Multiple sequence alignment - TraesCS6B01G201100

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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 TraesCS6B01G201100 chr6B 100.000 3983 0 0 1 3983 240399661 240403643 0.000000e+00 7356.0
1 TraesCS6B01G201100 chr6A 92.296 3167 168 37 1 3111 185317942 185321088 0.000000e+00 4427.0
2 TraesCS6B01G201100 chr6A 91.599 857 46 9 3146 3983 185321079 185321928 0.000000e+00 1160.0
3 TraesCS6B01G201100 chr6D 96.082 1174 44 2 766 1939 141135038 141136209 0.000000e+00 1912.0
4 TraesCS6B01G201100 chr6D 92.586 1214 39 14 1922 3121 141136224 141137400 0.000000e+00 1696.0
5 TraesCS6B01G201100 chr6D 89.586 845 47 17 3161 3983 141137402 141138227 0.000000e+00 1035.0
6 TraesCS6B01G201100 chr6D 89.894 663 49 11 134 779 141134361 141135022 0.000000e+00 837.0
7 TraesCS6B01G201100 chr6D 94.231 104 6 0 1 104 141134257 141134360 4.120000e-35 159.0
8 TraesCS6B01G201100 chr4D 71.045 335 72 15 66 381 84288592 84288264 1.550000e-04 58.4


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 TraesCS6B01G201100 chr6B 240399661 240403643 3982 False 7356.0 7356 100.0000 1 3983 1 chr6B.!!$F1 3982
1 TraesCS6B01G201100 chr6A 185317942 185321928 3986 False 2793.5 4427 91.9475 1 3983 2 chr6A.!!$F1 3982
2 TraesCS6B01G201100 chr6D 141134257 141138227 3970 False 1127.8 1912 92.4758 1 3983 5 chr6D.!!$F1 3982

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
353 354 0.104487 GAGGGGTTAAGCTAGACGCC 59.896 60.000 21.12 21.12 46.06 5.68 F
1035 1127 1.220749 CCGTTCGTCATCCATGGGT 59.779 57.895 13.02 0.00 0.00 4.51 F
2574 2717 0.178990 AGGCCCTTTGTCCACTTGAC 60.179 55.000 0.00 0.00 44.72 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1484 1576 0.179094 ATGGCATCCAAGCGCAATTG 60.179 50.0 11.47 6.25 36.95 2.32 R
2831 2976 0.599204 GAACCAACCGCGAACAGAGA 60.599 55.0 8.23 0.00 0.00 3.10 R
3885 4066 0.175760 AGCTTACGCGTGGTGATCAT 59.824 50.0 24.59 0.00 42.32 2.45 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
29 30 8.207545 GGAGATGAAACTAGAGACCAACAATAT 58.792 37.037 0.00 0.00 0.00 1.28
33 34 7.847096 TGAAACTAGAGACCAACAATATGCTA 58.153 34.615 0.00 0.00 0.00 3.49
76 77 1.628447 GCGGTCGGCGTGAACAAATA 61.628 55.000 6.85 0.00 32.01 1.40
93 94 9.031537 TGAACAAATACTAATCACTCTAGACCA 57.968 33.333 0.00 0.00 0.00 4.02
127 128 3.832615 AACACCATCCTATTACCCGTC 57.167 47.619 0.00 0.00 0.00 4.79
132 133 2.236766 CATCCTATTACCCGTCGAGGT 58.763 52.381 4.18 9.82 44.37 3.85
146 147 1.071605 CGAGGTTGCTTCGAGGAAAG 58.928 55.000 0.00 0.00 40.36 2.62
167 168 5.053978 AGATATGGACATGGAGAAAACCC 57.946 43.478 0.00 0.00 0.00 4.11
172 173 0.178975 ACATGGAGAAAACCCGGCAA 60.179 50.000 0.00 0.00 0.00 4.52
200 201 3.818787 CATCGTTGCAGCTGCCCC 61.819 66.667 34.64 23.17 41.18 5.80
201 202 4.349503 ATCGTTGCAGCTGCCCCA 62.350 61.111 34.64 16.86 41.18 4.96
244 245 0.179108 GACCATAGCAGACACGGACC 60.179 60.000 0.00 0.00 0.00 4.46
267 268 2.041819 ACTCAGATCGGGGGTCCC 60.042 66.667 0.00 0.00 41.09 4.46
279 280 1.138228 GGGGTCCCACCTTTACACCT 61.138 60.000 10.98 0.00 38.64 4.00
283 284 1.418637 GTCCCACCTTTACACCTGTCA 59.581 52.381 0.00 0.00 0.00 3.58
312 313 0.909610 TCGACAGAGGCCAAGGGAAT 60.910 55.000 5.01 0.00 0.00 3.01
315 316 1.153086 CAGAGGCCAAGGGAATCCG 60.153 63.158 5.01 0.00 38.33 4.18
316 317 2.517166 GAGGCCAAGGGAATCCGC 60.517 66.667 5.01 0.00 38.33 5.54
351 352 2.418334 GGTTGAGGGGTTAAGCTAGACG 60.418 54.545 4.41 0.00 0.00 4.18
353 354 0.104487 GAGGGGTTAAGCTAGACGCC 59.896 60.000 21.12 21.12 46.06 5.68
478 479 9.793259 AAGTAGAATATTCTTGAAGTGGTGAAA 57.207 29.630 22.60 0.00 38.70 2.69
479 480 9.220767 AGTAGAATATTCTTGAAGTGGTGAAAC 57.779 33.333 22.60 10.06 38.70 2.78
481 482 7.875971 AGAATATTCTTGAAGTGGTGAAACAC 58.124 34.615 12.37 0.00 36.50 3.32
509 510 7.623268 TTTGTCGACAATGAGATGTATATCG 57.377 36.000 30.10 0.00 35.71 2.92
546 547 2.628657 GGCAACTATGTCTCCCGTAGAT 59.371 50.000 0.00 0.00 36.36 1.98
624 626 2.596346 TGTGGCTGATTGGTTTGATGT 58.404 42.857 0.00 0.00 0.00 3.06
628 630 3.640498 TGGCTGATTGGTTTGATGTCAAA 59.360 39.130 4.16 4.16 42.90 2.69
772 830 1.661341 TTTGGCATGTGCAAACCAAC 58.339 45.000 7.36 0.00 41.72 3.77
784 842 3.514706 TGCAAACCAACCATGCTCAATAT 59.485 39.130 0.00 0.00 40.66 1.28
790 848 3.254166 CCAACCATGCTCAATATACAGCC 59.746 47.826 3.88 0.00 34.47 4.85
811 869 2.364186 CCCCAATTCTGGCCCACC 60.364 66.667 0.00 0.00 41.99 4.61
839 897 1.905843 CACGGCCCAACCCAAATCA 60.906 57.895 0.00 0.00 33.26 2.57
1035 1127 1.220749 CCGTTCGTCATCCATGGGT 59.779 57.895 13.02 0.00 0.00 4.51
1259 1351 2.239681 TTGTTTGGGTGGTCTGGTTT 57.760 45.000 0.00 0.00 0.00 3.27
1272 1364 2.755103 GTCTGGTTTTGCCCTAGATTGG 59.245 50.000 0.00 0.00 36.04 3.16
1344 1436 4.406648 TCTGATTATGTAGGTGTGCAGG 57.593 45.455 0.00 0.00 0.00 4.85
1513 1605 3.057033 GCTTGGATGCCATGTGGATAATC 60.057 47.826 2.55 2.72 37.39 1.75
1636 1729 6.760291 TGGTGGTGGGAATTTAACATTTAAC 58.240 36.000 0.00 0.00 0.00 2.01
1745 1838 3.128589 ACCTTGCGTGCATTTGGTATAAG 59.871 43.478 11.26 0.00 0.00 1.73
1821 1914 5.586243 GCATTTTAGTGTGGATTAGCTCTGA 59.414 40.000 0.00 0.00 0.00 3.27
1923 2016 6.289834 TCCGTTTACTCCTTGTTCATACAAA 58.710 36.000 0.00 0.00 43.33 2.83
1951 2076 4.058721 GCCCCTATTGTTAGGCAATTTG 57.941 45.455 0.00 0.00 44.82 2.32
2002 2127 3.253188 GCACTTTTGCCTATCAGACAACA 59.747 43.478 0.00 0.00 43.66 3.33
2137 2278 2.804933 GCTCAGTAATGGTGCTAGAGCC 60.805 54.545 0.00 0.00 41.18 4.70
2138 2279 2.697751 CTCAGTAATGGTGCTAGAGCCT 59.302 50.000 0.00 0.00 41.18 4.58
2139 2280 3.891977 CTCAGTAATGGTGCTAGAGCCTA 59.108 47.826 0.00 0.00 41.18 3.93
2140 2281 3.891977 TCAGTAATGGTGCTAGAGCCTAG 59.108 47.826 0.00 5.20 41.18 3.02
2141 2282 3.891977 CAGTAATGGTGCTAGAGCCTAGA 59.108 47.826 11.96 0.00 41.18 2.43
2142 2283 4.022416 CAGTAATGGTGCTAGAGCCTAGAG 60.022 50.000 11.96 0.00 41.18 2.43
2143 2284 1.337118 ATGGTGCTAGAGCCTAGAGC 58.663 55.000 11.96 2.59 41.18 4.09
2227 2368 6.554334 TTCCTGAACAAGAATTACTTTCCG 57.446 37.500 0.00 0.00 36.61 4.30
2437 2579 7.232127 CCTCTGAATGCCTTCCATTATATTGTT 59.768 37.037 0.00 0.00 44.02 2.83
2534 2677 3.624861 GCAACATCTCACAGAAGGTATGG 59.375 47.826 0.00 0.00 0.00 2.74
2574 2717 0.178990 AGGCCCTTTGTCCACTTGAC 60.179 55.000 0.00 0.00 44.72 3.18
2723 2868 3.724508 TCTGATCGAAGAAGATGAGGC 57.275 47.619 0.00 0.00 43.58 4.70
2856 3001 2.277084 GTTCGCGGTTGGTTCTCATAT 58.723 47.619 6.13 0.00 0.00 1.78
3034 3179 6.864685 TGCTGCTTTATTTTCTGAATGAAGTG 59.135 34.615 0.00 1.96 35.89 3.16
3035 3180 6.865205 GCTGCTTTATTTTCTGAATGAAGTGT 59.135 34.615 0.00 0.00 35.89 3.55
3053 3209 4.342359 AGTGTAGACGACCAGTAATTCCT 58.658 43.478 0.00 0.00 0.00 3.36
3094 3250 4.384868 GCCATTAGCCTAGGTGACCTTAAA 60.385 45.833 10.53 0.00 32.74 1.52
3147 3303 5.861222 ATATATGTGTGTGTGTGTGTGTG 57.139 39.130 0.00 0.00 0.00 3.82
3148 3304 1.819928 ATGTGTGTGTGTGTGTGTGT 58.180 45.000 0.00 0.00 0.00 3.72
3149 3305 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3150 3306 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3151 3307 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3152 3308 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3153 3309 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3154 3310 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3155 3311 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3156 3312 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3157 3313 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3158 3314 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3159 3315 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3203 3359 8.830201 TCCAAATTTGATGGTCTTATTGTTTG 57.170 30.769 19.86 0.00 39.09 2.93
3231 3387 9.060347 TGCAATCAGATATTTATCCTCTGTTTC 57.940 33.333 0.00 0.00 38.05 2.78
3237 3393 7.383572 CAGATATTTATCCTCTGTTTCCACTCG 59.616 40.741 0.00 0.00 33.34 4.18
3238 3394 4.884668 TTTATCCTCTGTTTCCACTCGT 57.115 40.909 0.00 0.00 0.00 4.18
3239 3395 4.884668 TTATCCTCTGTTTCCACTCGTT 57.115 40.909 0.00 0.00 0.00 3.85
3240 3396 2.526304 TCCTCTGTTTCCACTCGTTG 57.474 50.000 0.00 0.00 0.00 4.10
3241 3397 1.760613 TCCTCTGTTTCCACTCGTTGT 59.239 47.619 0.00 0.00 0.00 3.32
3242 3398 2.169769 TCCTCTGTTTCCACTCGTTGTT 59.830 45.455 0.00 0.00 0.00 2.83
3243 3399 2.544267 CCTCTGTTTCCACTCGTTGTTC 59.456 50.000 0.00 0.00 0.00 3.18
3299 3455 9.739786 CTGTTAATATTTCGGAAAACATTTTGC 57.260 29.630 7.33 0.00 35.48 3.68
3332 3488 4.254709 TTGTGCAGCCAGCCGACT 62.255 61.111 0.00 0.00 44.83 4.18
3376 3539 3.172339 TGAGCATTAAACCTGGCCAAAT 58.828 40.909 7.01 0.00 0.00 2.32
3390 3553 8.782137 ACCTGGCCAAATATTATGTAATTTCT 57.218 30.769 7.01 0.00 0.00 2.52
3434 3600 6.817765 TTGCTGTTAAACTCTATTTCAGGG 57.182 37.500 0.00 0.00 0.00 4.45
3435 3601 5.253330 TGCTGTTAAACTCTATTTCAGGGG 58.747 41.667 0.00 0.00 0.00 4.79
3469 3648 5.607939 AACACCTTTTTAGGGGAAAGTTG 57.392 39.130 0.00 0.00 35.49 3.16
3490 3670 9.959721 AAGTTGACTACCATCTTACATGTAATT 57.040 29.630 18.35 7.02 34.10 1.40
3662 3843 0.167470 CCGCAGAACAACATCAGCAG 59.833 55.000 0.00 0.00 31.92 4.24
3724 3905 6.428083 TCACAACTTTACATAGAGAACCCA 57.572 37.500 0.00 0.00 0.00 4.51
3883 4064 0.309922 CACAAGAGCAGCAACACCAG 59.690 55.000 0.00 0.00 0.00 4.00
3885 4066 0.535780 CAAGAGCAGCAACACCAGGA 60.536 55.000 0.00 0.00 0.00 3.86
3946 4130 2.289195 GGTTGAAGGTGGTGTCGATACA 60.289 50.000 14.58 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 6.096673 TGCGAAGAGAATGGTATTATAGCA 57.903 37.500 6.58 6.58 40.84 3.49
33 34 5.635280 CGTCATGCGAAGAGAATGGTATTAT 59.365 40.000 3.85 0.00 44.77 1.28
64 65 6.648725 AGAGTGATTAGTATTTGTTCACGC 57.351 37.500 0.00 0.00 41.15 5.34
76 77 4.160626 GGCACTTGGTCTAGAGTGATTAGT 59.839 45.833 12.66 0.44 44.65 2.24
93 94 1.202830 TGGTGTTTATGTCGGGCACTT 60.203 47.619 0.00 0.00 0.00 3.16
127 128 1.071605 CTTTCCTCGAAGCAACCTCG 58.928 55.000 0.00 0.00 0.00 4.63
132 133 4.081142 TGTCCATATCTTTCCTCGAAGCAA 60.081 41.667 0.00 0.00 0.00 3.91
146 147 3.815401 CGGGTTTTCTCCATGTCCATATC 59.185 47.826 0.00 0.00 0.00 1.63
167 168 3.399330 ACGATGGGAATAATAGTTGCCG 58.601 45.455 0.00 0.00 41.97 5.69
172 173 3.815401 GCTGCAACGATGGGAATAATAGT 59.185 43.478 0.00 0.00 0.00 2.12
221 222 2.025155 CCGTGTCTGCTATGGTCTAGT 58.975 52.381 0.00 0.00 0.00 2.57
244 245 2.786495 CCCCGATCTGAGTGTCCCG 61.786 68.421 0.00 0.00 0.00 5.14
267 268 2.218603 GTGGTGACAGGTGTAAAGGTG 58.781 52.381 0.00 0.00 44.46 4.00
279 280 0.533032 TGTCGACAGTTGTGGTGACA 59.467 50.000 15.76 7.21 38.72 3.58
283 284 0.389391 CCTCTGTCGACAGTTGTGGT 59.611 55.000 37.21 0.00 44.12 4.16
315 316 2.406616 AACCCGTTGATGCCGATGC 61.407 57.895 0.00 0.00 38.26 3.91
316 317 1.024046 TCAACCCGTTGATGCCGATG 61.024 55.000 6.17 0.00 43.90 3.84
351 352 0.179234 GGGTTTGCTAGAGAGGAGGC 59.821 60.000 0.00 0.00 0.00 4.70
353 354 2.962421 CCTAGGGTTTGCTAGAGAGGAG 59.038 54.545 0.00 0.00 0.00 3.69
467 468 4.231439 ACAAAAACGTGTTTCACCACTTC 58.769 39.130 0.00 0.00 33.07 3.01
473 474 3.480894 TGTCGACAAAAACGTGTTTCAC 58.519 40.909 17.62 0.00 31.45 3.18
474 475 3.808116 TGTCGACAAAAACGTGTTTCA 57.192 38.095 17.62 0.00 31.45 2.69
478 479 3.619483 TCTCATTGTCGACAAAAACGTGT 59.381 39.130 32.69 13.44 39.55 4.49
479 480 4.190304 TCTCATTGTCGACAAAAACGTG 57.810 40.909 32.69 24.81 39.55 4.49
481 482 4.772434 ACATCTCATTGTCGACAAAAACG 58.228 39.130 32.69 20.88 39.55 3.60
538 539 0.796312 GCACACACAACATCTACGGG 59.204 55.000 0.00 0.00 0.00 5.28
546 547 0.964860 AGGCACAAGCACACACAACA 60.965 50.000 0.00 0.00 44.61 3.33
680 707 6.424883 TGGTTACCAACTTTTCTTACCAAGA 58.575 36.000 0.00 0.00 31.92 3.02
772 830 4.157289 GGAATGGCTGTATATTGAGCATGG 59.843 45.833 7.69 0.00 36.90 3.66
784 842 2.358090 CCAGAATTGGGGAATGGCTGTA 60.358 50.000 0.00 0.00 41.05 2.74
790 848 0.325484 TGGGCCAGAATTGGGGAATG 60.325 55.000 0.00 0.00 45.16 2.67
961 1053 1.073199 CGAGAGGTTTGCCAGGGTT 59.927 57.895 0.00 0.00 37.19 4.11
962 1054 2.750350 CGAGAGGTTTGCCAGGGT 59.250 61.111 0.00 0.00 37.19 4.34
963 1055 2.747855 GCGAGAGGTTTGCCAGGG 60.748 66.667 0.00 0.00 37.19 4.45
968 1060 2.436824 GGAGGGCGAGAGGTTTGC 60.437 66.667 0.00 0.00 35.26 3.68
969 1061 2.125512 CGGAGGGCGAGAGGTTTG 60.126 66.667 0.00 0.00 0.00 2.93
970 1062 2.603776 ACGGAGGGCGAGAGGTTT 60.604 61.111 0.00 0.00 0.00 3.27
971 1063 3.069318 GACGGAGGGCGAGAGGTT 61.069 66.667 0.00 0.00 0.00 3.50
974 1066 2.902846 ATCGACGGAGGGCGAGAG 60.903 66.667 0.00 0.00 41.14 3.20
975 1067 3.209812 CATCGACGGAGGGCGAGA 61.210 66.667 0.00 0.00 41.14 4.04
1020 1112 1.077787 GGCACCCATGGATGACGAA 60.078 57.895 11.51 0.00 0.00 3.85
1035 1127 2.031919 AACTCAATGTCGCCGGCA 59.968 55.556 28.98 11.20 0.00 5.69
1126 1218 0.608640 CGGTGGTAGGAGAAGCTTGT 59.391 55.000 2.10 0.00 0.00 3.16
1249 1341 1.440618 TCTAGGGCAAAACCAGACCA 58.559 50.000 0.00 0.00 42.05 4.02
1287 1379 2.548067 GGTCACATACTAGCAATCCCCG 60.548 54.545 0.00 0.00 0.00 5.73
1297 1389 1.734377 CGCACGCAAGGTCACATACTA 60.734 52.381 0.00 0.00 46.39 1.82
1484 1576 0.179094 ATGGCATCCAAGCGCAATTG 60.179 50.000 11.47 6.25 36.95 2.32
1540 1633 7.340232 GCCCATTATTCATTATATGCCAGAGAA 59.660 37.037 0.00 0.00 0.00 2.87
1541 1634 6.830324 GCCCATTATTCATTATATGCCAGAGA 59.170 38.462 0.00 0.00 0.00 3.10
1636 1729 6.858993 TGCCTAAAACAAGCAAAGTAATAACG 59.141 34.615 0.00 0.00 32.56 3.18
1745 1838 2.741228 GCACAGACCTCATCACCATCTC 60.741 54.545 0.00 0.00 0.00 2.75
1821 1914 5.485353 TCCTTACTGATCTCATGAAACAGGT 59.515 40.000 20.00 10.27 36.09 4.00
1923 2016 4.713792 CCTAACAATAGGGGCATCTCTT 57.286 45.455 0.00 0.00 44.39 2.85
2002 2127 5.627182 ATGCTCACACAGGAGAATAAGAT 57.373 39.130 0.00 0.00 37.05 2.40
2137 2278 6.256757 GCTGTGTTGGAATTTAGTAGCTCTAG 59.743 42.308 0.00 0.00 0.00 2.43
2138 2279 6.106673 GCTGTGTTGGAATTTAGTAGCTCTA 58.893 40.000 0.00 0.00 0.00 2.43
2139 2280 4.938226 GCTGTGTTGGAATTTAGTAGCTCT 59.062 41.667 0.00 0.00 0.00 4.09
2140 2281 4.095036 GGCTGTGTTGGAATTTAGTAGCTC 59.905 45.833 0.00 0.00 0.00 4.09
2141 2282 4.010349 GGCTGTGTTGGAATTTAGTAGCT 58.990 43.478 0.00 0.00 0.00 3.32
2142 2283 3.756434 TGGCTGTGTTGGAATTTAGTAGC 59.244 43.478 0.00 0.00 0.00 3.58
2143 2284 5.415701 ACATGGCTGTGTTGGAATTTAGTAG 59.584 40.000 0.00 0.00 33.22 2.57
2534 2677 6.478512 CCTTATAGAGGCATTAGGATCTCC 57.521 45.833 0.00 0.00 39.09 3.71
2574 2717 4.378774 CATGAGTTCTAGGAAGATGCAGG 58.621 47.826 0.00 0.00 0.00 4.85
2723 2868 2.744768 GCGGCAAGCTTCTTCTCGG 61.745 63.158 0.00 0.00 44.04 4.63
2831 2976 0.599204 GAACCAACCGCGAACAGAGA 60.599 55.000 8.23 0.00 0.00 3.10
2856 3001 4.955335 TCCTGTTACCCCTCAATCTAGAA 58.045 43.478 0.00 0.00 0.00 2.10
3034 3179 3.864003 GCAAGGAATTACTGGTCGTCTAC 59.136 47.826 0.00 0.00 0.00 2.59
3035 3180 3.512329 TGCAAGGAATTACTGGTCGTCTA 59.488 43.478 0.00 0.00 0.00 2.59
3053 3209 2.710471 TGGCCTATCCTATGTCATGCAA 59.290 45.455 3.32 0.00 35.26 4.08
3121 3277 9.260002 CACACACACACACACACATATATATAT 57.740 33.333 0.00 0.00 0.00 0.86
3122 3278 8.254508 ACACACACACACACACACATATATATA 58.745 33.333 0.00 0.00 0.00 0.86
3123 3279 7.064490 CACACACACACACACACACATATATAT 59.936 37.037 0.00 0.00 0.00 0.86
3124 3280 6.367422 CACACACACACACACACACATATATA 59.633 38.462 0.00 0.00 0.00 0.86
3125 3281 5.179182 CACACACACACACACACACATATAT 59.821 40.000 0.00 0.00 0.00 0.86
3126 3282 4.509600 CACACACACACACACACACATATA 59.490 41.667 0.00 0.00 0.00 0.86
3127 3283 3.312146 CACACACACACACACACACATAT 59.688 43.478 0.00 0.00 0.00 1.78
3128 3284 2.675348 CACACACACACACACACACATA 59.325 45.455 0.00 0.00 0.00 2.29
3129 3285 1.468127 CACACACACACACACACACAT 59.532 47.619 0.00 0.00 0.00 3.21
3130 3286 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3131 3287 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3132 3288 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3133 3289 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3134 3290 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3135 3291 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3136 3292 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3137 3293 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3138 3294 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3139 3295 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3140 3296 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3141 3297 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3142 3298 1.598882 AACACACACACACACACACA 58.401 45.000 0.00 0.00 0.00 3.72
3143 3299 2.697431 AAACACACACACACACACAC 57.303 45.000 0.00 0.00 0.00 3.82
3144 3300 2.618709 TCAAAACACACACACACACACA 59.381 40.909 0.00 0.00 0.00 3.72
3145 3301 2.977169 GTCAAAACACACACACACACAC 59.023 45.455 0.00 0.00 0.00 3.82
3146 3302 2.881513 AGTCAAAACACACACACACACA 59.118 40.909 0.00 0.00 0.00 3.72
3147 3303 3.058570 TGAGTCAAAACACACACACACAC 60.059 43.478 0.00 0.00 0.00 3.82
3148 3304 3.142174 TGAGTCAAAACACACACACACA 58.858 40.909 0.00 0.00 0.00 3.72
3149 3305 3.822594 TGAGTCAAAACACACACACAC 57.177 42.857 0.00 0.00 0.00 3.82
3150 3306 4.217334 ACAATGAGTCAAAACACACACACA 59.783 37.500 0.00 0.00 0.00 3.72
3151 3307 4.732784 ACAATGAGTCAAAACACACACAC 58.267 39.130 0.00 0.00 0.00 3.82
3152 3308 5.384063 AACAATGAGTCAAAACACACACA 57.616 34.783 0.00 0.00 0.00 3.72
3153 3309 4.798387 GGAACAATGAGTCAAAACACACAC 59.202 41.667 0.00 0.00 0.00 3.82
3154 3310 4.704540 AGGAACAATGAGTCAAAACACACA 59.295 37.500 0.00 0.00 0.00 3.72
3155 3311 5.248870 AGGAACAATGAGTCAAAACACAC 57.751 39.130 0.00 0.00 0.00 3.82
3156 3312 5.163561 GGAAGGAACAATGAGTCAAAACACA 60.164 40.000 0.00 0.00 0.00 3.72
3157 3313 5.163561 TGGAAGGAACAATGAGTCAAAACAC 60.164 40.000 0.00 0.00 0.00 3.32
3158 3314 4.952957 TGGAAGGAACAATGAGTCAAAACA 59.047 37.500 0.00 0.00 0.00 2.83
3159 3315 5.514274 TGGAAGGAACAATGAGTCAAAAC 57.486 39.130 0.00 0.00 0.00 2.43
3203 3359 6.939163 ACAGAGGATAAATATCTGATTGCACC 59.061 38.462 8.32 0.00 42.48 5.01
3231 3387 1.961793 TTGGAAGGAACAACGAGTGG 58.038 50.000 0.00 0.00 0.00 4.00
3237 3393 5.610398 ACCATCAAATTTGGAAGGAACAAC 58.390 37.500 22.62 0.00 37.69 3.32
3238 3394 5.602145 AGACCATCAAATTTGGAAGGAACAA 59.398 36.000 22.62 3.02 37.69 2.83
3239 3395 5.147032 AGACCATCAAATTTGGAAGGAACA 58.853 37.500 22.62 3.63 37.69 3.18
3240 3396 5.728637 AGACCATCAAATTTGGAAGGAAC 57.271 39.130 22.62 17.07 37.69 3.62
3241 3397 7.728083 TCTTAAGACCATCAAATTTGGAAGGAA 59.272 33.333 22.62 11.10 37.69 3.36
3242 3398 7.237982 TCTTAAGACCATCAAATTTGGAAGGA 58.762 34.615 22.62 5.48 37.69 3.36
3243 3399 7.466746 TCTTAAGACCATCAAATTTGGAAGG 57.533 36.000 17.90 17.57 37.69 3.46
3286 3442 3.735746 CAGAAGACCGCAAAATGTTTTCC 59.264 43.478 0.00 0.00 0.00 3.13
3299 3455 2.731976 GCACAAGTTACTCAGAAGACCG 59.268 50.000 0.00 0.00 0.00 4.79
3332 3488 3.329225 TGATCACAGGGTAATGGTTGTCA 59.671 43.478 0.00 0.00 0.00 3.58
3425 3591 9.403583 GTGTTATGTTATCTTTCCCCTGAAATA 57.596 33.333 0.00 0.00 39.65 1.40
3428 3594 6.011981 AGGTGTTATGTTATCTTTCCCCTGAA 60.012 38.462 0.00 0.00 0.00 3.02
3430 3596 5.755849 AGGTGTTATGTTATCTTTCCCCTG 58.244 41.667 0.00 0.00 0.00 4.45
3431 3597 6.402981 AAGGTGTTATGTTATCTTTCCCCT 57.597 37.500 0.00 0.00 0.00 4.79
3432 3598 7.476540 AAAAGGTGTTATGTTATCTTTCCCC 57.523 36.000 0.00 0.00 0.00 4.81
3469 3648 8.827677 GGTTCAATTACATGTAAGATGGTAGTC 58.172 37.037 22.03 12.18 0.00 2.59
3662 3843 5.395642 CGGTCTCTCTCTTTCAGTAGTTTC 58.604 45.833 0.00 0.00 0.00 2.78
3724 3905 2.413142 GGCGCCGGTCACTAGTAGT 61.413 63.158 12.58 0.00 0.00 2.73
3883 4064 1.209128 CTTACGCGTGGTGATCATCC 58.791 55.000 24.59 5.49 0.00 3.51
3885 4066 0.175760 AGCTTACGCGTGGTGATCAT 59.824 50.000 24.59 0.00 42.32 2.45
3928 4111 1.548719 CCTGTATCGACACCACCTTCA 59.451 52.381 0.00 0.00 0.00 3.02
3934 4117 1.399714 CCTAGCCTGTATCGACACCA 58.600 55.000 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.