Multiple sequence alignment - TraesCS3B01G266500

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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 TraesCS3B01G266500 chr3B 100.000 6197 0 0 1 6197 427321626 427315430 0.000000e+00 11444.0
1 TraesCS3B01G266500 chr3B 93.103 87 3 2 159 245 427321433 427321350 2.350000e-24 124.0
2 TraesCS3B01G266500 chr3B 93.103 87 3 2 194 277 427321468 427321382 2.350000e-24 124.0
3 TraesCS3B01G266500 chr3D 98.531 5311 61 6 229 5535 329698026 329692729 0.000000e+00 9359.0
4 TraesCS3B01G266500 chr3D 97.619 210 2 2 1 210 329698184 329697978 2.120000e-94 357.0
5 TraesCS3B01G266500 chr3D 86.624 314 29 5 5614 5915 329687707 329687395 9.950000e-88 335.0
6 TraesCS3B01G266500 chr3D 89.691 194 5 2 6004 6197 329687258 329687080 3.740000e-57 233.0
7 TraesCS3B01G266500 chr3D 94.915 59 3 0 5559 5617 329692732 329692674 6.610000e-15 93.5
8 TraesCS3B01G266500 chr3A 94.988 4709 199 13 854 5535 444725544 444720846 0.000000e+00 7354.0
9 TraesCS3B01G266500 chr3A 92.086 278 12 3 194 466 444725853 444725581 3.500000e-102 383.0
10 TraesCS3B01G266500 chr3A 88.746 311 20 5 5892 6197 444718111 444717811 3.530000e-97 366.0
11 TraesCS3B01G266500 chr3A 92.653 245 10 3 1 245 444726011 444725775 4.600000e-91 346.0
12 TraesCS3B01G266500 chr3A 85.470 117 10 3 5805 5915 444718254 444718139 1.410000e-21 115.0
13 TraesCS3B01G266500 chr5D 96.850 127 2 1 466 590 6236319 6236193 1.750000e-50 211.0
14 TraesCS3B01G266500 chrUn 96.094 128 2 1 466 590 426380805 426380678 8.140000e-49 206.0
15 TraesCS3B01G266500 chr7D 96.094 128 2 1 466 590 231565875 231566002 8.140000e-49 206.0
16 TraesCS3B01G266500 chr7D 96.094 128 2 1 466 590 231581480 231581607 8.140000e-49 206.0
17 TraesCS3B01G266500 chr5B 96.063 127 3 1 466 590 556398548 556398422 8.140000e-49 206.0
18 TraesCS3B01G266500 chr2D 96.094 128 2 1 466 590 648663723 648663596 8.140000e-49 206.0
19 TraesCS3B01G266500 chr1D 96.094 128 2 1 466 590 254476578 254476705 8.140000e-49 206.0
20 TraesCS3B01G266500 chr1A 96.094 128 2 1 466 590 554448365 554448238 8.140000e-49 206.0


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 TraesCS3B01G266500 chr3B 427315430 427321626 6196 True 3897.333333 11444 95.402000 1 6197 3 chr3B.!!$R1 6196
1 TraesCS3B01G266500 chr3D 329692674 329698184 5510 True 3269.833333 9359 97.021667 1 5617 3 chr3D.!!$R2 5616
2 TraesCS3B01G266500 chr3D 329687080 329687707 627 True 284.000000 335 88.157500 5614 6197 2 chr3D.!!$R1 583
3 TraesCS3B01G266500 chr3A 444717811 444726011 8200 True 1712.800000 7354 90.788600 1 6197 5 chr3A.!!$R1 6196

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
938 946 2.880890 GTTCTTGCACAGTTCATCACCT 59.119 45.455 0.00 0.00 0.00 4.00 F
2011 2033 0.538287 ACAACTTGAGAAGGCCCAGC 60.538 55.000 0.00 0.00 0.00 4.85 F
2524 2546 3.993547 GAACACGAGTTCGAACAACAAA 58.006 40.909 28.78 0.00 44.11 2.83 F
3091 3113 5.733655 GCCAATGAAGATCTGCAGAAGAATG 60.734 44.000 22.50 12.81 38.79 2.67 F
4137 4159 1.169577 TCGAGAGAGTTCAGGCTGAC 58.830 55.000 18.55 12.48 34.84 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2458 2480 0.536724 TGCTTTAGCTCTGATGCCGA 59.463 50.000 3.10 0.00 42.66 5.54 R
3497 3519 3.040147 TGAATTCTTCGGTCAGGACAC 57.960 47.619 7.05 0.00 0.00 3.67 R
4137 4159 1.396648 TCATTAACTTGACATGCCGCG 59.603 47.619 0.00 0.00 0.00 6.46 R
5004 5026 1.627329 TGAACCATCTTCTCAGCTGCT 59.373 47.619 9.47 0.00 0.00 4.24 R
5618 6883 0.525668 CCAGGACGATCGTACACTGC 60.526 60.000 31.07 13.16 0.00 4.40 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
171 172 6.895782 TGGACTAAATCACTAAACCCATAGG 58.104 40.000 0.00 0.00 40.04 2.57
188 189 6.569780 CCCATAGGTTCTTTTATTTTTCCCG 58.430 40.000 0.00 0.00 0.00 5.14
189 190 6.378848 CCCATAGGTTCTTTTATTTTTCCCGA 59.621 38.462 0.00 0.00 0.00 5.14
190 191 7.069455 CCCATAGGTTCTTTTATTTTTCCCGAT 59.931 37.037 0.00 0.00 0.00 4.18
191 192 9.127277 CCATAGGTTCTTTTATTTTTCCCGATA 57.873 33.333 0.00 0.00 0.00 2.92
195 196 9.085645 AGGTTCTTTTATTTTTCCCGATAAACT 57.914 29.630 0.00 0.00 29.96 2.66
201 202 9.926158 TTTTATTTTTCCCGATAAACTAAACCC 57.074 29.630 0.00 0.00 29.96 4.11
202 203 8.647256 TTATTTTTCCCGATAAACTAAACCCA 57.353 30.769 0.00 0.00 0.00 4.51
203 204 7.727578 ATTTTTCCCGATAAACTAAACCCAT 57.272 32.000 0.00 0.00 0.00 4.00
204 205 8.826293 ATTTTTCCCGATAAACTAAACCCATA 57.174 30.769 0.00 0.00 0.00 2.74
205 206 7.868906 TTTTCCCGATAAACTAAACCCATAG 57.131 36.000 0.00 0.00 0.00 2.23
206 207 6.811634 TTCCCGATAAACTAAACCCATAGA 57.188 37.500 0.00 0.00 0.00 1.98
207 208 7.383156 TTCCCGATAAACTAAACCCATAGAT 57.617 36.000 0.00 0.00 0.00 1.98
208 209 7.383156 TCCCGATAAACTAAACCCATAGATT 57.617 36.000 0.00 0.00 0.00 2.40
209 210 7.447594 TCCCGATAAACTAAACCCATAGATTC 58.552 38.462 0.00 0.00 0.00 2.52
210 211 7.291651 TCCCGATAAACTAAACCCATAGATTCT 59.708 37.037 0.00 0.00 0.00 2.40
211 212 7.937394 CCCGATAAACTAAACCCATAGATTCTT 59.063 37.037 0.00 0.00 0.00 2.52
298 299 5.537188 TCAAACCATGGACAAAGCAATAAC 58.463 37.500 21.47 0.00 0.00 1.89
536 542 9.552114 CAAATTCACAACTGTCTCAATAGAATC 57.448 33.333 0.00 0.00 32.16 2.52
774 780 4.080582 ACAAAGATGGGGTAATCATCGACA 60.081 41.667 0.00 0.00 44.04 4.35
938 946 2.880890 GTTCTTGCACAGTTCATCACCT 59.119 45.455 0.00 0.00 0.00 4.00
1158 1166 8.991243 TCACATTTTCTCCATTCATCAAATTC 57.009 30.769 0.00 0.00 0.00 2.17
1204 1212 6.101650 TGCTGAGTGTGGATATATTACTGG 57.898 41.667 0.00 0.00 0.00 4.00
1374 1384 3.009723 TGAAAGCGAACCAGATGATTCC 58.990 45.455 0.00 0.00 0.00 3.01
1541 1551 2.757868 CAGACTCGGAAGGAGACAGATT 59.242 50.000 0.00 0.00 46.23 2.40
1971 1993 2.302733 TCAGCTGCAAGATACAGTGGAA 59.697 45.455 9.47 0.00 37.47 3.53
2010 2032 1.202806 TCACAACTTGAGAAGGCCCAG 60.203 52.381 0.00 0.00 0.00 4.45
2011 2033 0.538287 ACAACTTGAGAAGGCCCAGC 60.538 55.000 0.00 0.00 0.00 4.85
2126 2148 7.707624 AAGCAAATGAGAAGAATGTGGATAA 57.292 32.000 0.00 0.00 0.00 1.75
2458 2480 7.457561 AGAGCTACTGAAAGAAAAGAATTCCT 58.542 34.615 0.65 0.00 37.43 3.36
2524 2546 3.993547 GAACACGAGTTCGAACAACAAA 58.006 40.909 28.78 0.00 44.11 2.83
3091 3113 5.733655 GCCAATGAAGATCTGCAGAAGAATG 60.734 44.000 22.50 12.81 38.79 2.67
3446 3468 7.492994 GGAGATAGAGTTAGAAAAGCGAAATGT 59.507 37.037 0.00 0.00 0.00 2.71
3762 3784 6.802608 TCGTGAAGAGAAAGAAACAGTTCTA 58.197 36.000 0.00 0.00 43.59 2.10
3977 3999 9.940166 GGATACATTATTAACCCAACTAAAACG 57.060 33.333 0.00 0.00 0.00 3.60
4137 4159 1.169577 TCGAGAGAGTTCAGGCTGAC 58.830 55.000 18.55 12.48 34.84 3.51
4458 4480 9.666626 CTCAAGAAAAATCATATTGAGCAGATC 57.333 33.333 0.79 0.00 40.10 2.75
4666 4688 2.583024 TGTGATGGCACTGGAATCAA 57.417 45.000 0.00 0.00 45.36 2.57
4690 4712 5.700832 ACAAAAACAGAGATCGTGCATCTTA 59.299 36.000 0.00 0.00 42.48 2.10
4962 4984 6.666678 AGATCTGGCTATTGGATTGAGAAAA 58.333 36.000 0.00 0.00 0.00 2.29
5004 5026 8.314021 TCAGAAATGATTAAGAGTGCTACTGAA 58.686 33.333 0.00 0.00 0.00 3.02
5339 5361 7.347222 ACAATATGGGAGTAGTCAAATAGGTCA 59.653 37.037 0.00 0.00 0.00 4.02
5497 5530 1.614903 TGGCTTTTGTGATGCTCTTGG 59.385 47.619 0.00 0.00 0.00 3.61
5506 5539 3.006247 GTGATGCTCTTGGTCTCCTTTC 58.994 50.000 0.00 0.00 0.00 2.62
5538 5573 8.593945 AAGACATATTTCAACATTGTATGGGT 57.406 30.769 0.00 0.00 33.60 4.51
5539 5574 8.225603 AGACATATTTCAACATTGTATGGGTC 57.774 34.615 0.00 0.00 33.60 4.46
5540 5575 7.012327 AGACATATTTCAACATTGTATGGGTCG 59.988 37.037 0.00 0.00 33.60 4.79
5541 5576 4.981806 ATTTCAACATTGTATGGGTCGG 57.018 40.909 0.00 0.00 33.60 4.79
5542 5577 3.704800 TTCAACATTGTATGGGTCGGA 57.295 42.857 0.00 0.00 33.60 4.55
5543 5578 2.980568 TCAACATTGTATGGGTCGGAC 58.019 47.619 0.00 0.00 33.60 4.79
5544 5579 2.303311 TCAACATTGTATGGGTCGGACA 59.697 45.455 10.76 0.00 33.60 4.02
5545 5580 3.054728 TCAACATTGTATGGGTCGGACAT 60.055 43.478 10.76 0.00 33.60 3.06
5546 5581 3.644966 ACATTGTATGGGTCGGACATT 57.355 42.857 10.76 0.00 33.60 2.71
5547 5582 4.764050 ACATTGTATGGGTCGGACATTA 57.236 40.909 10.76 0.00 33.60 1.90
5548 5583 5.304686 ACATTGTATGGGTCGGACATTAT 57.695 39.130 10.76 3.67 33.60 1.28
5549 5584 6.428083 ACATTGTATGGGTCGGACATTATA 57.572 37.500 10.76 2.74 33.60 0.98
5550 5585 6.228258 ACATTGTATGGGTCGGACATTATAC 58.772 40.000 10.76 13.90 33.60 1.47
5551 5586 6.042781 ACATTGTATGGGTCGGACATTATACT 59.957 38.462 19.75 7.09 33.60 2.12
5552 5587 5.717078 TGTATGGGTCGGACATTATACTC 57.283 43.478 19.75 1.14 0.00 2.59
5553 5588 4.525487 TGTATGGGTCGGACATTATACTCC 59.475 45.833 19.75 8.63 0.00 3.85
5554 5589 3.035055 TGGGTCGGACATTATACTCCA 57.965 47.619 10.76 2.55 0.00 3.86
5555 5590 3.376636 TGGGTCGGACATTATACTCCAA 58.623 45.455 10.76 0.00 0.00 3.53
5556 5591 3.133362 TGGGTCGGACATTATACTCCAAC 59.867 47.826 10.76 0.00 0.00 3.77
5557 5592 3.133362 GGGTCGGACATTATACTCCAACA 59.867 47.826 10.76 0.00 0.00 3.33
5558 5593 4.369182 GGTCGGACATTATACTCCAACAG 58.631 47.826 10.76 0.00 0.00 3.16
5559 5594 4.142004 GGTCGGACATTATACTCCAACAGT 60.142 45.833 10.76 0.00 39.41 3.55
5560 5595 5.068198 GGTCGGACATTATACTCCAACAGTA 59.932 44.000 10.76 0.00 42.09 2.74
5618 6883 7.599998 TGATAATATGTCGTCTGATTGTCATGG 59.400 37.037 0.00 0.00 28.28 3.66
5631 6896 1.200483 GTCATGGCAGTGTACGATCG 58.800 55.000 14.88 14.88 0.00 3.69
5709 6974 5.300752 ACTATCGGGCTGTATTCATGAAAG 58.699 41.667 13.09 6.75 0.00 2.62
5717 6982 5.909610 GGCTGTATTCATGAAAGCGTTTATC 59.090 40.000 19.39 5.82 34.66 1.75
5744 7124 8.403236 AGTTTTGTGTCAAGAATTTGTAGTACC 58.597 33.333 0.00 0.00 35.73 3.34
5774 7154 8.494016 ACTGTGAAAATCCTAGTGCTAAATAC 57.506 34.615 0.00 0.00 0.00 1.89
5788 7168 4.881273 TGCTAAATACGCCATCACTTCATT 59.119 37.500 0.00 0.00 0.00 2.57
5789 7169 6.018262 GTGCTAAATACGCCATCACTTCATTA 60.018 38.462 0.00 0.00 0.00 1.90
5790 7170 6.018262 TGCTAAATACGCCATCACTTCATTAC 60.018 38.462 0.00 0.00 0.00 1.89
5791 7171 6.018262 GCTAAATACGCCATCACTTCATTACA 60.018 38.462 0.00 0.00 0.00 2.41
5792 7172 5.991328 AATACGCCATCACTTCATTACAG 57.009 39.130 0.00 0.00 0.00 2.74
5819 7204 7.060421 ACCATTTACCAAGTCTCTGAAGAAAA 58.940 34.615 0.00 0.00 31.93 2.29
5830 7215 5.009110 GTCTCTGAAGAAAACCCAGAAAAGG 59.991 44.000 0.00 0.00 36.61 3.11
5850 8259 5.391577 AGGTTTTAAGTTTGACCTGGGTA 57.608 39.130 0.00 0.00 40.84 3.69
5875 8286 4.489679 AAAAGTTTCAGCGATCTCAACC 57.510 40.909 0.00 0.00 0.00 3.77
5989 8475 2.359850 GGGTTCGATGCAGCCACA 60.360 61.111 0.00 0.00 0.00 4.17
6028 8514 2.426651 TCGATCACGATTCCCTCCC 58.573 57.895 0.00 0.00 43.81 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
175 176 9.926158 GGGTTTAGTTTATCGGGAAAAATAAAA 57.074 29.630 10.16 0.00 37.80 1.52
176 177 9.086758 TGGGTTTAGTTTATCGGGAAAAATAAA 57.913 29.630 6.60 6.60 35.32 1.40
177 178 8.647256 TGGGTTTAGTTTATCGGGAAAAATAA 57.353 30.769 0.00 0.00 0.00 1.40
178 179 8.826293 ATGGGTTTAGTTTATCGGGAAAAATA 57.174 30.769 0.00 0.00 0.00 1.40
179 180 7.727578 ATGGGTTTAGTTTATCGGGAAAAAT 57.272 32.000 0.00 0.00 0.00 1.82
180 181 8.108364 TCTATGGGTTTAGTTTATCGGGAAAAA 58.892 33.333 0.00 0.00 0.00 1.94
181 182 7.631933 TCTATGGGTTTAGTTTATCGGGAAAA 58.368 34.615 0.00 0.00 0.00 2.29
182 183 7.197901 TCTATGGGTTTAGTTTATCGGGAAA 57.802 36.000 0.00 0.00 0.00 3.13
183 184 6.811634 TCTATGGGTTTAGTTTATCGGGAA 57.188 37.500 0.00 0.00 0.00 3.97
184 185 7.291651 AGAATCTATGGGTTTAGTTTATCGGGA 59.708 37.037 0.00 0.00 0.00 5.14
185 186 7.450903 AGAATCTATGGGTTTAGTTTATCGGG 58.549 38.462 0.00 0.00 0.00 5.14
186 187 8.904099 AAGAATCTATGGGTTTAGTTTATCGG 57.096 34.615 0.00 0.00 0.00 4.18
197 198 8.474831 CGGGAAAAATAAAAGAATCTATGGGTT 58.525 33.333 0.00 0.00 0.00 4.11
198 199 7.837187 TCGGGAAAAATAAAAGAATCTATGGGT 59.163 33.333 0.00 0.00 0.00 4.51
199 200 8.232913 TCGGGAAAAATAAAAGAATCTATGGG 57.767 34.615 0.00 0.00 0.00 4.00
210 211 9.926158 GGGTTTAGTTTATCGGGAAAAATAAAA 57.074 29.630 10.16 0.00 37.80 1.52
211 212 9.086758 TGGGTTTAGTTTATCGGGAAAAATAAA 57.913 29.630 6.60 6.60 35.32 1.40
214 215 7.727578 ATGGGTTTAGTTTATCGGGAAAAAT 57.272 32.000 0.00 0.00 0.00 1.82
251 252 8.104566 TGAATATATGGGTTTAGTTTATCGGGG 58.895 37.037 0.00 0.00 0.00 5.73
298 299 4.783055 TCCTAGACTACTCTGCTACTTGG 58.217 47.826 0.00 0.00 0.00 3.61
650 656 4.108299 CCTACCACCGCCATGGCA 62.108 66.667 34.93 14.62 44.33 4.92
744 750 2.514458 ACCCCATCTTTGTGGATGAC 57.486 50.000 6.10 0.00 44.01 3.06
774 780 1.109920 CCCTCTCCGATCCATCACGT 61.110 60.000 0.00 0.00 0.00 4.49
1204 1212 9.971922 AATGATCAGGCAAAATATAAGCTAAAC 57.028 29.630 0.09 0.00 0.00 2.01
1374 1384 8.082242 AGTTTTGATTTCTTCAAGGTATTTCCG 58.918 33.333 0.00 0.00 44.90 4.30
1541 1551 2.894765 TGATTAGGAACGTCAGTGTCCA 59.105 45.455 6.03 0.00 33.15 4.02
1971 1993 5.856156 TGTGATGACAAGGAATTGCATTTT 58.144 33.333 0.00 0.00 0.00 1.82
2010 2032 2.672381 CTGCACTTCTTTCTCAGCTAGC 59.328 50.000 6.62 6.62 0.00 3.42
2011 2033 3.925913 GTCTGCACTTCTTTCTCAGCTAG 59.074 47.826 0.00 0.00 0.00 3.42
2126 2148 3.827722 TCCCTCAGTTCGGAAAATTTGT 58.172 40.909 0.00 0.00 0.00 2.83
2458 2480 0.536724 TGCTTTAGCTCTGATGCCGA 59.463 50.000 3.10 0.00 42.66 5.54
2524 2546 9.362539 CTTCTGCATAACTGAAATTTGCTTAAT 57.637 29.630 0.00 0.00 35.99 1.40
3091 3113 7.703328 TCAAATTGTTTCTTCAGGTTACAGTC 58.297 34.615 0.00 0.00 0.00 3.51
3446 3468 5.676079 GCTTGCTGTAAAACTGAAACACTCA 60.676 40.000 0.00 0.00 0.00 3.41
3497 3519 3.040147 TGAATTCTTCGGTCAGGACAC 57.960 47.619 7.05 0.00 0.00 3.67
3762 3784 5.421693 AGCTTGAGACTGATGTAACTCTGAT 59.578 40.000 0.00 0.00 0.00 2.90
3977 3999 7.346751 AGATTCTTGATAGAAGACTCTGACC 57.653 40.000 0.00 0.00 43.33 4.02
4137 4159 1.396648 TCATTAACTTGACATGCCGCG 59.603 47.619 0.00 0.00 0.00 6.46
4458 4480 2.178912 TTTTCTCCTGTAGTTGGCCG 57.821 50.000 0.00 0.00 0.00 6.13
4666 4688 4.067896 AGATGCACGATCTCTGTTTTTGT 58.932 39.130 0.00 0.00 36.63 2.83
4896 4918 7.176340 AGTTCTTTCTGCTCAGCAAGATAATTT 59.824 33.333 11.58 0.00 39.67 1.82
5004 5026 1.627329 TGAACCATCTTCTCAGCTGCT 59.373 47.619 9.47 0.00 0.00 4.24
5339 5361 5.372343 TGACAATAGAATACACAGGCCAT 57.628 39.130 5.01 0.00 0.00 4.40
5497 5530 8.753497 AATATGTCTTAAATGGGAAAGGAGAC 57.247 34.615 0.00 0.00 34.24 3.36
5506 5539 9.874205 ACAATGTTGAAATATGTCTTAAATGGG 57.126 29.630 0.00 0.00 0.00 4.00
5535 5570 3.133362 TGTTGGAGTATAATGTCCGACCC 59.867 47.826 12.10 0.00 44.08 4.46
5536 5571 4.142004 ACTGTTGGAGTATAATGTCCGACC 60.142 45.833 12.10 0.00 44.08 4.79
5537 5572 5.007385 ACTGTTGGAGTATAATGTCCGAC 57.993 43.478 9.26 9.26 44.71 4.79
5538 5573 6.971726 ATACTGTTGGAGTATAATGTCCGA 57.028 37.500 0.00 0.00 44.74 4.55
5539 5574 8.433421 AAAATACTGTTGGAGTATAATGTCCG 57.567 34.615 0.00 0.00 45.67 4.79
5540 5575 9.614792 AGAAAATACTGTTGGAGTATAATGTCC 57.385 33.333 0.00 0.00 45.67 4.02
5544 5579 9.628500 GGGAAGAAAATACTGTTGGAGTATAAT 57.372 33.333 0.00 0.00 45.67 1.28
5545 5580 8.832735 AGGGAAGAAAATACTGTTGGAGTATAA 58.167 33.333 0.00 0.00 45.67 0.98
5546 5581 8.388656 AGGGAAGAAAATACTGTTGGAGTATA 57.611 34.615 0.00 0.00 45.67 1.47
5548 5583 6.500751 AGAGGGAAGAAAATACTGTTGGAGTA 59.499 38.462 0.00 0.00 41.57 2.59
5549 5584 5.310857 AGAGGGAAGAAAATACTGTTGGAGT 59.689 40.000 0.00 0.00 38.88 3.85
5550 5585 5.810095 AGAGGGAAGAAAATACTGTTGGAG 58.190 41.667 0.00 0.00 0.00 3.86
5551 5586 5.843019 AGAGGGAAGAAAATACTGTTGGA 57.157 39.130 0.00 0.00 0.00 3.53
5552 5587 6.265422 ACAAAGAGGGAAGAAAATACTGTTGG 59.735 38.462 0.00 0.00 0.00 3.77
5553 5588 7.277174 ACAAAGAGGGAAGAAAATACTGTTG 57.723 36.000 0.00 0.00 0.00 3.33
5554 5589 7.898014 AACAAAGAGGGAAGAAAATACTGTT 57.102 32.000 0.00 0.00 0.00 3.16
5555 5590 7.898014 AAACAAAGAGGGAAGAAAATACTGT 57.102 32.000 0.00 0.00 0.00 3.55
5556 5591 7.169813 GCAAAACAAAGAGGGAAGAAAATACTG 59.830 37.037 0.00 0.00 0.00 2.74
5557 5592 7.147742 TGCAAAACAAAGAGGGAAGAAAATACT 60.148 33.333 0.00 0.00 0.00 2.12
5558 5593 6.983890 TGCAAAACAAAGAGGGAAGAAAATAC 59.016 34.615 0.00 0.00 0.00 1.89
5559 5594 7.118496 TGCAAAACAAAGAGGGAAGAAAATA 57.882 32.000 0.00 0.00 0.00 1.40
5560 5595 5.988287 TGCAAAACAAAGAGGGAAGAAAAT 58.012 33.333 0.00 0.00 0.00 1.82
5561 5596 5.413309 TGCAAAACAAAGAGGGAAGAAAA 57.587 34.783 0.00 0.00 0.00 2.29
5618 6883 0.525668 CCAGGACGATCGTACACTGC 60.526 60.000 31.07 13.16 0.00 4.40
5631 6896 7.281100 CAGTCAATTAGAAATAACCTCCAGGAC 59.719 40.741 0.00 0.00 38.94 3.85
5668 6933 9.938280 CCCGATAGTTAACTCCATATTTTCATA 57.062 33.333 12.39 0.00 0.00 2.15
5692 6957 2.017049 ACGCTTTCATGAATACAGCCC 58.983 47.619 19.91 0.79 0.00 5.19
5709 6974 5.507077 TCTTGACACAAAACTGATAAACGC 58.493 37.500 0.00 0.00 0.00 4.84
5717 6982 9.221775 GTACTACAAATTCTTGACACAAAACTG 57.778 33.333 0.00 0.00 36.33 3.16
5744 7124 4.256920 CACTAGGATTTTCACAGTCCAGG 58.743 47.826 0.00 0.00 34.42 4.45
5774 7154 3.555956 GGTACTGTAATGAAGTGATGGCG 59.444 47.826 0.00 0.00 0.00 5.69
5788 7168 6.722590 TCAGAGACTTGGTAAATGGTACTGTA 59.277 38.462 0.00 0.00 0.00 2.74
5789 7169 5.542635 TCAGAGACTTGGTAAATGGTACTGT 59.457 40.000 0.00 0.00 0.00 3.55
5790 7170 6.037786 TCAGAGACTTGGTAAATGGTACTG 57.962 41.667 0.00 0.00 0.00 2.74
5791 7171 6.497259 TCTTCAGAGACTTGGTAAATGGTACT 59.503 38.462 0.00 0.00 0.00 2.73
5792 7172 6.698380 TCTTCAGAGACTTGGTAAATGGTAC 58.302 40.000 0.00 0.00 0.00 3.34
5819 7204 6.351541 GGTCAAACTTAAAACCTTTTCTGGGT 60.352 38.462 0.00 0.00 38.94 4.51
5830 7215 6.947644 TTCTACCCAGGTCAAACTTAAAAC 57.052 37.500 0.00 0.00 0.00 2.43
5832 7217 7.957992 TTTTTCTACCCAGGTCAAACTTAAA 57.042 32.000 0.00 0.00 0.00 1.52
5857 8266 2.564947 AGAGGTTGAGATCGCTGAAACT 59.435 45.455 0.00 0.00 38.02 2.66
5858 8267 2.926838 GAGAGGTTGAGATCGCTGAAAC 59.073 50.000 0.00 0.00 0.00 2.78
5875 8286 1.634702 GCCGCACTTCTACTTGAGAG 58.365 55.000 0.00 0.00 34.93 3.20
5904 8315 4.309950 ACCCGGTCAAGACGCCAC 62.310 66.667 0.00 0.00 0.00 5.01
5989 8475 1.449601 CCCTCGCGCACTTGGTAAT 60.450 57.895 8.75 0.00 0.00 1.89


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

AutoCloner maintained by Alex Coulton.