 1.419012 CTGAAGCCCCTAGATGCATCA 59.581 52.381 27.81 13.12 34.45 3.07 R
3720 8660 0.250295 TTGCAGGTGAGTGGCAGTAC 60.250 55.000 0.00 0.00 38.97 2.73 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 1.812507 GGACATACGACCGTTGCCC 60.813 63.158 0.00 0.00 0.00 5.36
81 82 5.534278 TCCACTTGAACTGATGCATTTGTTA 59.466 36.000 15.16 4.10 0.00 2.41
160 683 5.952347 AGGTGTTTCGACTATTTAGGGAT 57.048 39.130 0.00 0.00 0.00 3.85
168 691 6.097915 TCGACTATTTAGGGATGACATTCC 57.902 41.667 4.34 4.34 34.83 3.01
269 792 0.599204 CTAACGTGCCGACAAGGTGT 60.599 55.000 0.00 0.00 43.70 4.16
331 3756 4.469586 TGAGGTTGAGGCATGTACTTATCA 59.530 41.667 0.00 0.00 0.00 2.15
351 3776 4.109050 TCATTTTTGTGCGTCAAAGGAAC 58.891 39.130 6.90 0.00 45.14 3.62
363 3788 2.955660 TCAAAGGAACTGCCGTGAAATT 59.044 40.909 0.00 0.00 40.86 1.82
371 3796 5.520649 GGAACTGCCGTGAAATTAAAACAAA 59.479 36.000 0.00 0.00 0.00 2.83
376 3801 6.205784 TGCCGTGAAATTAAAACAAAGAGAG 58.794 36.000 0.00 0.00 0.00 3.20
377 3802 5.629435 GCCGTGAAATTAAAACAAAGAGAGG 59.371 40.000 0.00 0.00 0.00 3.69
378 3803 6.149633 CCGTGAAATTAAAACAAAGAGAGGG 58.850 40.000 0.00 0.00 0.00 4.30
379 3804 6.149633 CGTGAAATTAAAACAAAGAGAGGGG 58.850 40.000 0.00 0.00 0.00 4.79
380 3805 6.016610 CGTGAAATTAAAACAAAGAGAGGGGA 60.017 38.462 0.00 0.00 0.00 4.81
381 3806 7.145985 GTGAAATTAAAACAAAGAGAGGGGAC 58.854 38.462 0.00 0.00 0.00 4.46
407 3832 6.435430 TGTGATACATGTGGTAAGCAATTC 57.565 37.500 9.11 0.00 35.14 2.17
408 3833 5.942826 TGTGATACATGTGGTAAGCAATTCA 59.057 36.000 9.11 0.00 35.14 2.57
409 3834 6.432472 TGTGATACATGTGGTAAGCAATTCAA 59.568 34.615 9.11 0.00 35.14 2.69
410 3835 7.040132 TGTGATACATGTGGTAAGCAATTCAAA 60.040 33.333 9.11 0.00 35.14 2.69
411 3836 7.273381 GTGATACATGTGGTAAGCAATTCAAAC 59.727 37.037 9.11 0.00 35.14 2.93
412 3837 5.789643 ACATGTGGTAAGCAATTCAAACT 57.210 34.783 0.00 0.00 0.00 2.66
413 3838 6.892658 ACATGTGGTAAGCAATTCAAACTA 57.107 33.333 0.00 0.00 0.00 2.24
414 3839 7.466746 ACATGTGGTAAGCAATTCAAACTAT 57.533 32.000 0.00 0.00 0.00 2.12
415 3840 7.895759 ACATGTGGTAAGCAATTCAAACTATT 58.104 30.769 0.00 0.00 0.00 1.73
416 3841 9.019656 ACATGTGGTAAGCAATTCAAACTATTA 57.980 29.630 0.00 0.00 0.00 0.98
417 3842 9.853555 CATGTGGTAAGCAATTCAAACTATTAA 57.146 29.630 0.00 0.00 0.00 1.40
476 3901 0.180642 GGGGAGGGGACGATCTTTTC 59.819 60.000 0.00 0.00 0.00 2.29
642 4067 1.336887 GCTTCTCCACTGCAGTAACGA 60.337 52.381 21.20 14.03 0.00 3.85
728 4159 1.989706 AATAGCCTCTCCGTCTCTCC 58.010 55.000 0.00 0.00 0.00 3.71
729 4160 0.250553 ATAGCCTCTCCGTCTCTCCG 60.251 60.000 0.00 0.00 0.00 4.63
1374 4823 1.758906 CCCCTTCGAGGAGGAGGAC 60.759 68.421 4.64 0.00 37.67 3.85
2087 5539 1.283029 CACATCCTCCTGTTCATGGGT 59.717 52.381 0.00 0.00 0.00 4.51
2132 5584 6.981762 AGCATGTTTCACAAAAATCAACAA 57.018 29.167 0.00 0.00 31.39 2.83
2150 5602 4.519540 ACAAGTAACATGTTGGGCAATC 57.480 40.909 21.42 3.23 0.00 2.67
2204 5656 0.320946 TCCGCGGGATCGAAAAGTTT 60.321 50.000 27.83 0.00 39.00 2.66
2213 5665 4.096984 GGGATCGAAAAGTTTGATGCATCT 59.903 41.667 26.32 5.12 32.76 2.90
2286 5738 2.396601 CTCTTCGCTCATCTCATCAGC 58.603 52.381 0.00 0.00 0.00 4.26
2290 5742 2.301346 TCGCTCATCTCATCAGCACTA 58.699 47.619 0.00 0.00 32.27 2.74
2490 5942 1.810030 GCAAGTAGGGCGGAGTTCG 60.810 63.158 0.00 0.00 42.76 3.95
2491 5943 1.153628 CAAGTAGGGCGGAGTTCGG 60.154 63.158 0.00 0.00 39.69 4.30
2492 5944 1.304713 AAGTAGGGCGGAGTTCGGA 60.305 57.895 0.00 0.00 39.69 4.55
2493 5945 1.321074 AAGTAGGGCGGAGTTCGGAG 61.321 60.000 0.00 0.00 39.69 4.63
2494 5946 2.050934 GTAGGGCGGAGTTCGGAGT 61.051 63.158 0.00 0.00 39.69 3.85
2659 6111 6.456988 GCACAATGCTACAGAGGTATTTACAC 60.457 42.308 0.00 0.00 40.96 2.90
2665 6117 8.712285 TGCTACAGAGGTATTTACACATTTAC 57.288 34.615 0.00 0.00 0.00 2.01
2854 6306 8.388103 GCTGTTACACTACCACACATTAAATAG 58.612 37.037 0.00 0.00 0.00 1.73
2896 6348 3.498397 CGATGAAATATTCCTCGGGGTTG 59.502 47.826 0.00 0.00 41.89 3.77
3220 6688 3.667360 ACAAGAAATTTTGCCATGCCTC 58.333 40.909 0.00 0.00 0.00 4.70
3276 8209 5.886715 TCAAAGCAACATCACAATTTTCG 57.113 34.783 0.00 0.00 0.00 3.46
3333 8266 5.935206 TCACAATCAAGTATTTGTTCGCCTA 59.065 36.000 0.00 0.00 35.73 3.93
3344 8277 8.974408 AGTATTTGTTCGCCTAAAAATGTTTTC 58.026 29.630 0.00 0.00 0.00 2.29
3371 8304 3.183754 TCCGCATACAGTGTTCATAACG 58.816 45.455 0.00 0.00 0.00 3.18
3427 8360 7.651027 ATTAGCTAAAAATGGAGCATCAAGT 57.349 32.000 10.85 0.00 41.36 3.16
3484 8424 6.484364 TCTTGCCACATGATAGTCTAATCA 57.516 37.500 0.00 0.00 40.07 2.57
3706 8646 4.219944 AGAGAGCGACAACATAGGTTACAA 59.780 41.667 0.00 0.00 34.87 2.41
3720 8660 5.200368 AGGTTACAACATTGAAAGGCTTG 57.800 39.130 0.00 0.00 0.00 4.01
3739 8679 0.250295 GTACTGCCACTCACCTGCAA 60.250 55.000 0.00 0.00 34.06 4.08
3894 8834 6.100404 AGAGCAAGACCTATCTCATGAATC 57.900 41.667 0.00 0.00 32.34 2.52
3961 8901 1.350684 TCTGCTGAAGTATGTTGCCCA 59.649 47.619 0.00 0.00 0.00 5.36
4028 8968 1.290639 GATCTAGGCTACTGGCGGC 59.709 63.158 0.00 0.00 44.18 6.53
4075 9015 2.741211 GTCGGGGCGGTTCTTCAC 60.741 66.667 0.00 0.00 0.00 3.18
4082 9022 1.228657 GGCGGTTCTTCACTGGTCAC 61.229 60.000 0.00 0.00 31.45 3.67
4086 9026 1.068741 GGTTCTTCACTGGTCACGACT 59.931 52.381 0.00 0.00 0.00 4.18
4097 9037 0.963962 GTCACGACTGTGTTCCCCTA 59.036 55.000 0.00 0.00 46.49 3.53
4134 9074 2.125106 ACGGCCGCCTTTGATCTC 60.125 61.111 28.58 0.00 0.00 2.75
4137 9077 2.517166 GCCGCCTTTGATCTCCCC 60.517 66.667 0.00 0.00 0.00 4.81
4305 9413 1.750399 ATGTTCTCATGCGGTGGCC 60.750 57.895 0.00 0.00 38.85 5.36
4310 9418 3.925630 CTCATGCGGTGGCCAAGGT 62.926 63.158 7.24 0.00 38.85 3.50
4347 9455 0.387367 ACCGCATCATATCGACGAGC 60.387 55.000 3.01 0.00 0.00 5.03
4438 9546 3.644966 AACAAGACACAAGGGAGACAA 57.355 42.857 0.00 0.00 0.00 3.18
4469 9577 0.905357 CAGGTTCGGGTCCTCTCAAT 59.095 55.000 0.00 0.00 32.37 2.57
4498 9606 1.524863 CCCTACGTCCTGGATAGCGG 61.525 65.000 0.00 0.00 0.00 5.52
4503 9611 1.006832 CGTCCTGGATAGCGGTTTTG 58.993 55.000 0.00 0.00 0.00 2.44
4506 9614 0.751643 CCTGGATAGCGGTTTTGGGG 60.752 60.000 0.00 0.00 0.00 4.96
4523 9631 8.270030 GGTTTTGGGGTGAAGTATTAGTAGTAT 58.730 37.037 0.00 0.00 0.00 2.12
4554 9662 8.768397 AGTTGGATTAATGGTCTACTTATCACA 58.232 33.333 0.00 0.00 0.00 3.58
4556 9664 7.735917 TGGATTAATGGTCTACTTATCACAGG 58.264 38.462 0.00 0.00 0.00 4.00
4572 9680 6.605471 ATCACAGGCGTAATTCCTATATGA 57.395 37.500 0.00 0.00 31.52 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 2.356695 GGGTTGGGTTTCGAATTATCCG 59.643 50.000 0.00 0.00 0.00 4.18
55 56 2.936919 TGCATCAGTTCAAGTGGAGT 57.063 45.000 0.00 0.00 0.00 3.85
81 82 1.873270 GCAACGGGGGCGAAGAATTT 61.873 55.000 0.00 0.00 0.00 1.82
160 683 1.234821 GTTGGCGTTGAGGAATGTCA 58.765 50.000 0.00 0.00 30.61 3.58
168 691 3.274196 CGAATTCGTTGGCGTTGAG 57.726 52.632 19.67 0.00 39.49 3.02
269 792 1.263356 CCACCTTTACTCCTCACCGA 58.737 55.000 0.00 0.00 0.00 4.69
273 796 1.980052 CGGCCACCTTTACTCCTCA 59.020 57.895 2.24 0.00 0.00 3.86
306 829 4.307032 AAGTACATGCCTCAACCTCATT 57.693 40.909 0.00 0.00 0.00 2.57
331 3756 4.111916 CAGTTCCTTTGACGCACAAAAAT 58.888 39.130 9.10 0.00 45.97 1.82
351 3776 6.205784 TCTCTTTGTTTTAATTTCACGGCAG 58.794 36.000 0.00 0.00 0.00 4.85
363 3788 4.105697 ACATGGTCCCCTCTCTTTGTTTTA 59.894 41.667 0.00 0.00 0.00 1.52
371 3796 2.023015 TGTATCACATGGTCCCCTCTCT 60.023 50.000 0.00 0.00 0.00 3.10
383 3808 6.602803 TGAATTGCTTACCACATGTATCACAT 59.397 34.615 0.00 0.00 39.91 3.21
384 3809 5.942826 TGAATTGCTTACCACATGTATCACA 59.057 36.000 0.00 0.00 0.00 3.58
385 3810 6.435430 TGAATTGCTTACCACATGTATCAC 57.565 37.500 0.00 0.00 0.00 3.06
386 3811 7.176515 AGTTTGAATTGCTTACCACATGTATCA 59.823 33.333 0.00 0.00 0.00 2.15
387 3812 7.538575 AGTTTGAATTGCTTACCACATGTATC 58.461 34.615 0.00 0.00 0.00 2.24
388 3813 7.466746 AGTTTGAATTGCTTACCACATGTAT 57.533 32.000 0.00 0.00 0.00 2.29
389 3814 6.892658 AGTTTGAATTGCTTACCACATGTA 57.107 33.333 0.00 0.00 0.00 2.29
390 3815 5.789643 AGTTTGAATTGCTTACCACATGT 57.210 34.783 0.00 0.00 0.00 3.21
391 3816 9.853555 TTAATAGTTTGAATTGCTTACCACATG 57.146 29.630 0.00 0.00 0.00 3.21
418 3843 3.566351 CCAGTCCCCTCTCTTTGTTTTT 58.434 45.455 0.00 0.00 0.00 1.94
419 3844 2.158460 CCCAGTCCCCTCTCTTTGTTTT 60.158 50.000 0.00 0.00 0.00 2.43
420 3845 1.425448 CCCAGTCCCCTCTCTTTGTTT 59.575 52.381 0.00 0.00 0.00 2.83
421 3846 1.068121 CCCAGTCCCCTCTCTTTGTT 58.932 55.000 0.00 0.00 0.00 2.83
422 3847 0.842467 CCCCAGTCCCCTCTCTTTGT 60.842 60.000 0.00 0.00 0.00 2.83
423 3848 0.547712 TCCCCAGTCCCCTCTCTTTG 60.548 60.000 0.00 0.00 0.00 2.77
424 3849 0.547954 GTCCCCAGTCCCCTCTCTTT 60.548 60.000 0.00 0.00 0.00 2.52
425 3850 1.081277 GTCCCCAGTCCCCTCTCTT 59.919 63.158 0.00 0.00 0.00 2.85
426 3851 2.781406 GTCCCCAGTCCCCTCTCT 59.219 66.667 0.00 0.00 0.00 3.10
427 3852 2.760385 CGTCCCCAGTCCCCTCTC 60.760 72.222 0.00 0.00 0.00 3.20
428 3853 3.602030 ACGTCCCCAGTCCCCTCT 61.602 66.667 0.00 0.00 0.00 3.69
429 3854 3.391382 CACGTCCCCAGTCCCCTC 61.391 72.222 0.00 0.00 0.00 4.30
430 3855 4.250170 ACACGTCCCCAGTCCCCT 62.250 66.667 0.00 0.00 0.00 4.79
431 3856 4.016706 CACACGTCCCCAGTCCCC 62.017 72.222 0.00 0.00 0.00 4.81
432 3857 4.016706 CCACACGTCCCCAGTCCC 62.017 72.222 0.00 0.00 0.00 4.46
433 3858 2.920912 TCCACACGTCCCCAGTCC 60.921 66.667 0.00 0.00 0.00 3.85
434 3859 2.657237 CTCCACACGTCCCCAGTC 59.343 66.667 0.00 0.00 0.00 3.51
435 3860 2.923035 CCTCCACACGTCCCCAGT 60.923 66.667 0.00 0.00 0.00 4.00
436 3861 4.394712 GCCTCCACACGTCCCCAG 62.395 72.222 0.00 0.00 0.00 4.45
536 3961 3.827898 CGGGTGGCCTCTCGTCTC 61.828 72.222 18.91 0.00 0.00 3.36
642 4067 2.554272 CGCGCGCTGGTTTTACTT 59.446 55.556 30.48 0.00 0.00 2.24
728 4159 1.157870 GCCGAGAGAGAGGAGAGACG 61.158 65.000 0.00 0.00 0.00 4.18
729 4160 1.157870 CGCCGAGAGAGAGGAGAGAC 61.158 65.000 0.00 0.00 0.00 3.36
891 4340 0.900647 AGGAAGCTCGTACCTGTGCT 60.901 55.000 0.00 0.00 40.17 4.40
2087 5539 7.446769 TGCTAACTGTCCTAGTGAAACAAATA 58.553 34.615 0.00 0.00 41.43 1.40
2132 5584 3.091545 CCAGATTGCCCAACATGTTACT 58.908 45.455 11.53 0.17 0.00 2.24
2150 5602 0.679002 CACCCTGAATCACCAGCCAG 60.679 60.000 0.00 0.00 32.97 4.85
2204 5656 1.419012 CTGAAGCCCCTAGATGCATCA 59.581 52.381 27.81 13.12 34.45 3.07
2213 5665 2.919602 AGTGGAAATTCTGAAGCCCCTA 59.080 45.455 0.00 0.00 0.00 3.53
2271 5723 2.789491 TAGTGCTGATGAGATGAGCG 57.211 50.000 0.00 0.00 42.77 5.03
2286 5738 9.755804 TGCAAAGATTCTCTCATTAGTATAGTG 57.244 33.333 0.00 0.00 0.00 2.74
2290 5742 8.703743 AGAGTGCAAAGATTCTCTCATTAGTAT 58.296 33.333 0.00 0.00 32.72 2.12
2488 5940 3.369756 CGCAAATAAAACTGCTACTCCGA 59.630 43.478 0.00 0.00 36.38 4.55
2490 5942 4.153475 TCACGCAAATAAAACTGCTACTCC 59.847 41.667 0.00 0.00 36.38 3.85
2491 5943 5.277601 TCACGCAAATAAAACTGCTACTC 57.722 39.130 0.00 0.00 36.38 2.59
2492 5944 5.682943 TTCACGCAAATAAAACTGCTACT 57.317 34.783 0.00 0.00 36.38 2.57
2493 5945 4.320953 GCTTCACGCAAATAAAACTGCTAC 59.679 41.667 0.00 0.00 38.92 3.58
2494 5946 4.472286 GCTTCACGCAAATAAAACTGCTA 58.528 39.130 0.00 0.00 38.92 3.49
2659 6111 6.486657 AGAAATCATACATGGGACGGTAAATG 59.513 38.462 0.00 0.00 0.00 2.32
2665 6117 5.997746 ACATAAGAAATCATACATGGGACGG 59.002 40.000 0.00 0.00 0.00 4.79
2694 6146 5.104277 TGAGAAGTCCAAAGGTGTAAAAGGA 60.104 40.000 0.00 0.00 0.00 3.36
2896 6348 4.257731 GAGTGGAGGAGGAAATCAAAGTC 58.742 47.826 0.00 0.00 0.00 3.01
3206 6674 2.491152 CGCGAGGCATGGCAAAAT 59.509 55.556 22.64 0.00 0.00 1.82
3220 6688 3.317744 TGACAGCAATTAATAAGCGCG 57.682 42.857 0.00 0.00 0.00 6.86
3290 8223 7.531857 TTGTGAGATAAAATAACCTTGGCAA 57.468 32.000 0.00 0.00 0.00 4.52
3333 8266 8.616076 TGTATGCGGAAATTTGAAAACATTTTT 58.384 25.926 0.00 0.00 0.00 1.94
3344 8277 4.793071 TGAACACTGTATGCGGAAATTTG 58.207 39.130 0.00 0.00 0.00 2.32
3484 8424 7.771927 ACCTGAAGAATGTTTCAAAGATCAT 57.228 32.000 0.00 0.00 36.69 2.45
3658 8598 7.833786 TCTTTTCGAGTATATACAACCACTGT 58.166 34.615 15.18 0.00 42.47 3.55
3706 8646 3.923017 GCAGTACAAGCCTTTCAATGT 57.077 42.857 0.00 0.00 0.00 2.71
3720 8660 0.250295 TTGCAGGTGAGTGGCAGTAC 60.250 55.000 0.00 0.00 38.97 2.73
3894 8834 6.378280 AGCCATACCAATAACAAAGGAGAAAG 59.622 38.462 0.00 0.00 0.00 2.62
3961 8901 5.536538 TCTCGTATCCTCTGCTTTGTCATAT 59.463 40.000 0.00 0.00 0.00 1.78
4028 8968 3.211963 GGCGGGTGCATGGCTTAG 61.212 66.667 0.00 0.00 45.35 2.18
4075 9015 0.600255 GGGAACACAGTCGTGACCAG 60.600 60.000 0.00 0.00 46.80 4.00
4082 9022 1.616865 TGAACTAGGGGAACACAGTCG 59.383 52.381 0.00 0.00 0.00 4.18
4097 9037 0.831307 GGCCGAACCCTAGATGAACT 59.169 55.000 0.00 0.00 0.00 3.01
4128 9068 3.838271 GCAGCGACGGGGAGATCA 61.838 66.667 0.00 0.00 0.00 2.92
4149 9089 4.303603 CAAGCGCCGCCATCATCG 62.304 66.667 4.98 0.00 0.00 3.84
4163 9103 1.474077 CGATGAAGGAAAAGCCCCAAG 59.526 52.381 0.00 0.00 37.37 3.61
4164 9104 1.203001 ACGATGAAGGAAAAGCCCCAA 60.203 47.619 0.00 0.00 37.37 4.12
4207 9245 1.084370 CAAAGACCCGCACGAGATCC 61.084 60.000 0.00 0.00 0.00 3.36
4208 9246 1.084370 CCAAAGACCCGCACGAGATC 61.084 60.000 0.00 0.00 0.00 2.75
4215 9253 4.697756 CGGCTCCAAAGACCCGCA 62.698 66.667 0.00 0.00 33.77 5.69
4264 9302 0.827368 GAGACCAGTGTCCTCCATCC 59.173 60.000 0.00 0.00 42.81 3.51
4305 9413 2.751436 CCATGCCGGTCCACCTTG 60.751 66.667 1.90 0.00 0.00 3.61
4310 9418 1.992834 TAGAAGCCATGCCGGTCCA 60.993 57.895 1.90 0.00 36.97 4.02
4316 9424 1.510480 GATGCGGTAGAAGCCATGCC 61.510 60.000 0.00 0.00 0.00 4.40
4438 9546 1.338389 CCGAACCTGGGTAAACATCGT 60.338 52.381 0.00 0.00 0.00 3.73
4469 9577 2.564062 CAGGACGTAGGGTTTTACCTCA 59.436 50.000 0.00 0.00 42.09 3.86
4503 9611 8.130671 TGCATATACTACTAATACTTCACCCC 57.869 38.462 0.00 0.00 0.00 4.95
4523 9631 7.136822 AGTAGACCATTAATCCAACTGCATA 57.863 36.000 0.00 0.00 0.00 3.14
4541 9649 5.690857 GGAATTACGCCTGTGATAAGTAGAC 59.309 44.000 0.00 0.00 0.00 2.59
4554 9662 7.928706 GCATAATCTCATATAGGAATTACGCCT 59.071 37.037 8.10 0.00 39.56 5.52
4556 9664 7.710907 TGGCATAATCTCATATAGGAATTACGC 59.289 37.037 9.67 9.67 0.00 4.42
4572 9680 8.326529 TGACTATGATCATTCATGGCATAATCT 58.673 33.333 14.65 0.00 42.82 2.40


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

AutoCloner maintained by Alex Coulton.