Multiple sequence alignment - TraesCS4D01G197400

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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 TraesCS4D01G197400 chr4D 100.000 2775 0 0 1 2775 342697697 342700471 0.000000e+00 5125.0
1 TraesCS4D01G197400 chr4B 96.125 1600 35 12 290 1871 424720812 424722402 0.000000e+00 2586.0
2 TraesCS4D01G197400 chr4B 91.065 291 22 1 1 291 424720404 424720690 9.320000e-105 390.0
3 TraesCS4D01G197400 chr4A 93.916 1315 59 12 858 2159 123247781 123246475 0.000000e+00 1965.0
4 TraesCS4D01G197400 chr4A 86.928 459 24 20 53 508 123250775 123250350 1.490000e-132 483.0
5 TraesCS4D01G197400 chr4A 87.097 155 16 4 19 171 6439533 6439381 3.670000e-39 172.0
6 TraesCS4D01G197400 chr4A 97.059 68 2 0 801 868 123250368 123250301 6.280000e-22 115.0
7 TraesCS4D01G197400 chr3B 91.964 560 38 4 2222 2775 13257172 13257730 0.000000e+00 778.0
8 TraesCS4D01G197400 chr3B 84.375 160 17 7 1 154 537970410 537970567 1.720000e-32 150.0
9 TraesCS4D01G197400 chr6B 90.415 386 35 2 2390 2775 653783273 653782890 8.870000e-140 507.0
10 TraesCS4D01G197400 chr3D 79.570 558 103 11 2224 2775 323691675 323691123 3.350000e-104 388.0
11 TraesCS4D01G197400 chr6D 91.935 248 6 8 513 749 467537893 467538137 4.430000e-88 335.0
12 TraesCS4D01G197400 chr7A 89.873 237 12 6 513 738 360083363 360083128 7.520000e-76 294.0
13 TraesCS4D01G197400 chr2B 86.826 167 20 2 6 171 110366049 110365884 4.720000e-43 185.0
14 TraesCS4D01G197400 chr2B 89.381 113 9 1 2657 2769 672711147 672711256 3.730000e-29 139.0
15 TraesCS4D01G197400 chr2A 84.940 166 23 2 19 183 762384515 762384351 1.710000e-37 167.0
16 TraesCS4D01G197400 chr2A 86.232 138 17 2 19 155 61820595 61820459 6.190000e-32 148.0
17 TraesCS4D01G197400 chrUn 84.615 169 22 4 19 184 398593648 398593481 6.150000e-37 165.0
18 TraesCS4D01G197400 chr2D 84.024 169 23 4 19 184 610488519 610488352 2.860000e-35 159.0
19 TraesCS4D01G197400 chr2D 76.923 221 45 6 1393 1610 4497188 4497405 1.350000e-23 121.0
20 TraesCS4D01G197400 chr2D 83.036 112 16 2 2662 2773 536233156 536233264 6.330000e-17 99.0
21 TraesCS4D01G197400 chr3A 81.143 175 26 5 15 184 180922341 180922513 1.730000e-27 134.0
22 TraesCS4D01G197400 chr3A 95.238 84 1 2 668 749 600913805 600913887 2.240000e-26 130.0
23 TraesCS4D01G197400 chr1B 77.376 221 44 6 1393 1610 63091253 63091036 2.900000e-25 126.0
24 TraesCS4D01G197400 chr1A 77.376 221 44 6 1393 1610 42603672 42603455 2.900000e-25 126.0
25 TraesCS4D01G197400 chr5B 77.622 143 22 6 1868 2000 662568553 662568411 8.240000e-11 78.7


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 TraesCS4D01G197400 chr4D 342697697 342700471 2774 False 5125.000000 5125 100.000000 1 2775 1 chr4D.!!$F1 2774
1 TraesCS4D01G197400 chr4B 424720404 424722402 1998 False 1488.000000 2586 93.595000 1 1871 2 chr4B.!!$F1 1870
2 TraesCS4D01G197400 chr4A 123246475 123250775 4300 True 854.333333 1965 92.634333 53 2159 3 chr4A.!!$R2 2106
3 TraesCS4D01G197400 chr3B 13257172 13257730 558 False 778.000000 778 91.964000 2222 2775 1 chr3B.!!$F1 553
4 TraesCS4D01G197400 chr3D 323691123 323691675 552 True 388.000000 388 79.570000 2224 2775 1 chr3D.!!$R1 551

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
679 813 0.324645 CAGCTTTAATGGTGCCCCCT 60.325 55.0 7.51 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2162 4848 0.03601 CCAATTGGACGAGCAGGAGT 60.036 55.0 20.5 0.0 37.39 3.85 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
164 165 7.739825 ACATGCATGAACTACCTATGATACTT 58.260 34.615 32.75 0.57 0.00 2.24
183 184 4.273318 ACTTCCATTAAAGGCAGCCTAAG 58.727 43.478 16.56 15.02 31.13 2.18
193 196 2.887152 AGGCAGCCTAAGTTGAAAGTTG 59.113 45.455 14.18 0.00 28.47 3.16
227 230 8.660295 TTTGTAGAAGGAGGTCATTCTTACTA 57.340 34.615 11.80 4.05 43.49 1.82
228 231 8.660295 TTGTAGAAGGAGGTCATTCTTACTAA 57.340 34.615 11.80 1.64 43.49 2.24
229 232 8.660295 TGTAGAAGGAGGTCATTCTTACTAAA 57.340 34.615 11.80 0.00 43.49 1.85
230 233 8.750298 TGTAGAAGGAGGTCATTCTTACTAAAG 58.250 37.037 11.80 0.00 43.49 1.85
330 456 4.681942 GCGATTAGTTAGCAGTATGTCCTG 59.318 45.833 0.00 0.00 39.31 3.86
445 572 1.953686 ACGTACCAGCAAAACTGCAAT 59.046 42.857 0.00 0.00 45.78 3.56
538 665 5.295787 TGGCGATAAATGGTGTTATCTTCAC 59.704 40.000 0.00 0.00 38.03 3.18
561 688 7.170320 TCACGGAGATTAAATATTTTACTCGGC 59.830 37.037 21.42 11.44 0.00 5.54
562 689 7.170998 CACGGAGATTAAATATTTTACTCGGCT 59.829 37.037 21.42 13.64 0.00 5.52
607 734 5.165961 ACTTTCTGCCTAAGAGCATGTAA 57.834 39.130 0.00 0.00 43.09 2.41
608 735 5.749462 ACTTTCTGCCTAAGAGCATGTAAT 58.251 37.500 0.00 0.00 43.09 1.89
609 736 6.889198 ACTTTCTGCCTAAGAGCATGTAATA 58.111 36.000 0.00 0.00 43.09 0.98
610 737 7.338710 ACTTTCTGCCTAAGAGCATGTAATAA 58.661 34.615 0.00 0.00 43.09 1.40
611 738 7.829211 ACTTTCTGCCTAAGAGCATGTAATAAA 59.171 33.333 0.00 0.00 43.09 1.40
612 739 7.792374 TTCTGCCTAAGAGCATGTAATAAAG 57.208 36.000 0.00 0.00 43.09 1.85
613 740 6.889198 TCTGCCTAAGAGCATGTAATAAAGT 58.111 36.000 0.00 0.00 43.09 2.66
617 744 6.183360 GCCTAAGAGCATGTAATAAAGTTGCA 60.183 38.462 0.00 0.00 35.79 4.08
653 781 3.813724 GGTGCAGGGCAGGGCTAT 61.814 66.667 0.00 0.00 40.08 2.97
668 796 3.463329 AGGGCTATCATTCCCAGCTTTAA 59.537 43.478 0.00 0.00 45.07 1.52
669 797 4.106987 AGGGCTATCATTCCCAGCTTTAAT 59.893 41.667 0.00 0.00 45.07 1.40
671 799 4.219288 GGCTATCATTCCCAGCTTTAATGG 59.781 45.833 10.85 0.00 35.60 3.16
672 800 4.829492 GCTATCATTCCCAGCTTTAATGGT 59.171 41.667 10.85 7.64 35.96 3.55
673 801 5.278660 GCTATCATTCCCAGCTTTAATGGTG 60.279 44.000 12.31 12.31 35.96 4.17
674 802 2.760092 TCATTCCCAGCTTTAATGGTGC 59.240 45.455 13.50 0.00 35.96 5.01
677 811 1.329913 CCCAGCTTTAATGGTGCCCC 61.330 60.000 13.50 0.00 35.96 5.80
679 813 0.324645 CAGCTTTAATGGTGCCCCCT 60.325 55.000 7.51 0.00 0.00 4.79
733 867 3.758554 GCTGAGCTCTTTGGTTAATGGAA 59.241 43.478 16.19 0.00 0.00 3.53
734 868 4.400567 GCTGAGCTCTTTGGTTAATGGAAT 59.599 41.667 16.19 0.00 0.00 3.01
963 3635 7.148356 CGCTGCTTATTTCCATCACATACATAT 60.148 37.037 0.00 0.00 0.00 1.78
964 3636 9.166173 GCTGCTTATTTCCATCACATACATATA 57.834 33.333 0.00 0.00 0.00 0.86
991 3663 1.463553 TTCCGTGTGCTCTGCTCTCA 61.464 55.000 0.00 0.00 0.00 3.27
1313 3985 2.282701 GTCCGTACGGAGCACATTTA 57.717 50.000 36.37 10.01 46.16 1.40
1576 4248 1.277273 CTCCTCAGCATCCAGACACAA 59.723 52.381 0.00 0.00 0.00 3.33
1814 4492 5.798934 CGCTTAATCACTAGAAGTACACGTT 59.201 40.000 0.00 0.00 0.00 3.99
1885 4566 3.189287 AGATGTTCAACGGCAATGACTTC 59.811 43.478 0.00 0.00 0.00 3.01
1891 4572 1.429463 ACGGCAATGACTTCGTCTTC 58.571 50.000 0.00 0.00 33.15 2.87
1898 4580 0.039437 TGACTTCGTCTTCGGTGAGC 60.039 55.000 0.00 0.00 37.69 4.26
1899 4581 0.241481 GACTTCGTCTTCGGTGAGCT 59.759 55.000 0.00 0.00 37.69 4.09
1901 4583 2.093106 ACTTCGTCTTCGGTGAGCTAT 58.907 47.619 0.00 0.00 37.69 2.97
1931 4613 6.161855 TCTAAATATCAGTGATGAAGCCGT 57.838 37.500 16.15 0.00 0.00 5.68
1934 4616 2.015736 ATCAGTGATGAAGCCGTGTC 57.984 50.000 4.39 0.00 0.00 3.67
1942 4624 2.717809 GAAGCCGTGTCGAGTTCGC 61.718 63.158 0.00 0.00 39.60 4.70
1948 4630 0.451628 CGTGTCGAGTTCGCGTAAGA 60.452 55.000 5.77 0.00 39.60 2.10
1951 4633 1.257539 GTCGAGTTCGCGTAAGAAGG 58.742 55.000 5.77 0.00 39.60 3.46
1960 4642 1.734707 CGCGTAAGAAGGTGATCCGTT 60.735 52.381 0.00 0.00 43.02 4.44
1994 4676 2.987149 GGTGTCTATTACGATGATGCCG 59.013 50.000 0.00 0.00 0.00 5.69
2020 4702 2.038387 ATGTAAAGGGCGATGGTGTC 57.962 50.000 0.00 0.00 0.00 3.67
2023 4705 2.156098 GTAAAGGGCGATGGTGTCAAA 58.844 47.619 0.00 0.00 0.00 2.69
2030 4712 1.732259 GCGATGGTGTCAAACTACAGG 59.268 52.381 0.00 0.00 0.00 4.00
2079 4765 1.674221 GGCTGATGCTTCTCTTCGTGT 60.674 52.381 0.88 0.00 39.59 4.49
2093 4779 0.245539 TCGTGTAAAGAAGGCGAGGG 59.754 55.000 0.00 0.00 0.00 4.30
2108 4794 1.322442 GAGGGTGCTGCTGTTTTTCT 58.678 50.000 0.00 0.00 0.00 2.52
2109 4795 1.683385 GAGGGTGCTGCTGTTTTTCTT 59.317 47.619 0.00 0.00 0.00 2.52
2122 4808 5.513141 GCTGTTTTTCTTGTCTTGTCAAGTC 59.487 40.000 12.30 7.61 43.44 3.01
2124 4810 6.611381 TGTTTTTCTTGTCTTGTCAAGTCAG 58.389 36.000 12.30 7.16 43.44 3.51
2132 4818 5.458015 TGTCTTGTCAAGTCAGTATGTACG 58.542 41.667 12.30 0.00 37.40 3.67
2142 4828 8.248253 TCAAGTCAGTATGTACGTGATTTGTAT 58.752 33.333 15.65 0.00 38.43 2.29
2145 4831 9.512435 AGTCAGTATGTACGTGATTTGTATTAC 57.488 33.333 0.00 0.00 37.40 1.89
2169 4855 7.767261 ACGATTCTTATGATAGATACTCCTGC 58.233 38.462 0.00 0.00 0.00 4.85
2170 4856 7.613801 ACGATTCTTATGATAGATACTCCTGCT 59.386 37.037 0.00 0.00 0.00 4.24
2171 4857 8.128582 CGATTCTTATGATAGATACTCCTGCTC 58.871 40.741 0.00 0.00 0.00 4.26
2172 4858 6.993786 TCTTATGATAGATACTCCTGCTCG 57.006 41.667 0.00 0.00 0.00 5.03
2173 4859 6.477253 TCTTATGATAGATACTCCTGCTCGT 58.523 40.000 0.00 0.00 0.00 4.18
2174 4860 6.596106 TCTTATGATAGATACTCCTGCTCGTC 59.404 42.308 0.00 0.00 0.00 4.20
2175 4861 3.413327 TGATAGATACTCCTGCTCGTCC 58.587 50.000 0.00 0.00 0.00 4.79
2176 4862 3.181443 TGATAGATACTCCTGCTCGTCCA 60.181 47.826 0.00 0.00 0.00 4.02
2177 4863 2.145397 AGATACTCCTGCTCGTCCAA 57.855 50.000 0.00 0.00 0.00 3.53
2178 4864 2.672098 AGATACTCCTGCTCGTCCAAT 58.328 47.619 0.00 0.00 0.00 3.16
2179 4865 3.034635 AGATACTCCTGCTCGTCCAATT 58.965 45.455 0.00 0.00 0.00 2.32
2180 4866 2.672961 TACTCCTGCTCGTCCAATTG 57.327 50.000 0.00 0.00 0.00 2.32
2181 4867 0.036010 ACTCCTGCTCGTCCAATTGG 60.036 55.000 19.08 19.08 0.00 3.16
2182 4868 0.250234 CTCCTGCTCGTCCAATTGGA 59.750 55.000 23.63 23.63 43.08 3.53
2197 4883 6.108687 TCCAATTGGATCGATATGATAGTGC 58.891 40.000 23.63 0.00 39.78 4.40
2198 4884 5.295292 CCAATTGGATCGATATGATAGTGCC 59.705 44.000 20.50 0.00 37.47 5.01
2199 4885 3.782889 TGGATCGATATGATAGTGCCG 57.217 47.619 0.00 0.00 37.47 5.69
2200 4886 3.089284 TGGATCGATATGATAGTGCCGT 58.911 45.455 0.00 0.00 37.47 5.68
2201 4887 3.509967 TGGATCGATATGATAGTGCCGTT 59.490 43.478 0.00 0.00 37.47 4.44
2202 4888 4.106197 GGATCGATATGATAGTGCCGTTC 58.894 47.826 0.00 0.00 37.47 3.95
2203 4889 4.380550 GGATCGATATGATAGTGCCGTTCA 60.381 45.833 0.00 0.00 37.47 3.18
2204 4890 4.160736 TCGATATGATAGTGCCGTTCAG 57.839 45.455 0.00 0.00 0.00 3.02
2205 4891 3.568430 TCGATATGATAGTGCCGTTCAGT 59.432 43.478 0.00 0.00 0.00 3.41
2206 4892 4.758165 TCGATATGATAGTGCCGTTCAGTA 59.242 41.667 0.00 0.00 35.25 2.74
2207 4893 4.852104 CGATATGATAGTGCCGTTCAGTAC 59.148 45.833 0.00 0.00 33.69 2.73
2208 4894 5.334957 CGATATGATAGTGCCGTTCAGTACT 60.335 44.000 0.00 0.00 33.69 2.73
2209 4895 4.737855 ATGATAGTGCCGTTCAGTACTT 57.262 40.909 0.00 0.00 33.69 2.24
2210 4896 3.845178 TGATAGTGCCGTTCAGTACTTG 58.155 45.455 0.00 0.00 33.69 3.16
2211 4897 2.074547 TAGTGCCGTTCAGTACTTGC 57.925 50.000 0.00 0.00 0.00 4.01
2212 4898 0.602905 AGTGCCGTTCAGTACTTGCC 60.603 55.000 0.00 0.00 0.00 4.52
2213 4899 0.602905 GTGCCGTTCAGTACTTGCCT 60.603 55.000 0.00 0.00 0.00 4.75
2214 4900 0.320421 TGCCGTTCAGTACTTGCCTC 60.320 55.000 0.00 0.00 0.00 4.70
2215 4901 1.019805 GCCGTTCAGTACTTGCCTCC 61.020 60.000 0.00 0.00 0.00 4.30
2216 4902 0.736325 CCGTTCAGTACTTGCCTCCG 60.736 60.000 0.00 0.00 0.00 4.63
2217 4903 0.242825 CGTTCAGTACTTGCCTCCGA 59.757 55.000 0.00 0.00 0.00 4.55
2218 4904 1.336517 CGTTCAGTACTTGCCTCCGAA 60.337 52.381 0.00 0.00 0.00 4.30
2219 4905 2.067013 GTTCAGTACTTGCCTCCGAAC 58.933 52.381 0.00 0.00 0.00 3.95
2220 4906 1.629043 TCAGTACTTGCCTCCGAACT 58.371 50.000 0.00 0.00 0.00 3.01
2229 4915 2.202623 CTCCGAACTTCCGCTCCG 60.203 66.667 0.00 0.00 0.00 4.63
2443 5142 2.031465 TTGTCGGGTCGGCCTTTC 59.969 61.111 5.77 0.00 34.45 2.62
2445 5144 4.060038 GTCGGGTCGGCCTTTCGA 62.060 66.667 5.77 3.36 36.76 3.71
2487 5186 3.270839 GCTGCTGCAGATCCTCGC 61.271 66.667 32.30 12.79 39.41 5.03
2651 5350 2.363018 CAGACTCCCCGCCTCTCA 60.363 66.667 0.00 0.00 0.00 3.27
2655 5354 0.468400 GACTCCCCGCCTCTCACTAT 60.468 60.000 0.00 0.00 0.00 2.12
2658 5357 2.423446 CCCGCCTCTCACTATGGC 59.577 66.667 0.00 0.00 42.94 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 7.839907 TGATGTGCTACTATATGTCATGCATA 58.160 34.615 0.00 10.81 43.47 3.14
164 165 4.016444 CAACTTAGGCTGCCTTTAATGGA 58.984 43.478 28.55 3.28 34.61 3.41
193 196 8.964476 TGACCTCCTTCTACAAAAATCATATC 57.036 34.615 0.00 0.00 0.00 1.63
227 230 6.203338 CAGTTTTGTTTTGCCATGCTATCTTT 59.797 34.615 0.00 0.00 0.00 2.52
228 231 5.697633 CAGTTTTGTTTTGCCATGCTATCTT 59.302 36.000 0.00 0.00 0.00 2.40
229 232 5.232463 CAGTTTTGTTTTGCCATGCTATCT 58.768 37.500 0.00 0.00 0.00 1.98
230 233 4.389687 CCAGTTTTGTTTTGCCATGCTATC 59.610 41.667 0.00 0.00 0.00 2.08
445 572 3.918591 GCTCGTAGTCGACAGAAAATCAA 59.081 43.478 19.50 0.00 41.35 2.57
538 665 7.653767 AGCCGAGTAAAATATTTAATCTCCG 57.346 36.000 0.01 6.26 0.00 4.63
578 705 4.745620 GCTCTTAGGCAGAAAGTAATACGG 59.254 45.833 0.00 0.00 0.00 4.02
595 722 7.201522 CGTCTGCAACTTTATTACATGCTCTTA 60.202 37.037 0.00 0.00 37.86 2.10
607 734 3.190874 GCTAGAGCGTCTGCAACTTTAT 58.809 45.455 0.00 0.00 46.23 1.40
608 735 2.607187 GCTAGAGCGTCTGCAACTTTA 58.393 47.619 0.00 0.00 46.23 1.85
609 736 1.433534 GCTAGAGCGTCTGCAACTTT 58.566 50.000 0.00 0.00 46.23 2.66
610 737 3.129792 GCTAGAGCGTCTGCAACTT 57.870 52.632 0.00 0.00 46.23 2.66
611 738 4.900154 GCTAGAGCGTCTGCAACT 57.100 55.556 0.00 0.00 46.23 3.16
653 781 2.760092 GCACCATTAAAGCTGGGAATGA 59.240 45.455 14.13 0.00 38.14 2.57
671 799 1.293179 GCACAAAATCAGGGGGCAC 59.707 57.895 0.00 0.00 0.00 5.01
672 800 0.762082 TTGCACAAAATCAGGGGGCA 60.762 50.000 0.00 0.00 0.00 5.36
673 801 0.396060 TTTGCACAAAATCAGGGGGC 59.604 50.000 0.00 0.00 0.00 5.80
674 802 2.104622 AGTTTTGCACAAAATCAGGGGG 59.895 45.455 11.39 0.00 41.64 5.40
677 811 4.190772 ACCAAGTTTTGCACAAAATCAGG 58.809 39.130 11.39 13.99 41.64 3.86
679 813 6.214191 TCTACCAAGTTTTGCACAAAATCA 57.786 33.333 11.39 0.00 41.64 2.57
733 867 7.701539 TTGCGGCAAGGAATCATATTTATAT 57.298 32.000 12.11 0.00 0.00 0.86
734 868 7.517614 TTTGCGGCAAGGAATCATATTTATA 57.482 32.000 15.78 0.00 0.00 0.98
963 3635 0.390124 AGCACACGGAAAGTCGGTTA 59.610 50.000 0.00 0.00 0.00 2.85
964 3636 0.878961 GAGCACACGGAAAGTCGGTT 60.879 55.000 0.00 0.00 0.00 4.44
967 3639 1.891060 GCAGAGCACACGGAAAGTCG 61.891 60.000 0.00 0.00 0.00 4.18
991 3663 2.897326 TGCTGTAGTCCATGGCGTATAT 59.103 45.455 6.96 0.00 0.00 0.86
1576 4248 4.681978 GCGAGGAGGTTGGCGTGT 62.682 66.667 0.00 0.00 0.00 4.49
1885 4566 2.455032 CAAGATAGCTCACCGAAGACG 58.545 52.381 0.00 0.00 39.43 4.18
1891 4572 4.855715 TTAGATCCAAGATAGCTCACCG 57.144 45.455 0.00 0.00 0.00 4.94
1901 4583 9.993454 CTTCATCACTGATATTTAGATCCAAGA 57.007 33.333 0.00 0.00 0.00 3.02
1923 4605 1.371267 CGAACTCGACACGGCTTCA 60.371 57.895 0.00 0.00 43.02 3.02
1931 4613 1.400629 CCTTCTTACGCGAACTCGACA 60.401 52.381 15.93 0.00 43.02 4.35
1934 4616 0.982673 CACCTTCTTACGCGAACTCG 59.017 55.000 15.93 0.00 43.27 4.18
1942 4624 6.657836 AAAATAACGGATCACCTTCTTACG 57.342 37.500 0.00 0.00 0.00 3.18
1968 4650 6.422223 GCATCATCGTAATAGACACCAAAAG 58.578 40.000 0.00 0.00 0.00 2.27
1970 4652 4.814234 GGCATCATCGTAATAGACACCAAA 59.186 41.667 0.00 0.00 0.00 3.28
1971 4653 4.377021 GGCATCATCGTAATAGACACCAA 58.623 43.478 0.00 0.00 0.00 3.67
1972 4654 3.552068 CGGCATCATCGTAATAGACACCA 60.552 47.826 0.00 0.00 0.00 4.17
1973 4655 2.987149 CGGCATCATCGTAATAGACACC 59.013 50.000 0.00 0.00 0.00 4.16
1974 4656 2.987149 CCGGCATCATCGTAATAGACAC 59.013 50.000 0.00 0.00 0.00 3.67
1994 4676 0.393808 TCGCCCTTTACATTGCCTCC 60.394 55.000 0.00 0.00 0.00 4.30
2001 4683 1.280710 TGACACCATCGCCCTTTACAT 59.719 47.619 0.00 0.00 0.00 2.29
2002 4684 0.687920 TGACACCATCGCCCTTTACA 59.312 50.000 0.00 0.00 0.00 2.41
2003 4685 1.816074 TTGACACCATCGCCCTTTAC 58.184 50.000 0.00 0.00 0.00 2.01
2004 4686 2.156098 GTTTGACACCATCGCCCTTTA 58.844 47.619 0.00 0.00 0.00 1.85
2006 4688 0.110486 AGTTTGACACCATCGCCCTT 59.890 50.000 0.00 0.00 0.00 3.95
2007 4689 0.981183 TAGTTTGACACCATCGCCCT 59.019 50.000 0.00 0.00 0.00 5.19
2020 4702 6.816640 TCAAGACCGAATAATCCTGTAGTTTG 59.183 38.462 0.00 0.00 0.00 2.93
2023 4705 6.732896 ATCAAGACCGAATAATCCTGTAGT 57.267 37.500 0.00 0.00 0.00 2.73
2067 4753 3.365220 CGCCTTCTTTACACGAAGAGAAG 59.635 47.826 5.26 5.26 42.86 2.85
2079 4765 0.036388 CAGCACCCTCGCCTTCTTTA 60.036 55.000 0.00 0.00 0.00 1.85
2089 4775 1.322442 AGAAAAACAGCAGCACCCTC 58.678 50.000 0.00 0.00 0.00 4.30
2090 4776 1.410153 CAAGAAAAACAGCAGCACCCT 59.590 47.619 0.00 0.00 0.00 4.34
2093 4779 3.427161 AGACAAGAAAAACAGCAGCAC 57.573 42.857 0.00 0.00 0.00 4.40
2108 4794 5.918576 CGTACATACTGACTTGACAAGACAA 59.081 40.000 21.95 8.19 33.08 3.18
2109 4795 5.009310 ACGTACATACTGACTTGACAAGACA 59.991 40.000 21.95 19.42 0.00 3.41
2122 4808 8.551122 TCGTAATACAAATCACGTACATACTG 57.449 34.615 0.00 0.00 35.91 2.74
2124 4810 9.984919 GAATCGTAATACAAATCACGTACATAC 57.015 33.333 0.00 0.00 35.91 2.39
2145 4831 7.995289 AGCAGGAGTATCTATCATAAGAATCG 58.005 38.462 0.00 0.00 33.73 3.34
2159 4845 3.126831 CAATTGGACGAGCAGGAGTATC 58.873 50.000 0.00 0.00 0.00 2.24
2160 4846 2.158900 CCAATTGGACGAGCAGGAGTAT 60.159 50.000 20.50 0.00 37.39 2.12
2161 4847 1.207089 CCAATTGGACGAGCAGGAGTA 59.793 52.381 20.50 0.00 37.39 2.59
2162 4848 0.036010 CCAATTGGACGAGCAGGAGT 60.036 55.000 20.50 0.00 37.39 3.85
2163 4849 0.250234 TCCAATTGGACGAGCAGGAG 59.750 55.000 23.63 0.00 39.78 3.69
2164 4850 2.371784 TCCAATTGGACGAGCAGGA 58.628 52.632 23.63 0.00 39.78 3.86
2174 4860 5.295292 GGCACTATCATATCGATCCAATTGG 59.705 44.000 19.08 19.08 35.39 3.16
2175 4861 5.006068 CGGCACTATCATATCGATCCAATTG 59.994 44.000 0.00 0.00 35.39 2.32
2176 4862 5.111989 CGGCACTATCATATCGATCCAATT 58.888 41.667 0.00 0.00 35.39 2.32
2177 4863 4.160439 ACGGCACTATCATATCGATCCAAT 59.840 41.667 0.00 0.00 35.39 3.16
2178 4864 3.509967 ACGGCACTATCATATCGATCCAA 59.490 43.478 0.00 0.00 35.39 3.53
2179 4865 3.089284 ACGGCACTATCATATCGATCCA 58.911 45.455 0.00 0.00 35.39 3.41
2180 4866 3.784701 ACGGCACTATCATATCGATCC 57.215 47.619 0.00 0.00 35.39 3.36
2181 4867 4.733850 TGAACGGCACTATCATATCGATC 58.266 43.478 0.00 0.00 35.39 3.69
2182 4868 4.218635 ACTGAACGGCACTATCATATCGAT 59.781 41.667 2.16 2.16 38.21 3.59
2183 4869 3.568430 ACTGAACGGCACTATCATATCGA 59.432 43.478 0.00 0.00 0.00 3.59
2184 4870 3.902150 ACTGAACGGCACTATCATATCG 58.098 45.455 0.00 0.00 0.00 2.92
2185 4871 6.015027 AGTACTGAACGGCACTATCATATC 57.985 41.667 0.00 0.00 0.00 1.63
2186 4872 6.216569 CAAGTACTGAACGGCACTATCATAT 58.783 40.000 0.00 0.00 0.00 1.78
2187 4873 5.588240 CAAGTACTGAACGGCACTATCATA 58.412 41.667 0.00 0.00 0.00 2.15
2188 4874 4.433615 CAAGTACTGAACGGCACTATCAT 58.566 43.478 0.00 0.00 0.00 2.45
2189 4875 3.845178 CAAGTACTGAACGGCACTATCA 58.155 45.455 0.00 0.00 0.00 2.15
2190 4876 2.603560 GCAAGTACTGAACGGCACTATC 59.396 50.000 0.00 0.00 34.57 2.08
2191 4877 2.618053 GCAAGTACTGAACGGCACTAT 58.382 47.619 0.00 0.00 34.57 2.12
2192 4878 1.337447 GGCAAGTACTGAACGGCACTA 60.337 52.381 0.00 0.00 35.67 2.74
2193 4879 0.602905 GGCAAGTACTGAACGGCACT 60.603 55.000 0.00 0.00 35.67 4.40
2194 4880 0.602905 AGGCAAGTACTGAACGGCAC 60.603 55.000 0.00 0.00 35.67 5.01
2195 4881 0.320421 GAGGCAAGTACTGAACGGCA 60.320 55.000 0.00 0.00 35.67 5.69
2196 4882 1.019805 GGAGGCAAGTACTGAACGGC 61.020 60.000 0.00 0.00 33.93 5.68
2197 4883 0.736325 CGGAGGCAAGTACTGAACGG 60.736 60.000 0.00 0.00 0.00 4.44
2198 4884 0.242825 TCGGAGGCAAGTACTGAACG 59.757 55.000 0.00 0.00 0.00 3.95
2199 4885 2.067013 GTTCGGAGGCAAGTACTGAAC 58.933 52.381 0.00 0.00 40.80 3.18
2200 4886 1.968493 AGTTCGGAGGCAAGTACTGAA 59.032 47.619 0.00 0.00 0.00 3.02
2201 4887 1.629043 AGTTCGGAGGCAAGTACTGA 58.371 50.000 0.00 0.00 0.00 3.41
2202 4888 2.338500 GAAGTTCGGAGGCAAGTACTG 58.662 52.381 0.00 0.00 0.00 2.74
2203 4889 1.275573 GGAAGTTCGGAGGCAAGTACT 59.724 52.381 0.00 0.00 0.00 2.73
2204 4890 1.723220 GGAAGTTCGGAGGCAAGTAC 58.277 55.000 0.00 0.00 0.00 2.73
2205 4891 0.245539 CGGAAGTTCGGAGGCAAGTA 59.754 55.000 4.48 0.00 0.00 2.24
2206 4892 1.004918 CGGAAGTTCGGAGGCAAGT 60.005 57.895 4.48 0.00 0.00 3.16
2207 4893 2.391389 GCGGAAGTTCGGAGGCAAG 61.391 63.158 14.13 0.00 0.00 4.01
2208 4894 2.358247 GCGGAAGTTCGGAGGCAA 60.358 61.111 14.13 0.00 0.00 4.52
2209 4895 3.296709 GAGCGGAAGTTCGGAGGCA 62.297 63.158 14.13 0.00 0.00 4.75
2210 4896 2.509561 GAGCGGAAGTTCGGAGGC 60.510 66.667 14.13 6.67 0.00 4.70
2211 4897 2.184579 GGAGCGGAAGTTCGGAGG 59.815 66.667 14.13 0.00 42.81 4.30
2212 4898 2.202623 CGGAGCGGAAGTTCGGAG 60.203 66.667 14.13 1.37 42.71 4.63
2427 5126 4.367023 CGAAAGGCCGACCCGACA 62.367 66.667 0.00 0.00 39.21 4.35
2599 5298 2.046700 GGACGCCGGGATGTTGAA 60.047 61.111 2.18 0.00 0.00 2.69
2637 5336 0.757188 CATAGTGAGAGGCGGGGAGT 60.757 60.000 0.00 0.00 0.00 3.85
2651 5350 2.947652 CAATTGTAGCAGCAGCCATAGT 59.052 45.455 0.00 0.00 43.56 2.12
2655 5354 1.885157 GCAATTGTAGCAGCAGCCA 59.115 52.632 7.40 0.00 43.56 4.75
2658 5357 1.226491 GCCGCAATTGTAGCAGCAG 60.226 57.895 14.56 0.00 35.54 4.24
2725 5424 1.707239 TTGTCGCCACCACAACGAAC 61.707 55.000 0.00 0.00 37.60 3.95


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

AutoCloner maintained by Alex Coulton.