Multiple sequence alignment - TraesCS5B01G404700

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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 TraesCS5B01G404700 chr5B 100.000 4833 0 0 1 4833 580670723 580675555 0.000000e+00 8925.0
1 TraesCS5B01G404700 chr5B 88.623 835 92 2 6 837 623012420 623013254 0.000000e+00 1013.0
2 TraesCS5B01G404700 chr5B 86.121 843 110 4 1 838 665687797 665686957 0.000000e+00 902.0
3 TraesCS5B01G404700 chr5B 83.117 154 25 1 2785 2937 455642458 455642611 6.520000e-29 139.0
4 TraesCS5B01G404700 chr5A 93.814 3427 148 32 921 4314 593119757 593123152 0.000000e+00 5096.0
5 TraesCS5B01G404700 chr5A 90.346 839 75 3 1 836 77808489 77809324 0.000000e+00 1096.0
6 TraesCS5B01G404700 chr5A 95.636 527 20 3 4307 4833 593123476 593123999 0.000000e+00 843.0
7 TraesCS5B01G404700 chr5A 83.117 154 25 1 2785 2937 16601600 16601447 6.520000e-29 139.0
8 TraesCS5B01G404700 chr5D 96.778 1614 38 8 837 2438 473341326 473342937 0.000000e+00 2680.0
9 TraesCS5B01G404700 chr5D 95.629 938 31 2 2474 3401 473342937 473343874 0.000000e+00 1496.0
10 TraesCS5B01G404700 chr5D 93.696 920 44 6 3400 4314 473344031 473344941 0.000000e+00 1365.0
11 TraesCS5B01G404700 chr5D 95.924 368 14 1 4307 4674 473345214 473345580 3.220000e-166 595.0
12 TraesCS5B01G404700 chr5D 85.185 81 12 0 2836 2916 504052724 504052644 3.100000e-12 84.2
13 TraesCS5B01G404700 chr1B 94.405 840 43 2 1 837 643033305 643034143 0.000000e+00 1288.0
14 TraesCS5B01G404700 chr4B 93.541 836 50 2 1 833 619833769 619834603 0.000000e+00 1242.0
15 TraesCS5B01G404700 chr4B 91.805 842 62 5 1 838 429679114 429679952 0.000000e+00 1166.0
16 TraesCS5B01G404700 chr6B 91.914 841 65 2 1 838 610846180 610847020 0.000000e+00 1173.0
17 TraesCS5B01G404700 chr7D 86.310 840 110 3 1 837 42180466 42181303 0.000000e+00 909.0
18 TraesCS5B01G404700 chr2B 85.952 840 114 2 1 837 58892713 58893551 0.000000e+00 894.0


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 TraesCS5B01G404700 chr5B 580670723 580675555 4832 False 8925.0 8925 100.00000 1 4833 1 chr5B.!!$F2 4832
1 TraesCS5B01G404700 chr5B 623012420 623013254 834 False 1013.0 1013 88.62300 6 837 1 chr5B.!!$F3 831
2 TraesCS5B01G404700 chr5B 665686957 665687797 840 True 902.0 902 86.12100 1 838 1 chr5B.!!$R1 837
3 TraesCS5B01G404700 chr5A 593119757 593123999 4242 False 2969.5 5096 94.72500 921 4833 2 chr5A.!!$F2 3912
4 TraesCS5B01G404700 chr5A 77808489 77809324 835 False 1096.0 1096 90.34600 1 836 1 chr5A.!!$F1 835
5 TraesCS5B01G404700 chr5D 473341326 473345580 4254 False 1534.0 2680 95.50675 837 4674 4 chr5D.!!$F1 3837
6 TraesCS5B01G404700 chr1B 643033305 643034143 838 False 1288.0 1288 94.40500 1 837 1 chr1B.!!$F1 836
7 TraesCS5B01G404700 chr4B 619833769 619834603 834 False 1242.0 1242 93.54100 1 833 1 chr4B.!!$F2 832
8 TraesCS5B01G404700 chr4B 429679114 429679952 838 False 1166.0 1166 91.80500 1 838 1 chr4B.!!$F1 837
9 TraesCS5B01G404700 chr6B 610846180 610847020 840 False 1173.0 1173 91.91400 1 838 1 chr6B.!!$F1 837
10 TraesCS5B01G404700 chr7D 42180466 42181303 837 False 909.0 909 86.31000 1 837 1 chr7D.!!$F1 836
11 TraesCS5B01G404700 chr2B 58892713 58893551 838 False 894.0 894 85.95200 1 837 1 chr2B.!!$F1 836

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
120 121 0.319405 AAGGCATGGCTGTTTGCTTC 59.681 50.000 24.08 0.0 42.39 3.86 F
385 389 0.463204 ATGCTGCTATCTCAGTGCGT 59.537 50.000 0.00 0.0 36.49 5.24 F
1469 1496 1.131126 CAACGCCGAGAAGCAATCAAT 59.869 47.619 0.00 0.0 0.00 2.57 F
2460 2497 0.796312 AGTGCACATTTTAGACGGCG 59.204 50.000 21.04 4.8 0.00 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1438 1465 0.319211 TCGGCGTTGTAGTGAAGTGG 60.319 55.0 6.85 0.0 0.00 4.00 R
1575 1612 1.698506 ATAACTAGCCTCTGCGAGCT 58.301 50.0 0.00 0.0 43.27 4.09 R
3169 3220 2.291209 TGACACCATGCCAATGTCTT 57.709 45.0 14.69 0.0 42.65 3.01 R
4390 4938 1.322442 GGCACCTCACTTTCTTTGCT 58.678 50.0 0.00 0.0 0.00 3.91 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
52 53 1.799258 GAAGCATATGGGCCCTTGCG 61.799 60.000 27.91 17.43 40.00 4.85
120 121 0.319405 AAGGCATGGCTGTTTGCTTC 59.681 50.000 24.08 0.00 42.39 3.86
149 153 7.405292 TGAAATATTGGATGAGGAGTTCACTT 58.595 34.615 0.00 0.00 38.99 3.16
287 291 0.601311 GCAAGTGAGCTGTCGGACTT 60.601 55.000 9.88 0.00 0.00 3.01
385 389 0.463204 ATGCTGCTATCTCAGTGCGT 59.537 50.000 0.00 0.00 36.49 5.24
516 520 3.238597 TGGCAATAAGGGAAGCTTTGTT 58.761 40.909 0.00 0.00 0.00 2.83
580 584 3.620488 GGATTGCAAGATGGTGGTAGAA 58.380 45.455 4.94 0.00 0.00 2.10
632 636 3.756434 TGGGTCGGTGATCAAAGAAATTC 59.244 43.478 0.00 0.00 0.00 2.17
687 691 6.407202 ACGTAGTTCATGAATTTAGGAGCTT 58.593 36.000 12.12 0.00 37.78 3.74
715 719 1.537202 GAAGCTCACAACCTCGCAAAT 59.463 47.619 0.00 0.00 0.00 2.32
738 742 4.040339 TCATGCACTTACTCTTCAGGTTGA 59.960 41.667 0.00 0.00 0.00 3.18
742 746 2.963782 ACTTACTCTTCAGGTTGACCGT 59.036 45.455 0.00 0.00 42.08 4.83
786 790 3.440522 GGAAATCTTTCTTTCGTCCCTGG 59.559 47.826 2.93 0.00 36.24 4.45
787 791 2.789409 ATCTTTCTTTCGTCCCTGGG 57.211 50.000 6.33 6.33 0.00 4.45
799 803 1.144691 TCCCTGGGAACATTGTGACA 58.855 50.000 14.48 0.00 41.51 3.58
1300 1306 3.320626 TCTGTTCAGTTCGATTGCTCTG 58.679 45.455 0.00 0.00 0.00 3.35
1307 1313 4.100035 TCAGTTCGATTGCTCTGGTATGAT 59.900 41.667 0.00 0.00 0.00 2.45
1308 1314 4.210746 CAGTTCGATTGCTCTGGTATGATG 59.789 45.833 0.00 0.00 0.00 3.07
1309 1315 4.122776 GTTCGATTGCTCTGGTATGATGT 58.877 43.478 0.00 0.00 0.00 3.06
1331 1346 5.808540 TGTGTACTAGTCAATATCAAACCGC 59.191 40.000 0.00 0.00 0.00 5.68
1354 1369 3.442273 GTGGATTCTAATTTTGCCACCGA 59.558 43.478 0.00 0.00 39.79 4.69
1405 1420 2.368439 TGGGAGATGGAAATTGCTTCG 58.632 47.619 0.00 0.00 34.56 3.79
1469 1496 1.131126 CAACGCCGAGAAGCAATCAAT 59.869 47.619 0.00 0.00 0.00 2.57
1575 1612 1.134995 CGCACTATGACAGCTTCCTGA 60.135 52.381 0.00 0.00 41.77 3.86
1610 1647 5.011125 GCTAGTTATACAGAAGCATCCCAGA 59.989 44.000 0.00 0.00 33.38 3.86
1673 1710 7.009568 CATTGTGATGCCTAGAGAAAGTAAC 57.990 40.000 0.00 0.00 0.00 2.50
1682 1719 5.455392 CCTAGAGAAAGTAACGTTGTCGAA 58.545 41.667 11.99 0.00 40.62 3.71
1757 1794 1.808343 GCGACGGGTTCAGGTTATTTT 59.192 47.619 0.00 0.00 0.00 1.82
1817 1854 1.933021 CATACTATGGCCCCGAGGTA 58.067 55.000 0.00 0.00 34.57 3.08
1985 2022 1.140816 GTGAGAAGCTGACACGTTCC 58.859 55.000 0.00 0.00 0.00 3.62
2028 2065 6.500041 GTTAGTCCAAATGTTGCAGTAAACA 58.500 36.000 0.00 0.00 43.82 2.83
2068 2105 4.001652 CCTAGGCATGCAGATATTCACAG 58.998 47.826 21.36 1.81 0.00 3.66
2121 2158 4.142609 TCAGATGCCTACAAGGACATTC 57.857 45.455 0.00 0.00 37.67 2.67
2123 2160 3.875727 CAGATGCCTACAAGGACATTCAG 59.124 47.826 0.00 0.00 37.67 3.02
2408 2445 6.431234 GCATACCTTTCCCACATTCTATTAGG 59.569 42.308 0.00 0.00 0.00 2.69
2420 2457 9.155975 CCACATTCTATTAGGTCAAGTATATGC 57.844 37.037 0.00 0.00 0.00 3.14
2460 2497 0.796312 AGTGCACATTTTAGACGGCG 59.204 50.000 21.04 4.80 0.00 6.46
2487 2524 3.661944 TGTTGGGTATTGCTGCAAATTG 58.338 40.909 20.06 0.00 0.00 2.32
2675 2720 3.890756 TGCATCAACTGTCTTGGTGAAAT 59.109 39.130 0.00 0.00 32.48 2.17
2813 2858 7.936584 TGTTTAGTGGTGAAAATGTTCTTAGG 58.063 34.615 0.00 0.00 34.60 2.69
2897 2942 1.337703 GCAGCATCCAAGTGAAACACA 59.662 47.619 4.75 0.00 41.43 3.72
2918 2963 6.042781 ACACATCTTGTCAGTTAAGGGTCTTA 59.957 38.462 0.00 0.00 29.79 2.10
2919 2964 6.934645 CACATCTTGTCAGTTAAGGGTCTTAA 59.065 38.462 0.00 0.00 0.00 1.85
3160 3211 4.019771 AGAGACAAGAAAGGGAGGACAATC 60.020 45.833 0.00 0.00 0.00 2.67
3169 3220 0.918983 GGAGGACAATCCCATCACCA 59.081 55.000 0.00 0.00 37.19 4.17
3297 3348 7.601130 ACATACTTACATCTGCGTAAAAAGACA 59.399 33.333 0.00 0.00 31.19 3.41
3302 3353 4.967575 ACATCTGCGTAAAAAGACAAAACG 59.032 37.500 0.00 0.00 36.67 3.60
3359 3410 6.674278 GCTCTGCAGTTTTATAGTCAAGCTTC 60.674 42.308 14.67 0.00 0.00 3.86
3433 3642 8.795786 TGTGTTTCTAGATTTAATTTGCACAC 57.204 30.769 0.00 0.00 0.00 3.82
3486 3696 3.953612 TGTTGAAACTGTTGCTTCCAGAT 59.046 39.130 0.00 0.00 34.04 2.90
3532 3742 1.982660 CAAGGGCTGCAGATCATGAT 58.017 50.000 20.43 8.25 0.00 2.45
3645 3856 4.216472 TGCGTCATTATGCACTTAAAACCA 59.784 37.500 0.00 0.00 42.73 3.67
3663 3874 1.470285 CCAAAATGGCAGGAGATTGCG 60.470 52.381 0.00 0.00 45.00 4.85
3760 3971 2.770164 GGAGTTTCCTAGAGCTGCAA 57.230 50.000 1.02 0.00 32.53 4.08
3784 3995 8.873830 CAATTGTCTCATATTCGTCAGTTAAGT 58.126 33.333 0.00 0.00 0.00 2.24
3785 3996 7.812309 TTGTCTCATATTCGTCAGTTAAGTG 57.188 36.000 3.73 3.73 0.00 3.16
3968 4179 5.097742 TGTCTGATGTCCGGAATTACAAT 57.902 39.130 5.23 0.00 30.66 2.71
3969 4180 5.496556 TGTCTGATGTCCGGAATTACAATT 58.503 37.500 5.23 0.00 30.66 2.32
3970 4181 6.645306 TGTCTGATGTCCGGAATTACAATTA 58.355 36.000 5.23 0.00 30.66 1.40
3971 4182 6.537301 TGTCTGATGTCCGGAATTACAATTAC 59.463 38.462 5.23 4.33 30.66 1.89
3972 4183 6.537301 GTCTGATGTCCGGAATTACAATTACA 59.463 38.462 5.23 0.00 30.66 2.41
3973 4184 7.065324 GTCTGATGTCCGGAATTACAATTACAA 59.935 37.037 5.23 0.00 30.66 2.41
4025 4238 2.116238 TGGTAAGCTAGCTACCCTTGG 58.884 52.381 26.85 0.00 33.08 3.61
4064 4277 6.151985 TGTTCTTTGTTCCTTGCTTGAACTAA 59.848 34.615 12.51 10.62 42.04 2.24
4100 4313 0.895530 TAGGAAAGAGCACCCGACAG 59.104 55.000 0.00 0.00 0.00 3.51
4118 4331 5.346522 CGACAGTATACAACTAAGAACCCC 58.653 45.833 5.50 0.00 35.76 4.95
4188 4402 2.280628 GTAAGCATCTGTACCTGCCAC 58.719 52.381 8.14 4.48 39.22 5.01
4215 4429 8.942338 TTCATAGTGCGTAAGTTAATCTGATT 57.058 30.769 8.14 8.14 41.68 2.57
4229 4443 8.606830 AGTTAATCTGATTTCTAGGGACACTTT 58.393 33.333 8.38 0.00 0.00 2.66
4261 4475 5.413309 TGGTGTGAAATTTGGTCACTTTT 57.587 34.783 9.54 0.00 44.70 2.27
4267 4481 5.753438 GTGAAATTTGGTCACTTTTCCCTTC 59.247 40.000 0.00 0.00 41.80 3.46
4279 4493 9.063615 GTCACTTTTCCCTTCAATCTTAAACTA 57.936 33.333 0.00 0.00 0.00 2.24
4372 4920 2.089980 ACAGCCATGCTCTTTCATCAC 58.910 47.619 0.00 0.00 36.40 3.06
4462 5010 1.416401 CAGTAGACAACAGGTGGTGGT 59.584 52.381 0.00 0.00 36.97 4.16
4477 5025 2.908940 GGTGCTTGCTGGCTGTGT 60.909 61.111 3.49 0.00 0.00 3.72
4483 5031 1.065102 GCTTGCTGGCTGTGTCATATG 59.935 52.381 0.00 0.00 0.00 1.78
4504 5052 1.247567 GGCAAGACAAGGCAAAGCTA 58.752 50.000 0.00 0.00 0.00 3.32
4544 5092 5.428783 ACATCCTAAGGTAGTATGCCACTTT 59.571 40.000 0.00 0.00 46.86 2.66
4714 5262 1.202687 TGACAAGTGCTGTTCTCAGGG 60.203 52.381 0.00 0.00 38.84 4.45
4718 5266 2.551459 CAAGTGCTGTTCTCAGGGAAAG 59.449 50.000 0.00 0.00 41.57 2.62
4816 5364 2.884639 ACTCCACCTTGATGAAAAACCG 59.115 45.455 0.00 0.00 0.00 4.44
4820 5368 2.817258 CACCTTGATGAAAAACCGCCTA 59.183 45.455 0.00 0.00 0.00 3.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 53 0.035439 TCTCCACAAAATCCTCCGGC 60.035 55.000 0.00 0.00 0.00 6.13
120 121 7.283807 TGAACTCCTCATCCAATATTTCATGTG 59.716 37.037 0.00 2.52 0.00 3.21
149 153 0.820074 CAGGCCGTAACCACCAAACA 60.820 55.000 0.00 0.00 0.00 2.83
226 230 2.162681 GTTATGAAGCTGTTGGTGGCT 58.837 47.619 0.00 0.00 40.85 4.75
287 291 0.177141 GGCACTGTCATAGGCCGTTA 59.823 55.000 0.00 0.00 34.50 3.18
385 389 2.104111 AGCAATAACGCCATACCTGCTA 59.896 45.455 0.00 0.00 36.92 3.49
399 403 7.869937 GCTGATCTCTACATACTGAAGCAATAA 59.130 37.037 0.00 0.00 0.00 1.40
580 584 2.031163 GTGCCCTTGCTCACGTCT 59.969 61.111 0.00 0.00 38.71 4.18
687 691 4.261155 CGAGGTTGTGAGCTTCAAAATTGA 60.261 41.667 6.81 0.00 32.79 2.57
715 719 4.040339 TCAACCTGAAGAGTAAGTGCATGA 59.960 41.667 0.00 0.00 0.00 3.07
730 734 2.217750 CAAACATGACGGTCAACCTGA 58.782 47.619 15.72 0.00 0.00 3.86
738 742 2.105134 TGACCTAACCAAACATGACGGT 59.895 45.455 0.00 0.00 33.32 4.83
786 790 7.682021 GCCTTTATTATCCTGTCACAATGTTCC 60.682 40.741 0.00 0.00 0.00 3.62
787 791 7.067494 AGCCTTTATTATCCTGTCACAATGTTC 59.933 37.037 0.00 0.00 0.00 3.18
799 803 4.781934 ACTCGCAAAGCCTTTATTATCCT 58.218 39.130 0.00 0.00 0.00 3.24
838 842 1.342074 TGAGGGGAGAACACACTCAG 58.658 55.000 0.00 0.00 38.51 3.35
839 843 1.801242 TTGAGGGGAGAACACACTCA 58.199 50.000 0.00 0.00 38.51 3.41
840 844 2.930826 TTTGAGGGGAGAACACACTC 57.069 50.000 0.00 0.00 36.31 3.51
841 845 3.662759 TTTTTGAGGGGAGAACACACT 57.337 42.857 0.00 0.00 0.00 3.55
1307 1313 5.808540 GCGGTTTGATATTGACTAGTACACA 59.191 40.000 0.00 0.00 0.00 3.72
1308 1314 5.051907 CGCGGTTTGATATTGACTAGTACAC 60.052 44.000 0.00 0.00 0.00 2.90
1309 1315 5.038683 CGCGGTTTGATATTGACTAGTACA 58.961 41.667 0.00 0.00 0.00 2.90
1326 1341 3.672241 GCAAAATTAGAATCCACGCGGTT 60.672 43.478 12.47 0.00 0.00 4.44
1331 1346 3.730662 CGGTGGCAAAATTAGAATCCACG 60.731 47.826 0.00 0.00 43.48 4.94
1354 1369 6.126710 ACAATTCATTTGGGCATATCCACAAT 60.127 34.615 0.00 0.00 39.80 2.71
1391 1406 1.549203 AGCACCGAAGCAATTTCCAT 58.451 45.000 2.02 0.00 36.85 3.41
1405 1420 6.202516 TGCAAATAGTACCAAATTAGCACC 57.797 37.500 0.00 0.00 0.00 5.01
1438 1465 0.319211 TCGGCGTTGTAGTGAAGTGG 60.319 55.000 6.85 0.00 0.00 4.00
1495 1522 5.527582 GCGGAAAGGTTCATGAGTAATATGT 59.472 40.000 0.00 0.00 0.00 2.29
1575 1612 1.698506 ATAACTAGCCTCTGCGAGCT 58.301 50.000 0.00 0.00 43.27 4.09
1610 1647 8.097038 GGATATGGATATACATATTGCGATGGT 58.903 37.037 19.48 0.00 42.48 3.55
1673 1710 3.119990 ACCATTTAAGCCATTCGACAACG 60.120 43.478 0.00 0.00 41.26 4.10
1682 1719 3.053693 TGAGCCTGTACCATTTAAGCCAT 60.054 43.478 0.00 0.00 0.00 4.40
1757 1794 6.943146 AGTACAGTTCACTCTCAAGTCTATCA 59.057 38.462 0.00 0.00 31.71 2.15
1787 1824 2.811504 GCCATAGTATGCAGCATGGACA 60.812 50.000 18.81 0.81 41.42 4.02
1817 1854 2.249743 AGGAAGGAGATCCATGGACTCT 59.750 50.000 28.34 24.65 42.27 3.24
2028 2065 5.398012 GCCTAGGTATTGAACATTTCTCCCT 60.398 44.000 11.31 0.00 0.00 4.20
2068 2105 4.141846 TGTCACTATCCTCATTCTCTTGCC 60.142 45.833 0.00 0.00 0.00 4.52
2121 2158 3.118482 ACTCTCCCACATATCTGCAACTG 60.118 47.826 0.00 0.00 0.00 3.16
2123 2160 3.550437 ACTCTCCCACATATCTGCAAC 57.450 47.619 0.00 0.00 0.00 4.17
2408 2445 5.586243 ACACTGAACCATGCATATACTTGAC 59.414 40.000 0.00 0.00 0.00 3.18
2420 2457 6.151691 CACTTAAATTCCACACTGAACCATG 58.848 40.000 0.00 0.00 0.00 3.66
2472 2509 5.868801 ACAACATACCAATTTGCAGCAATAC 59.131 36.000 9.12 0.00 0.00 1.89
2487 2524 6.072397 TGCATGTGTTTAACCTACAACATACC 60.072 38.462 0.00 0.00 35.40 2.73
2591 2628 6.790319 AGTACAACCCAACATAGAAAGGAAT 58.210 36.000 0.00 0.00 0.00 3.01
2675 2720 8.232412 ACCTATGTAAGATTACCTATCCAGTCA 58.768 37.037 0.48 0.00 33.45 3.41
2813 2858 2.754472 AGTTTTGCGGCAATTCTTTCC 58.246 42.857 17.19 0.12 0.00 3.13
2851 2896 6.183361 TGCTATGCTCCTATTCACTTTCAGAT 60.183 38.462 0.00 0.00 0.00 2.90
2897 2942 6.599638 GCATTAAGACCCTTAACTGACAAGAT 59.400 38.462 1.74 0.00 0.00 2.40
2918 2963 6.855836 TGATTCTTTATCTTCTTTGCGCATT 58.144 32.000 12.75 0.00 34.17 3.56
2919 2964 6.094603 ACTGATTCTTTATCTTCTTTGCGCAT 59.905 34.615 12.75 0.00 34.17 4.73
3169 3220 2.291209 TGACACCATGCCAATGTCTT 57.709 45.000 14.69 0.00 42.65 3.01
3297 3348 7.362574 CCAACATGGGTGAGATTATTACGTTTT 60.363 37.037 0.00 0.00 32.67 2.43
3302 3353 8.691661 ATTACCAACATGGGTGAGATTATTAC 57.308 34.615 4.06 0.00 43.37 1.89
3359 3410 6.038714 GGCTAGACAAGAAAATATTGGACAGG 59.961 42.308 0.00 0.00 31.76 4.00
3411 3620 8.699749 GGTTGTGTGCAAATTAAATCTAGAAAC 58.300 33.333 0.00 0.00 36.22 2.78
3416 3625 7.517614 TGAGGTTGTGTGCAAATTAAATCTA 57.482 32.000 0.00 0.00 36.22 1.98
3433 3642 4.201657 TGTGAATGCATCCTATGAGGTTG 58.798 43.478 0.00 0.02 37.97 3.77
3474 3684 5.956068 AAAAGAGAAGATCTGGAAGCAAC 57.044 39.130 0.00 0.00 38.67 4.17
3486 3696 6.773638 ACTCAAGCTTCCATAAAAGAGAAGA 58.226 36.000 11.78 0.00 39.50 2.87
3645 3856 1.474077 GACGCAATCTCCTGCCATTTT 59.526 47.619 0.00 0.00 39.26 1.82
3760 3971 8.251026 TCACTTAACTGACGAATATGAGACAAT 58.749 33.333 0.00 0.00 0.00 2.71
3889 4100 7.033185 GTGAACAGCCTCAAAAAGTTTTAGAA 58.967 34.615 0.24 0.00 0.00 2.10
3890 4101 6.377146 AGTGAACAGCCTCAAAAAGTTTTAGA 59.623 34.615 0.24 0.00 0.00 2.10
3901 4112 3.244526 TGCAGAATAGTGAACAGCCTCAA 60.245 43.478 0.00 0.00 0.00 3.02
3968 4179 8.568676 TCTATTTCATGGAAATCGGTTTGTAA 57.431 30.769 0.00 0.00 40.77 2.41
3969 4180 8.620416 CATCTATTTCATGGAAATCGGTTTGTA 58.380 33.333 0.00 0.00 40.77 2.41
3970 4181 7.339212 TCATCTATTTCATGGAAATCGGTTTGT 59.661 33.333 0.00 0.00 40.77 2.83
3971 4182 7.706159 TCATCTATTTCATGGAAATCGGTTTG 58.294 34.615 0.00 0.00 40.77 2.93
3972 4183 7.880160 TCATCTATTTCATGGAAATCGGTTT 57.120 32.000 7.42 0.00 40.77 3.27
3973 4184 7.941238 AGATCATCTATTTCATGGAAATCGGTT 59.059 33.333 7.42 0.00 40.77 4.44
4084 4297 2.674796 ATACTGTCGGGTGCTCTTTC 57.325 50.000 0.00 0.00 0.00 2.62
4085 4298 2.829720 TGTATACTGTCGGGTGCTCTTT 59.170 45.455 4.17 0.00 0.00 2.52
4100 4313 5.689068 CGATTCGGGGTTCTTAGTTGTATAC 59.311 44.000 0.00 0.00 0.00 1.47
4118 4331 7.910162 ACCTTTGAACATATCATTTTCGATTCG 59.090 33.333 0.00 0.00 38.03 3.34
4188 4402 8.407457 TCAGATTAACTTACGCACTATGAAAG 57.593 34.615 0.00 0.00 0.00 2.62
4215 4429 4.658901 AGGTTCAGAAAAGTGTCCCTAGAA 59.341 41.667 0.00 0.00 0.00 2.10
4229 4443 5.395103 CCAAATTTCACACCAAGGTTCAGAA 60.395 40.000 0.00 0.00 0.00 3.02
4261 4475 9.462606 GATTTTCCTAGTTTAAGATTGAAGGGA 57.537 33.333 0.00 0.00 0.00 4.20
4390 4938 1.322442 GGCACCTCACTTTCTTTGCT 58.678 50.000 0.00 0.00 0.00 3.91
4393 4941 2.736670 ACTGGCACCTCACTTTCTTT 57.263 45.000 0.00 0.00 0.00 2.52
4462 5010 0.036590 TATGACACAGCCAGCAAGCA 59.963 50.000 0.55 0.00 34.23 3.91
4463 5011 1.065102 CATATGACACAGCCAGCAAGC 59.935 52.381 0.00 0.00 0.00 4.01
4477 5025 1.667236 CCTTGTCTTGCCGCATATGA 58.333 50.000 6.97 0.00 0.00 2.15
4483 5031 1.372128 CTTTGCCTTGTCTTGCCGC 60.372 57.895 0.00 0.00 0.00 6.53
4544 5092 2.162208 GCGGAGAATGCAATGACTTTCA 59.838 45.455 0.00 0.00 0.00 2.69
4696 5244 1.131638 TCCCTGAGAACAGCACTTGT 58.868 50.000 0.00 0.00 43.45 3.16
4714 5262 5.920226 CCTGAGGGAATTCGCAAGACTTTC 61.920 50.000 22.88 11.05 39.53 2.62
4718 5266 1.066143 TCCTGAGGGAATTCGCAAGAC 60.066 52.381 22.88 12.03 42.67 3.01
4781 5329 4.728772 AGGTGGAGTTCAATTCATTGACA 58.271 39.130 1.52 0.00 45.63 3.58
4795 5343 2.884639 CGGTTTTTCATCAAGGTGGAGT 59.115 45.455 0.00 0.00 0.00 3.85
4803 5351 5.975693 AAGAATAGGCGGTTTTTCATCAA 57.024 34.783 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.