Multiple sequence alignment - TraesCS3B01G125600

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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 TraesCS3B01G125600 chr3B 100.000 3357 0 0 1 3357 101798409 101801765 0.000000e+00 6200.0
1 TraesCS3B01G125600 chr3B 80.588 340 54 11 1312 1642 822832876 822833212 5.560000e-63 252.0
2 TraesCS3B01G125600 chr3B 95.349 43 1 1 1657 1699 5598548 5598507 2.160000e-07 67.6
3 TraesCS3B01G125600 chr3B 95.349 43 1 1 1657 1699 456978563 456978604 2.160000e-07 67.6
4 TraesCS3B01G125600 chr3D 92.080 2803 96 47 621 3357 63006601 63009343 0.000000e+00 3831.0
5 TraesCS3B01G125600 chr3D 90.813 283 20 3 194 471 63006176 63006457 1.140000e-99 374.0
6 TraesCS3B01G125600 chr3D 89.697 165 12 5 1 163 63005748 63005909 4.390000e-49 206.0
7 TraesCS3B01G125600 chr3D 96.000 100 4 0 473 572 63006490 63006589 2.680000e-36 163.0
8 TraesCS3B01G125600 chr3A 89.302 2449 134 47 327 2691 71793373 71795777 0.000000e+00 2953.0
9 TraesCS3B01G125600 chr3A 89.752 644 28 21 2729 3351 71795779 71796405 0.000000e+00 789.0
10 TraesCS3B01G125600 chr3A 84.472 322 29 10 1 316 71792924 71793230 7.040000e-77 298.0
11 TraesCS3B01G125600 chr3A 81.873 331 48 11 1321 1642 749282526 749282853 5.520000e-68 268.0
12 TraesCS3B01G125600 chr1D 81.734 323 48 10 1327 1642 52576370 52576052 3.320000e-65 259.0
13 TraesCS3B01G125600 chr1A 81.734 323 48 9 1327 1642 52237545 52237227 3.320000e-65 259.0
14 TraesCS3B01G125600 chr1B 81.424 323 49 10 1327 1642 83640076 83639758 1.550000e-63 254.0
15 TraesCS3B01G125600 chr1B 95.349 43 1 1 1657 1699 57811509 57811468 2.160000e-07 67.6
16 TraesCS3B01G125600 chr5B 87.821 156 12 3 1526 1678 243429413 243429262 3.440000e-40 176.0
17 TraesCS3B01G125600 chr4A 87.500 152 16 3 1526 1674 709223711 709223862 4.450000e-39 172.0
18 TraesCS3B01G125600 chrUn 95.349 43 1 1 1657 1699 464945906 464945947 2.160000e-07 67.6
19 TraesCS3B01G125600 chr7A 95.349 43 1 1 1657 1699 623459797 623459756 2.160000e-07 67.6
20 TraesCS3B01G125600 chr7A 95.349 43 1 1 1657 1699 717180960 717180919 2.160000e-07 67.6


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 TraesCS3B01G125600 chr3B 101798409 101801765 3356 False 6200.000000 6200 100.0000 1 3357 1 chr3B.!!$F1 3356
1 TraesCS3B01G125600 chr3D 63005748 63009343 3595 False 1143.500000 3831 92.1475 1 3357 4 chr3D.!!$F1 3356
2 TraesCS3B01G125600 chr3A 71792924 71796405 3481 False 1346.666667 2953 87.8420 1 3351 3 chr3A.!!$F2 3350

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
504 917 0.0982 CATGCACGCATCTGTCCAAG 59.902 55.0 0.44 0.0 33.9 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2421 2889 0.179468 ACCGGGAATATTCACACGGG 59.821 55.0 31.16 21.72 41.55 5.28 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
80 84 5.571784 AAGGATTACATAGACGTCGACAA 57.428 39.130 17.16 0.00 0.00 3.18
82 86 4.397103 AGGATTACATAGACGTCGACAACA 59.603 41.667 17.16 0.00 0.00 3.33
101 105 5.312443 ACAACATAGAAACTTTCCCCCTACT 59.688 40.000 0.00 0.00 0.00 2.57
105 109 4.642466 AGAAACTTTCCCCCTACTTCTG 57.358 45.455 0.00 0.00 0.00 3.02
145 149 7.607991 ACACAAATATCTAGTTCTGTTCCCTTG 59.392 37.037 0.00 0.00 0.00 3.61
146 150 6.599638 ACAAATATCTAGTTCTGTTCCCTTGC 59.400 38.462 0.00 0.00 0.00 4.01
154 158 4.636206 AGTTCTGTTCCCTTGCGATATTTC 59.364 41.667 0.00 0.00 0.00 2.17
159 163 5.924356 TGTTCCCTTGCGATATTTCTGATA 58.076 37.500 0.00 0.00 0.00 2.15
160 164 6.533730 TGTTCCCTTGCGATATTTCTGATAT 58.466 36.000 0.00 0.00 0.00 1.63
161 165 7.676004 TGTTCCCTTGCGATATTTCTGATATA 58.324 34.615 0.00 0.00 0.00 0.86
163 167 8.821894 GTTCCCTTGCGATATTTCTGATATATC 58.178 37.037 14.46 14.46 33.56 1.63
165 169 9.421399 TCCCTTGCGATATTTCTGATATATCTA 57.579 33.333 19.21 10.14 34.34 1.98
211 450 1.812571 CGACTCATGAAAAACCCTGGG 59.187 52.381 12.28 12.28 0.00 4.45
216 455 4.528206 ACTCATGAAAAACCCTGGGAAATC 59.472 41.667 22.23 12.11 0.00 2.17
221 460 2.009681 AAACCCTGGGAAATCACACC 57.990 50.000 22.23 0.00 0.00 4.16
235 474 2.958818 TCACACCCAGTAGAACACTCT 58.041 47.619 0.00 0.00 34.26 3.24
274 516 5.633830 TTCGACAAGTACAGTTACTAGGG 57.366 43.478 0.00 0.00 37.59 3.53
325 699 1.916181 CCTCCCCACACTTGTAATCCT 59.084 52.381 0.00 0.00 0.00 3.24
403 779 5.308237 AGGCAGGATAATTCTAAACTCGGAT 59.692 40.000 0.00 0.00 0.00 4.18
504 917 0.098200 CATGCACGCATCTGTCCAAG 59.902 55.000 0.44 0.00 33.90 3.61
565 978 6.750963 AGAAACTACACGAACGAATATCTTCC 59.249 38.462 0.14 0.00 0.00 3.46
568 981 4.043037 ACACGAACGAATATCTTCCCTC 57.957 45.455 0.14 0.00 0.00 4.30
572 985 3.825014 CGAACGAATATCTTCCCTCCCTA 59.175 47.826 0.00 0.00 0.00 3.53
575 988 4.817286 ACGAATATCTTCCCTCCCTACTT 58.183 43.478 0.00 0.00 0.00 2.24
576 989 5.961897 ACGAATATCTTCCCTCCCTACTTA 58.038 41.667 0.00 0.00 0.00 2.24
577 990 6.379579 ACGAATATCTTCCCTCCCTACTTAA 58.620 40.000 0.00 0.00 0.00 1.85
578 991 6.842807 ACGAATATCTTCCCTCCCTACTTAAA 59.157 38.462 0.00 0.00 0.00 1.52
579 992 7.346436 ACGAATATCTTCCCTCCCTACTTAAAA 59.654 37.037 0.00 0.00 0.00 1.52
617 1031 3.367743 CTTCCACCCGACGGACGA 61.368 66.667 17.49 4.33 45.77 4.20
647 1061 1.159905 GGACCCCAAACCCCCAAAT 59.840 57.895 0.00 0.00 0.00 2.32
674 1088 5.236478 CCAATCTATACACGTAGGGCAAAAG 59.764 44.000 0.00 0.00 0.00 2.27
689 1110 4.510571 GGCAAAAGTAAAGATCGTAGGGA 58.489 43.478 0.00 0.00 0.00 4.20
856 1277 3.374402 CTCTCGCTGACGGTGGGT 61.374 66.667 0.00 0.00 40.63 4.51
876 1298 0.465460 CATGGGGTTATGGTGGGACG 60.465 60.000 0.00 0.00 0.00 4.79
877 1299 2.124445 GGGGTTATGGTGGGACGC 60.124 66.667 0.00 0.00 38.67 5.19
929 1352 1.003223 GCAAACGGCGTCAGTTAGTTT 60.003 47.619 15.17 0.00 35.68 2.66
1087 1525 2.434534 AGCAGAGCAAGCAGAGCG 60.435 61.111 0.00 0.00 37.01 5.03
1830 2277 3.195698 GAGTCGCCGCCATTGTCC 61.196 66.667 0.00 0.00 0.00 4.02
1983 2430 4.000620 TCCGGCTACCCCACCTCA 62.001 66.667 0.00 0.00 0.00 3.86
2056 2503 3.129502 CCATGGGCGCACAGACTG 61.130 66.667 21.09 12.17 0.00 3.51
2074 2521 3.885521 GCGCCTCCAGCTTCATGC 61.886 66.667 0.00 0.00 40.39 4.06
2104 2551 1.376037 CCACTGAACCTCCGCTTCC 60.376 63.158 0.00 0.00 0.00 3.46
2274 2732 2.266554 CTCATCAACTGAGCCGTTCTC 58.733 52.381 0.00 0.00 44.73 2.87
2290 2748 5.260027 CGTTCTCGGAAGTTTATTTCGTT 57.740 39.130 0.00 0.00 0.00 3.85
2291 2749 5.070862 CGTTCTCGGAAGTTTATTTCGTTG 58.929 41.667 0.00 0.00 0.00 4.10
2292 2750 5.107760 CGTTCTCGGAAGTTTATTTCGTTGA 60.108 40.000 0.00 0.00 0.00 3.18
2294 2752 4.927425 TCTCGGAAGTTTATTTCGTTGAGG 59.073 41.667 0.00 0.00 0.00 3.86
2295 2753 4.634199 TCGGAAGTTTATTTCGTTGAGGT 58.366 39.130 0.00 0.00 0.00 3.85
2296 2754 5.782047 TCGGAAGTTTATTTCGTTGAGGTA 58.218 37.500 0.00 0.00 0.00 3.08
2297 2755 5.865552 TCGGAAGTTTATTTCGTTGAGGTAG 59.134 40.000 0.00 0.00 0.00 3.18
2301 2762 6.481954 AGTTTATTTCGTTGAGGTAGCAAG 57.518 37.500 0.00 0.00 0.00 4.01
2307 2768 3.849911 TCGTTGAGGTAGCAAGAAGATG 58.150 45.455 0.00 0.00 0.00 2.90
2308 2769 2.932614 CGTTGAGGTAGCAAGAAGATGG 59.067 50.000 0.00 0.00 0.00 3.51
2418 2886 7.969690 ATTCCTGTACATAGCTGCTATCTAT 57.030 36.000 18.87 10.32 0.00 1.98
2419 2887 7.397892 TTCCTGTACATAGCTGCTATCTATC 57.602 40.000 18.87 10.41 0.00 2.08
2420 2888 6.726379 TCCTGTACATAGCTGCTATCTATCT 58.274 40.000 18.87 0.00 0.00 1.98
2421 2889 6.826231 TCCTGTACATAGCTGCTATCTATCTC 59.174 42.308 18.87 7.71 0.00 2.75
2424 2892 3.951037 ACATAGCTGCTATCTATCTCCCG 59.049 47.826 18.87 7.60 0.00 5.14
2512 2993 3.055021 GGGGTTCTTGAGGAAGTAGGAAG 60.055 52.174 0.00 0.00 34.23 3.46
2631 3127 3.154710 CATGGATGGATGGTGAAGATGG 58.845 50.000 0.00 0.00 0.00 3.51
2665 3161 4.288366 TGGACTTGATTCCTGTGATTACCA 59.712 41.667 0.00 0.00 36.51 3.25
2695 3191 2.267188 TTGTTTATCGTCGTCCTCGG 57.733 50.000 0.00 0.00 37.69 4.63
2696 3192 0.179156 TGTTTATCGTCGTCCTCGGC 60.179 55.000 0.00 0.00 38.40 5.54
2697 3193 0.179156 GTTTATCGTCGTCCTCGGCA 60.179 55.000 0.00 0.00 42.21 5.69
2698 3194 0.099968 TTTATCGTCGTCCTCGGCAG 59.900 55.000 0.00 0.00 42.21 4.85
2699 3195 1.028330 TTATCGTCGTCCTCGGCAGT 61.028 55.000 0.00 0.00 42.21 4.40
2700 3196 1.712018 TATCGTCGTCCTCGGCAGTG 61.712 60.000 0.00 0.00 42.21 3.66
2702 3198 4.357947 GTCGTCCTCGGCAGTGCA 62.358 66.667 18.61 0.00 41.67 4.57
2703 3199 4.056125 TCGTCCTCGGCAGTGCAG 62.056 66.667 18.61 13.90 37.69 4.41
2704 3200 4.363990 CGTCCTCGGCAGTGCAGT 62.364 66.667 18.61 0.00 0.00 4.40
2969 3495 9.605275 AAAGTAATATTCCCGGTTACTCTTTAC 57.395 33.333 13.14 6.80 37.60 2.01
2970 3496 8.310122 AGTAATATTCCCGGTTACTCTTTACA 57.690 34.615 8.26 0.00 34.50 2.41
2972 3498 6.803366 ATATTCCCGGTTACTCTTTACACT 57.197 37.500 0.00 0.00 0.00 3.55
3012 3539 6.374613 CACGTCTTGCCATATCTATCTACCTA 59.625 42.308 0.00 0.00 0.00 3.08
3013 3540 6.374894 ACGTCTTGCCATATCTATCTACCTAC 59.625 42.308 0.00 0.00 0.00 3.18
3014 3541 6.183360 CGTCTTGCCATATCTATCTACCTACC 60.183 46.154 0.00 0.00 0.00 3.18
3015 3542 6.097129 GTCTTGCCATATCTATCTACCTACCC 59.903 46.154 0.00 0.00 0.00 3.69
3048 3581 8.859090 TCCAGTAAGTGTGAATGAAATGAAATT 58.141 29.630 0.00 0.00 38.98 1.82
3077 3611 8.799367 TGATTGAGATTGAGATTGTGATTGTTT 58.201 29.630 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 84 5.791141 AGAAGTAGGGGGAAAGTTTCTATGT 59.209 40.000 15.05 1.74 0.00 2.29
82 86 6.030082 TCAGAAGTAGGGGGAAAGTTTCTAT 58.970 40.000 15.05 2.38 0.00 1.98
101 105 0.174389 GTGAGCTGCGAGGATCAGAA 59.826 55.000 0.00 0.00 32.10 3.02
105 109 0.390340 TTGTGTGAGCTGCGAGGATC 60.390 55.000 0.00 0.00 0.00 3.36
181 185 8.241367 GGGTTTTTCATGAGTCGTAAATGTATT 58.759 33.333 0.00 0.00 0.00 1.89
182 186 7.610305 AGGGTTTTTCATGAGTCGTAAATGTAT 59.390 33.333 0.00 0.00 0.00 2.29
183 187 6.938030 AGGGTTTTTCATGAGTCGTAAATGTA 59.062 34.615 0.00 0.00 0.00 2.29
184 188 5.768164 AGGGTTTTTCATGAGTCGTAAATGT 59.232 36.000 0.00 0.00 0.00 2.71
185 189 6.086222 CAGGGTTTTTCATGAGTCGTAAATG 58.914 40.000 0.00 0.00 0.00 2.32
186 190 5.183140 CCAGGGTTTTTCATGAGTCGTAAAT 59.817 40.000 0.00 0.00 0.00 1.40
187 191 4.517453 CCAGGGTTTTTCATGAGTCGTAAA 59.483 41.667 0.00 0.00 0.00 2.01
189 193 3.558321 CCCAGGGTTTTTCATGAGTCGTA 60.558 47.826 0.00 0.00 0.00 3.43
192 196 3.154827 TCCCAGGGTTTTTCATGAGTC 57.845 47.619 5.01 0.00 0.00 3.36
205 444 4.764143 GGGTGTGATTTCCCAGGG 57.236 61.111 0.00 0.00 42.95 4.45
211 450 4.642429 AGTGTTCTACTGGGTGTGATTTC 58.358 43.478 0.00 0.00 38.49 2.17
216 455 4.382040 CCATAGAGTGTTCTACTGGGTGTG 60.382 50.000 0.00 0.00 40.53 3.82
221 460 6.870965 GCATAATCCATAGAGTGTTCTACTGG 59.129 42.308 0.00 0.00 40.53 4.00
225 464 5.047306 CGGGCATAATCCATAGAGTGTTCTA 60.047 44.000 0.00 0.00 40.10 2.10
235 474 3.810941 GTCGAAAACGGGCATAATCCATA 59.189 43.478 0.00 0.00 0.00 2.74
264 506 4.706962 ACGTCCGTAAATTCCCTAGTAACT 59.293 41.667 0.00 0.00 0.00 2.24
265 507 4.998788 ACGTCCGTAAATTCCCTAGTAAC 58.001 43.478 0.00 0.00 0.00 2.50
274 516 2.159747 GGCTGTCAACGTCCGTAAATTC 60.160 50.000 0.00 0.00 0.00 2.17
325 699 4.535526 TGTGTATTTCTGTGAGCTGCTA 57.464 40.909 0.15 0.00 0.00 3.49
403 779 0.682532 TTGTCACCTGTTTGGCTGCA 60.683 50.000 0.50 0.00 40.22 4.41
438 819 1.881252 CCCAGGCGCGTATGTGTAC 60.881 63.158 8.43 0.00 0.00 2.90
471 852 1.679977 GCATGCAGATGGGTGGTGT 60.680 57.895 14.21 0.00 0.00 4.16
585 998 3.502303 GGTGGAAGGGAGGGAAGATTTTT 60.502 47.826 0.00 0.00 0.00 1.94
586 999 2.043115 GGTGGAAGGGAGGGAAGATTTT 59.957 50.000 0.00 0.00 0.00 1.82
587 1000 1.641192 GGTGGAAGGGAGGGAAGATTT 59.359 52.381 0.00 0.00 0.00 2.17
588 1001 1.299939 GGTGGAAGGGAGGGAAGATT 58.700 55.000 0.00 0.00 0.00 2.40
589 1002 0.624795 GGGTGGAAGGGAGGGAAGAT 60.625 60.000 0.00 0.00 0.00 2.40
590 1003 1.229853 GGGTGGAAGGGAGGGAAGA 60.230 63.158 0.00 0.00 0.00 2.87
591 1004 2.670148 CGGGTGGAAGGGAGGGAAG 61.670 68.421 0.00 0.00 0.00 3.46
592 1005 2.609610 CGGGTGGAAGGGAGGGAA 60.610 66.667 0.00 0.00 0.00 3.97
593 1006 3.607299 TCGGGTGGAAGGGAGGGA 61.607 66.667 0.00 0.00 0.00 4.20
594 1007 3.400054 GTCGGGTGGAAGGGAGGG 61.400 72.222 0.00 0.00 0.00 4.30
595 1008 3.771160 CGTCGGGTGGAAGGGAGG 61.771 72.222 0.00 0.00 0.00 4.30
596 1009 3.771160 CCGTCGGGTGGAAGGGAG 61.771 72.222 2.34 0.00 40.25 4.30
647 1061 3.503365 CCCTACGTGTATAGATTGGGGA 58.497 50.000 0.00 0.00 33.68 4.81
689 1110 2.527875 GGAGGGCAGGGGATCGAT 60.528 66.667 0.00 0.00 0.00 3.59
692 1113 4.843331 TGGGGAGGGCAGGGGATC 62.843 72.222 0.00 0.00 0.00 3.36
856 1277 0.923358 GTCCCACCATAACCCCATGA 59.077 55.000 0.00 0.00 0.00 3.07
858 1279 1.919771 CGTCCCACCATAACCCCAT 59.080 57.895 0.00 0.00 0.00 4.00
876 1298 3.044305 GCACCTCACTGACACGGC 61.044 66.667 0.00 0.00 0.00 5.68
877 1299 1.373497 GAGCACCTCACTGACACGG 60.373 63.158 0.00 0.00 0.00 4.94
1087 1525 2.937379 ATCATGGCTGTCTGCTCGCC 62.937 60.000 1.44 0.00 44.02 5.54
1692 2139 1.814586 CGAGCCGTCGTAGGACTCT 60.815 63.158 13.31 9.79 41.57 3.24
1884 2331 1.003839 GTCATTGACAGGCGACCCA 60.004 57.895 11.93 0.00 32.09 4.51
1893 2340 1.080093 GGCGAGGACGTCATTGACA 60.080 57.895 21.19 0.00 44.03 3.58
1962 2409 4.091939 GTGGGGTAGCCGGACCAC 62.092 72.222 5.05 6.64 45.56 4.16
2025 2472 3.967024 ATGGGGGTGGTGGGGAGA 61.967 66.667 0.00 0.00 0.00 3.71
2074 2521 2.034687 CAGTGGCTCCAGGTTGGG 59.965 66.667 0.00 0.00 38.32 4.12
2121 2568 1.229209 GGACTCCACCCTCTGGACA 60.229 63.158 0.00 0.00 44.99 4.02
2148 2595 1.446272 GAACACCTTCTCGCGGAGG 60.446 63.158 18.33 18.33 0.00 4.30
2154 2601 1.801913 CCGCTCGAACACCTTCTCG 60.802 63.158 0.00 0.00 36.39 4.04
2256 2706 0.994995 CGAGAACGGCTCAGTTGATG 59.005 55.000 8.07 0.00 44.15 3.07
2274 2732 5.445540 GCTACCTCAACGAAATAAACTTCCG 60.446 44.000 0.00 0.00 0.00 4.30
2276 2734 6.476243 TGCTACCTCAACGAAATAAACTTC 57.524 37.500 0.00 0.00 0.00 3.01
2282 2740 6.032956 TCTTCTTGCTACCTCAACGAAATA 57.967 37.500 0.00 0.00 0.00 1.40
2287 2745 2.932614 CCATCTTCTTGCTACCTCAACG 59.067 50.000 0.00 0.00 0.00 4.10
2290 2748 1.908619 TGCCATCTTCTTGCTACCTCA 59.091 47.619 0.00 0.00 0.00 3.86
2291 2749 2.284190 GTGCCATCTTCTTGCTACCTC 58.716 52.381 0.00 0.00 0.00 3.85
2292 2750 1.406069 CGTGCCATCTTCTTGCTACCT 60.406 52.381 0.00 0.00 0.00 3.08
2294 2752 1.009829 CCGTGCCATCTTCTTGCTAC 58.990 55.000 0.00 0.00 0.00 3.58
2295 2753 0.744414 GCCGTGCCATCTTCTTGCTA 60.744 55.000 0.00 0.00 0.00 3.49
2296 2754 2.042831 GCCGTGCCATCTTCTTGCT 61.043 57.895 0.00 0.00 0.00 3.91
2297 2755 2.486966 GCCGTGCCATCTTCTTGC 59.513 61.111 0.00 0.00 0.00 4.01
2301 2762 2.892425 CTCCGCCGTGCCATCTTC 60.892 66.667 0.00 0.00 0.00 2.87
2320 2781 4.403453 CATTTTTCTTCTTCTTACCGCCG 58.597 43.478 0.00 0.00 0.00 6.46
2362 2826 6.959639 ACTGGAAATAGCAAAAGAAACTGA 57.040 33.333 0.00 0.00 0.00 3.41
2418 2886 1.411246 CGGGAATATTCACACGGGAGA 59.589 52.381 17.68 0.00 0.00 3.71
2419 2887 1.540363 CCGGGAATATTCACACGGGAG 60.540 57.143 25.49 8.63 37.08 4.30
2420 2888 0.466543 CCGGGAATATTCACACGGGA 59.533 55.000 25.49 0.00 37.08 5.14
2421 2889 0.179468 ACCGGGAATATTCACACGGG 59.821 55.000 31.16 21.72 41.55 5.28
2424 2892 2.718563 ACCAACCGGGAATATTCACAC 58.281 47.619 17.68 6.29 41.15 3.82
2544 3025 3.550437 AGTTCCAATCCATCTCTTCCG 57.450 47.619 0.00 0.00 0.00 4.30
2631 3127 0.476771 TCAAGTCCACCTTCCAACCC 59.523 55.000 0.00 0.00 0.00 4.11
2665 3161 4.143115 CGACGATAAACAAACATCAGCACT 60.143 41.667 0.00 0.00 0.00 4.40
2695 3191 3.588906 TGCACTGCACTGCACTGC 61.589 61.111 22.02 22.02 44.42 4.40
2700 3196 0.098905 CAGATGATGCACTGCACTGC 59.901 55.000 5.67 10.99 43.04 4.40
2701 3197 0.733150 CCAGATGATGCACTGCACTG 59.267 55.000 5.67 8.95 43.04 3.66
2702 3198 0.616891 TCCAGATGATGCACTGCACT 59.383 50.000 5.67 0.00 43.04 4.40
2703 3199 0.731417 GTCCAGATGATGCACTGCAC 59.269 55.000 5.67 1.38 43.04 4.57
2704 3200 0.616891 AGTCCAGATGATGCACTGCA 59.383 50.000 6.09 6.09 44.86 4.41
2717 3213 1.030488 TCGGTCTTCGGCTAGTCCAG 61.030 60.000 4.43 0.00 39.77 3.86
2800 3305 0.321122 GCTGTGGGGGATCGATCATC 60.321 60.000 25.93 16.75 0.00 2.92
2801 3306 1.056125 TGCTGTGGGGGATCGATCAT 61.056 55.000 25.93 0.00 0.00 2.45
2802 3307 1.056125 ATGCTGTGGGGGATCGATCA 61.056 55.000 25.93 4.00 0.00 2.92
2803 3308 0.976641 TATGCTGTGGGGGATCGATC 59.023 55.000 17.36 17.36 0.00 3.69
2804 3309 1.661463 ATATGCTGTGGGGGATCGAT 58.339 50.000 0.00 0.00 0.00 3.59
2805 3310 1.434188 AATATGCTGTGGGGGATCGA 58.566 50.000 0.00 0.00 0.00 3.59
2806 3311 2.276732 AAATATGCTGTGGGGGATCG 57.723 50.000 0.00 0.00 0.00 3.69
2997 3524 7.941431 AAGAACGGGTAGGTAGATAGATATG 57.059 40.000 0.00 0.00 0.00 1.78
3012 3539 2.436911 ACACTTACTGGAAAGAACGGGT 59.563 45.455 0.00 0.00 0.00 5.28
3013 3540 2.806244 CACACTTACTGGAAAGAACGGG 59.194 50.000 0.00 0.00 0.00 5.28
3014 3541 3.724374 TCACACTTACTGGAAAGAACGG 58.276 45.455 0.00 0.00 0.00 4.44
3015 3542 5.465390 TCATTCACACTTACTGGAAAGAACG 59.535 40.000 0.00 0.00 0.00 3.95
3048 3581 7.933215 ATCACAATCTCAATCTCAATCACAA 57.067 32.000 0.00 0.00 0.00 3.33
3049 3582 7.392393 ACAATCACAATCTCAATCTCAATCACA 59.608 33.333 0.00 0.00 0.00 3.58
3050 3583 7.759465 ACAATCACAATCTCAATCTCAATCAC 58.241 34.615 0.00 0.00 0.00 3.06
3052 3585 9.635520 AAAACAATCACAATCTCAATCTCAATC 57.364 29.630 0.00 0.00 0.00 2.67
3053 3586 9.991906 AAAAACAATCACAATCTCAATCTCAAT 57.008 25.926 0.00 0.00 0.00 2.57
3054 3587 9.251792 CAAAAACAATCACAATCTCAATCTCAA 57.748 29.630 0.00 0.00 0.00 3.02
3055 3588 7.868922 CCAAAAACAATCACAATCTCAATCTCA 59.131 33.333 0.00 0.00 0.00 3.27
3056 3589 7.148689 GCCAAAAACAATCACAATCTCAATCTC 60.149 37.037 0.00 0.00 0.00 2.75
3057 3590 6.647895 GCCAAAAACAATCACAATCTCAATCT 59.352 34.615 0.00 0.00 0.00 2.40
3058 3591 6.400303 CGCCAAAAACAATCACAATCTCAATC 60.400 38.462 0.00 0.00 0.00 2.67
3059 3592 5.406175 CGCCAAAAACAATCACAATCTCAAT 59.594 36.000 0.00 0.00 0.00 2.57
3060 3593 4.744137 CGCCAAAAACAATCACAATCTCAA 59.256 37.500 0.00 0.00 0.00 3.02
3061 3594 4.297510 CGCCAAAAACAATCACAATCTCA 58.702 39.130 0.00 0.00 0.00 3.27
3062 3595 3.121778 GCGCCAAAAACAATCACAATCTC 59.878 43.478 0.00 0.00 0.00 2.75
3063 3596 3.059166 GCGCCAAAAACAATCACAATCT 58.941 40.909 0.00 0.00 0.00 2.40
3077 3611 3.959975 GTCACCGCAAGCGCCAAA 61.960 61.111 9.26 0.00 38.24 3.28


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

AutoCloner maintained by Alex Coulton.