Multiple sequence alignment - TraesCS6D01G243800

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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 TraesCS6D01G243800 chr6D 100.000 3926 0 0 1 3926 346097749 346101674 0.000000e+00 7251
1 TraesCS6D01G243800 chr6B 92.607 3963 167 47 1 3924 536002472 536006347 0.000000e+00 5579
2 TraesCS6D01G243800 chr6A 93.677 2151 61 30 831 2926 498006742 498008872 0.000000e+00 3149
3 TraesCS6D01G243800 chr6A 91.889 826 37 12 2955 3761 498008873 498009687 0.000000e+00 1127
4 TraesCS6D01G243800 chr6A 91.176 408 25 5 153 553 498006048 498006451 9.590000e-151 544
5 TraesCS6D01G243800 chr6A 92.797 236 7 7 588 815 498006456 498006689 2.260000e-87 333
6 TraesCS6D01G243800 chr6A 85.946 185 11 5 3752 3924 498011469 498011650 2.410000e-42 183
7 TraesCS6D01G243800 chr6A 86.667 165 13 5 1 156 498005588 498005752 1.450000e-39 174


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 TraesCS6D01G243800 chr6D 346097749 346101674 3925 False 7251.000000 7251 100.000000 1 3926 1 chr6D.!!$F1 3925
1 TraesCS6D01G243800 chr6B 536002472 536006347 3875 False 5579.000000 5579 92.607000 1 3924 1 chr6B.!!$F1 3923
2 TraesCS6D01G243800 chr6A 498005588 498011650 6062 False 918.333333 3149 90.358667 1 3924 6 chr6A.!!$F1 3923

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
565 887 0.030705 ATAGGAGAGGGGAGCAGCAA 60.031 55.0 0.00 0.0 0.00 3.91 F
939 1319 0.108585 CTCCTCTCCTCTCCTCCTCG 59.891 65.0 0.00 0.0 0.00 4.63 F
2446 2870 0.109597 GCTCCTAACCGAACGAACGA 60.110 55.0 0.14 0.0 35.09 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1582 1977 0.803740 CAGAGGAAAGCAGAGCAAGC 59.196 55.000 0.0 0.0 0.00 4.01 R
2907 3341 1.069636 GCTCAGGCTTTGTTCTTGTCG 60.070 52.381 0.0 0.0 35.22 4.35 R
3797 6050 1.227823 CAACCTCGACCACAAGCCA 60.228 57.895 0.0 0.0 0.00 4.75 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
82 85 0.746659 AGCGGGCCATTATTTTGCTC 59.253 50.000 4.39 0.00 0.00 4.26
101 104 3.803368 GCTCAACACCAATTCCAAAAGGG 60.803 47.826 0.00 0.00 38.37 3.95
116 119 5.538433 TCCAAAAGGGAGATCGAAAAACAAT 59.462 36.000 0.00 0.00 42.15 2.71
119 122 7.542130 CCAAAAGGGAGATCGAAAAACAATAAG 59.458 37.037 0.00 0.00 40.01 1.73
120 123 6.759497 AAGGGAGATCGAAAAACAATAAGG 57.241 37.500 0.00 0.00 0.00 2.69
121 124 5.816682 AGGGAGATCGAAAAACAATAAGGT 58.183 37.500 0.00 0.00 0.00 3.50
122 125 5.880887 AGGGAGATCGAAAAACAATAAGGTC 59.119 40.000 0.00 0.00 0.00 3.85
123 126 5.220605 GGGAGATCGAAAAACAATAAGGTCG 60.221 44.000 0.00 0.00 0.00 4.79
170 479 1.192146 ACTAAAGACGGGGAGCTGCA 61.192 55.000 7.79 0.00 0.00 4.41
284 594 1.468520 GCATTTCTACGCAAAGGCTGA 59.531 47.619 4.91 0.00 39.43 4.26
329 639 6.367969 GTGTTTACCACAAGAATCACGTAGAT 59.632 38.462 0.00 0.00 43.92 1.98
353 663 4.207891 TGACTCACATTAGAAAGGAGGC 57.792 45.455 0.00 0.00 34.18 4.70
354 664 3.055094 TGACTCACATTAGAAAGGAGGCC 60.055 47.826 0.00 0.00 32.57 5.19
370 681 1.382629 GCCTAAAGGAAGTGGCCCA 59.617 57.895 0.00 0.00 39.49 5.36
413 726 1.000283 AGAAATATCTCGAGGCCAGCG 60.000 52.381 13.56 8.88 0.00 5.18
542 859 2.844451 GCGGCCAAAACACAGCAGA 61.844 57.895 2.24 0.00 0.00 4.26
565 887 0.030705 ATAGGAGAGGGGAGCAGCAA 60.031 55.000 0.00 0.00 0.00 3.91
573 895 1.299321 GGGAGCAGCAAAGAGAGCT 59.701 57.895 0.00 0.00 44.62 4.09
574 896 0.539051 GGGAGCAGCAAAGAGAGCTA 59.461 55.000 0.00 0.00 41.14 3.32
575 897 1.650825 GGAGCAGCAAAGAGAGCTAC 58.349 55.000 0.00 0.00 41.14 3.58
576 898 1.206849 GGAGCAGCAAAGAGAGCTACT 59.793 52.381 0.00 0.00 41.14 2.57
578 900 3.443976 GAGCAGCAAAGAGAGCTACTAC 58.556 50.000 0.00 0.00 41.14 2.73
579 901 3.096092 AGCAGCAAAGAGAGCTACTACT 58.904 45.455 0.00 0.00 41.14 2.57
580 902 3.119173 AGCAGCAAAGAGAGCTACTACTG 60.119 47.826 0.00 0.43 41.14 2.74
581 903 3.119316 GCAGCAAAGAGAGCTACTACTGA 60.119 47.826 15.51 0.00 41.14 3.41
583 905 4.397730 CAGCAAAGAGAGCTACTACTGAGA 59.602 45.833 0.00 0.00 41.14 3.27
584 906 4.398044 AGCAAAGAGAGCTACTACTGAGAC 59.602 45.833 0.00 0.00 41.32 3.36
586 908 3.188159 AGAGAGCTACTACTGAGACGG 57.812 52.381 0.00 0.00 0.00 4.79
604 926 3.157949 GAGGAGGGAGGGGCGAAG 61.158 72.222 0.00 0.00 0.00 3.79
690 1015 1.144936 CCTTCCTGCTCCGTGGATC 59.855 63.158 0.00 0.00 31.76 3.36
714 1039 9.950496 ATCGGCTAATTGATTGATTAGATTAGT 57.050 29.630 8.41 0.00 40.47 2.24
715 1040 9.424319 TCGGCTAATTGATTGATTAGATTAGTC 57.576 33.333 8.41 0.00 40.47 2.59
885 1252 2.436646 CACGCCCCTCGCATTTCT 60.437 61.111 0.00 0.00 43.23 2.52
899 1266 1.067295 ATTTCTCTCCACACCCAGCA 58.933 50.000 0.00 0.00 0.00 4.41
913 1280 4.579384 AGCAACCACCACCACCCG 62.579 66.667 0.00 0.00 0.00 5.28
926 1306 1.304952 CACCCGTCTCCTCTCCTCT 59.695 63.158 0.00 0.00 0.00 3.69
927 1307 0.750182 CACCCGTCTCCTCTCCTCTC 60.750 65.000 0.00 0.00 0.00 3.20
928 1308 1.152839 CCCGTCTCCTCTCCTCTCC 60.153 68.421 0.00 0.00 0.00 3.71
929 1309 1.641552 CCCGTCTCCTCTCCTCTCCT 61.642 65.000 0.00 0.00 0.00 3.69
930 1310 0.179029 CCGTCTCCTCTCCTCTCCTC 60.179 65.000 0.00 0.00 0.00 3.71
933 1313 1.143073 GTCTCCTCTCCTCTCCTCTCC 59.857 61.905 0.00 0.00 0.00 3.71
939 1319 0.108585 CTCCTCTCCTCTCCTCCTCG 59.891 65.000 0.00 0.00 0.00 4.63
942 1322 0.837272 CTCTCCTCTCCTCCTCGTCT 59.163 60.000 0.00 0.00 0.00 4.18
943 1323 1.211949 CTCTCCTCTCCTCCTCGTCTT 59.788 57.143 0.00 0.00 0.00 3.01
944 1324 1.210967 TCTCCTCTCCTCCTCGTCTTC 59.789 57.143 0.00 0.00 0.00 2.87
954 1334 1.139947 CTCGTCTTCCTCCTTCGGC 59.860 63.158 0.00 0.00 0.00 5.54
958 1341 1.686110 TCTTCCTCCTTCGGCCTCC 60.686 63.158 0.00 0.00 0.00 4.30
1290 1682 2.436646 GTCATGGTGTCCAGCCCG 60.437 66.667 0.00 0.00 36.75 6.13
1407 1799 1.694169 CCAGCAGGGGGACTACCAT 60.694 63.158 0.00 0.00 42.91 3.55
1431 1823 3.125573 CTCCGCCGTCTCGTCTCA 61.126 66.667 0.00 0.00 0.00 3.27
1443 1835 2.569134 GTCTCACGCGCCTTCTCT 59.431 61.111 5.73 0.00 0.00 3.10
1582 1977 2.501723 TCTTCTTCCTCTTCCATTCCCG 59.498 50.000 0.00 0.00 0.00 5.14
1700 2099 0.379669 CATTGCTGTCCATCTTCGGC 59.620 55.000 0.00 0.00 36.59 5.54
2099 2507 1.405121 GGTACCCGATCGAAAAGCAGT 60.405 52.381 18.66 4.68 0.00 4.40
2101 2509 0.673644 ACCCGATCGAAAAGCAGTGG 60.674 55.000 18.66 8.22 0.00 4.00
2140 2548 2.744202 CAATTAACAGGAAGAGCACGCT 59.256 45.455 0.00 0.00 0.00 5.07
2336 2752 1.944024 TCAATCGCTTTGGTCGTTTGT 59.056 42.857 0.00 0.00 37.67 2.83
2384 2800 1.454201 CTCTCGGAGTACAGCAGTGA 58.546 55.000 4.69 0.00 0.00 3.41
2442 2866 2.180017 GCGCTCCTAACCGAACGA 59.820 61.111 0.00 0.00 0.00 3.85
2443 2867 1.444895 GCGCTCCTAACCGAACGAA 60.445 57.895 0.00 0.00 0.00 3.85
2444 2868 1.681025 GCGCTCCTAACCGAACGAAC 61.681 60.000 0.00 0.00 0.00 3.95
2445 2869 1.400990 CGCTCCTAACCGAACGAACG 61.401 60.000 0.00 0.00 0.00 3.95
2446 2870 0.109597 GCTCCTAACCGAACGAACGA 60.110 55.000 0.14 0.00 35.09 3.85
2582 3006 2.125225 GACCACTTCCCCTCCCCT 59.875 66.667 0.00 0.00 0.00 4.79
2688 3122 9.169468 CATTATCTGATTATACGTTTTGGTTGC 57.831 33.333 0.00 0.00 0.00 4.17
2940 3374 0.037877 CCTGAGCCATCCATCCATCC 59.962 60.000 0.00 0.00 0.00 3.51
2941 3375 0.769247 CTGAGCCATCCATCCATCCA 59.231 55.000 0.00 0.00 0.00 3.41
2942 3376 1.354705 CTGAGCCATCCATCCATCCAT 59.645 52.381 0.00 0.00 0.00 3.41
2943 3377 1.353358 TGAGCCATCCATCCATCCATC 59.647 52.381 0.00 0.00 0.00 3.51
2944 3378 0.702902 AGCCATCCATCCATCCATCC 59.297 55.000 0.00 0.00 0.00 3.51
2945 3379 0.406750 GCCATCCATCCATCCATCCA 59.593 55.000 0.00 0.00 0.00 3.41
2946 3380 1.006758 GCCATCCATCCATCCATCCAT 59.993 52.381 0.00 0.00 0.00 3.41
2947 3381 2.949054 GCCATCCATCCATCCATCCATC 60.949 54.545 0.00 0.00 0.00 3.51
2948 3382 2.357881 CCATCCATCCATCCATCCATCC 60.358 54.545 0.00 0.00 0.00 3.51
2949 3383 2.136974 TCCATCCATCCATCCATCCA 57.863 50.000 0.00 0.00 0.00 3.41
2950 3384 2.651190 TCCATCCATCCATCCATCCAT 58.349 47.619 0.00 0.00 0.00 3.41
2951 3385 2.579400 TCCATCCATCCATCCATCCATC 59.421 50.000 0.00 0.00 0.00 3.51
2952 3386 2.640184 CATCCATCCATCCATCCATCG 58.360 52.381 0.00 0.00 0.00 3.84
2974 3408 1.198759 TCCTCCTCGTTCCCAAAGGG 61.199 60.000 0.00 0.00 46.11 3.95
2986 3420 2.352503 CCAAAGGGAAATCAACAGCG 57.647 50.000 0.00 0.00 35.59 5.18
3183 3618 4.101448 GCCAGGACCATGACGGCT 62.101 66.667 0.00 0.00 39.73 5.52
3229 3665 3.442273 TCCCACTCTTCAAAAACACACAC 59.558 43.478 0.00 0.00 0.00 3.82
3450 3890 1.443802 GGCAGCTAGGCCGAATAATC 58.556 55.000 0.00 0.00 45.40 1.75
3464 3904 4.259970 CCGAATAATCAATGGATCGATCGC 60.260 45.833 18.81 12.27 33.68 4.58
3536 3976 3.946402 TGTTTGTTACACGTCAATGCAG 58.054 40.909 0.00 0.00 0.00 4.41
3592 4041 3.179830 CAAGTACGTACCTGTGATCTGC 58.820 50.000 21.80 0.00 0.00 4.26
3603 4052 7.653713 CGTACCTGTGATCTGCTTCTAAATATT 59.346 37.037 0.00 0.00 0.00 1.28
3692 4144 1.595382 CACTCATTCCCGATCGCCC 60.595 63.158 10.32 0.00 0.00 6.13
3743 4195 2.050985 GTCCACGCTGCACAAAGC 60.051 61.111 0.00 0.00 45.96 3.51
3797 6050 1.892338 CGGGGCAAACAATCATGCT 59.108 52.632 0.00 0.00 42.20 3.79
3870 6123 2.700897 GTGATTCTGGAAGGGCTAGCTA 59.299 50.000 15.72 0.00 0.00 3.32
3880 6133 0.397254 GGGCTAGCTACTCACTCCCA 60.397 60.000 15.72 0.00 32.68 4.37
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 85 3.640967 TCTCCCTTTTGGAATTGGTGTTG 59.359 43.478 0.00 0.00 44.57 3.33
101 104 6.404712 ACGACCTTATTGTTTTTCGATCTC 57.595 37.500 0.00 0.00 0.00 2.75
113 116 6.880822 TGACGAGATAAAACGACCTTATTG 57.119 37.500 0.00 0.00 0.00 1.90
116 119 6.623486 TGATTGACGAGATAAAACGACCTTA 58.377 36.000 0.00 0.00 0.00 2.69
119 122 5.773239 TTGATTGACGAGATAAAACGACC 57.227 39.130 0.00 0.00 0.00 4.79
170 479 2.203112 ATGGTCGCGAGCATGCAT 60.203 55.556 42.79 26.38 46.50 3.96
284 594 5.370679 ACACTAAACACTGACCGGTTAAAT 58.629 37.500 9.42 0.00 0.00 1.40
329 639 6.349300 GCCTCCTTTCTAATGTGAGTCATTA 58.651 40.000 0.00 0.00 43.93 1.90
349 659 3.176728 GCCACTTCCTTTAGGCCTC 57.823 57.895 9.68 0.00 41.25 4.70
352 662 0.251608 TTGGGCCACTTCCTTTAGGC 60.252 55.000 5.23 0.00 46.28 3.93
353 663 2.291540 TGATTGGGCCACTTCCTTTAGG 60.292 50.000 5.23 0.00 0.00 2.69
354 664 3.019564 CTGATTGGGCCACTTCCTTTAG 58.980 50.000 5.23 0.00 0.00 1.85
370 681 4.712051 TTGGCCTGCATATCTACTGATT 57.288 40.909 3.32 0.00 34.32 2.57
542 859 2.909662 GCTGCTCCCCTCTCCTATAATT 59.090 50.000 0.00 0.00 0.00 1.40
565 887 3.537580 CCGTCTCAGTAGTAGCTCTCTT 58.462 50.000 0.00 0.00 0.00 2.85
573 895 1.489649 CCTCCTCCCGTCTCAGTAGTA 59.510 57.143 0.00 0.00 0.00 1.82
574 896 0.256464 CCTCCTCCCGTCTCAGTAGT 59.744 60.000 0.00 0.00 0.00 2.73
575 897 0.466555 CCCTCCTCCCGTCTCAGTAG 60.467 65.000 0.00 0.00 0.00 2.57
576 898 0.917821 TCCCTCCTCCCGTCTCAGTA 60.918 60.000 0.00 0.00 0.00 2.74
578 900 1.454847 CTCCCTCCTCCCGTCTCAG 60.455 68.421 0.00 0.00 0.00 3.35
579 901 2.684104 CTCCCTCCTCCCGTCTCA 59.316 66.667 0.00 0.00 0.00 3.27
580 902 2.123640 CCTCCCTCCTCCCGTCTC 60.124 72.222 0.00 0.00 0.00 3.36
581 903 3.756783 CCCTCCCTCCTCCCGTCT 61.757 72.222 0.00 0.00 0.00 4.18
586 908 4.798682 TTCGCCCCTCCCTCCTCC 62.799 72.222 0.00 0.00 0.00 4.30
604 926 3.086600 CAGCTCACCCCTCTCCCC 61.087 72.222 0.00 0.00 0.00 4.81
663 985 1.537397 AGCAGGAAGGAGCAGTCCA 60.537 57.895 0.00 0.00 46.80 4.02
690 1015 8.376203 CGACTAATCTAATCAATCAATTAGCCG 58.624 37.037 0.00 0.00 38.54 5.52
885 1252 2.075566 TGGTTGCTGGGTGTGGAGA 61.076 57.895 0.00 0.00 0.00 3.71
899 1266 2.770904 AGACGGGTGGTGGTGGTT 60.771 61.111 0.00 0.00 0.00 3.67
913 1280 1.143073 GGAGAGGAGAGGAGAGGAGAC 59.857 61.905 0.00 0.00 0.00 3.36
926 1306 0.256464 GGAAGACGAGGAGGAGAGGA 59.744 60.000 0.00 0.00 0.00 3.71
927 1307 0.257616 AGGAAGACGAGGAGGAGAGG 59.742 60.000 0.00 0.00 0.00 3.69
928 1308 1.675552 GAGGAAGACGAGGAGGAGAG 58.324 60.000 0.00 0.00 0.00 3.20
929 1309 0.256464 GGAGGAAGACGAGGAGGAGA 59.744 60.000 0.00 0.00 0.00 3.71
930 1310 0.257616 AGGAGGAAGACGAGGAGGAG 59.742 60.000 0.00 0.00 0.00 3.69
933 1313 0.736053 CGAAGGAGGAAGACGAGGAG 59.264 60.000 0.00 0.00 0.00 3.69
954 1334 1.743996 GTTAGCTGCAAAGGAGGAGG 58.256 55.000 1.02 0.00 0.00 4.30
958 1341 1.464997 GTTCCGTTAGCTGCAAAGGAG 59.535 52.381 14.78 0.00 37.37 3.69
1290 1682 4.699522 ACGAACTTGGCGGCCTCC 62.700 66.667 21.46 4.25 0.00 4.30
1461 1853 2.682136 TCGATGGCAGGGACGGAA 60.682 61.111 0.00 0.00 0.00 4.30
1582 1977 0.803740 CAGAGGAAAGCAGAGCAAGC 59.196 55.000 0.00 0.00 0.00 4.01
1647 2046 3.716006 CTGCGCCACGACACCAAG 61.716 66.667 4.18 0.00 0.00 3.61
1700 2099 1.393603 TGTACTGCATCTCCTCCTCG 58.606 55.000 0.00 0.00 0.00 4.63
2113 2521 4.927425 TGCTCTTCCTGTTAATTGTACGAC 59.073 41.667 0.00 0.00 0.00 4.34
2116 2524 4.435651 GCGTGCTCTTCCTGTTAATTGTAC 60.436 45.833 0.00 0.00 0.00 2.90
2140 2548 1.103987 CCTTCTCCCTCGCGATCTCA 61.104 60.000 10.36 0.00 0.00 3.27
2442 2866 5.176958 CGAGTTTGAGTTGGTCTATTTCGTT 59.823 40.000 0.00 0.00 0.00 3.85
2443 2867 4.684703 CGAGTTTGAGTTGGTCTATTTCGT 59.315 41.667 0.00 0.00 0.00 3.85
2444 2868 4.434330 GCGAGTTTGAGTTGGTCTATTTCG 60.434 45.833 0.00 0.00 0.00 3.46
2445 2869 4.451096 TGCGAGTTTGAGTTGGTCTATTTC 59.549 41.667 0.00 0.00 0.00 2.17
2446 2870 4.385825 TGCGAGTTTGAGTTGGTCTATTT 58.614 39.130 0.00 0.00 0.00 1.40
2582 3006 3.985008 TCGTGAAGGATCGAACTTTTCA 58.015 40.909 7.11 7.79 33.13 2.69
2688 3122 4.729918 GGGGCCACCTGCAGTCAG 62.730 72.222 13.81 0.00 43.89 3.51
2905 3339 2.210116 TCAGGCTTTGTTCTTGTCGTC 58.790 47.619 0.00 0.00 0.00 4.20
2906 3340 2.213499 CTCAGGCTTTGTTCTTGTCGT 58.787 47.619 0.00 0.00 0.00 4.34
2907 3341 1.069636 GCTCAGGCTTTGTTCTTGTCG 60.070 52.381 0.00 0.00 35.22 4.35
2940 3374 0.036577 GAGGAGGCGATGGATGGATG 60.037 60.000 0.00 0.00 0.00 3.51
2941 3375 1.197430 GGAGGAGGCGATGGATGGAT 61.197 60.000 0.00 0.00 0.00 3.41
2942 3376 1.838846 GGAGGAGGCGATGGATGGA 60.839 63.158 0.00 0.00 0.00 3.41
2943 3377 1.825281 GAGGAGGAGGCGATGGATGG 61.825 65.000 0.00 0.00 0.00 3.51
2944 3378 1.670590 GAGGAGGAGGCGATGGATG 59.329 63.158 0.00 0.00 0.00 3.51
2945 3379 1.905843 CGAGGAGGAGGCGATGGAT 60.906 63.158 0.00 0.00 0.00 3.41
2946 3380 2.519541 CGAGGAGGAGGCGATGGA 60.520 66.667 0.00 0.00 0.00 3.41
2947 3381 2.356818 GAACGAGGAGGAGGCGATGG 62.357 65.000 0.00 0.00 0.00 3.51
2948 3382 1.066587 GAACGAGGAGGAGGCGATG 59.933 63.158 0.00 0.00 0.00 3.84
2949 3383 2.128507 GGAACGAGGAGGAGGCGAT 61.129 63.158 0.00 0.00 0.00 4.58
2950 3384 2.754658 GGAACGAGGAGGAGGCGA 60.755 66.667 0.00 0.00 0.00 5.54
2951 3385 3.839432 GGGAACGAGGAGGAGGCG 61.839 72.222 0.00 0.00 0.00 5.52
2952 3386 1.838073 TTTGGGAACGAGGAGGAGGC 61.838 60.000 0.00 0.00 0.00 4.70
2974 3408 2.219674 CCTCTATCGCGCTGTTGATTTC 59.780 50.000 5.56 0.00 0.00 2.17
3183 3618 1.118965 TCTTGGTCTTGTCTCGCCCA 61.119 55.000 0.00 0.00 0.00 5.36
3229 3665 2.544694 CCTAGCTGAGAATGCCTACGTG 60.545 54.545 0.00 0.00 0.00 4.49
3450 3890 1.777819 GCGAGCGATCGATCCATTG 59.222 57.895 29.29 13.89 34.64 2.82
3536 3976 2.611224 CCACAAGAAAGCCATTTCCAGC 60.611 50.000 0.00 0.00 45.01 4.85
3622 4071 5.583495 AGCATCGAGACAGTTGATTACTAC 58.417 41.667 0.00 0.00 34.56 2.73
3623 4072 5.836821 AGCATCGAGACAGTTGATTACTA 57.163 39.130 0.00 0.00 34.56 1.82
3624 4073 4.727507 AGCATCGAGACAGTTGATTACT 57.272 40.909 0.00 0.00 37.68 2.24
3625 4074 5.583495 AGTAGCATCGAGACAGTTGATTAC 58.417 41.667 0.00 0.00 0.00 1.89
3743 4195 5.408604 GGCGATATTTTATGGAGGTGTACTG 59.591 44.000 0.00 0.00 0.00 2.74
3746 4198 5.512404 CCAGGCGATATTTTATGGAGGTGTA 60.512 44.000 0.00 0.00 0.00 2.90
3748 4200 3.753272 CCAGGCGATATTTTATGGAGGTG 59.247 47.826 0.00 0.00 0.00 4.00
3749 4201 3.244911 CCCAGGCGATATTTTATGGAGGT 60.245 47.826 0.00 0.00 0.00 3.85
3750 4202 3.347216 CCCAGGCGATATTTTATGGAGG 58.653 50.000 0.00 0.00 0.00 4.30
3797 6050 1.227823 CAACCTCGACCACAAGCCA 60.228 57.895 0.00 0.00 0.00 4.75
3870 6123 4.998839 TCCACCATGGGAGTGAGT 57.001 55.556 18.09 0.00 38.32 3.41
3880 6133 3.017581 GGGCTCCACCTCCACCAT 61.018 66.667 0.00 0.00 39.10 3.55


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

AutoCloner maintained by Alex Coulton.