Multiple sequence alignment - TraesCS3B01G140800

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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 TraesCS3B01G140800 chr3B 100.000 4022 0 0 713 4734 127289562 127293583 0.000000e+00 7428.0
1 TraesCS3B01G140800 chr3B 100.000 517 0 0 1 517 127288850 127289366 0.000000e+00 955.0
2 TraesCS3B01G140800 chr3B 93.182 88 5 1 4142 4229 44750965 44751051 1.380000e-25 128.0
3 TraesCS3B01G140800 chr3B 90.217 92 6 2 4142 4233 762449764 762449852 2.990000e-22 117.0
4 TraesCS3B01G140800 chr3D 94.244 4065 142 35 713 4730 81363777 81367796 0.000000e+00 6126.0
5 TraesCS3B01G140800 chr3D 94.130 477 18 6 18 485 81363053 81363528 0.000000e+00 717.0
6 TraesCS3B01G140800 chr3A 93.008 4062 206 53 713 4730 95527269 95531296 0.000000e+00 5856.0
7 TraesCS3B01G140800 chr3A 93.090 521 23 4 10 517 95526748 95527268 0.000000e+00 750.0
8 TraesCS3B01G140800 chr3A 92.222 90 5 2 4142 4230 330699660 330699572 4.970000e-25 126.0
9 TraesCS3B01G140800 chr3A 93.333 60 3 1 4219 4277 95530712 95530771 2.350000e-13 87.9
10 TraesCS3B01G140800 chr3A 95.652 46 2 0 4232 4277 95530654 95530699 1.830000e-09 75.0
11 TraesCS3B01G140800 chr1D 81.427 953 168 6 1165 2109 115578017 115577066 0.000000e+00 771.0
12 TraesCS3B01G140800 chr1A 81.197 952 170 6 1165 2108 126858358 126857408 0.000000e+00 758.0
13 TraesCS3B01G140800 chr1A 89.216 102 7 4 4142 4241 366288291 366288192 1.790000e-24 124.0
14 TraesCS3B01G140800 chr2D 98.936 94 1 0 3021 3114 621300876 621300783 8.150000e-38 169.0
15 TraesCS3B01G140800 chr2D 94.340 106 3 3 3011 3116 206683065 206682963 4.900000e-35 159.0
16 TraesCS3B01G140800 chrUn 96.875 96 3 0 3021 3116 90968853 90968758 1.360000e-35 161.0
17 TraesCS3B01G140800 chr7D 96.875 96 3 0 3019 3114 538028640 538028545 1.360000e-35 161.0
18 TraesCS3B01G140800 chr7D 93.396 106 5 2 3013 3116 293827382 293827487 6.340000e-34 156.0
19 TraesCS3B01G140800 chr7A 96.875 96 3 0 3021 3116 733162318 733162223 1.360000e-35 161.0
20 TraesCS3B01G140800 chr6A 96.875 96 3 0 3021 3116 69052307 69052212 1.360000e-35 161.0
21 TraesCS3B01G140800 chr4D 96.809 94 3 0 3021 3114 494781786 494781693 1.760000e-34 158.0
22 TraesCS3B01G140800 chr6D 91.743 109 7 2 3004 3110 72012845 72012737 2.950000e-32 150.0
23 TraesCS3B01G140800 chr1B 93.182 88 5 1 4142 4229 577654983 577654897 1.380000e-25 128.0
24 TraesCS3B01G140800 chr1B 93.023 86 4 2 4142 4227 234252668 234252585 1.790000e-24 124.0
25 TraesCS3B01G140800 chr6B 91.111 90 7 1 4142 4231 280098702 280098614 2.310000e-23 121.0
26 TraesCS3B01G140800 chr2B 91.954 87 6 1 4142 4228 495137663 495137748 2.310000e-23 121.0


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 TraesCS3B01G140800 chr3B 127288850 127293583 4733 False 4191.500 7428 100.00000 1 4734 2 chr3B.!!$F3 4733
1 TraesCS3B01G140800 chr3D 81363053 81367796 4743 False 3421.500 6126 94.18700 18 4730 2 chr3D.!!$F1 4712
2 TraesCS3B01G140800 chr3A 95526748 95531296 4548 False 1692.225 5856 93.77075 10 4730 4 chr3A.!!$F1 4720
3 TraesCS3B01G140800 chr1D 115577066 115578017 951 True 771.000 771 81.42700 1165 2109 1 chr1D.!!$R1 944
4 TraesCS3B01G140800 chr1A 126857408 126858358 950 True 758.000 758 81.19700 1165 2108 1 chr1A.!!$R1 943

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
812 1043 0.041238 TCACCCTGAGATCTCCGGTT 59.959 55.0 26.1 13.95 32.82 4.44 F
1308 1546 0.322187 TCATGTCCCTCGTCGACTCA 60.322 55.0 14.7 0.00 0.00 3.41 F
1674 1915 0.668401 GAAACCGACCGTTCATCCGT 60.668 55.0 0.0 0.00 31.78 4.69 F
2678 2935 0.332632 TCCTCAATCCAAAGGCAGGG 59.667 55.0 0.0 0.00 32.37 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2677 2934 0.469144 TGGGCCCAGTTTCAAGTTCC 60.469 55.000 24.45 0.0 0.00 3.62 R
2678 2935 1.408969 TTGGGCCCAGTTTCAAGTTC 58.591 50.000 26.87 0.0 0.00 3.01 R
2924 3181 1.525077 TTTCAGCCCAAACGACGCT 60.525 52.632 0.00 0.0 0.00 5.07 R
4329 4684 0.529378 CAGCTGCCAAAAGGGATGTC 59.471 55.000 0.00 0.0 40.01 3.06 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
125 130 3.234353 TCTCCTATCATCCAACATCGCT 58.766 45.455 0.00 0.00 0.00 4.93
136 141 2.728318 CCAACATCGCTATCATCGTCTG 59.272 50.000 0.00 0.00 0.00 3.51
202 210 4.508128 CGGCTGCCGTACCACGAT 62.508 66.667 31.72 0.00 46.05 3.73
207 215 4.231439 GCCGTACCACGATCCCCC 62.231 72.222 0.00 0.00 46.05 5.40
812 1043 0.041238 TCACCCTGAGATCTCCGGTT 59.959 55.000 26.10 13.95 32.82 4.44
913 1148 1.003839 TGCGAGGAATTTCACGGCT 60.004 52.632 5.70 0.00 0.00 5.52
915 1150 1.019278 GCGAGGAATTTCACGGCTGA 61.019 55.000 5.70 0.00 0.00 4.26
1026 1261 3.366719 GAAGCAATTTATCGGCAAGCTC 58.633 45.455 0.00 0.00 0.00 4.09
1104 1339 1.407437 GCGAAGTCCAATCCCATGTCT 60.407 52.381 0.00 0.00 0.00 3.41
1308 1546 0.322187 TCATGTCCCTCGTCGACTCA 60.322 55.000 14.70 0.00 0.00 3.41
1623 1864 2.297597 AGAGAGGGACTGTTTGAAGACG 59.702 50.000 0.00 0.00 41.55 4.18
1674 1915 0.668401 GAAACCGACCGTTCATCCGT 60.668 55.000 0.00 0.00 31.78 4.69
1719 1960 1.737008 GTTTGTCTCCGAGGCCGAC 60.737 63.158 0.00 0.00 38.22 4.79
1993 2234 1.213926 AGATGATGTTCTTGGGGGAGC 59.786 52.381 0.00 0.00 0.00 4.70
2104 2345 2.295909 TCCCATTTTCAGGCAAGTTTCG 59.704 45.455 0.00 0.00 0.00 3.46
2136 2377 9.605951 AAGCCATTGATTAATATTTGTCCCTAT 57.394 29.630 0.00 0.00 0.00 2.57
2155 2396 2.307496 TACCGTGTCTCCCCTGTAAA 57.693 50.000 0.00 0.00 0.00 2.01
2169 2410 5.819901 TCCCCTGTAAAAATTGCTTTTTGTG 59.180 36.000 6.66 0.00 42.89 3.33
2247 2488 9.013229 TGAAACATCAGTAAGAATTTAGCATGT 57.987 29.630 0.00 0.00 0.00 3.21
2276 2517 6.723298 CTCTGGTAGGAAGTTATCATCACT 57.277 41.667 0.00 0.00 0.00 3.41
2320 2561 5.163652 GCAAAGTTGTATACTGGTCCATTCC 60.164 44.000 4.17 0.00 37.12 3.01
2376 2617 4.580580 TGCTTGTTCTCTTTCCTTTTCCTC 59.419 41.667 0.00 0.00 0.00 3.71
2416 2657 1.539827 GTGTTACTTGCATGGTCCCAC 59.460 52.381 4.44 5.78 0.00 4.61
2417 2658 1.143889 TGTTACTTGCATGGTCCCACA 59.856 47.619 4.44 1.39 0.00 4.17
2471 2724 5.875224 TGATCAGTGGTTAAACTCATTCCA 58.125 37.500 0.00 0.00 0.00 3.53
2531 2785 2.382882 TGTTGGTTCTGGTGCAATTGA 58.617 42.857 10.34 0.00 0.00 2.57
2554 2808 2.033424 GGTCTGCACTTCACTTTGGAAC 59.967 50.000 0.00 0.00 0.00 3.62
2677 2934 2.449137 ATCCTCAATCCAAAGGCAGG 57.551 50.000 0.00 0.00 32.37 4.85
2678 2935 0.332632 TCCTCAATCCAAAGGCAGGG 59.667 55.000 0.00 0.00 32.37 4.45
2704 2961 3.784178 TGAAACTGGGCCCAATTAATGA 58.216 40.909 28.29 0.00 0.00 2.57
2780 3037 7.321717 AGCTTATAAGGTCATGTCATGGTAT 57.678 36.000 11.40 8.22 29.15 2.73
2924 3181 6.947733 ACCACAGAACCATGATTTGATTAAGA 59.052 34.615 0.00 0.00 0.00 2.10
2930 3187 4.271049 ACCATGATTTGATTAAGAGCGTCG 59.729 41.667 0.00 0.00 0.00 5.12
2936 3193 2.343101 TGATTAAGAGCGTCGTTTGGG 58.657 47.619 0.00 0.00 0.00 4.12
2976 3233 6.897986 AGAGAACATCCTTTGATAGCTCAAT 58.102 36.000 0.00 0.00 40.95 2.57
2990 3247 3.881937 GCTCAATGCTTGGAAGGAAAT 57.118 42.857 0.00 0.00 38.95 2.17
3029 3289 6.706716 GCATTGACTACTAAAATACTCCCTCC 59.293 42.308 0.00 0.00 0.00 4.30
3032 3292 5.954150 TGACTACTAAAATACTCCCTCCGTT 59.046 40.000 0.00 0.00 0.00 4.44
3036 3296 4.533311 ACTAAAATACTCCCTCCGTTCCAA 59.467 41.667 0.00 0.00 0.00 3.53
3038 3298 4.586306 AAATACTCCCTCCGTTCCAAAT 57.414 40.909 0.00 0.00 0.00 2.32
3041 3301 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
3042 3302 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
3043 3303 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
3045 3305 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
3046 3306 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
3047 3307 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
3048 3308 2.030007 TCCGTTCCAAATTACTCGTCGT 60.030 45.455 0.00 0.00 0.00 4.34
3049 3309 2.091588 CCGTTCCAAATTACTCGTCGTG 59.908 50.000 0.00 0.00 0.00 4.35
3050 3310 2.091588 CGTTCCAAATTACTCGTCGTGG 59.908 50.000 0.00 0.00 0.00 4.94
3056 3316 5.406175 TCCAAATTACTCGTCGTGGTTTTAG 59.594 40.000 0.00 0.00 0.00 1.85
3057 3317 5.178067 CCAAATTACTCGTCGTGGTTTTAGT 59.822 40.000 0.00 0.00 0.00 2.24
3061 3321 3.784338 ACTCGTCGTGGTTTTAGTTCAA 58.216 40.909 0.00 0.00 0.00 2.69
3063 3323 4.812626 ACTCGTCGTGGTTTTAGTTCAAAT 59.187 37.500 0.00 0.00 0.00 2.32
3065 3325 6.121613 TCGTCGTGGTTTTAGTTCAAATTT 57.878 33.333 0.00 0.00 0.00 1.82
3067 3327 5.966503 CGTCGTGGTTTTAGTTCAAATTTGA 59.033 36.000 16.91 16.91 34.92 2.69
3068 3328 6.469595 CGTCGTGGTTTTAGTTCAAATTTGAA 59.530 34.615 26.01 26.01 44.31 2.69
3080 3340 5.568685 TCAAATTTGAACTGAAACCACGA 57.431 34.783 18.45 0.00 33.55 4.35
3082 3342 5.976534 TCAAATTTGAACTGAAACCACGATG 59.023 36.000 18.45 0.00 33.55 3.84
3084 3344 4.811555 TTTGAACTGAAACCACGATGAG 57.188 40.909 0.00 0.00 0.00 2.90
3087 3347 4.951254 TGAACTGAAACCACGATGAGTAA 58.049 39.130 0.00 0.00 0.00 2.24
3089 3349 5.995282 TGAACTGAAACCACGATGAGTAATT 59.005 36.000 0.00 0.00 0.00 1.40
3093 3353 5.309638 TGAAACCACGATGAGTAATTTGGA 58.690 37.500 0.00 0.00 0.00 3.53
3400 3661 7.051000 AGAGAGCCTTATTCTTGTGGAATAAC 58.949 38.462 6.69 0.84 46.09 1.89
3451 3712 2.030007 CCGTCAAGTGATTGTGCCAATT 60.030 45.455 2.53 0.00 0.00 2.32
3563 3824 0.103937 GGACGAGAGATTGCTCCTGG 59.896 60.000 0.00 0.00 42.30 4.45
3689 3950 1.971167 GCATTCCGACCAGCCAACA 60.971 57.895 0.00 0.00 0.00 3.33
3749 4010 2.169769 ACATGACACGGGTCCGAATATT 59.830 45.455 16.75 0.00 43.65 1.28
3803 4064 3.181502 GCTAGATGAAGTTGCTTGCTTCC 60.182 47.826 0.00 0.83 41.03 3.46
3952 4213 3.904800 TTCTCGAGTAATGGGCATTGA 57.095 42.857 13.13 0.00 32.50 2.57
3956 4217 5.192927 TCTCGAGTAATGGGCATTGATTTT 58.807 37.500 13.13 0.00 32.50 1.82
3957 4218 5.066375 TCTCGAGTAATGGGCATTGATTTTG 59.934 40.000 13.13 0.00 32.50 2.44
3958 4219 3.798337 CGAGTAATGGGCATTGATTTTGC 59.202 43.478 0.00 0.00 39.41 3.68
3959 4220 4.677514 CGAGTAATGGGCATTGATTTTGCA 60.678 41.667 0.00 0.00 41.95 4.08
4081 4352 5.179555 AGACTTCCATTCTTTTTACAGCGTC 59.820 40.000 0.00 0.00 0.00 5.19
4162 4444 7.820578 ATGCTCCGTAAACTAGTATAAGAGT 57.179 36.000 0.00 0.00 0.00 3.24
4329 4684 2.092538 AGGAGTTGCTGGAATCTCATGG 60.093 50.000 11.33 0.00 0.00 3.66
4331 4686 2.941720 GAGTTGCTGGAATCTCATGGAC 59.058 50.000 0.00 0.00 0.00 4.02
4403 4758 3.441572 GTGCCTTTTCTATGCTCATGTGT 59.558 43.478 0.00 0.00 0.00 3.72
4454 4809 7.538575 CACATTCTCAAAGGGTTATGTAAAGG 58.461 38.462 0.00 0.00 0.00 3.11
4496 4851 3.054875 AGCTATGTCATTCTCACCTGCAA 60.055 43.478 0.00 0.00 0.00 4.08
4512 4867 3.248266 CTGCAACTAAAGCTGAAATGGC 58.752 45.455 0.00 0.00 33.39 4.40
4532 4887 4.044065 TGGCATATCCAATAAACCCCTAGG 59.956 45.833 0.06 0.06 43.21 3.02
4537 4892 1.569072 CCAATAAACCCCTAGGCACCT 59.431 52.381 2.05 0.00 36.11 4.00
4550 4905 1.598130 GCACCTGCCAACTCTTCGT 60.598 57.895 0.00 0.00 34.31 3.85
4593 4948 1.895798 AGATCAGCGGTTGTTCTCAGA 59.104 47.619 0.00 0.00 31.65 3.27
4730 5095 4.106341 TCTGAAACCCCTTCCATCTTCTTT 59.894 41.667 0.00 0.00 32.53 2.52
4731 5096 4.151883 TGAAACCCCTTCCATCTTCTTTG 58.848 43.478 0.00 0.00 32.53 2.77
4732 5097 2.222227 ACCCCTTCCATCTTCTTTGC 57.778 50.000 0.00 0.00 0.00 3.68
4733 5098 1.713078 ACCCCTTCCATCTTCTTTGCT 59.287 47.619 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
125 130 3.023832 TCTCCTTGCACAGACGATGATA 58.976 45.455 0.00 0.00 0.00 2.15
136 141 4.156739 CCTGGTAATTTCTTCTCCTTGCAC 59.843 45.833 0.00 0.00 0.00 4.57
201 209 2.524394 CCGTCCGATCAGGGGGAT 60.524 66.667 0.00 0.00 41.52 3.85
207 215 2.502492 ATCTGGGCCGTCCGATCAG 61.502 63.158 0.00 0.00 38.76 2.90
336 350 1.302511 GGAAAGGGCGCAGAAGTGA 60.303 57.895 10.83 0.00 0.00 3.41
492 507 1.817099 GACAGGCCGCCTCAATCAG 60.817 63.158 9.68 0.00 0.00 2.90
499 514 4.035102 GGAAAGGACAGGCCGCCT 62.035 66.667 5.94 5.94 43.43 5.52
712 943 2.931068 GCACCGCCAGAAAAAGGGG 61.931 63.158 0.00 0.00 41.66 4.79
732 963 2.860735 GGATCAAGAACCGACGAATGAG 59.139 50.000 0.00 0.00 0.00 2.90
812 1043 1.954146 GACTTCGACGGCAACAGCA 60.954 57.895 0.00 0.00 0.00 4.41
913 1148 0.106167 ATCCGTCCTCCCGAGAATCA 60.106 55.000 0.00 0.00 33.17 2.57
915 1150 1.041437 GAATCCGTCCTCCCGAGAAT 58.959 55.000 0.00 0.00 0.00 2.40
1026 1261 2.932614 AGATTTCAGCGATTTCCACGAG 59.067 45.455 0.00 0.00 0.00 4.18
1533 1774 3.714144 ACTGTCCACATACTTCCTAGCT 58.286 45.455 0.00 0.00 0.00 3.32
1623 1864 4.085357 TCCATATATCCTGTGCAACACC 57.915 45.455 0.00 0.00 45.67 4.16
1674 1915 3.388024 AGAAGATATTGCTCACGGCCTTA 59.612 43.478 0.00 0.00 40.92 2.69
1737 1978 0.954452 CAAACACCTCCAACAGCTCC 59.046 55.000 0.00 0.00 0.00 4.70
1764 2005 2.703007 TGGCTTTGCAAACCCACTTATT 59.297 40.909 20.09 0.00 0.00 1.40
1993 2234 6.648310 TCAATCAACTCAAGCACTTCTTCTAG 59.352 38.462 0.00 0.00 31.27 2.43
2104 2345 6.670695 AATATTAATCAATGGCTTGGGGAC 57.329 37.500 0.00 0.00 32.95 4.46
2136 2377 2.307496 TTTACAGGGGAGACACGGTA 57.693 50.000 0.00 0.00 41.73 4.02
2193 2434 5.851703 GCTTTTCTTGTTTCTTGTCGGTATC 59.148 40.000 0.00 0.00 0.00 2.24
2302 2543 4.887071 GCAATGGAATGGACCAGTATACAA 59.113 41.667 5.50 0.00 43.49 2.41
2320 2561 9.834628 TCGACTAAAAACCTAAAATAAGCAATG 57.165 29.630 0.00 0.00 0.00 2.82
2376 2617 5.219633 ACACTAGCAAATTTAAAAGGTGCG 58.780 37.500 12.65 5.51 40.17 5.34
2416 2657 7.903995 AAACAATAATGGCATAAAAGGTGTG 57.096 32.000 0.00 0.00 0.00 3.82
2417 2658 9.030452 TCTAAACAATAATGGCATAAAAGGTGT 57.970 29.630 0.00 0.00 0.00 4.16
2471 2724 1.427368 TGGTCCCACTTTAGCCAACAT 59.573 47.619 0.00 0.00 0.00 2.71
2531 2785 2.158623 TCCAAAGTGAAGTGCAGACCAT 60.159 45.455 0.00 0.00 0.00 3.55
2677 2934 0.469144 TGGGCCCAGTTTCAAGTTCC 60.469 55.000 24.45 0.00 0.00 3.62
2678 2935 1.408969 TTGGGCCCAGTTTCAAGTTC 58.591 50.000 26.87 0.00 0.00 3.01
2704 2961 5.653255 ACCTCAACCAATATATTCTGCCT 57.347 39.130 0.00 0.00 0.00 4.75
2780 3037 3.088532 GGGTGGTTGCAGTCATAATTCA 58.911 45.455 0.00 0.00 0.00 2.57
2924 3181 1.525077 TTTCAGCCCAAACGACGCT 60.525 52.632 0.00 0.00 0.00 5.07
2930 3187 2.362077 ACTGTGATGTTTCAGCCCAAAC 59.638 45.455 1.87 1.87 36.87 2.93
2936 3193 4.991056 TGTTCTCTACTGTGATGTTTCAGC 59.009 41.667 0.00 0.00 35.37 4.26
2976 3233 6.009589 TCACTGATTTATTTCCTTCCAAGCA 58.990 36.000 0.00 0.00 0.00 3.91
2982 3239 6.866480 TGCCAATCACTGATTTATTTCCTTC 58.134 36.000 1.17 0.00 28.87 3.46
2990 3247 7.112122 AGTAGTCAATGCCAATCACTGATTTA 58.888 34.615 1.17 0.00 33.15 1.40
3029 3289 2.091588 CCACGACGAGTAATTTGGAACG 59.908 50.000 0.00 0.00 0.00 3.95
3032 3292 3.389925 AACCACGACGAGTAATTTGGA 57.610 42.857 0.00 0.00 0.00 3.53
3036 3296 5.984926 TGAACTAAAACCACGACGAGTAATT 59.015 36.000 0.00 1.08 0.00 1.40
3038 3298 4.930963 TGAACTAAAACCACGACGAGTAA 58.069 39.130 0.00 0.00 0.00 2.24
3041 3301 4.782252 TTTGAACTAAAACCACGACGAG 57.218 40.909 0.00 0.00 0.00 4.18
3042 3302 5.738118 AATTTGAACTAAAACCACGACGA 57.262 34.783 0.00 0.00 0.00 4.20
3043 3303 5.966503 TCAAATTTGAACTAAAACCACGACG 59.033 36.000 18.45 0.00 33.55 5.12
3057 3317 5.955488 TCGTGGTTTCAGTTCAAATTTGAA 58.045 33.333 26.01 26.01 44.31 2.69
3061 3321 5.299279 ACTCATCGTGGTTTCAGTTCAAATT 59.701 36.000 0.00 0.00 0.00 1.82
3063 3323 4.196193 ACTCATCGTGGTTTCAGTTCAAA 58.804 39.130 0.00 0.00 0.00 2.69
3065 3325 3.469008 ACTCATCGTGGTTTCAGTTCA 57.531 42.857 0.00 0.00 0.00 3.18
3067 3327 6.293955 CCAAATTACTCATCGTGGTTTCAGTT 60.294 38.462 0.00 0.00 0.00 3.16
3068 3328 5.181245 CCAAATTACTCATCGTGGTTTCAGT 59.819 40.000 0.00 0.00 0.00 3.41
3069 3329 5.411361 TCCAAATTACTCATCGTGGTTTCAG 59.589 40.000 0.00 0.00 0.00 3.02
3070 3330 5.309638 TCCAAATTACTCATCGTGGTTTCA 58.690 37.500 0.00 0.00 0.00 2.69
3075 3335 3.063452 CCGTTCCAAATTACTCATCGTGG 59.937 47.826 0.00 0.00 0.00 4.94
3079 3339 3.877508 CCCTCCGTTCCAAATTACTCATC 59.122 47.826 0.00 0.00 0.00 2.92
3080 3340 3.521937 TCCCTCCGTTCCAAATTACTCAT 59.478 43.478 0.00 0.00 0.00 2.90
3082 3342 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
3084 3344 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
3087 3347 2.547990 AGTACTCCCTCCGTTCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
3089 3349 2.042162 ACTAGTACTCCCTCCGTTCCAA 59.958 50.000 0.00 0.00 0.00 3.53
3093 3353 5.534278 GCTATTAACTAGTACTCCCTCCGTT 59.466 44.000 0.00 0.00 0.00 4.44
3661 3922 4.776322 CGGAATGCAGGGTCGGCA 62.776 66.667 0.00 0.00 46.66 5.69
3662 3923 4.467084 TCGGAATGCAGGGTCGGC 62.467 66.667 0.00 0.00 0.00 5.54
3663 3924 2.511600 GTCGGAATGCAGGGTCGG 60.512 66.667 0.00 0.00 0.00 4.79
3664 3925 2.511600 GGTCGGAATGCAGGGTCG 60.512 66.667 0.00 0.00 0.00 4.79
3749 4010 2.204090 GGGAAGGTGGGGTGGAGA 60.204 66.667 0.00 0.00 0.00 3.71
3803 4064 0.541863 AACGCCTTCTGTATCCCAGG 59.458 55.000 0.00 0.00 41.83 4.45
3952 4213 7.099120 GGGTAAATCTCAATCAAGTGCAAAAT 58.901 34.615 0.00 0.00 0.00 1.82
3956 4217 4.016444 GGGGTAAATCTCAATCAAGTGCA 58.984 43.478 0.00 0.00 0.00 4.57
3957 4218 3.381590 GGGGGTAAATCTCAATCAAGTGC 59.618 47.826 0.00 0.00 0.00 4.40
4060 4331 5.356882 TGACGCTGTAAAAAGAATGGAAG 57.643 39.130 0.00 0.00 0.00 3.46
4081 4352 8.514594 ACAAACAAGTGAACCTGACATTATATG 58.485 33.333 0.00 0.00 0.00 1.78
4329 4684 0.529378 CAGCTGCCAAAAGGGATGTC 59.471 55.000 0.00 0.00 40.01 3.06
4331 4686 0.971386 AACAGCTGCCAAAAGGGATG 59.029 50.000 15.27 0.00 40.01 3.51
4403 4758 7.521099 GCTTGTCATGTTCTTCTTTCATGAGAA 60.521 37.037 13.35 13.35 45.20 2.87
4414 4769 5.049198 TGAGAATGTGCTTGTCATGTTCTTC 60.049 40.000 0.00 0.00 32.56 2.87
4470 4825 5.762218 GCAGGTGAGAATGACATAGCTTATT 59.238 40.000 0.00 0.00 0.00 1.40
4471 4826 5.163269 TGCAGGTGAGAATGACATAGCTTAT 60.163 40.000 0.00 0.00 0.00 1.73
4472 4827 4.162131 TGCAGGTGAGAATGACATAGCTTA 59.838 41.667 0.00 0.00 0.00 3.09
4496 4851 5.448654 TGGATATGCCATTTCAGCTTTAGT 58.551 37.500 0.00 0.00 43.33 2.24
4512 4867 5.010282 GTGCCTAGGGGTTTATTGGATATG 58.990 45.833 11.72 0.00 34.45 1.78
4521 4876 1.996086 GCAGGTGCCTAGGGGTTTA 59.004 57.895 11.72 0.00 34.31 2.01
4522 4877 2.763902 GCAGGTGCCTAGGGGTTT 59.236 61.111 11.72 0.00 34.31 3.27
4532 4887 1.598130 ACGAAGAGTTGGCAGGTGC 60.598 57.895 0.00 0.00 41.14 5.01
4537 4892 2.695359 GATAACCACGAAGAGTTGGCA 58.305 47.619 0.00 0.00 0.00 4.92
4573 4928 1.895798 TCTGAGAACAACCGCTGATCT 59.104 47.619 0.00 0.00 39.73 2.75
4593 4948 1.904865 CCACCTGCAACATGCCACT 60.905 57.895 0.00 0.00 44.23 4.00
4629 4984 1.539157 AGTAGCCTCCAAGCAAAAGC 58.461 50.000 0.00 0.00 34.23 3.51
4690 5053 3.122480 TCAGATGGTATCCATGGTTGGT 58.878 45.455 12.58 0.00 45.26 3.67
4703 5066 1.455822 TGGAAGGGGTTTCAGATGGT 58.544 50.000 0.00 0.00 37.54 3.55
4712 5075 2.110721 AGCAAAGAAGATGGAAGGGGTT 59.889 45.455 0.00 0.00 0.00 4.11


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

AutoCloner maintained by Alex Coulton.