Multiple sequence alignment - TraesCS5B01G138300

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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 TraesCS5B01G138300 chr5B 100.000 3301 0 0 1 3301 262353737 262350437 0.000000e+00 6096.0
1 TraesCS5B01G138300 chr5A 92.429 3117 141 44 1 3101 311000039 311003076 0.000000e+00 4361.0
2 TraesCS5B01G138300 chr5D 95.745 2703 77 21 307 2997 241275386 241278062 0.000000e+00 4320.0
3 TraesCS5B01G138300 chr5D 95.455 264 9 1 46 309 241274970 241275230 5.090000e-113 418.0
4 TraesCS5B01G138300 chr5D 85.948 306 28 9 2999 3295 241278302 241278601 2.470000e-81 313.0
5 TraesCS5B01G138300 chr5D 88.442 199 22 1 3102 3299 216997288 216997486 4.260000e-59 239.0
6 TraesCS5B01G138300 chr5D 87.437 199 24 1 3102 3299 396785334 396785532 9.220000e-56 228.0
7 TraesCS5B01G138300 chr1A 84.371 1510 165 51 402 1862 12917973 12919460 0.000000e+00 1415.0
8 TraesCS5B01G138300 chr1A 91.701 241 20 0 2063 2303 12919633 12919873 5.280000e-88 335.0
9 TraesCS5B01G138300 chr1A 87.805 82 8 2 390 470 12917215 12917295 9.750000e-16 95.3
10 TraesCS5B01G138300 chr1B 83.549 1544 158 57 390 1859 16215808 16217329 0.000000e+00 1356.0
11 TraesCS5B01G138300 chr1B 89.911 674 64 4 1034 1704 23978954 23978282 0.000000e+00 865.0
12 TraesCS5B01G138300 chr1B 93.333 225 15 0 2078 2302 16217412 16217636 1.900000e-87 333.0
13 TraesCS5B01G138300 chr1B 92.478 226 17 0 2077 2302 23970835 23970610 1.140000e-84 324.0
14 TraesCS5B01G138300 chr1B 91.358 162 12 2 1696 1856 23971133 23970973 1.540000e-53 220.0
15 TraesCS5B01G138300 chr1D 82.827 1613 159 69 316 1856 10739638 10741204 0.000000e+00 1336.0
16 TraesCS5B01G138300 chr1D 86.290 372 25 8 2063 2412 10741389 10741756 6.680000e-102 381.0
17 TraesCS5B01G138300 chr1D 87.437 199 24 1 3102 3299 431032052 431031854 9.220000e-56 228.0
18 TraesCS5B01G138300 chr1D 79.518 249 37 10 353 597 10739043 10739281 7.330000e-37 165.0
19 TraesCS5B01G138300 chr6D 88.500 200 22 1 3101 3299 366394841 366395040 1.180000e-59 241.0
20 TraesCS5B01G138300 chr6D 87.940 199 23 1 3102 3299 322003339 322003537 1.980000e-57 233.0
21 TraesCS5B01G138300 chr4D 88.060 201 23 1 3100 3299 463603115 463602915 1.530000e-58 237.0
22 TraesCS5B01G138300 chr6A 87.940 199 23 1 3102 3299 349375156 349375354 1.980000e-57 233.0
23 TraesCS5B01G138300 chr2A 87.940 199 23 1 3102 3299 761696356 761696158 1.980000e-57 233.0
24 TraesCS5B01G138300 chr2A 86.935 199 25 1 3102 3299 221734732 221734534 4.290000e-54 222.0
25 TraesCS5B01G138300 chr3A 80.075 266 46 6 1412 1672 32100771 32100508 1.210000e-44 191.0
26 TraesCS5B01G138300 chr3D 74.771 436 90 15 1415 1843 454981043 454980621 9.410000e-41 178.0
27 TraesCS5B01G138300 chr3B 78.788 264 50 6 1412 1672 596853056 596853316 4.380000e-39 172.0


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 TraesCS5B01G138300 chr5B 262350437 262353737 3300 True 6096.000000 6096 100.000000 1 3301 1 chr5B.!!$R1 3300
1 TraesCS5B01G138300 chr5A 311000039 311003076 3037 False 4361.000000 4361 92.429000 1 3101 1 chr5A.!!$F1 3100
2 TraesCS5B01G138300 chr5D 241274970 241278601 3631 False 1683.666667 4320 92.382667 46 3295 3 chr5D.!!$F3 3249
3 TraesCS5B01G138300 chr1A 12917215 12919873 2658 False 615.100000 1415 87.959000 390 2303 3 chr1A.!!$F1 1913
4 TraesCS5B01G138300 chr1B 23978282 23978954 672 True 865.000000 865 89.911000 1034 1704 1 chr1B.!!$R1 670
5 TraesCS5B01G138300 chr1B 16215808 16217636 1828 False 844.500000 1356 88.441000 390 2302 2 chr1B.!!$F1 1912
6 TraesCS5B01G138300 chr1B 23970610 23971133 523 True 272.000000 324 91.918000 1696 2302 2 chr1B.!!$R2 606
7 TraesCS5B01G138300 chr1D 10739043 10741756 2713 False 627.333333 1336 82.878333 316 2412 3 chr1D.!!$F1 2096

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
764 1930 1.338020 GGCACCACAAACAGAAAGAGG 59.662 52.381 0.0 0.0 0.00 3.69 F
1018 2215 0.465097 CATGGCTTCTCCTCGGCATT 60.465 55.000 0.0 0.0 43.48 3.56 F
1788 2988 1.143620 GCTGATCAAGGCTCTCGCT 59.856 57.895 0.0 0.0 36.09 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1899 3099 0.107312 GATGGCTGTGTGCATCCTCT 60.107 55.0 0.0 0.0 45.15 3.69 R
1903 3103 0.171903 GTTGGATGGCTGTGTGCATC 59.828 55.0 0.0 0.0 45.15 3.91 R
2766 4061 0.312102 GGTTTCAGTTCAGTGCCAGC 59.688 55.0 0.0 0.0 0.00 4.85 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
25 26 3.741344 ACATGAGCAACAAGAACGTAGTC 59.259 43.478 0.00 0.00 45.00 2.59
129 130 4.396166 CAGCGGATCCACAAGAAAAGTTAT 59.604 41.667 13.41 0.00 0.00 1.89
211 212 4.014569 TGACAGCAAACTAATACCAGCA 57.985 40.909 0.00 0.00 0.00 4.41
213 214 4.253685 GACAGCAAACTAATACCAGCAGA 58.746 43.478 0.00 0.00 0.00 4.26
302 304 6.250089 CAAAGCTAAAAGCAACCAACAAAAG 58.750 36.000 1.22 0.00 45.56 2.27
339 693 4.690280 GCATTAGCTTGCTTTGGCTTTTTA 59.310 37.500 3.04 0.00 39.57 1.52
382 738 6.407475 TGAGTATGTCACAAAATGATGTCG 57.593 37.500 0.00 0.00 40.28 4.35
410 1512 3.934579 TGCACATGACACAGTATGATGAC 59.065 43.478 0.00 0.00 39.69 3.06
626 1764 5.180304 GGAAAAGACTCATGACAACCTCTTC 59.820 44.000 0.00 0.00 0.00 2.87
764 1930 1.338020 GGCACCACAAACAGAAAGAGG 59.662 52.381 0.00 0.00 0.00 3.69
881 2070 4.191544 TGGTGCATCTTATCTTTTCTCCG 58.808 43.478 0.00 0.00 0.00 4.63
1018 2215 0.465097 CATGGCTTCTCCTCGGCATT 60.465 55.000 0.00 0.00 43.48 3.56
1494 2691 3.358076 CTGGGCCTTCTCGACGGTC 62.358 68.421 4.53 0.00 0.00 4.79
1680 2877 1.784358 CGTACCCCTACCTCATGGAA 58.216 55.000 0.00 0.00 37.04 3.53
1722 2922 2.604686 AAGGCAGAGTCCGAGGCA 60.605 61.111 4.60 0.00 0.00 4.75
1788 2988 1.143620 GCTGATCAAGGCTCTCGCT 59.856 57.895 0.00 0.00 36.09 4.93
1889 3089 6.503524 TCTTTTTCTTTCGAAAATGGGAGTG 58.496 36.000 12.41 0.00 45.60 3.51
1891 3091 3.140325 TCTTTCGAAAATGGGAGTGCT 57.860 42.857 12.41 0.00 0.00 4.40
1901 3101 2.442272 GGAGTGCTCCGGCCTAGA 60.442 66.667 0.00 0.00 40.36 2.43
1902 3102 2.494530 GGAGTGCTCCGGCCTAGAG 61.495 68.421 13.87 13.87 40.36 2.43
1903 3103 2.443016 AGTGCTCCGGCCTAGAGG 60.443 66.667 18.37 5.01 37.74 3.69
1987 3195 3.740397 CATGTGGCCTGCCGTGTG 61.740 66.667 3.32 0.00 39.42 3.82
2004 3212 0.899717 GTGGCCCCACATCACATGTT 60.900 55.000 12.42 0.00 45.53 2.71
2384 3675 2.491693 GTTCCCGATCTTTGCATTTCCA 59.508 45.455 0.00 0.00 0.00 3.53
2407 3699 7.134163 CCATGCTTTTTCTTTCATGGTTTTTC 58.866 34.615 10.92 0.00 46.59 2.29
2439 3731 6.466885 TTCAATGGTTCCTTTCGGTTAAAA 57.533 33.333 0.00 0.00 0.00 1.52
2497 3789 6.567050 TCCAAATTTCTATTGAGATTGCTGC 58.433 36.000 0.00 0.00 29.05 5.25
2525 3817 4.338118 GTCTTGTCCTTCCAAACATGTTGA 59.662 41.667 12.82 2.93 0.00 3.18
2527 3819 3.897239 TGTCCTTCCAAACATGTTGAGT 58.103 40.909 12.82 0.00 0.00 3.41
2528 3820 5.042463 TGTCCTTCCAAACATGTTGAGTA 57.958 39.130 12.82 0.00 0.00 2.59
2530 3822 5.473162 TGTCCTTCCAAACATGTTGAGTATG 59.527 40.000 12.82 6.04 0.00 2.39
2532 3824 5.705441 TCCTTCCAAACATGTTGAGTATGTC 59.295 40.000 12.82 0.00 37.77 3.06
2534 3826 6.348786 CCTTCCAAACATGTTGAGTATGTCTG 60.349 42.308 12.82 3.00 37.77 3.51
2535 3827 5.863965 TCCAAACATGTTGAGTATGTCTGA 58.136 37.500 12.82 0.00 37.77 3.27
2536 3828 6.295249 TCCAAACATGTTGAGTATGTCTGAA 58.705 36.000 12.82 0.00 37.77 3.02
2537 3829 6.427853 TCCAAACATGTTGAGTATGTCTGAAG 59.572 38.462 12.82 0.00 37.77 3.02
2538 3830 6.427853 CCAAACATGTTGAGTATGTCTGAAGA 59.572 38.462 12.82 0.00 37.77 2.87
2601 3893 6.385649 AACCGAAGTCATTTTGTAACATGT 57.614 33.333 0.00 0.00 0.00 3.21
2602 3894 7.499321 AACCGAAGTCATTTTGTAACATGTA 57.501 32.000 0.00 0.00 0.00 2.29
2603 3895 7.681939 ACCGAAGTCATTTTGTAACATGTAT 57.318 32.000 0.00 0.00 0.00 2.29
2699 3994 9.561027 TTGGAATATTGCAACAACAGCATGTCA 62.561 37.037 17.38 0.00 40.47 3.58
2836 4146 2.431942 GCACTGTGGCTTGCATGC 60.432 61.111 15.87 15.87 38.68 4.06
2857 4167 0.960286 TCGTCGTGTGGTCCAACATA 59.040 50.000 0.00 0.00 31.49 2.29
2858 4168 1.546923 TCGTCGTGTGGTCCAACATAT 59.453 47.619 0.00 0.00 31.49 1.78
2859 4169 1.924524 CGTCGTGTGGTCCAACATATC 59.075 52.381 0.00 0.00 31.49 1.63
2860 4170 1.924524 GTCGTGTGGTCCAACATATCG 59.075 52.381 0.00 0.00 31.49 2.92
2861 4171 1.134936 TCGTGTGGTCCAACATATCGG 60.135 52.381 0.00 0.00 31.49 4.18
2862 4172 1.014352 GTGTGGTCCAACATATCGGC 58.986 55.000 0.00 0.00 31.49 5.54
2863 4173 0.461163 TGTGGTCCAACATATCGGCG 60.461 55.000 0.00 0.00 0.00 6.46
2864 4174 0.179094 GTGGTCCAACATATCGGCGA 60.179 55.000 13.87 13.87 0.00 5.54
2865 4175 0.756294 TGGTCCAACATATCGGCGAT 59.244 50.000 26.95 26.95 0.00 4.58
2866 4176 1.140052 TGGTCCAACATATCGGCGATT 59.860 47.619 28.93 12.88 0.00 3.34
2867 4177 2.218603 GGTCCAACATATCGGCGATTT 58.781 47.619 28.93 17.82 0.00 2.17
2868 4178 2.223377 GGTCCAACATATCGGCGATTTC 59.777 50.000 28.93 6.80 0.00 2.17
2869 4179 2.223377 GTCCAACATATCGGCGATTTCC 59.777 50.000 28.93 4.19 0.00 3.13
2870 4180 2.104111 TCCAACATATCGGCGATTTCCT 59.896 45.455 28.93 6.42 0.00 3.36
2871 4181 2.878406 CCAACATATCGGCGATTTCCTT 59.122 45.455 28.93 11.31 0.00 3.36
2872 4182 3.315191 CCAACATATCGGCGATTTCCTTT 59.685 43.478 28.93 11.32 0.00 3.11
2873 4183 4.202010 CCAACATATCGGCGATTTCCTTTT 60.202 41.667 28.93 9.94 0.00 2.27
2874 4184 5.339990 CAACATATCGGCGATTTCCTTTTT 58.660 37.500 28.93 8.92 0.00 1.94
2875 4185 5.169836 ACATATCGGCGATTTCCTTTTTC 57.830 39.130 28.93 0.00 0.00 2.29
2876 4186 4.881850 ACATATCGGCGATTTCCTTTTTCT 59.118 37.500 28.93 1.61 0.00 2.52
2877 4187 5.357032 ACATATCGGCGATTTCCTTTTTCTT 59.643 36.000 28.93 1.38 0.00 2.52
2878 4188 3.824414 TCGGCGATTTCCTTTTTCTTC 57.176 42.857 4.99 0.00 0.00 2.87
2879 4189 2.158841 TCGGCGATTTCCTTTTTCTTCG 59.841 45.455 4.99 0.00 0.00 3.79
2880 4190 2.158841 CGGCGATTTCCTTTTTCTTCGA 59.841 45.455 0.00 0.00 0.00 3.71
2881 4191 3.364565 CGGCGATTTCCTTTTTCTTCGAA 60.365 43.478 0.00 0.00 0.00 3.71
2882 4192 4.542735 GGCGATTTCCTTTTTCTTCGAAA 58.457 39.130 0.00 0.00 0.00 3.46
2883 4193 4.979815 GGCGATTTCCTTTTTCTTCGAAAA 59.020 37.500 0.00 0.00 0.00 2.29
2884 4194 5.117135 GGCGATTTCCTTTTTCTTCGAAAAG 59.883 40.000 0.00 0.00 43.14 2.27
2899 4240 4.873817 TCGAAAAGGAATATCGGCGATTA 58.126 39.130 28.93 13.98 37.20 1.75
2997 4340 5.757808 GCACCCACAAATTACAACAAAGATT 59.242 36.000 0.00 0.00 0.00 2.40
3034 4615 4.693566 TCGTCCACTTTATCATTTGACCAC 59.306 41.667 0.00 0.00 0.00 4.16
3055 4644 6.150474 ACCACGAGAAATCCGTTTTTGAATAT 59.850 34.615 0.00 0.00 38.29 1.28
3058 4647 9.716507 CACGAGAAATCCGTTTTTGAATATAAT 57.283 29.630 0.00 0.00 38.29 1.28
3125 4714 1.555477 AACTTTGTTTTTGCCGCTCG 58.445 45.000 0.00 0.00 0.00 5.03
3127 4716 1.133407 ACTTTGTTTTTGCCGCTCGAA 59.867 42.857 0.00 0.00 0.00 3.71
3135 4724 0.306533 TTGCCGCTCGAACTTTTGAC 59.693 50.000 0.00 0.00 0.00 3.18
3138 4727 1.069227 GCCGCTCGAACTTTTGACAAT 60.069 47.619 0.00 0.00 0.00 2.71
3141 4730 4.041723 CCGCTCGAACTTTTGACAATTTT 58.958 39.130 0.00 0.00 0.00 1.82
3143 4732 4.603825 CGCTCGAACTTTTGACAATTTTGC 60.604 41.667 0.00 0.00 0.00 3.68
3155 4744 4.176271 GACAATTTTGCTTATGCCACTCC 58.824 43.478 0.00 0.00 38.71 3.85
3166 4755 2.957402 TGCCACTCCAGAATTTGACT 57.043 45.000 0.00 0.00 0.00 3.41
3170 4759 4.037923 TGCCACTCCAGAATTTGACTTTTC 59.962 41.667 0.00 0.00 0.00 2.29
3172 4761 5.523369 CCACTCCAGAATTTGACTTTTCAC 58.477 41.667 0.00 0.00 0.00 3.18
3238 4827 5.759273 TCCATGACAAAAGCAAAATTTCCAG 59.241 36.000 0.00 0.00 0.00 3.86
3239 4828 5.759273 CCATGACAAAAGCAAAATTTCCAGA 59.241 36.000 0.00 0.00 0.00 3.86
3240 4829 6.260493 CCATGACAAAAGCAAAATTTCCAGAA 59.740 34.615 0.00 0.00 0.00 3.02
3241 4830 7.040961 CCATGACAAAAGCAAAATTTCCAGAAT 60.041 33.333 0.00 0.00 0.00 2.40
3242 4831 7.862512 TGACAAAAGCAAAATTTCCAGAATT 57.137 28.000 0.00 0.00 0.00 2.17
3243 4832 7.695820 TGACAAAAGCAAAATTTCCAGAATTG 58.304 30.769 0.00 0.00 0.00 2.32
3247 4836 6.887626 AAGCAAAATTTCCAGAATTGCAAT 57.112 29.167 5.99 5.99 46.59 3.56
3275 4864 9.890629 ATGATACATTGTCAAAAGCTAAGACTA 57.109 29.630 12.50 7.05 33.56 2.59
3276 4865 9.371136 TGATACATTGTCAAAAGCTAAGACTAG 57.629 33.333 12.50 0.00 33.56 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.060473 GTGTGACTACGTTCTTGTTGCTC 60.060 47.826 0.00 0.00 0.00 4.26
10 11 5.556690 GTAGTGTGACTACGTTCTTGTTG 57.443 43.478 0.00 0.00 41.27 3.33
151 152 9.263446 TGTGTATATCTATACCCTTGGTTATCC 57.737 37.037 5.20 0.00 38.17 2.59
211 212 6.376581 CAGGAAAAGGCATAAACTGATCTTCT 59.623 38.462 0.00 0.00 0.00 2.85
213 214 6.248433 TCAGGAAAAGGCATAAACTGATCTT 58.752 36.000 0.00 0.00 0.00 2.40
302 304 5.192327 AGCTAATGCATGCAAGGTAATTC 57.808 39.130 26.68 8.55 42.74 2.17
339 693 9.965902 ATACTCATTTCTCTTTTTAGACCACAT 57.034 29.630 0.00 0.00 0.00 3.21
382 738 2.079158 ACTGTGTCATGTGCATACAGC 58.921 47.619 8.96 0.00 41.74 4.40
410 1512 2.422093 GGAGTAAAAGAGGGGCATCTGG 60.422 54.545 0.00 0.00 0.00 3.86
626 1764 4.186926 CTGATGGGTGAACTATCAGTGTG 58.813 47.826 14.86 0.00 41.66 3.82
657 1799 7.491372 TGCATATACCTAAAGAAGAAGAACGTG 59.509 37.037 0.00 0.00 0.00 4.49
764 1930 1.273606 TGCTAGGTTCAGAGTGAGCAC 59.726 52.381 0.00 0.00 35.12 4.40
1018 2215 1.795170 GCACCCGAAAGCTTCAGCAA 61.795 55.000 0.00 0.00 45.16 3.91
1722 2922 1.153745 GAAGCCGCTGATCGTCACT 60.154 57.895 0.00 0.00 36.19 3.41
1763 2963 3.207669 CCTTGATCAGCGCCTGCC 61.208 66.667 2.29 0.00 44.31 4.85
1889 3089 3.055580 CATCCTCTAGGCCGGAGC 58.944 66.667 19.09 0.00 38.76 4.70
1891 3091 2.134287 GTGCATCCTCTAGGCCGGA 61.134 63.158 5.05 0.00 32.61 5.14
1899 3099 0.107312 GATGGCTGTGTGCATCCTCT 60.107 55.000 0.00 0.00 45.15 3.69
1900 3100 1.099879 GGATGGCTGTGTGCATCCTC 61.100 60.000 9.44 0.00 45.15 3.71
1901 3101 1.077212 GGATGGCTGTGTGCATCCT 60.077 57.895 9.44 0.00 45.15 3.24
1902 3102 0.966875 TTGGATGGCTGTGTGCATCC 60.967 55.000 9.70 9.70 45.15 3.51
1903 3103 0.171903 GTTGGATGGCTGTGTGCATC 59.828 55.000 0.00 0.00 45.15 3.91
1985 3193 0.899717 AACATGTGATGTGGGGCCAC 60.900 55.000 4.39 0.00 44.07 5.01
1986 3194 0.899253 CAACATGTGATGTGGGGCCA 60.899 55.000 4.39 0.00 44.07 5.36
1987 3195 0.899717 ACAACATGTGATGTGGGGCC 60.900 55.000 0.00 0.00 44.07 5.80
1988 3196 0.527565 GACAACATGTGATGTGGGGC 59.472 55.000 7.89 0.00 44.07 5.80
1989 3197 1.541147 GTGACAACATGTGATGTGGGG 59.459 52.381 7.89 0.00 44.07 4.96
1990 3198 1.541147 GGTGACAACATGTGATGTGGG 59.459 52.381 7.89 0.00 44.07 4.61
1996 3204 1.138069 ACGTGAGGTGACAACATGTGA 59.862 47.619 0.00 0.00 37.59 3.58
2384 3675 8.510243 AAGAAAAACCATGAAAGAAAAAGCAT 57.490 26.923 0.00 0.00 0.00 3.79
2401 3693 9.554724 GGAACCATTGAAAAAGAAAAGAAAAAC 57.445 29.630 0.00 0.00 0.00 2.43
2402 3694 9.513906 AGGAACCATTGAAAAAGAAAAGAAAAA 57.486 25.926 0.00 0.00 0.00 1.94
2407 3699 7.621102 CGAAAGGAACCATTGAAAAAGAAAAG 58.379 34.615 0.00 0.00 0.00 2.27
2439 3731 2.519377 TTTCAGTCCATGTTCGTCGT 57.481 45.000 0.00 0.00 0.00 4.34
2470 3762 8.866956 CAGCAATCTCAATAGAAATTTGGAAAC 58.133 33.333 0.00 0.00 34.73 2.78
2478 3770 5.824904 AACGCAGCAATCTCAATAGAAAT 57.175 34.783 0.00 0.00 34.73 2.17
2497 3789 3.691498 GTTTGGAAGGACAAGACAAACG 58.309 45.455 0.00 0.00 40.68 3.60
2535 3827 5.220605 GCACACTTACGTCTGAAGTTTTCTT 60.221 40.000 0.75 0.00 43.55 2.52
2536 3828 4.270325 GCACACTTACGTCTGAAGTTTTCT 59.730 41.667 0.75 0.00 34.90 2.52
2537 3829 4.515432 GCACACTTACGTCTGAAGTTTTC 58.485 43.478 0.75 0.00 34.90 2.29
2538 3830 3.000925 CGCACACTTACGTCTGAAGTTTT 59.999 43.478 0.75 0.00 34.90 2.43
2601 3893 4.830600 GGTCCCAGTGTCCTTTCAAAAATA 59.169 41.667 0.00 0.00 0.00 1.40
2602 3894 3.641436 GGTCCCAGTGTCCTTTCAAAAAT 59.359 43.478 0.00 0.00 0.00 1.82
2603 3895 3.028130 GGTCCCAGTGTCCTTTCAAAAA 58.972 45.455 0.00 0.00 0.00 1.94
2699 3994 3.659183 ACAGTACGGTAGGTATGGACT 57.341 47.619 0.00 0.00 32.74 3.85
2762 4057 3.241530 AGTTCAGTGCCAGCCGGA 61.242 61.111 5.05 0.00 0.00 5.14
2764 4059 1.165907 TTTCAGTTCAGTGCCAGCCG 61.166 55.000 0.00 0.00 0.00 5.52
2766 4061 0.312102 GGTTTCAGTTCAGTGCCAGC 59.688 55.000 0.00 0.00 0.00 4.85
2767 4062 0.954452 GGGTTTCAGTTCAGTGCCAG 59.046 55.000 0.00 0.00 0.00 4.85
2768 4063 0.467290 GGGGTTTCAGTTCAGTGCCA 60.467 55.000 0.00 0.00 0.00 4.92
2769 4064 0.467290 TGGGGTTTCAGTTCAGTGCC 60.467 55.000 0.00 0.00 0.00 5.01
2836 4146 0.598942 TGTTGGACCACACGACGATG 60.599 55.000 0.00 0.00 0.00 3.84
2857 4167 3.181510 CGAAGAAAAAGGAAATCGCCGAT 60.182 43.478 0.00 0.00 0.00 4.18
2858 4168 2.158841 CGAAGAAAAAGGAAATCGCCGA 59.841 45.455 0.00 0.00 0.00 5.54
2859 4169 2.158841 TCGAAGAAAAAGGAAATCGCCG 59.841 45.455 0.00 0.00 0.00 6.46
2860 4170 3.824414 TCGAAGAAAAAGGAAATCGCC 57.176 42.857 0.00 0.00 0.00 5.54
2861 4171 6.128710 CTTTTCGAAGAAAAAGGAAATCGC 57.871 37.500 8.92 0.00 45.90 4.58
2868 4178 6.967199 CCGATATTCCTTTTCGAAGAAAAAGG 59.033 38.462 16.90 16.90 46.31 3.11
2869 4179 6.469275 GCCGATATTCCTTTTCGAAGAAAAAG 59.531 38.462 8.92 0.00 45.90 2.27
2870 4180 6.319399 GCCGATATTCCTTTTCGAAGAAAAA 58.681 36.000 8.92 0.00 45.90 1.94
2871 4181 5.446741 CGCCGATATTCCTTTTCGAAGAAAA 60.447 40.000 0.00 7.58 45.90 2.29
2872 4182 4.033587 CGCCGATATTCCTTTTCGAAGAAA 59.966 41.667 0.00 0.00 45.90 2.52
2873 4183 3.554324 CGCCGATATTCCTTTTCGAAGAA 59.446 43.478 0.00 0.00 45.90 2.52
2874 4184 3.120792 CGCCGATATTCCTTTTCGAAGA 58.879 45.455 0.00 0.00 34.92 2.87
2875 4185 3.120792 TCGCCGATATTCCTTTTCGAAG 58.879 45.455 0.00 0.00 34.92 3.79
2876 4186 3.167921 TCGCCGATATTCCTTTTCGAA 57.832 42.857 0.00 0.00 34.92 3.71
2877 4187 2.875087 TCGCCGATATTCCTTTTCGA 57.125 45.000 0.00 0.00 34.92 3.71
2878 4188 4.091509 CCTAATCGCCGATATTCCTTTTCG 59.908 45.833 0.00 0.00 0.00 3.46
2879 4189 4.995487 ACCTAATCGCCGATATTCCTTTTC 59.005 41.667 0.00 0.00 0.00 2.29
2880 4190 4.969484 ACCTAATCGCCGATATTCCTTTT 58.031 39.130 0.00 0.00 0.00 2.27
2881 4191 4.618920 ACCTAATCGCCGATATTCCTTT 57.381 40.909 0.00 0.00 0.00 3.11
2882 4192 4.159879 CCTACCTAATCGCCGATATTCCTT 59.840 45.833 0.00 0.00 0.00 3.36
2883 4193 3.700038 CCTACCTAATCGCCGATATTCCT 59.300 47.826 0.00 0.00 0.00 3.36
2884 4194 3.446516 ACCTACCTAATCGCCGATATTCC 59.553 47.826 0.00 0.00 0.00 3.01
2885 4195 4.421948 CACCTACCTAATCGCCGATATTC 58.578 47.826 0.00 0.00 0.00 1.75
2886 4196 3.368116 GCACCTACCTAATCGCCGATATT 60.368 47.826 0.00 0.00 0.00 1.28
2887 4197 2.165845 GCACCTACCTAATCGCCGATAT 59.834 50.000 0.00 0.00 0.00 1.63
2888 4198 1.542915 GCACCTACCTAATCGCCGATA 59.457 52.381 0.00 0.00 0.00 2.92
2899 4240 3.744660 GCAATAGCATTAGCACCTACCT 58.255 45.455 0.00 0.00 45.49 3.08
2929 4270 3.246112 CGAGGTGTGGGGGTTGGA 61.246 66.667 0.00 0.00 0.00 3.53
2948 4290 1.912043 AGAGTTGTTGGGAGGATCAGG 59.088 52.381 0.00 0.00 36.25 3.86
2997 4340 9.996554 ATAAAGTGGACGATTGATCATACATAA 57.003 29.630 0.00 0.00 0.00 1.90
3101 4690 2.223157 GCGGCAAAAACAAAGTTTTCCC 60.223 45.455 8.16 10.28 0.00 3.97
3125 4714 7.071414 GGCATAAGCAAAATTGTCAAAAGTTC 58.929 34.615 0.00 0.00 44.61 3.01
3127 4716 6.018016 GTGGCATAAGCAAAATTGTCAAAAGT 60.018 34.615 0.00 0.00 44.61 2.66
3135 4724 4.082081 TCTGGAGTGGCATAAGCAAAATTG 60.082 41.667 0.00 0.00 44.61 2.32
3138 4727 3.153369 TCTGGAGTGGCATAAGCAAAA 57.847 42.857 0.00 0.00 44.61 2.44
3141 4730 3.370840 AATTCTGGAGTGGCATAAGCA 57.629 42.857 0.00 0.00 44.61 3.91
3143 4732 4.946157 AGTCAAATTCTGGAGTGGCATAAG 59.054 41.667 0.00 0.00 0.00 1.73
3155 4744 8.375465 GTGACAAAAGTGAAAAGTCAAATTCTG 58.625 33.333 0.00 0.00 40.47 3.02
3166 4755 7.391148 AAGCTAAGAGTGACAAAAGTGAAAA 57.609 32.000 0.00 0.00 0.00 2.29
3170 4759 6.785191 TCAAAAGCTAAGAGTGACAAAAGTG 58.215 36.000 0.00 0.00 0.00 3.16
3217 4806 8.347035 CAATTCTGGAAATTTTGCTTTTGTCAT 58.653 29.630 2.25 0.00 0.00 3.06
3220 4809 6.095160 TGCAATTCTGGAAATTTTGCTTTTGT 59.905 30.769 16.05 0.00 42.34 2.83
3226 4815 8.452534 TCATAATTGCAATTCTGGAAATTTTGC 58.547 29.630 27.28 11.09 42.23 3.68
3241 4830 8.871862 GCTTTTGACAATGTATCATAATTGCAA 58.128 29.630 0.00 0.00 37.30 4.08
3242 4831 8.252417 AGCTTTTGACAATGTATCATAATTGCA 58.748 29.630 0.00 0.00 37.30 4.08
3243 4832 8.638685 AGCTTTTGACAATGTATCATAATTGC 57.361 30.769 0.00 0.00 37.30 3.56


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

AutoCloner maintained by Alex Coulton.