Multiple sequence alignment - TraesCS1D01G300700

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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 TraesCS1D01G300700 chr1D 100.000 3034 0 0 1 3034 398854105 398851072 0.000000e+00 5603
1 TraesCS1D01G300700 chr1D 78.049 1025 149 45 999 1996 398551286 398550311 7.290000e-161 577
2 TraesCS1D01G300700 chr1D 78.218 707 118 26 1351 2035 398467549 398466857 1.300000e-113 420
3 TraesCS1D01G300700 chr1B 93.987 1663 70 8 554 2199 534152127 534150478 0.000000e+00 2490
4 TraesCS1D01G300700 chr1B 94.887 841 30 7 2201 3034 534149686 534148852 0.000000e+00 1303
5 TraesCS1D01G300700 chr1A 91.645 1556 71 23 533 2040 495580456 495578912 0.000000e+00 2098
6 TraesCS1D01G300700 chr1A 93.825 583 27 5 2122 2697 495578756 495578176 0.000000e+00 869
7 TraesCS1D01G300700 chr1A 78.158 673 107 27 1351 1996 495456171 495455512 2.840000e-105 392
8 TraesCS1D01G300700 chr1A 87.429 350 27 9 2696 3034 495578130 495577787 1.320000e-103 387
9 TraesCS1D01G300700 chr1A 81.017 295 42 13 999 1286 495456496 495456209 3.940000e-54 222
10 TraesCS1D01G300700 chr1A 98.276 58 1 0 2061 2118 495578928 495578871 5.350000e-18 102
11 TraesCS1D01G300700 chr3A 79.798 495 87 10 17 499 158163339 158163832 6.230000e-92 348
12 TraesCS1D01G300700 chr3A 77.944 535 93 17 7 518 78184271 78183739 8.170000e-81 311
13 TraesCS1D01G300700 chr6A 78.639 529 92 14 7 517 608085292 608085817 6.270000e-87 331
14 TraesCS1D01G300700 chr3D 78.980 490 88 10 17 492 156890597 156891085 1.360000e-83 320
15 TraesCS1D01G300700 chr3D 78.088 502 90 18 7 492 98940565 98941062 1.770000e-77 300
16 TraesCS1D01G300700 chr6D 79.909 438 80 7 62 492 391921121 391921557 6.310000e-82 315
17 TraesCS1D01G300700 chr5B 78.614 505 87 15 7 492 163258178 163258680 6.310000e-82 315
18 TraesCS1D01G300700 chr5D 79.358 436 80 8 7 433 332073319 332072885 6.360000e-77 298
19 TraesCS1D01G300700 chr4D 77.207 487 93 15 17 488 95500569 95500086 4.990000e-68 268


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 TraesCS1D01G300700 chr1D 398851072 398854105 3033 True 5603.0 5603 100.00000 1 3034 1 chr1D.!!$R3 3033
1 TraesCS1D01G300700 chr1D 398550311 398551286 975 True 577.0 577 78.04900 999 1996 1 chr1D.!!$R2 997
2 TraesCS1D01G300700 chr1D 398466857 398467549 692 True 420.0 420 78.21800 1351 2035 1 chr1D.!!$R1 684
3 TraesCS1D01G300700 chr1B 534148852 534152127 3275 True 1896.5 2490 94.43700 554 3034 2 chr1B.!!$R1 2480
4 TraesCS1D01G300700 chr1A 495577787 495580456 2669 True 864.0 2098 92.79375 533 3034 4 chr1A.!!$R2 2501
5 TraesCS1D01G300700 chr1A 495455512 495456496 984 True 307.0 392 79.58750 999 1996 2 chr1A.!!$R1 997
6 TraesCS1D01G300700 chr3A 78183739 78184271 532 True 311.0 311 77.94400 7 518 1 chr3A.!!$R1 511
7 TraesCS1D01G300700 chr6A 608085292 608085817 525 False 331.0 331 78.63900 7 517 1 chr6A.!!$F1 510
8 TraesCS1D01G300700 chr5B 163258178 163258680 502 False 315.0 315 78.61400 7 492 1 chr5B.!!$F1 485

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
384 399 0.689623 GAAGATGGAGGGGCGATGAT 59.31 55.0 0.0 0.0 0.0 2.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2053 2188 0.03759 AGCTATTGGAACACCCGCAA 59.962 50.0 0.0 0.0 39.29 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
44 45 5.952526 AGTTTTGTTAGGGTTTATGTCCG 57.047 39.130 0.00 0.00 0.00 4.79
50 51 0.988832 AGGGTTTATGTCCGGCTCAA 59.011 50.000 0.00 0.00 0.00 3.02
52 53 2.164338 GGGTTTATGTCCGGCTCAAAA 58.836 47.619 0.00 0.50 0.00 2.44
53 54 2.163613 GGGTTTATGTCCGGCTCAAAAG 59.836 50.000 0.00 0.00 0.00 2.27
55 56 1.459450 TTATGTCCGGCTCAAAAGGC 58.541 50.000 0.00 0.00 44.42 4.35
71 78 2.775856 GGCATCGACGGCTCTCTGA 61.776 63.158 10.35 0.00 0.00 3.27
82 89 5.537188 GACGGCTCTCTGAAGATGAAATAT 58.463 41.667 0.00 0.00 0.00 1.28
128 137 1.519234 TGGCGCTTCTAGCATCGTG 60.519 57.895 7.64 0.00 42.58 4.35
131 140 1.141881 CGCTTCTAGCATCGTGGGT 59.858 57.895 0.00 0.00 42.58 4.51
140 149 2.363276 ATCGTGGGTGGGCGTCTA 60.363 61.111 0.00 0.00 0.00 2.59
152 161 1.275573 GGGCGTCTAGAGGTTTGTCTT 59.724 52.381 13.65 0.00 0.00 3.01
153 162 2.289506 GGGCGTCTAGAGGTTTGTCTTT 60.290 50.000 13.65 0.00 0.00 2.52
155 164 2.157863 GCGTCTAGAGGTTTGTCTTTGC 59.842 50.000 13.65 0.00 0.00 3.68
157 166 3.740115 GTCTAGAGGTTTGTCTTTGCCA 58.260 45.455 0.00 0.00 0.00 4.92
161 170 5.833131 TCTAGAGGTTTGTCTTTGCCAAATT 59.167 36.000 0.00 0.00 34.59 1.82
174 183 1.201414 GCCAAATTTCGTGGGATTCGT 59.799 47.619 0.00 0.00 36.58 3.85
176 185 3.859252 GCCAAATTTCGTGGGATTCGTTT 60.859 43.478 0.00 0.00 36.58 3.60
221 230 2.412112 GATCCGGTCCTCGTTCGG 59.588 66.667 0.00 0.00 44.59 4.30
224 233 1.538687 ATCCGGTCCTCGTTCGGTTT 61.539 55.000 0.00 0.00 43.75 3.27
226 235 0.881600 CCGGTCCTCGTTCGGTTTTT 60.882 55.000 0.00 0.00 39.04 1.94
250 260 6.726490 TTGTGTGTCTATAGGTTAGATCCC 57.274 41.667 0.00 0.00 0.00 3.85
309 319 2.173758 TTGGCGCGTTGGTCCTATGA 62.174 55.000 8.43 0.00 0.00 2.15
310 320 1.448893 GGCGCGTTGGTCCTATGAA 60.449 57.895 8.43 0.00 0.00 2.57
311 321 1.022451 GGCGCGTTGGTCCTATGAAA 61.022 55.000 8.43 0.00 0.00 2.69
312 322 0.800012 GCGCGTTGGTCCTATGAAAA 59.200 50.000 8.43 0.00 0.00 2.29
326 336 4.804139 CCTATGAAAACTTAGCACGACGAT 59.196 41.667 0.00 0.00 0.00 3.73
344 354 4.205587 ACGATTTCCCGACTGTCTACTAT 58.794 43.478 6.21 0.00 0.00 2.12
358 369 8.191534 ACTGTCTACTATAACAAGGTTTGTCT 57.808 34.615 0.00 0.00 44.59 3.41
370 381 1.339151 GGTTTGTCTGGCTCCGAAGAT 60.339 52.381 0.00 0.00 0.00 2.40
384 399 0.689623 GAAGATGGAGGGGCGATGAT 59.310 55.000 0.00 0.00 0.00 2.45
405 420 1.725066 CGGTGCACTTTTGGTTCGT 59.275 52.632 17.98 0.00 0.00 3.85
407 422 1.331138 CGGTGCACTTTTGGTTCGTTA 59.669 47.619 17.98 0.00 0.00 3.18
408 423 2.031508 CGGTGCACTTTTGGTTCGTTAT 60.032 45.455 17.98 0.00 0.00 1.89
429 444 1.538512 AGTGCTTGTAGTCGTCGCTAA 59.461 47.619 0.00 0.00 0.00 3.09
434 449 2.888513 TGTAGTCGTCGCTAAGTGAC 57.111 50.000 0.00 0.00 39.38 3.67
437 452 1.245732 AGTCGTCGCTAAGTGACCTT 58.754 50.000 0.00 0.00 39.58 3.50
446 461 2.094182 GCTAAGTGACCTTCGGACATGA 60.094 50.000 0.00 0.00 29.50 3.07
448 463 3.485463 AAGTGACCTTCGGACATGAAA 57.515 42.857 0.00 0.00 29.50 2.69
452 473 4.827284 AGTGACCTTCGGACATGAAATTTT 59.173 37.500 0.00 0.00 29.50 1.82
494 517 5.648092 ACTACCTTAACAGTTGATGAATGGC 59.352 40.000 0.00 0.00 0.00 4.40
499 522 6.127535 CCTTAACAGTTGATGAATGGCTTGAT 60.128 38.462 0.00 0.00 0.00 2.57
500 523 5.733620 AACAGTTGATGAATGGCTTGATT 57.266 34.783 0.00 0.00 0.00 2.57
705 734 3.828786 GGCACGTGGGTAAAGTTAATTG 58.171 45.455 18.88 0.00 0.00 2.32
706 735 3.502979 GGCACGTGGGTAAAGTTAATTGA 59.497 43.478 18.88 0.00 0.00 2.57
717 746 7.330946 GGGTAAAGTTAATTGATTTGGTTGAGC 59.669 37.037 0.00 0.00 0.00 4.26
752 781 1.888436 GATCGAGCTCACCACCACCA 61.888 60.000 15.40 0.00 0.00 4.17
790 819 1.153524 TGCCATGTGCTCCTTGGTT 59.846 52.632 7.54 0.00 39.89 3.67
807 836 3.315142 TTGCCGCTGCTTCCTCGAT 62.315 57.895 0.70 0.00 38.71 3.59
852 904 1.411246 TCAGCCGCGTGTATAAATCCT 59.589 47.619 4.92 0.00 0.00 3.24
898 956 3.114825 AACACCACCACCACCTCCG 62.115 63.158 0.00 0.00 0.00 4.63
919 978 1.608283 CCTCCTCGGACGAAAAGCTTT 60.608 52.381 5.69 5.69 33.16 3.51
930 989 5.407407 ACGAAAAGCTTTAGATCCAGAGA 57.593 39.130 13.10 0.00 0.00 3.10
1318 1400 2.327343 GCACTTGCACATGAGCGGA 61.327 57.895 10.61 1.07 41.59 5.54
1374 1463 4.398988 TCAGGCGAGCATTGATTTAACAAT 59.601 37.500 0.00 0.00 40.50 2.71
1512 1602 1.588667 CACAACAACAAGCACCCGC 60.589 57.895 0.00 0.00 38.99 6.13
1676 1772 4.135153 CTGGAGGCCGAGGACGTG 62.135 72.222 0.00 0.00 37.88 4.49
1703 1799 1.531149 CAGCCGTTCGTCATCAACTTT 59.469 47.619 0.00 0.00 0.00 2.66
2045 2180 7.202016 TCTGTTCCAATAGCTTAGTGTTTTG 57.798 36.000 0.00 0.00 0.00 2.44
2051 2186 7.787028 TCCAATAGCTTAGTGTTTTGGTTTTT 58.213 30.769 0.00 0.00 36.02 1.94
2153 2400 7.962441 TCTATCTATATTTGTTGTAGCAGCCA 58.038 34.615 0.00 0.00 0.00 4.75
2362 3404 3.378427 GCCCTGAGACATACAATTTGGAC 59.622 47.826 0.78 0.00 0.00 4.02
2414 3458 0.240945 GTTGGCTACATGGTGTGTGC 59.759 55.000 0.00 0.00 42.24 4.57
2605 3649 5.106197 TGCGAGATGTTATCAAATGTTTGCT 60.106 36.000 0.66 0.00 38.05 3.91
2689 3733 4.273724 GCAAGATCGAGTTTAAGAATCCCC 59.726 45.833 0.00 0.00 0.00 4.81
2750 3839 5.699097 AGCTAGAGAATACCGATCAAGTC 57.301 43.478 0.00 0.00 0.00 3.01
2797 3886 1.044790 AGGCATGCAAATGGGTAGCC 61.045 55.000 21.36 3.29 40.85 3.93
2831 3920 2.067365 TTGCATCCTAGCTACCTCGA 57.933 50.000 0.00 0.00 34.99 4.04
3003 4111 2.053627 CTACCGTTGGTTGACGTACAC 58.946 52.381 0.00 0.00 41.26 2.90
3018 4126 2.940410 CGTACACTTGGTTGTTGGAACT 59.060 45.455 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 6.128200 CCGGACATAAACCCTAACAAAACTAC 60.128 42.308 0.00 0.00 0.00 2.73
38 39 0.323725 ATGCCTTTTGAGCCGGACAT 60.324 50.000 5.05 0.00 0.00 3.06
44 45 1.425428 CGTCGATGCCTTTTGAGCC 59.575 57.895 0.00 0.00 0.00 4.70
50 51 1.153549 GAGAGCCGTCGATGCCTTT 60.154 57.895 0.00 0.00 0.00 3.11
52 53 2.441164 AGAGAGCCGTCGATGCCT 60.441 61.111 0.00 0.00 0.00 4.75
53 54 2.279120 CAGAGAGCCGTCGATGCC 60.279 66.667 0.00 0.00 0.00 4.40
55 56 0.735471 TCTTCAGAGAGCCGTCGATG 59.265 55.000 0.00 0.00 0.00 3.84
56 57 1.336440 CATCTTCAGAGAGCCGTCGAT 59.664 52.381 0.00 0.00 34.85 3.59
57 58 0.735471 CATCTTCAGAGAGCCGTCGA 59.265 55.000 0.00 0.00 34.85 4.20
60 67 3.902881 ATTTCATCTTCAGAGAGCCGT 57.097 42.857 0.00 0.00 34.85 5.68
71 78 4.718961 CGGGGAGAACCATATTTCATCTT 58.281 43.478 0.00 0.00 42.91 2.40
82 89 3.081409 GCTAGGCGGGGAGAACCA 61.081 66.667 0.00 0.00 42.91 3.67
103 110 3.718210 CTAGAAGCGCCACCGGGAC 62.718 68.421 6.32 0.00 35.59 4.46
113 122 1.141881 ACCCACGATGCTAGAAGCG 59.858 57.895 6.88 6.88 46.26 4.68
115 124 0.179073 CCCACCCACGATGCTAGAAG 60.179 60.000 0.00 0.00 0.00 2.85
128 137 1.551019 AAACCTCTAGACGCCCACCC 61.551 60.000 0.00 0.00 0.00 4.61
131 140 0.606604 GACAAACCTCTAGACGCCCA 59.393 55.000 0.00 0.00 0.00 5.36
138 147 5.712152 ATTTGGCAAAGACAAACCTCTAG 57.288 39.130 18.61 0.00 43.71 2.43
140 149 5.357742 AAATTTGGCAAAGACAAACCTCT 57.642 34.783 18.61 0.00 43.71 3.69
152 161 2.352225 CGAATCCCACGAAATTTGGCAA 60.352 45.455 0.00 0.00 32.13 4.52
153 162 1.201181 CGAATCCCACGAAATTTGGCA 59.799 47.619 0.00 0.00 32.13 4.92
155 164 3.569250 AACGAATCCCACGAAATTTGG 57.431 42.857 0.00 0.00 34.70 3.28
157 166 3.859252 GCCAAACGAATCCCACGAAATTT 60.859 43.478 0.00 0.00 34.70 1.82
161 170 2.249692 GCCAAACGAATCCCACGAA 58.750 52.632 0.00 0.00 34.70 3.85
174 183 0.378962 CACCGAAGACAAACGCCAAA 59.621 50.000 0.00 0.00 0.00 3.28
176 185 1.890041 CCACCGAAGACAAACGCCA 60.890 57.895 0.00 0.00 0.00 5.69
224 233 8.044908 GGGATCTAACCTATAGACACACAAAAA 58.955 37.037 0.00 0.00 0.00 1.94
226 235 6.901300 AGGGATCTAACCTATAGACACACAAA 59.099 38.462 0.00 0.00 36.32 2.83
250 260 0.102120 AAGAGAAGCGCAGATCGGAG 59.898 55.000 11.47 0.00 38.94 4.63
259 269 2.864931 CGCCGATGAAGAGAAGCGC 61.865 63.158 0.00 0.00 36.89 5.92
285 295 1.942223 GACCAACGCGCCAAAACAC 60.942 57.895 5.73 0.00 0.00 3.32
290 300 1.743623 CATAGGACCAACGCGCCAA 60.744 57.895 5.73 0.00 0.00 4.52
309 319 3.187842 GGGAAATCGTCGTGCTAAGTTTT 59.812 43.478 0.00 0.00 0.00 2.43
310 320 2.740447 GGGAAATCGTCGTGCTAAGTTT 59.260 45.455 0.00 0.00 0.00 2.66
311 321 2.344025 GGGAAATCGTCGTGCTAAGTT 58.656 47.619 0.00 0.00 0.00 2.66
312 322 1.734707 CGGGAAATCGTCGTGCTAAGT 60.735 52.381 0.00 0.00 0.00 2.24
326 336 6.127535 CCTTGTTATAGTAGACAGTCGGGAAA 60.128 42.308 0.00 0.00 0.00 3.13
344 354 2.808933 CGGAGCCAGACAAACCTTGTTA 60.809 50.000 0.00 0.00 45.52 2.41
370 381 3.877450 GCCATCATCGCCCCTCCA 61.877 66.667 0.00 0.00 0.00 3.86
384 399 2.010582 GAACCAAAAGTGCACCGCCA 62.011 55.000 14.63 0.00 0.00 5.69
390 405 5.351233 CACTATAACGAACCAAAAGTGCA 57.649 39.130 0.00 0.00 0.00 4.57
393 408 5.529800 ACAAGCACTATAACGAACCAAAAGT 59.470 36.000 0.00 0.00 0.00 2.66
405 420 3.376234 AGCGACGACTACAAGCACTATAA 59.624 43.478 0.00 0.00 0.00 0.98
407 422 1.743958 AGCGACGACTACAAGCACTAT 59.256 47.619 0.00 0.00 0.00 2.12
408 423 1.162698 AGCGACGACTACAAGCACTA 58.837 50.000 0.00 0.00 0.00 2.74
519 542 3.700539 TGGCATTTAGGTAGTGCGTACTA 59.299 43.478 9.49 9.49 39.69 1.82
520 543 2.498481 TGGCATTTAGGTAGTGCGTACT 59.502 45.455 11.87 11.87 39.69 2.73
521 544 2.896168 TGGCATTTAGGTAGTGCGTAC 58.104 47.619 0.00 0.00 39.69 3.67
522 545 3.830744 ATGGCATTTAGGTAGTGCGTA 57.169 42.857 0.00 0.00 39.69 4.42
523 546 2.682856 CAATGGCATTTAGGTAGTGCGT 59.317 45.455 10.65 0.00 39.69 5.24
524 547 2.541588 GCAATGGCATTTAGGTAGTGCG 60.542 50.000 10.65 0.00 39.69 5.34
525 548 3.084070 GCAATGGCATTTAGGTAGTGC 57.916 47.619 10.65 5.33 40.72 4.40
574 599 3.819877 AACCGAGGCGTTCACACCC 62.820 63.158 0.00 0.00 0.00 4.61
658 687 3.659089 ATACGCGCGGTTGCTTCCT 62.659 57.895 35.22 12.16 39.65 3.36
698 727 4.558860 GCTCGCTCAACCAAATCAATTAAC 59.441 41.667 0.00 0.00 0.00 2.01
700 729 3.128589 GGCTCGCTCAACCAAATCAATTA 59.871 43.478 0.00 0.00 0.00 1.40
702 731 1.474077 GGCTCGCTCAACCAAATCAAT 59.526 47.619 0.00 0.00 0.00 2.57
704 733 0.036732 AGGCTCGCTCAACCAAATCA 59.963 50.000 0.00 0.00 0.00 2.57
705 734 0.729690 GAGGCTCGCTCAACCAAATC 59.270 55.000 0.00 0.00 0.00 2.17
706 735 0.036732 TGAGGCTCGCTCAACCAAAT 59.963 50.000 10.42 0.00 0.00 2.32
790 819 3.723235 GATCGAGGAAGCAGCGGCA 62.723 63.158 12.44 0.00 44.61 5.69
807 836 0.881118 GAATTTTGGACAGCGCCAGA 59.119 50.000 2.29 0.00 39.52 3.86
852 904 2.824880 CCCCGTGGAAAGGTGGTGA 61.825 63.158 0.00 0.00 31.48 4.02
875 927 2.124693 GTGGTGGTGGTGTTGGTGG 61.125 63.158 0.00 0.00 0.00 4.61
876 928 2.124693 GGTGGTGGTGGTGTTGGTG 61.125 63.158 0.00 0.00 0.00 4.17
877 929 2.277404 GGTGGTGGTGGTGTTGGT 59.723 61.111 0.00 0.00 0.00 3.67
878 930 1.528309 GAGGTGGTGGTGGTGTTGG 60.528 63.158 0.00 0.00 0.00 3.77
879 931 1.528309 GGAGGTGGTGGTGGTGTTG 60.528 63.158 0.00 0.00 0.00 3.33
880 932 2.923837 GGAGGTGGTGGTGGTGTT 59.076 61.111 0.00 0.00 0.00 3.32
881 933 3.556306 CGGAGGTGGTGGTGGTGT 61.556 66.667 0.00 0.00 0.00 4.16
898 956 2.101233 GCTTTTCGTCCGAGGAGGC 61.101 63.158 6.94 0.00 40.77 4.70
919 978 1.759445 GTGGCAGCTTCTCTGGATCTA 59.241 52.381 0.00 0.00 43.06 1.98
1374 1463 4.758165 CCTGAAGAAAAAGGTAAAGCCGTA 59.242 41.667 0.00 0.00 43.70 4.02
1415 1505 3.418744 GACTCTCGCCGCCTTCTCC 62.419 68.421 0.00 0.00 0.00 3.71
1512 1602 0.737715 GTGCACCTGAAGTAGAGCCG 60.738 60.000 5.22 0.00 0.00 5.52
1676 1772 1.014044 TGACGAACGGCTGCATCTTC 61.014 55.000 0.50 0.76 0.00 2.87
1811 1925 0.459585 CTTCGAATTCCTCCGGCGAA 60.460 55.000 9.30 9.83 38.47 4.70
1940 2069 3.710722 AAGCAGCCGGACAGAGGG 61.711 66.667 5.05 0.00 0.00 4.30
2001 2136 2.094675 AGGAATGGCGTCAAAATCCAG 58.905 47.619 18.39 0.00 32.78 3.86
2051 2186 1.271102 GCTATTGGAACACCCGCAAAA 59.729 47.619 0.00 0.00 39.29 2.44
2052 2187 0.885196 GCTATTGGAACACCCGCAAA 59.115 50.000 0.00 0.00 39.29 3.68
2053 2188 0.037590 AGCTATTGGAACACCCGCAA 59.962 50.000 0.00 0.00 39.29 4.85
2054 2189 0.037590 AAGCTATTGGAACACCCGCA 59.962 50.000 0.00 0.00 39.29 5.69
2055 2190 1.940613 CTAAGCTATTGGAACACCCGC 59.059 52.381 0.00 0.00 39.29 6.13
2143 2389 1.347378 TGTTCATCACTGGCTGCTACA 59.653 47.619 0.00 0.00 0.00 2.74
2150 2396 3.076621 TCTCATGTTGTTCATCACTGGC 58.923 45.455 0.00 0.00 34.09 4.85
2153 2400 5.219343 TCACTCTCATGTTGTTCATCACT 57.781 39.130 0.00 0.00 34.09 3.41
2181 2428 3.598019 ACCACATCAAATGATTGTGCC 57.402 42.857 14.88 0.00 37.79 5.01
2199 2446 4.095036 GCAACCAGCTCAGATTAAACTACC 59.905 45.833 0.00 0.00 41.15 3.18
2377 3421 4.036027 GCCAACACAGATCCAGATTGTATG 59.964 45.833 0.00 0.00 0.00 2.39
2414 3458 2.417257 CCGATGTTGTGGGCATGGG 61.417 63.158 0.00 0.00 36.24 4.00
2498 3542 1.677637 CCTCCTCCCACCTAACGCTC 61.678 65.000 0.00 0.00 0.00 5.03
2572 3616 8.864069 TTTGATAACATCTCGCAAAAAGAAAA 57.136 26.923 0.00 0.00 0.00 2.29
2605 3649 1.413118 TCGCATCCTTGGCTCTATGA 58.587 50.000 0.00 0.00 0.00 2.15
2724 3813 8.184304 ACTTGATCGGTATTCTCTAGCTTATT 57.816 34.615 0.00 0.00 0.00 1.40
2725 3814 7.768807 ACTTGATCGGTATTCTCTAGCTTAT 57.231 36.000 0.00 0.00 0.00 1.73
2750 3839 6.098679 ACGAGGAGTACTGCTACTATATACG 58.901 44.000 17.74 15.30 38.86 3.06
2756 3845 3.947868 ACAACGAGGAGTACTGCTACTA 58.052 45.455 17.74 0.00 38.86 1.82
2797 3886 7.594015 GCTAGGATGCAAATTGATGAATGTTAG 59.406 37.037 0.00 0.00 0.00 2.34
2831 3920 8.453238 ACTAACATACTACTCAACTCGATCAT 57.547 34.615 0.00 0.00 0.00 2.45
3003 4111 8.110860 AGTGAATAATAGTTCCAACAACCAAG 57.889 34.615 0.00 0.00 0.00 3.61


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

AutoCloner maintained by Alex Coulton.