Multiple sequence alignment - TraesCS2D01G324400

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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 TraesCS2D01G324400 chr2D 100.000 3676 0 0 1 3676 417209371 417213046 0.000000e+00 6789
1 TraesCS2D01G324400 chr2D 87.755 441 37 7 1 440 417187345 417187769 1.970000e-137 499
2 TraesCS2D01G324400 chr2D 76.516 643 125 22 1317 1945 417183827 417184457 9.840000e-86 327
3 TraesCS2D01G324400 chr2B 95.126 2585 97 19 715 3285 489028958 489031527 0.000000e+00 4048
4 TraesCS2D01G324400 chr2B 88.448 580 26 13 1 575 489028418 489028961 0.000000e+00 662
5 TraesCS2D01G324400 chr2B 96.701 394 13 0 3283 3676 489031650 489032043 0.000000e+00 656
6 TraesCS2D01G324400 chr2B 75.932 644 130 22 1315 1945 489015897 489016528 1.280000e-79 307
7 TraesCS2D01G324400 chr2A 90.789 2432 122 45 578 2948 572708580 572706190 0.000000e+00 3157
8 TraesCS2D01G324400 chr2A 88.818 1574 79 52 2120 3676 572707029 572705536 0.000000e+00 1842
9 TraesCS2D01G324400 chr2A 76.875 640 120 24 1321 1945 572748090 572747464 1.640000e-88 337
10 TraesCS2D01G324400 chr2A 81.020 353 32 17 1 344 572709144 572708818 7.880000e-62 248
11 TraesCS2D01G324400 chr1B 89.499 619 65 0 1318 1936 41526839 41526221 0.000000e+00 784
12 TraesCS2D01G324400 chr1B 88.245 638 64 7 2155 2785 41526059 41525426 0.000000e+00 752
13 TraesCS2D01G324400 chr1B 87.097 155 17 1 1060 1211 41527587 41527433 4.880000e-39 172


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 TraesCS2D01G324400 chr2D 417209371 417213046 3675 False 6789.000000 6789 100.000000 1 3676 1 chr2D.!!$F1 3675
1 TraesCS2D01G324400 chr2D 417183827 417187769 3942 False 413.000000 499 82.135500 1 1945 2 chr2D.!!$F2 1944
2 TraesCS2D01G324400 chr2B 489028418 489032043 3625 False 1788.666667 4048 93.425000 1 3676 3 chr2B.!!$F2 3675
3 TraesCS2D01G324400 chr2B 489015897 489016528 631 False 307.000000 307 75.932000 1315 1945 1 chr2B.!!$F1 630
4 TraesCS2D01G324400 chr2A 572705536 572709144 3608 True 1749.000000 3157 86.875667 1 3676 3 chr2A.!!$R2 3675
5 TraesCS2D01G324400 chr2A 572747464 572748090 626 True 337.000000 337 76.875000 1321 1945 1 chr2A.!!$R1 624
6 TraesCS2D01G324400 chr1B 41525426 41527587 2161 True 569.333333 784 88.280333 1060 2785 3 chr1B.!!$R1 1725


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
341 361 0.255890 ACGGCCTTCATGCAACCTAT 59.744 50.0 0.00 0.0 0.00 2.57 F
1244 1373 0.313672 TCGTTTGCCTGCAACAATCC 59.686 50.0 3.64 0.0 35.46 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1260 1390 0.537371 CTGTCAAGAAAAGGGCCGGT 60.537 55.0 1.9 0.0 0.0 5.28 R
2722 3386 0.106268 TGCCACAGAACACCAACCAT 60.106 50.0 0.0 0.0 0.0 3.55 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
56 57 1.544825 CCTGTCCTGGTCGTGGTCAT 61.545 60.000 0.00 0.00 0.00 3.06
77 86 9.847706 GGTCATGTAGTTATAGTGATATGACTG 57.152 37.037 4.95 0.00 41.55 3.51
97 106 7.596494 TGACTGATAATTTCTGCTTTTCCTTG 58.404 34.615 0.00 0.00 0.00 3.61
192 201 0.320247 GACGGCATATCAGGGCTCAG 60.320 60.000 0.00 0.00 0.00 3.35
267 287 0.802607 GTACTAGCTCAGTGGTGCGC 60.803 60.000 0.00 0.00 38.24 6.09
268 288 1.945354 TACTAGCTCAGTGGTGCGCC 61.945 60.000 10.11 10.11 38.24 6.53
269 289 4.435436 TAGCTCAGTGGTGCGCCG 62.435 66.667 12.58 0.00 34.76 6.46
341 361 0.255890 ACGGCCTTCATGCAACCTAT 59.744 50.000 0.00 0.00 0.00 2.57
365 385 8.860780 ATTCCGGTAGTAGGAGTAGTATTTAG 57.139 38.462 0.00 0.00 39.22 1.85
381 401 7.021998 AGTATTTAGTCAAGGAGAGGCTTTT 57.978 36.000 0.00 0.00 0.00 2.27
383 403 4.974645 TTAGTCAAGGAGAGGCTTTTCA 57.025 40.909 0.00 0.00 0.00 2.69
452 472 5.346822 CCAAACGAACTATGTGTAGTGTACC 59.653 44.000 0.00 0.00 40.24 3.34
498 531 2.624636 CGAAGGCTACGTAACCCATTT 58.375 47.619 11.41 0.00 0.00 2.32
500 533 2.704464 AGGCTACGTAACCCATTTCC 57.296 50.000 11.41 0.00 0.00 3.13
501 534 1.910671 AGGCTACGTAACCCATTTCCA 59.089 47.619 11.41 0.00 0.00 3.53
503 536 3.053917 AGGCTACGTAACCCATTTCCATT 60.054 43.478 11.41 0.00 0.00 3.16
518 551 3.838244 TCCATTAGGTTTCCTCGGATG 57.162 47.619 0.00 0.00 34.61 3.51
520 553 3.973973 TCCATTAGGTTTCCTCGGATGAT 59.026 43.478 0.00 0.00 34.61 2.45
523 556 1.132500 AGGTTTCCTCGGATGATCCC 58.868 55.000 5.78 0.00 31.13 3.85
553 628 2.152699 CGAGACGTGACATCGCACC 61.153 63.158 0.00 0.00 35.37 5.01
570 648 1.135603 CACCACAAACAGCATCATCCG 60.136 52.381 0.00 0.00 0.00 4.18
571 649 1.167851 CCACAAACAGCATCATCCGT 58.832 50.000 0.00 0.00 0.00 4.69
572 650 1.541147 CCACAAACAGCATCATCCGTT 59.459 47.619 0.00 0.00 0.00 4.44
573 651 2.030007 CCACAAACAGCATCATCCGTTT 60.030 45.455 0.00 0.00 31.96 3.60
574 652 3.236816 CACAAACAGCATCATCCGTTTC 58.763 45.455 0.00 0.00 29.40 2.78
575 653 3.058016 CACAAACAGCATCATCCGTTTCT 60.058 43.478 0.00 0.00 29.40 2.52
576 654 3.569701 ACAAACAGCATCATCCGTTTCTT 59.430 39.130 0.00 0.00 29.40 2.52
589 667 1.737793 CGTTTCTTTCCTTCGGGGATG 59.262 52.381 0.00 0.00 44.66 3.51
594 672 2.170607 TCTTTCCTTCGGGGATGCTAAG 59.829 50.000 0.00 1.46 44.66 2.18
595 673 1.874129 TTCCTTCGGGGATGCTAAGA 58.126 50.000 0.00 0.00 44.66 2.10
596 674 1.874129 TCCTTCGGGGATGCTAAGAA 58.126 50.000 0.00 0.00 39.58 2.52
607 685 5.501156 GGGATGCTAAGAAAGAAAGAAGGA 58.499 41.667 0.00 0.00 0.00 3.36
608 686 5.946377 GGGATGCTAAGAAAGAAAGAAGGAA 59.054 40.000 0.00 0.00 0.00 3.36
609 687 6.434340 GGGATGCTAAGAAAGAAAGAAGGAAA 59.566 38.462 0.00 0.00 0.00 3.13
610 688 7.039714 GGGATGCTAAGAAAGAAAGAAGGAAAA 60.040 37.037 0.00 0.00 0.00 2.29
611 689 8.360390 GGATGCTAAGAAAGAAAGAAGGAAAAA 58.640 33.333 0.00 0.00 0.00 1.94
646 724 9.702253 AAACTCTATACTACTCTTGATCTCCAA 57.298 33.333 0.00 0.00 0.00 3.53
653 731 3.729108 ACTCTTGATCTCCAATCCCTGA 58.271 45.455 0.00 0.00 33.68 3.86
656 734 2.575921 TGATCTCCAATCCCTGAGGT 57.424 50.000 0.00 0.00 0.00 3.85
658 736 4.007581 TGATCTCCAATCCCTGAGGTAA 57.992 45.455 0.00 0.00 0.00 2.85
662 748 1.209504 TCCAATCCCTGAGGTAAAGCG 59.790 52.381 0.00 0.00 0.00 4.68
688 774 3.330853 GGCAGATCTAACGCCGCG 61.331 66.667 12.14 12.14 35.79 6.46
718 804 2.839474 GAGTTTTGCTCACGGATTTCG 58.161 47.619 0.00 0.00 43.58 3.46
763 854 1.599606 GCACAAGAGAGAGCTCCCGA 61.600 60.000 10.93 0.00 42.30 5.14
881 992 1.298993 CCACATGCTCCTGTGCTCT 59.701 57.895 8.54 0.00 44.16 4.09
882 993 0.743701 CCACATGCTCCTGTGCTCTC 60.744 60.000 8.54 0.00 44.16 3.20
884 995 1.196766 ACATGCTCCTGTGCTCTCCA 61.197 55.000 0.00 0.00 0.00 3.86
886 997 1.908340 ATGCTCCTGTGCTCTCCACC 61.908 60.000 0.00 0.00 44.01 4.61
965 1086 3.383185 TCTTTGCTAGAGCTTAGAGGAGC 59.617 47.826 2.72 0.00 42.66 4.70
1057 1178 1.751927 GGGCTACCGGACTTCGAGA 60.752 63.158 9.46 0.00 42.43 4.04
1065 1186 1.219393 GGACTTCGAGAAGCCCCTG 59.781 63.158 12.32 0.00 41.99 4.45
1228 1357 3.072211 GGAACCCGAATCTTTCTTTCGT 58.928 45.455 5.27 0.00 43.30 3.85
1244 1373 0.313672 TCGTTTGCCTGCAACAATCC 59.686 50.000 3.64 0.00 35.46 3.01
1282 1412 0.315251 GGCCCTTTTCTTGACAGTGC 59.685 55.000 0.00 0.00 0.00 4.40
1316 1931 1.810030 GACCGGTCGATGTTGAGGC 60.810 63.158 20.85 0.00 0.00 4.70
1851 2472 2.722487 CTACCTACTGCGCTCGGG 59.278 66.667 9.73 8.32 0.00 5.14
2031 2652 3.986572 TCTTGGCGTTTTAATGTGCAATG 59.013 39.130 0.00 0.00 0.00 2.82
2531 3186 4.891037 GCCTCCATGCTGCTCCCC 62.891 72.222 0.00 0.00 0.00 4.81
2722 3386 0.178938 TGGTAACACCCCTGTCCGTA 60.179 55.000 0.00 0.00 46.17 4.02
3020 3693 1.667724 CTGCTGCTTTCAGGTATTCCG 59.332 52.381 0.00 0.00 40.65 4.30
3031 3704 3.194116 TCAGGTATTCCGGTTACACACTC 59.806 47.826 15.80 2.61 39.05 3.51
3112 3789 4.070009 ACCGTTTTAGGTGAAGTGATTCC 58.930 43.478 0.00 0.00 44.07 3.01
3174 3851 3.356290 AGAAAGGCAGAAACCGCAATAT 58.644 40.909 0.00 0.00 33.69 1.28
3211 3888 2.488952 TGTAATCAGCAGCGAACACAA 58.511 42.857 0.00 0.00 0.00 3.33
3232 4211 4.988708 ACAGCAACAACAACAAAAACAG 57.011 36.364 0.00 0.00 0.00 3.16
3244 4223 5.807011 ACAACAAAAACAGAAGAGATGCAAC 59.193 36.000 0.00 0.00 0.00 4.17
3374 4666 5.276694 ACCTGGAGGAGCTACATATATGA 57.723 43.478 19.63 2.59 38.94 2.15
3415 5891 5.880341 ACGAATTAAGCTGCAAAGGAATAC 58.120 37.500 1.02 0.00 0.00 1.89
3436 5912 3.982576 GGAAACTGAAGCCGAAAGAAA 57.017 42.857 0.00 0.00 0.00 2.52
3440 5916 3.194005 ACTGAAGCCGAAAGAAACTGA 57.806 42.857 0.00 0.00 0.00 3.41
3648 6124 2.100603 CCGCTCGGTCGTCTCTTC 59.899 66.667 0.00 0.00 0.00 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 1.118965 ACATGACCACGACCAGGACA 61.119 55.000 0.00 0.00 35.42 4.02
77 86 6.030228 CGACCAAGGAAAAGCAGAAATTATC 58.970 40.000 0.00 0.00 0.00 1.75
82 91 1.336755 GCGACCAAGGAAAAGCAGAAA 59.663 47.619 0.00 0.00 0.00 2.52
97 106 5.358298 AAAGTTCTCTGTTATTTGCGACC 57.642 39.130 0.00 0.00 0.00 4.79
233 253 7.933396 TGAGCTAGTACTTTTGTATACGCATA 58.067 34.615 0.00 0.00 37.24 3.14
235 255 6.127814 ACTGAGCTAGTACTTTTGTATACGCA 60.128 38.462 0.00 0.00 38.04 5.24
236 256 6.196724 CACTGAGCTAGTACTTTTGTATACGC 59.803 42.308 0.00 0.00 37.60 4.42
237 257 6.691818 CCACTGAGCTAGTACTTTTGTATACG 59.308 42.308 0.00 0.00 37.60 3.06
239 259 7.544622 CACCACTGAGCTAGTACTTTTGTATA 58.455 38.462 0.00 0.00 37.60 1.47
240 260 6.398918 CACCACTGAGCTAGTACTTTTGTAT 58.601 40.000 0.00 0.00 37.60 2.29
241 261 5.779922 CACCACTGAGCTAGTACTTTTGTA 58.220 41.667 0.00 0.00 37.60 2.41
242 262 4.632153 CACCACTGAGCTAGTACTTTTGT 58.368 43.478 0.00 0.00 37.60 2.83
243 263 3.433615 GCACCACTGAGCTAGTACTTTTG 59.566 47.826 0.00 0.00 37.60 2.44
244 264 3.665190 GCACCACTGAGCTAGTACTTTT 58.335 45.455 0.00 0.00 37.60 2.27
245 265 2.352814 CGCACCACTGAGCTAGTACTTT 60.353 50.000 0.00 0.00 37.60 2.66
246 266 1.202582 CGCACCACTGAGCTAGTACTT 59.797 52.381 0.00 0.00 37.60 2.24
247 267 0.811915 CGCACCACTGAGCTAGTACT 59.188 55.000 0.00 0.00 37.60 2.73
248 268 0.802607 GCGCACCACTGAGCTAGTAC 60.803 60.000 0.30 0.00 39.92 2.73
249 269 1.511305 GCGCACCACTGAGCTAGTA 59.489 57.895 0.30 0.00 39.92 1.82
250 270 2.262915 GCGCACCACTGAGCTAGT 59.737 61.111 0.30 0.00 39.92 2.57
251 271 2.510238 GGCGCACCACTGAGCTAG 60.510 66.667 10.83 0.00 42.49 3.42
272 292 8.654937 AACATTTGTTTTACCAGCCTAGTGCG 62.655 42.308 0.00 0.00 39.24 5.34
273 293 4.022329 ACATTTGTTTTACCAGCCTAGTGC 60.022 41.667 0.00 0.00 41.71 4.40
284 304 4.029704 TCACGTGCGAACATTTGTTTTAC 58.970 39.130 11.67 0.00 38.56 2.01
319 339 2.115052 TTGCATGAAGGCCGTGGT 59.885 55.556 0.00 0.00 32.41 4.16
341 361 7.806180 ACTAAATACTACTCCTACTACCGGAA 58.194 38.462 9.46 0.00 0.00 4.30
365 385 4.918810 TTTTGAAAAGCCTCTCCTTGAC 57.081 40.909 0.00 0.00 0.00 3.18
381 401 1.883926 GCCCGGAAACTAGCTTTTTGA 59.116 47.619 0.73 0.00 0.00 2.69
383 403 0.879090 CGCCCGGAAACTAGCTTTTT 59.121 50.000 0.73 0.00 0.00 1.94
452 472 1.529010 CCCGACCGTTTACGTACGTAG 60.529 57.143 25.56 17.37 39.81 3.51
490 523 5.023452 GAGGAAACCTAATGGAAATGGGTT 58.977 41.667 0.00 0.00 41.35 4.11
498 531 3.380393 TCATCCGAGGAAACCTAATGGA 58.620 45.455 0.00 0.00 35.15 3.41
500 533 4.319177 GGATCATCCGAGGAAACCTAATG 58.681 47.826 0.00 0.00 31.76 1.90
501 534 3.328050 GGGATCATCCGAGGAAACCTAAT 59.672 47.826 0.00 0.00 37.43 1.73
503 536 2.326428 GGGATCATCCGAGGAAACCTA 58.674 52.381 0.00 0.00 37.43 3.08
518 551 2.365617 TCTCGCCTTATGAGTTGGGATC 59.634 50.000 0.00 0.00 34.99 3.36
520 553 1.480954 GTCTCGCCTTATGAGTTGGGA 59.519 52.381 0.00 0.00 34.99 4.37
523 556 1.920574 CACGTCTCGCCTTATGAGTTG 59.079 52.381 0.00 0.00 34.99 3.16
550 625 1.135603 CGGATGATGCTGTTTGTGGTG 60.136 52.381 0.00 0.00 0.00 4.17
553 628 2.995466 AACGGATGATGCTGTTTGTG 57.005 45.000 0.00 0.00 33.75 3.33
589 667 8.406297 TCACTTTTTCCTTCTTTCTTTCTTAGC 58.594 33.333 0.00 0.00 0.00 3.09
594 672 9.639601 TCTTTTCACTTTTTCCTTCTTTCTTTC 57.360 29.630 0.00 0.00 0.00 2.62
595 673 9.996554 TTCTTTTCACTTTTTCCTTCTTTCTTT 57.003 25.926 0.00 0.00 0.00 2.52
596 674 9.996554 TTTCTTTTCACTTTTTCCTTCTTTCTT 57.003 25.926 0.00 0.00 0.00 2.52
628 706 5.835819 CAGGGATTGGAGATCAAGAGTAGTA 59.164 44.000 0.00 0.00 38.95 1.82
629 707 4.653341 CAGGGATTGGAGATCAAGAGTAGT 59.347 45.833 0.00 0.00 38.95 2.73
631 709 4.883759 TCAGGGATTGGAGATCAAGAGTA 58.116 43.478 0.00 0.00 38.95 2.59
633 711 3.071312 CCTCAGGGATTGGAGATCAAGAG 59.929 52.174 0.00 0.00 38.95 2.85
634 712 3.044156 CCTCAGGGATTGGAGATCAAGA 58.956 50.000 0.00 0.00 38.95 3.02
635 713 2.776536 ACCTCAGGGATTGGAGATCAAG 59.223 50.000 0.00 0.00 35.95 3.02
636 714 2.850833 ACCTCAGGGATTGGAGATCAA 58.149 47.619 0.00 0.00 36.52 2.57
637 715 2.575921 ACCTCAGGGATTGGAGATCA 57.424 50.000 0.00 0.00 36.25 2.92
638 716 4.745172 GCTTTACCTCAGGGATTGGAGATC 60.745 50.000 0.00 0.00 36.25 2.75
646 724 0.107654 GCACGCTTTACCTCAGGGAT 60.108 55.000 0.00 0.00 36.25 3.85
653 731 0.960364 CCATGTGGCACGCTTTACCT 60.960 55.000 13.77 0.00 40.97 3.08
688 774 1.468914 GAGCAAAACTCAACGGGATCC 59.531 52.381 1.92 1.92 45.49 3.36
697 783 5.433350 GCGAAATCCGTGAGCAAAACTCA 62.433 47.826 0.00 0.00 45.38 3.41
702 788 0.947960 TTGCGAAATCCGTGAGCAAA 59.052 45.000 0.00 0.00 43.61 3.68
810 909 0.545548 ACCTCGGCTTCTTCCTTCCT 60.546 55.000 0.00 0.00 0.00 3.36
811 910 1.137282 CTACCTCGGCTTCTTCCTTCC 59.863 57.143 0.00 0.00 0.00 3.46
812 911 1.137282 CCTACCTCGGCTTCTTCCTTC 59.863 57.143 0.00 0.00 0.00 3.46
813 912 1.196012 CCTACCTCGGCTTCTTCCTT 58.804 55.000 0.00 0.00 0.00 3.36
928 1045 2.416893 GCAAAGACCAAATCTCCTCGAC 59.583 50.000 0.00 0.00 36.27 4.20
930 1047 2.704572 AGCAAAGACCAAATCTCCTCG 58.295 47.619 0.00 0.00 36.27 4.63
965 1086 0.885596 CCTCTACCTCTAGGCGACGG 60.886 65.000 0.00 0.00 39.32 4.79
1228 1357 1.610363 TACGGATTGTTGCAGGCAAA 58.390 45.000 8.47 0.00 37.70 3.68
1260 1390 0.537371 CTGTCAAGAAAAGGGCCGGT 60.537 55.000 1.90 0.00 0.00 5.28
1282 1412 2.997315 TCAGTCAGAGTGGGCCGG 60.997 66.667 5.36 0.00 0.00 6.13
1632 2247 3.672295 GAGGTGCTTGCCGGAGAGG 62.672 68.421 5.05 0.00 44.97 3.69
1851 2472 2.926838 GCAGTAGCAGAAAGTGTAGAGC 59.073 50.000 0.00 0.00 41.58 4.09
2051 2672 6.049149 TGTCAGAGGTTTCTTGAAACTACTG 58.951 40.000 26.00 26.00 34.74 2.74
2053 2674 6.018669 CACTGTCAGAGGTTTCTTGAAACTAC 60.019 42.308 20.92 15.80 34.74 2.73
2056 2677 4.876107 TCACTGTCAGAGGTTTCTTGAAAC 59.124 41.667 15.53 15.53 0.00 2.78
2057 2678 4.876107 GTCACTGTCAGAGGTTTCTTGAAA 59.124 41.667 6.91 0.00 0.00 2.69
2058 2679 4.442706 GTCACTGTCAGAGGTTTCTTGAA 58.557 43.478 6.91 0.00 0.00 2.69
2059 2680 3.181465 GGTCACTGTCAGAGGTTTCTTGA 60.181 47.826 6.91 0.00 0.00 3.02
2060 2681 3.134458 GGTCACTGTCAGAGGTTTCTTG 58.866 50.000 6.91 0.00 0.00 3.02
2068 2689 3.319405 ACACTGTTAGGTCACTGTCAGAG 59.681 47.826 6.91 0.00 34.85 3.35
2367 3016 0.441921 GCAAGCAGCTTCTCTTCGAC 59.558 55.000 4.07 0.00 41.15 4.20
2531 3186 4.197750 AGATTTTGAGGTAGCAGATGCAG 58.802 43.478 7.68 0.00 45.16 4.41
2722 3386 0.106268 TGCCACAGAACACCAACCAT 60.106 50.000 0.00 0.00 0.00 3.55
2909 3582 1.271656 AGTACCGTCCTACAACAGCAC 59.728 52.381 0.00 0.00 0.00 4.40
2926 3599 1.447140 GTGGAACGCCGATGCAGTA 60.447 57.895 0.00 0.00 37.32 2.74
3020 3693 0.317479 AGCTCCACGAGTGTGTAACC 59.683 55.000 2.36 0.00 44.92 2.85
3031 3704 3.997021 ACAAGAGACAATTTAGCTCCACG 59.003 43.478 0.00 0.00 0.00 4.94
3112 3789 1.968050 ATCGCCTAACCTCCAACGGG 61.968 60.000 0.00 0.00 0.00 5.28
3174 3851 9.894783 GCTGATTACATCTCTTTTACGACTATA 57.105 33.333 0.00 0.00 0.00 1.31
3206 3883 3.377346 TTGTTGTTGTTGCTGTTGTGT 57.623 38.095 0.00 0.00 0.00 3.72
3211 3888 4.626042 TCTGTTTTTGTTGTTGTTGCTGT 58.374 34.783 0.00 0.00 0.00 4.40
3232 4211 0.807496 GTGGCTGGTTGCATCTCTTC 59.193 55.000 0.00 0.00 45.15 2.87
3244 4223 1.572085 CTGTCTTGAAGCGTGGCTGG 61.572 60.000 0.00 0.00 39.62 4.85
3289 4528 8.575649 TTGTATTCTGTAATTTCCTCCCTTTC 57.424 34.615 0.00 0.00 0.00 2.62
3351 4643 6.402981 TCATATATGTAGCTCCTCCAGGTA 57.597 41.667 12.42 0.00 33.71 3.08
3355 4647 5.543790 TGCTTTCATATATGTAGCTCCTCCA 59.456 40.000 27.17 13.95 37.40 3.86
3374 4666 1.021968 GTTTCCACCACTCGTGCTTT 58.978 50.000 0.00 0.00 41.53 3.51
3415 5891 1.508632 TCTTTCGGCTTCAGTTTCCG 58.491 50.000 0.00 0.00 44.16 4.30



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

AutoCloner maintained by Alex Coulton.