Multiple sequence alignment - TraesCS4B01G354700

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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 TraesCS4B01G354700 chr4B 100.000 2762 0 0 1 2762 646147682 646144921 0.000000e+00 5101.0
1 TraesCS4B01G354700 chr4B 94.231 676 33 4 937 1606 646175343 646174668 0.000000e+00 1027.0
2 TraesCS4B01G354700 chr4B 88.645 775 57 9 951 1722 646182565 646183311 0.000000e+00 915.0
3 TraesCS4B01G354700 chr4B 88.194 144 11 4 705 843 646175621 646175479 1.700000e-37 167.0
4 TraesCS4B01G354700 chr4D 91.771 2078 98 33 1 2024 502056559 502054501 0.000000e+00 2822.0
5 TraesCS4B01G354700 chr4D 88.690 893 74 14 1039 1927 502066530 502065661 0.000000e+00 1064.0
6 TraesCS4B01G354700 chr5A 89.585 1133 67 24 937 2032 684704802 684703684 0.000000e+00 1391.0
7 TraesCS4B01G354700 chr5A 86.429 980 83 23 951 1921 684938900 684939838 0.000000e+00 1027.0
8 TraesCS4B01G354700 chr5A 83.854 768 66 26 6 744 684707185 684706447 0.000000e+00 678.0
9 TraesCS4B01G354700 chr5A 91.266 229 12 2 766 986 684706146 684705918 3.460000e-79 305.0
10 TraesCS4B01G354700 chr5A 79.896 383 50 14 21 401 684705660 684705303 3.530000e-64 255.0
11 TraesCS4B01G354700 chr5A 80.000 385 25 18 564 920 684705215 684704855 1.280000e-58 237.0
12 TraesCS4B01G354700 chr5A 81.437 167 23 7 237 401 584717937 584718097 2.230000e-26 130.0
13 TraesCS4B01G354700 chr5A 97.143 35 1 0 705 739 661213963 661213929 2.970000e-05 60.2
14 TraesCS4B01G354700 chr2B 88.439 692 74 5 2074 2760 209818684 209817994 0.000000e+00 830.0
15 TraesCS4B01G354700 chr7B 87.844 691 64 7 2073 2762 191892747 191893418 0.000000e+00 793.0
16 TraesCS4B01G354700 chr7B 82.759 145 13 10 565 705 652330573 652330437 4.830000e-23 119.0
17 TraesCS4B01G354700 chr3B 87.699 691 66 5 2073 2762 824304239 824304911 0.000000e+00 787.0
18 TraesCS4B01G354700 chr3B 87.518 689 69 4 2074 2762 708391949 708392620 0.000000e+00 780.0
19 TraesCS4B01G354700 chr3B 86.172 687 80 2 2073 2759 708501944 708502615 0.000000e+00 728.0
20 TraesCS4B01G354700 chr1B 90.476 588 52 4 2166 2751 642813609 642813024 0.000000e+00 773.0
21 TraesCS4B01G354700 chr1B 89.782 597 61 0 2166 2762 589133191 589132595 0.000000e+00 765.0
22 TraesCS4B01G354700 chr1B 85.838 692 88 8 2073 2762 658479115 658479798 0.000000e+00 726.0
23 TraesCS4B01G354700 chr6B 86.900 687 82 4 2073 2759 29057369 29058047 0.000000e+00 763.0
24 TraesCS4B01G354700 chr6A 86.580 693 87 6 2073 2762 612122460 612121771 0.000000e+00 760.0
25 TraesCS4B01G354700 chr6A 89.011 91 10 0 400 490 146554575 146554485 2.250000e-21 113.0
26 TraesCS4B01G354700 chr7A 81.675 191 30 5 230 418 30795710 30795523 1.320000e-33 154.0
27 TraesCS4B01G354700 chr7A 89.888 89 9 0 402 490 335980823 335980735 6.250000e-22 115.0
28 TraesCS4B01G354700 chr4A 83.140 172 26 3 239 408 216010048 216010218 1.320000e-33 154.0
29 TraesCS4B01G354700 chr3A 82.941 170 24 4 220 388 51598328 51598163 6.160000e-32 148.0
30 TraesCS4B01G354700 chr3A 79.781 183 35 2 221 401 698147205 698147023 6.210000e-27 132.0
31 TraesCS4B01G354700 chr3A 87.500 96 10 2 400 495 581251601 581251694 2.910000e-20 110.0
32 TraesCS4B01G354700 chr3D 81.081 185 30 4 230 409 588401963 588402147 2.870000e-30 143.0
33 TraesCS4B01G354700 chr3D 90.244 82 8 0 411 492 486750822 486750903 1.050000e-19 108.0
34 TraesCS4B01G354700 chr2A 85.417 144 13 6 564 704 193449636 193449774 2.870000e-30 143.0
35 TraesCS4B01G354700 chr5D 83.893 149 16 5 264 404 551088781 551088633 4.800000e-28 135.0
36 TraesCS4B01G354700 chr5D 82.609 138 13 8 567 701 310189411 310189282 8.090000e-21 111.0
37 TraesCS4B01G354700 chr7D 85.246 122 11 5 593 709 584572592 584572473 4.830000e-23 119.0
38 TraesCS4B01G354700 chr7D 80.690 145 17 9 564 704 513211600 513211737 4.870000e-18 102.0
39 TraesCS4B01G354700 chr1D 82.759 145 14 9 564 704 8956878 8957015 4.830000e-23 119.0
40 TraesCS4B01G354700 chr1D 90.361 83 8 0 400 482 465126509 465126591 2.910000e-20 110.0
41 TraesCS4B01G354700 chr1D 82.906 117 15 4 593 707 350716064 350715951 1.750000e-17 100.0
42 TraesCS4B01G354700 chr1D 80.851 141 12 8 564 701 3326966 3327094 2.260000e-16 97.1
43 TraesCS4B01G354700 chr6D 88.636 88 10 0 400 487 445025616 445025529 1.050000e-19 108.0
44 TraesCS4B01G354700 chr2D 84.848 99 13 1 400 496 555946462 555946560 6.300000e-17 99.0


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 TraesCS4B01G354700 chr4B 646144921 646147682 2761 True 5101.0 5101 100.0000 1 2762 1 chr4B.!!$R1 2761
1 TraesCS4B01G354700 chr4B 646182565 646183311 746 False 915.0 915 88.6450 951 1722 1 chr4B.!!$F1 771
2 TraesCS4B01G354700 chr4B 646174668 646175621 953 True 597.0 1027 91.2125 705 1606 2 chr4B.!!$R2 901
3 TraesCS4B01G354700 chr4D 502054501 502056559 2058 True 2822.0 2822 91.7710 1 2024 1 chr4D.!!$R1 2023
4 TraesCS4B01G354700 chr4D 502065661 502066530 869 True 1064.0 1064 88.6900 1039 1927 1 chr4D.!!$R2 888
5 TraesCS4B01G354700 chr5A 684938900 684939838 938 False 1027.0 1027 86.4290 951 1921 1 chr5A.!!$F2 970
6 TraesCS4B01G354700 chr5A 684703684 684707185 3501 True 573.2 1391 84.9202 6 2032 5 chr5A.!!$R2 2026
7 TraesCS4B01G354700 chr2B 209817994 209818684 690 True 830.0 830 88.4390 2074 2760 1 chr2B.!!$R1 686
8 TraesCS4B01G354700 chr7B 191892747 191893418 671 False 793.0 793 87.8440 2073 2762 1 chr7B.!!$F1 689
9 TraesCS4B01G354700 chr3B 824304239 824304911 672 False 787.0 787 87.6990 2073 2762 1 chr3B.!!$F3 689
10 TraesCS4B01G354700 chr3B 708391949 708392620 671 False 780.0 780 87.5180 2074 2762 1 chr3B.!!$F1 688
11 TraesCS4B01G354700 chr3B 708501944 708502615 671 False 728.0 728 86.1720 2073 2759 1 chr3B.!!$F2 686
12 TraesCS4B01G354700 chr1B 642813024 642813609 585 True 773.0 773 90.4760 2166 2751 1 chr1B.!!$R2 585
13 TraesCS4B01G354700 chr1B 589132595 589133191 596 True 765.0 765 89.7820 2166 2762 1 chr1B.!!$R1 596
14 TraesCS4B01G354700 chr1B 658479115 658479798 683 False 726.0 726 85.8380 2073 2762 1 chr1B.!!$F1 689
15 TraesCS4B01G354700 chr6B 29057369 29058047 678 False 763.0 763 86.9000 2073 2759 1 chr6B.!!$F1 686
16 TraesCS4B01G354700 chr6A 612121771 612122460 689 True 760.0 760 86.5800 2073 2762 1 chr6A.!!$R2 689

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
60 62 1.367346 TTGCCCTCCCTATGTCACAA 58.633 50.0 0.0 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2040 3621 0.106894 CGGGGGCAAGAGGACTTATC 59.893 60.0 0.0 0.0 34.7 1.75 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
18 19 3.243128 GTTCGTGGTGGCACCTATT 57.757 52.632 34.69 0.00 39.58 1.73
39 40 3.103742 TCCTTTCCTTTGCAGTTTGGTT 58.896 40.909 0.00 0.00 0.00 3.67
60 62 1.367346 TTGCCCTCCCTATGTCACAA 58.633 50.000 0.00 0.00 0.00 3.33
61 63 1.595311 TGCCCTCCCTATGTCACAAT 58.405 50.000 0.00 0.00 0.00 2.71
71 73 4.036027 CCCTATGTCACAATCTCACATTGC 59.964 45.833 0.00 0.00 32.88 3.56
254 257 6.946009 GGGTCTATCTAGGGCATATCTAGATC 59.054 46.154 8.95 6.96 46.01 2.75
262 265 9.008584 TCTAGGGCATATCTAGATCTGATCTAA 57.991 37.037 23.57 16.24 41.07 2.10
289 292 4.242475 TGCACATCTAAGTGACTTAACCG 58.758 43.478 6.51 0.48 42.05 4.44
301 304 8.441312 AAGTGACTTAACCGAACATAAAAAGA 57.559 30.769 0.00 0.00 0.00 2.52
341 344 3.869065 TCCGAATCTTGGCGTAAAATCT 58.131 40.909 0.00 0.00 0.00 2.40
348 351 6.604735 ATCTTGGCGTAAAATCTATGACAC 57.395 37.500 0.00 0.00 0.00 3.67
350 353 5.935206 TCTTGGCGTAAAATCTATGACACAA 59.065 36.000 0.00 0.00 0.00 3.33
464 468 5.641209 GCAATACTTAGGGCACATCTAGATG 59.359 44.000 27.63 27.63 44.15 2.90
548 553 3.117701 TCTGCAATGGGATATCCGGAAAA 60.118 43.478 9.01 0.00 38.76 2.29
696 725 2.712709 TCTCAGTCGACTGGGACTTAG 58.287 52.381 38.15 27.68 45.72 2.18
707 736 3.327757 ACTGGGACTTAGCAAACTGATCA 59.672 43.478 0.00 0.00 0.00 2.92
886 1193 9.177304 CATTATTGCACATACATGATTCTTCAC 57.823 33.333 0.00 0.00 33.85 3.18
1628 3136 4.873129 CGCGCCCTACGTCTGCAT 62.873 66.667 0.00 0.00 46.11 3.96
1671 3185 1.861542 CTGCTCTATCGGCGGAGGAG 61.862 65.000 15.89 15.89 40.49 3.69
1674 3188 0.537600 CTCTATCGGCGGAGGAGGAA 60.538 60.000 7.21 0.00 0.00 3.36
1680 3194 1.395826 CGGCGGAGGAGGAAGAAGAT 61.396 60.000 0.00 0.00 0.00 2.40
1715 3237 3.515286 GGACGCCGGAGATGACGA 61.515 66.667 13.83 0.00 0.00 4.20
1736 3285 2.648613 GATGCGGAGGAGGAGGAGGA 62.649 65.000 0.00 0.00 0.00 3.71
1746 3295 3.237741 GAGGAGGAGGATGCCGGG 61.238 72.222 2.18 0.00 0.00 5.73
1786 3335 1.009389 GGCGTTGTTCCGTCTCTGAG 61.009 60.000 0.00 0.00 0.00 3.35
1790 3339 1.068748 GTTGTTCCGTCTCTGAGCGTA 60.069 52.381 16.25 2.76 0.00 4.42
1795 3344 1.583495 CCGTCTCTGAGCGTACCACA 61.583 60.000 16.25 0.00 0.00 4.17
1821 3377 5.380043 CCATGTGGAATTAGCTATCTTGGT 58.620 41.667 0.00 0.00 37.39 3.67
1822 3378 5.471456 CCATGTGGAATTAGCTATCTTGGTC 59.529 44.000 0.00 0.00 37.39 4.02
1823 3379 5.692115 TGTGGAATTAGCTATCTTGGTCA 57.308 39.130 0.00 0.00 0.00 4.02
1824 3380 5.428253 TGTGGAATTAGCTATCTTGGTCAC 58.572 41.667 0.00 0.00 0.00 3.67
1825 3381 4.508124 GTGGAATTAGCTATCTTGGTCACG 59.492 45.833 0.00 0.00 0.00 4.35
1826 3382 4.404394 TGGAATTAGCTATCTTGGTCACGA 59.596 41.667 0.00 0.00 0.00 4.35
1827 3383 4.745620 GGAATTAGCTATCTTGGTCACGAC 59.254 45.833 0.00 0.00 0.00 4.34
1850 3407 1.400494 ACGAGTGTGTTTGGTTCAAGC 59.600 47.619 0.00 0.00 0.00 4.01
1851 3408 1.400142 CGAGTGTGTTTGGTTCAAGCA 59.600 47.619 0.00 0.00 32.55 3.91
1915 3480 6.060028 ACAATGACAATACACACAGTTCAC 57.940 37.500 0.00 0.00 0.00 3.18
1927 3492 9.772973 ATACACACAGTTCACTTGAATAACTAA 57.227 29.630 0.00 0.00 36.33 2.24
2021 3602 7.148523 CCATACATCTGGTTCACATGATATTCG 60.149 40.741 0.00 0.00 0.00 3.34
2032 3613 7.790823 TCACATGATATTCGTCATCAACATT 57.209 32.000 0.00 0.00 36.72 2.71
2033 3614 7.854534 TCACATGATATTCGTCATCAACATTC 58.145 34.615 0.00 0.00 36.72 2.67
2034 3615 7.712205 TCACATGATATTCGTCATCAACATTCT 59.288 33.333 0.00 0.00 36.72 2.40
2035 3616 8.340443 CACATGATATTCGTCATCAACATTCTT 58.660 33.333 0.00 0.00 36.72 2.52
2036 3617 8.896744 ACATGATATTCGTCATCAACATTCTTT 58.103 29.630 0.00 0.00 36.72 2.52
2037 3618 9.726232 CATGATATTCGTCATCAACATTCTTTT 57.274 29.630 0.00 0.00 36.72 2.27
2057 3638 3.366052 TTTGATAAGTCCTCTTGCCCC 57.634 47.619 0.00 0.00 35.36 5.80
2058 3639 1.213296 TGATAAGTCCTCTTGCCCCC 58.787 55.000 0.00 0.00 35.36 5.40
2059 3640 0.106894 GATAAGTCCTCTTGCCCCCG 59.893 60.000 0.00 0.00 35.36 5.73
2060 3641 1.345715 ATAAGTCCTCTTGCCCCCGG 61.346 60.000 0.00 0.00 35.36 5.73
2086 3667 3.760035 GTTCGCCGCCAGGAGAGA 61.760 66.667 0.00 0.00 46.84 3.10
2087 3668 2.759973 TTCGCCGCCAGGAGAGAT 60.760 61.111 0.00 0.00 46.84 2.75
2108 3689 1.135972 CAATCTTCCAACGCCGTCTTG 60.136 52.381 0.00 0.00 0.00 3.02
2151 3749 1.062685 CTCGATCGTCGGTGGTGAG 59.937 63.158 15.94 0.00 40.88 3.51
2152 3750 2.102357 CGATCGTCGGTGGTGAGG 59.898 66.667 7.03 0.00 36.00 3.86
2153 3751 2.494918 GATCGTCGGTGGTGAGGG 59.505 66.667 0.00 0.00 0.00 4.30
2154 3752 3.075005 ATCGTCGGTGGTGAGGGG 61.075 66.667 0.00 0.00 0.00 4.79
2157 3755 3.391382 GTCGGTGGTGAGGGGGAG 61.391 72.222 0.00 0.00 0.00 4.30
2158 3756 4.715130 TCGGTGGTGAGGGGGAGG 62.715 72.222 0.00 0.00 0.00 4.30
2199 3814 0.854062 CCAAGCGTGTGCATTGTTTG 59.146 50.000 0.00 0.00 46.23 2.93
2219 3835 3.539604 TGTACTTCCTCGTAGTCTAGGC 58.460 50.000 0.00 0.00 32.55 3.93
2247 3863 2.542020 TGTTCATCGTCTTGGCTTCA 57.458 45.000 0.00 0.00 0.00 3.02
2275 3891 5.718246 CGATGATGACGACACTGAATAAAC 58.282 41.667 0.00 0.00 0.00 2.01
2287 3903 9.087424 CGACACTGAATAAACATTCTTCAGATA 57.913 33.333 19.03 0.00 45.57 1.98
2353 3969 7.750229 TTAGAAATCAGTCTGTTCAAGCAAT 57.250 32.000 0.00 0.00 0.00 3.56
2359 3975 3.504906 CAGTCTGTTCAAGCAATGATGGT 59.495 43.478 0.00 0.00 38.03 3.55
2365 3981 0.604073 CAAGCAATGATGGTGTGGCA 59.396 50.000 0.00 0.00 37.35 4.92
2457 4073 2.287829 CGGAGCTTGGGAGGTAGTT 58.712 57.895 0.00 0.00 32.79 2.24
2466 4082 0.683504 GGGAGGTAGTTCAGGAGCGA 60.684 60.000 0.00 0.00 0.00 4.93
2501 4117 0.101219 TGCATCGACGACATCTGGAG 59.899 55.000 0.00 0.00 0.00 3.86
2522 4138 2.426023 GGAACGTGTGCTGGGTCT 59.574 61.111 0.00 0.00 0.00 3.85
2538 4154 0.673644 GTCTGTGGTTCGTGGATGGG 60.674 60.000 0.00 0.00 0.00 4.00
2565 4181 1.014564 GTTTCCTCCTTCGGCGTCTG 61.015 60.000 6.85 0.00 0.00 3.51
2583 4199 3.569049 GAGTCGTGGTGGGGTGTCG 62.569 68.421 0.00 0.00 0.00 4.35
2590 4206 1.987855 GGTGGGGTGTCGGATCTGA 60.988 63.158 0.00 0.00 0.00 3.27
2717 4333 3.456365 AGCCGCATCGAGCTCAGT 61.456 61.111 15.40 0.00 42.61 3.41
2719 4335 1.226974 GCCGCATCGAGCTCAGTTA 60.227 57.895 15.40 0.00 42.61 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 4.898861 ACCAAACTGCAAAGGAAAGGAATA 59.101 37.500 0.00 0.00 0.00 1.75
18 19 2.745968 ACCAAACTGCAAAGGAAAGGA 58.254 42.857 0.00 0.00 0.00 3.36
39 40 2.770447 TGTGACATAGGGAGGGCAATA 58.230 47.619 0.00 0.00 0.00 1.90
60 62 1.470098 GAAACCGCAGCAATGTGAGAT 59.530 47.619 0.00 0.00 0.00 2.75
61 63 0.874390 GAAACCGCAGCAATGTGAGA 59.126 50.000 0.00 0.00 0.00 3.27
71 73 2.594303 TGGCACCAGAAACCGCAG 60.594 61.111 0.00 0.00 0.00 5.18
262 265 8.893727 GGTTAAGTCACTTAGATGTGCAATAAT 58.106 33.333 0.00 0.00 37.81 1.28
307 310 4.503714 AGATTCGGATGGGTGTATGTTT 57.496 40.909 0.00 0.00 0.00 2.83
341 344 6.036577 TGCACATCTAAGTCTTGTGTCATA 57.963 37.500 4.70 0.00 42.11 2.15
348 351 9.888878 CCATAAATATTGCACATCTAAGTCTTG 57.111 33.333 0.00 0.00 0.00 3.02
350 353 7.720957 TGCCATAAATATTGCACATCTAAGTCT 59.279 33.333 0.00 0.00 30.49 3.24
523 528 2.362736 CGGATATCCCATTGCAGATGG 58.637 52.381 16.36 16.54 38.88 3.51
548 553 4.160329 TCACTTGAGACCTAATCACACCT 58.840 43.478 0.00 0.00 0.00 4.00
696 725 7.945033 TTTTAACATTTCCTGATCAGTTTGC 57.055 32.000 21.11 0.00 0.00 3.68
707 736 9.492973 CCATGAAAGAACATTTTAACATTTCCT 57.507 29.630 0.00 0.00 0.00 3.36
886 1193 1.212616 GCAGCTGCAGGAGTATAACG 58.787 55.000 33.36 0.00 41.59 3.18
1095 2590 4.487412 GCGTCCGGGGTGTAGTCG 62.487 72.222 0.00 0.00 0.00 4.18
1132 2627 3.823330 GACGTGGATCTCGCCGGT 61.823 66.667 1.90 0.00 0.00 5.28
1628 3136 2.103373 GCACCCTGACATCTCTGTAGA 58.897 52.381 0.00 0.00 35.14 2.59
1671 3185 5.678583 TCATCCTGACATTCATCTTCTTCC 58.321 41.667 0.00 0.00 0.00 3.46
1674 3188 5.064558 GCATCATCCTGACATTCATCTTCT 58.935 41.667 0.00 0.00 0.00 2.85
1680 3194 1.485895 TCCGCATCATCCTGACATTCA 59.514 47.619 0.00 0.00 0.00 2.57
1713 3235 1.288439 CTCCTCCTCCGCATCATCG 59.712 63.158 0.00 0.00 0.00 3.84
1715 3237 0.831288 CTCCTCCTCCTCCGCATCAT 60.831 60.000 0.00 0.00 0.00 2.45
1746 3295 3.553922 CCGAGATCTAATCTTCACCAGCC 60.554 52.174 0.00 0.00 40.38 4.85
1786 3335 3.981308 ACATGGCTTGTGGTACGC 58.019 55.556 5.09 0.00 37.11 4.42
1795 3344 5.316158 AGATAGCTAATTCCACATGGCTT 57.684 39.130 0.00 0.00 34.44 4.35
1821 3377 0.736636 AACACACTCGTGAGTCGTGA 59.263 50.000 25.38 0.00 46.80 4.35
1822 3378 1.255342 CAAACACACTCGTGAGTCGTG 59.745 52.381 20.78 20.78 46.80 4.35
1823 3379 1.556564 CAAACACACTCGTGAGTCGT 58.443 50.000 3.74 0.00 46.80 4.34
1824 3380 0.852777 CCAAACACACTCGTGAGTCG 59.147 55.000 3.74 0.00 46.80 4.18
1825 3381 1.935933 ACCAAACACACTCGTGAGTC 58.064 50.000 3.74 0.00 46.80 3.36
1826 3382 2.277084 GAACCAAACACACTCGTGAGT 58.723 47.619 3.74 0.00 46.80 3.41
1827 3383 2.276201 TGAACCAAACACACTCGTGAG 58.724 47.619 3.74 0.00 46.80 3.51
1861 3420 8.920509 TTCACAGCAAATAATTCATGAATCTG 57.079 30.769 20.95 21.51 0.00 2.90
1943 3524 9.726438 AATGTTATGGCCTCACTCTATTTATAC 57.274 33.333 3.32 0.00 0.00 1.47
1974 3555 5.594777 TGGGTAATGGGTCCATGTATTTTT 58.405 37.500 2.91 0.00 36.68 1.94
1981 3562 3.874383 TGTATGGGTAATGGGTCCATG 57.126 47.619 2.91 0.00 41.00 3.66
1983 3564 3.394274 CAGATGTATGGGTAATGGGTCCA 59.606 47.826 0.00 0.00 34.79 4.02
1984 3565 3.244911 CCAGATGTATGGGTAATGGGTCC 60.245 52.174 0.00 0.00 36.64 4.46
1985 3566 3.394606 ACCAGATGTATGGGTAATGGGTC 59.605 47.826 0.00 0.00 45.25 4.46
1986 3567 3.403322 ACCAGATGTATGGGTAATGGGT 58.597 45.455 0.00 0.00 45.25 4.51
1987 3568 4.141274 TGAACCAGATGTATGGGTAATGGG 60.141 45.833 0.00 0.00 41.61 4.00
1988 3569 4.821805 GTGAACCAGATGTATGGGTAATGG 59.178 45.833 0.00 0.00 41.61 3.16
1989 3570 5.436175 TGTGAACCAGATGTATGGGTAATG 58.564 41.667 0.00 0.00 41.61 1.90
1990 3571 5.708736 TGTGAACCAGATGTATGGGTAAT 57.291 39.130 0.00 0.00 41.61 1.89
1991 3572 5.190726 TCATGTGAACCAGATGTATGGGTAA 59.809 40.000 0.00 0.00 41.61 2.85
1992 3573 4.719273 TCATGTGAACCAGATGTATGGGTA 59.281 41.667 0.00 0.00 41.61 3.69
2035 3616 4.086457 GGGGCAAGAGGACTTATCAAAAA 58.914 43.478 0.00 0.00 34.70 1.94
2036 3617 3.563479 GGGGGCAAGAGGACTTATCAAAA 60.563 47.826 0.00 0.00 34.70 2.44
2037 3618 2.025321 GGGGGCAAGAGGACTTATCAAA 60.025 50.000 0.00 0.00 34.70 2.69
2038 3619 1.564348 GGGGGCAAGAGGACTTATCAA 59.436 52.381 0.00 0.00 34.70 2.57
2039 3620 1.213296 GGGGGCAAGAGGACTTATCA 58.787 55.000 0.00 0.00 34.70 2.15
2040 3621 0.106894 CGGGGGCAAGAGGACTTATC 59.893 60.000 0.00 0.00 34.70 1.75
2041 3622 1.345715 CCGGGGGCAAGAGGACTTAT 61.346 60.000 0.00 0.00 34.70 1.73
2042 3623 1.993391 CCGGGGGCAAGAGGACTTA 60.993 63.158 0.00 0.00 34.70 2.24
2043 3624 3.330720 CCGGGGGCAAGAGGACTT 61.331 66.667 0.00 0.00 36.73 3.01
2064 3645 4.530857 CCTGGCGGCGAACCCTAG 62.531 72.222 12.98 0.00 0.00 3.02
2068 3649 4.821589 CTCTCCTGGCGGCGAACC 62.822 72.222 12.98 3.21 0.00 3.62
2069 3650 2.962697 GATCTCTCCTGGCGGCGAAC 62.963 65.000 12.98 2.36 0.00 3.95
2070 3651 2.759973 ATCTCTCCTGGCGGCGAA 60.760 61.111 12.98 0.00 0.00 4.70
2071 3652 3.219928 GATCTCTCCTGGCGGCGA 61.220 66.667 12.98 0.00 0.00 5.54
2086 3667 1.066143 AGACGGCGTTGGAAGATTGAT 60.066 47.619 16.19 0.00 0.00 2.57
2087 3668 0.320374 AGACGGCGTTGGAAGATTGA 59.680 50.000 16.19 0.00 0.00 2.57
2173 3773 3.353836 CACACGCTTGGAACCGGG 61.354 66.667 6.32 0.00 0.00 5.73
2178 3792 0.743688 AACAATGCACACGCTTGGAA 59.256 45.000 0.00 0.00 39.64 3.53
2183 3797 1.946768 AGTACAAACAATGCACACGCT 59.053 42.857 0.00 0.00 39.64 5.07
2191 3805 6.157211 AGACTACGAGGAAGTACAAACAATG 58.843 40.000 0.00 0.00 0.00 2.82
2199 3814 3.807553 AGCCTAGACTACGAGGAAGTAC 58.192 50.000 0.00 0.00 40.57 2.73
2219 3835 5.689819 CCAAGACGATGAACAACCTAAAAG 58.310 41.667 0.00 0.00 0.00 2.27
2247 3863 2.278857 GTCGTCATCATCGCCGCT 60.279 61.111 0.00 0.00 0.00 5.52
2275 3891 5.982356 TGTCAGGGAAGTATCTGAAGAATG 58.018 41.667 0.00 0.00 41.07 2.67
2287 3903 0.329596 GATGGCCTTGTCAGGGAAGT 59.670 55.000 4.91 0.00 41.21 3.01
2353 3969 2.282391 GCCACTGCCACACCATCA 60.282 61.111 0.00 0.00 0.00 3.07
2365 3981 4.457496 CACGAGGATGCGGCCACT 62.457 66.667 2.24 0.00 35.12 4.00
2371 3987 2.509336 GTCCACCACGAGGATGCG 60.509 66.667 5.68 0.00 37.52 4.73
2415 4031 1.999651 GACGCTAGAGCAAACGTCGC 62.000 60.000 1.89 1.80 44.42 5.19
2457 4073 1.065926 ACAATCTGCATTCGCTCCTGA 60.066 47.619 0.00 0.00 39.64 3.86
2501 4117 3.041940 CCAGCACACGTTCCGTCC 61.042 66.667 0.00 0.00 38.32 4.79
2522 4138 1.676968 CTCCCATCCACGAACCACA 59.323 57.895 0.00 0.00 0.00 4.17
2565 4181 2.342648 GACACCCCACCACGACTC 59.657 66.667 0.00 0.00 0.00 3.36
2583 4199 1.212616 CGCCATCGAACTTCAGATCC 58.787 55.000 0.00 0.00 38.10 3.36
2590 4206 2.746277 GGGCACGCCATCGAACTT 60.746 61.111 10.83 0.00 39.41 2.66
2624 4240 3.856638 GCCATTGCTGTTGAACGAATCAA 60.857 43.478 4.66 4.66 39.03 2.57
2673 4289 1.878088 CTGATATGCAGCTTTGCGGAT 59.122 47.619 0.00 0.00 37.90 4.18
2695 4311 2.147315 GAGCTCGATGCGGCTCCATA 62.147 60.000 12.15 0.00 46.32 2.74
2715 4331 2.816411 TGACGGATCACCTCCTTAACT 58.184 47.619 0.00 0.00 42.47 2.24
2717 4333 4.030913 AGAATGACGGATCACCTCCTTAA 58.969 43.478 0.00 0.00 42.47 1.85
2719 4335 2.472029 AGAATGACGGATCACCTCCTT 58.528 47.619 0.00 0.00 42.47 3.36


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

AutoCloner maintained by Alex Coulton.