Multiple sequence alignment - TraesCS3D01G337800

Loading Multiple Alignment...

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 TraesCS3D01G337800 chr3D 100.000 5346 0 0 1 5346 450296774 450291429 0.000000e+00 9873
1 TraesCS3D01G337800 chr3B 93.047 4933 201 73 495 5344 592534357 592529484 0.000000e+00 7079
2 TraesCS3D01G337800 chr3B 89.610 462 13 12 1 430 592534836 592534378 6.050000e-154 555
3 TraesCS3D01G337800 chr3A 94.815 2507 84 19 2865 5344 593702928 593700441 0.000000e+00 3868
4 TraesCS3D01G337800 chr3A 96.142 1659 47 5 1104 2749 593704727 593703073 0.000000e+00 2693
5 TraesCS3D01G337800 chr3A 84.853 614 50 22 2 591 593706137 593705543 3.590000e-161 579
6 TraesCS3D01G337800 chr3A 90.249 441 20 9 651 1085 593705451 593705028 6.050000e-154 555
7 TraesCS3D01G337800 chr3A 92.308 91 4 2 2743 2830 593703007 593702917 5.620000e-25 126


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 TraesCS3D01G337800 chr3D 450291429 450296774 5345 True 9873.0 9873 100.0000 1 5346 1 chr3D.!!$R1 5345
1 TraesCS3D01G337800 chr3B 592529484 592534836 5352 True 3817.0 7079 91.3285 1 5344 2 chr3B.!!$R1 5343
2 TraesCS3D01G337800 chr3A 593700441 593706137 5696 True 1564.2 3868 91.6734 2 5344 5 chr3A.!!$R1 5342

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
674 778 0.033504 ATGACACGAGGTGACCACAC 59.966 55.000 3.63 0.00 45.27 3.82 F
817 927 0.462375 TTAATAGCGCGCAAGGAGGA 59.538 50.000 35.10 9.73 38.28 3.71 F
819 929 1.676678 AATAGCGCGCAAGGAGGAGA 61.677 55.000 35.10 6.50 38.28 3.71 F
2417 2826 1.273327 CTGGCCACCAAATTTGACTCC 59.727 52.381 19.86 13.92 30.80 3.85 F
2798 3283 1.270550 ACTCCAAAAATGAAGCCTGCG 59.729 47.619 0.00 0.00 0.00 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1697 2093 0.387929 TCCGACATCAGCCGGTATTC 59.612 55.000 1.90 0.00 45.48 1.75 R
2399 2795 1.337118 TGGAGTCAAATTTGGTGGCC 58.663 50.000 17.90 13.85 0.00 5.36 R
2567 2977 2.156098 GAGACCCACAATTTGCGGTTA 58.844 47.619 9.46 0.00 31.06 2.85 R
3448 3938 0.538057 TGAACTCTGGGCTGCCTTTG 60.538 55.000 19.68 9.04 0.00 2.77 R
4579 5075 1.077787 CCTCTGCGGCAATACCCAA 60.078 57.895 3.44 0.00 33.26 4.12 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
31 33 1.409661 GGCGGGTAAATTCCACTCCAT 60.410 52.381 0.00 0.00 0.00 3.41
269 291 2.678934 ACGCGTCAGGGCCTCTTA 60.679 61.111 5.58 0.00 0.00 2.10
270 292 2.280552 ACGCGTCAGGGCCTCTTAA 61.281 57.895 5.58 0.00 0.00 1.85
287 310 5.163290 CCTCTTAATAAACCTCCTCAGACCC 60.163 48.000 0.00 0.00 0.00 4.46
331 362 2.190578 CACGGGGGAATGGAGAGC 59.809 66.667 0.00 0.00 0.00 4.09
368 399 6.105855 TTGGTCACCAAAAGGAATTCTTCCA 61.106 40.000 6.86 0.00 45.60 3.53
401 439 4.759693 AGGCAAATGTAGTCGATTCAAACA 59.240 37.500 0.00 0.00 0.00 2.83
433 473 6.548441 AAAACGAACGGAAATGTTATCTGA 57.452 33.333 0.00 0.00 30.75 3.27
435 475 4.562082 ACGAACGGAAATGTTATCTGACA 58.438 39.130 0.00 0.00 30.75 3.58
458 498 1.533033 TTCGTCAGTGAGAGGCCCA 60.533 57.895 0.00 0.00 32.24 5.36
461 501 0.460987 CGTCAGTGAGAGGCCCAATC 60.461 60.000 0.00 0.00 0.00 2.67
465 506 2.108075 TCAGTGAGAGGCCCAATCAAAA 59.892 45.455 0.00 0.00 0.00 2.44
468 509 3.766051 AGTGAGAGGCCCAATCAAAAATC 59.234 43.478 0.00 0.00 0.00 2.17
469 510 3.511146 GTGAGAGGCCCAATCAAAAATCA 59.489 43.478 0.00 0.00 0.00 2.57
477 518 5.881443 GGCCCAATCAAAAATCATGAAATCA 59.119 36.000 0.00 0.00 0.00 2.57
491 532 8.859236 ATCATGAAATCAGGTCATAATAGTGG 57.141 34.615 0.00 0.00 33.91 4.00
492 533 7.805163 TCATGAAATCAGGTCATAATAGTGGT 58.195 34.615 0.00 0.00 33.91 4.16
493 534 7.716560 TCATGAAATCAGGTCATAATAGTGGTG 59.283 37.037 0.00 0.00 33.91 4.17
505 546 2.219080 TAGTGGTGGTGGTATCGACA 57.781 50.000 0.00 0.00 0.00 4.35
532 573 4.621223 CGTTATTAATTCCGGCGTTATCG 58.379 43.478 6.01 0.00 40.37 2.92
554 595 1.539827 GGGGTGAATGGAAACGTCTTG 59.460 52.381 0.00 0.00 0.00 3.02
580 621 1.391577 CATCGGTGGCAATCAATCCA 58.608 50.000 0.00 0.00 0.00 3.41
593 634 5.334724 GCAATCAATCCAGAAGATCGGATTC 60.335 44.000 9.03 0.00 46.81 2.52
595 636 3.711190 TCAATCCAGAAGATCGGATTCCA 59.289 43.478 9.03 0.00 46.81 3.53
674 778 0.033504 ATGACACGAGGTGACCACAC 59.966 55.000 3.63 0.00 45.27 3.82
691 795 6.084326 ACCACACACATTACTCCATTTTTC 57.916 37.500 0.00 0.00 0.00 2.29
716 820 7.561356 TCCCCTGAGAAATATCTTGATTTTTCC 59.439 37.037 16.91 11.81 35.54 3.13
808 918 2.091277 GTGCTAGCTCATTAATAGCGCG 59.909 50.000 17.23 0.00 43.88 6.86
809 919 1.059835 GCTAGCTCATTAATAGCGCGC 59.940 52.381 26.66 26.66 44.87 6.86
810 920 2.328473 CTAGCTCATTAATAGCGCGCA 58.672 47.619 35.10 19.76 44.87 6.09
811 921 1.581934 AGCTCATTAATAGCGCGCAA 58.418 45.000 35.10 19.45 44.87 4.85
812 922 1.528586 AGCTCATTAATAGCGCGCAAG 59.471 47.619 35.10 16.47 44.87 4.01
814 924 2.135139 CTCATTAATAGCGCGCAAGGA 58.865 47.619 35.10 23.25 38.28 3.36
816 926 1.195448 CATTAATAGCGCGCAAGGAGG 59.805 52.381 35.10 12.65 38.28 4.30
817 927 0.462375 TTAATAGCGCGCAAGGAGGA 59.538 50.000 35.10 9.73 38.28 3.71
819 929 1.676678 AATAGCGCGCAAGGAGGAGA 61.677 55.000 35.10 6.50 38.28 3.71
964 1078 3.256960 ATCCCACCACCCGCACTT 61.257 61.111 0.00 0.00 0.00 3.16
971 1085 4.410400 CACCCGCACTTCCCCCTC 62.410 72.222 0.00 0.00 0.00 4.30
1239 1635 4.824515 ACCTCGCTCTCCCTCCCG 62.825 72.222 0.00 0.00 0.00 5.14
1326 1722 2.359975 CCCCGCAACAACCTCTCC 60.360 66.667 0.00 0.00 0.00 3.71
1697 2093 2.042259 GTAACCTTTTCGCCGGGGG 61.042 63.158 19.63 4.42 0.00 5.40
1771 2167 2.791501 TAACTTCTTCACCGGCGGCC 62.792 60.000 28.71 9.54 0.00 6.13
2049 2445 3.353836 GCCGGCAACAAGCTCGAA 61.354 61.111 24.80 0.00 44.79 3.71
2247 2643 2.697761 GCTGGAGGTGCTCGACGTA 61.698 63.158 0.00 0.00 0.00 3.57
2399 2795 3.811722 TGCACTGTAAGCGAATTTCTG 57.188 42.857 0.00 0.00 37.60 3.02
2415 2824 2.380064 TCTGGCCACCAAATTTGACT 57.620 45.000 19.86 1.15 30.80 3.41
2417 2826 1.273327 CTGGCCACCAAATTTGACTCC 59.727 52.381 19.86 13.92 30.80 3.85
2445 2854 6.712095 TCAGATTGCTTGTTAGTGAAGTTGAT 59.288 34.615 0.00 0.00 0.00 2.57
2567 2977 9.322769 TCTTAGTTTTCTGTTATAGGAGTCCTT 57.677 33.333 19.06 8.01 34.61 3.36
2618 3028 1.589993 CTGCTCGTATCCAGTGCCG 60.590 63.158 0.00 0.00 0.00 5.69
2734 3144 4.815533 AGAAACTCTAGCAAGCTGATCA 57.184 40.909 4.53 0.00 0.00 2.92
2782 3267 8.254508 ACTTGATTCTGACTTAATGAGTACTCC 58.745 37.037 20.11 3.40 39.19 3.85
2798 3283 1.270550 ACTCCAAAAATGAAGCCTGCG 59.729 47.619 0.00 0.00 0.00 5.18
2840 3330 8.261492 ACTCAGTTATACTTGATTTGCTGAAG 57.739 34.615 0.00 0.00 32.38 3.02
2841 3331 7.335422 ACTCAGTTATACTTGATTTGCTGAAGG 59.665 37.037 0.00 0.00 32.38 3.46
2847 3337 4.082125 ACTTGATTTGCTGAAGGTTAGGG 58.918 43.478 0.00 0.00 0.00 3.53
2989 3479 1.668826 ACAAGCTGAATGGGACCCTA 58.331 50.000 13.00 0.00 0.00 3.53
3070 3560 2.257207 TCAGGAAATCTCCCGAACAGT 58.743 47.619 0.00 0.00 43.64 3.55
3091 3581 4.730949 TCGTTTCTTCGACAATATCCCT 57.269 40.909 0.00 0.00 34.85 4.20
3337 3827 1.411246 ACTGTAACTGTGCTCAACCGA 59.589 47.619 0.00 0.00 0.00 4.69
3448 3938 1.337167 GGGAAGCTTGTCATGTTTGGC 60.337 52.381 2.10 0.00 0.00 4.52
3496 3986 1.202627 GGGCATGCCTTGTTGAACAAA 60.203 47.619 34.70 0.00 37.69 2.83
3583 4073 0.694771 TGGCCATCAAGAAGCTCACT 59.305 50.000 0.00 0.00 0.00 3.41
3625 4115 2.376808 AGGATGACTTTGAGCGACAG 57.623 50.000 0.00 0.00 0.00 3.51
3658 4148 1.885157 CAAGATGCGGCACCACAAT 59.115 52.632 4.03 0.00 0.00 2.71
3763 4253 1.296392 CCTCCATGAGTGCACGGAA 59.704 57.895 12.01 0.94 35.70 4.30
4183 4673 2.969238 GACTGCATGGATCCGCGG 60.969 66.667 22.12 22.12 40.48 6.46
4186 4676 3.519973 CTGCATGGATCCGCGGCTA 62.520 63.158 23.51 4.04 0.00 3.93
4246 4736 2.281761 CTGGGCCTCGTTTGCACT 60.282 61.111 4.53 0.00 31.89 4.40
4370 4865 3.692101 TCTCTTTTGAACTTTGTTCCGCA 59.308 39.130 7.81 0.00 0.00 5.69
4486 4981 3.746492 GCCTGTAGTCTGTAGTTTGGTTG 59.254 47.826 0.00 0.00 0.00 3.77
4579 5075 3.697045 ACTGTAGCTTATCTCTGCTCGTT 59.303 43.478 0.00 0.00 40.35 3.85
4591 5087 1.302383 TGCTCGTTTGGGTATTGCCG 61.302 55.000 0.00 0.00 38.44 5.69
4593 5089 1.302383 CTCGTTTGGGTATTGCCGCA 61.302 55.000 0.00 0.00 38.44 5.69
4706 5212 9.764363 TTCTTACATATATTGCTCGACATCTTT 57.236 29.630 0.00 0.00 0.00 2.52
4736 5242 7.510428 CACAATGTGTGGTCATTTTATTAGC 57.490 36.000 5.00 0.00 44.27 3.09
4791 5297 2.127708 CTGCCCCTCTGGTAAACCTAT 58.872 52.381 0.02 0.00 36.82 2.57
4792 5298 3.311103 ACTGCCCCTCTGGTAAACCTATA 60.311 47.826 0.02 0.00 36.82 1.31
4793 5299 3.910627 CTGCCCCTCTGGTAAACCTATAT 59.089 47.826 0.02 0.00 36.82 0.86
4794 5300 4.312487 TGCCCCTCTGGTAAACCTATATT 58.688 43.478 0.02 0.00 36.82 1.28
4795 5301 4.349930 TGCCCCTCTGGTAAACCTATATTC 59.650 45.833 0.02 0.00 36.82 1.75
4796 5302 4.349930 GCCCCTCTGGTAAACCTATATTCA 59.650 45.833 0.02 0.00 36.82 2.57
4846 5364 3.189287 GCAACGACTGTTCTGATTCCATT 59.811 43.478 0.00 0.00 35.72 3.16
4877 5395 5.218959 TCTCCATGATTACCCTTCTGATCA 58.781 41.667 0.00 0.00 33.50 2.92
4983 5502 2.436646 CGAAGGGGCTCGTTGCAT 60.437 61.111 0.00 0.00 45.15 3.96
4986 5505 1.648467 GAAGGGGCTCGTTGCATCAC 61.648 60.000 0.00 0.00 45.15 3.06
4987 5506 2.359850 GGGGCTCGTTGCATCACA 60.360 61.111 0.00 0.00 45.15 3.58
4989 5508 2.482374 GGCTCGTTGCATCACAGC 59.518 61.111 7.04 7.04 45.15 4.40
4990 5509 2.482374 GCTCGTTGCATCACAGCC 59.518 61.111 4.91 0.00 42.31 4.85
4991 5510 2.037136 GCTCGTTGCATCACAGCCT 61.037 57.895 4.91 0.00 42.31 4.58
4993 5512 1.690283 CTCGTTGCATCACAGCCTCG 61.690 60.000 0.00 0.00 0.00 4.63
4994 5513 1.737735 CGTTGCATCACAGCCTCGA 60.738 57.895 0.00 0.00 33.69 4.04
4995 5514 1.790387 GTTGCATCACAGCCTCGAC 59.210 57.895 0.00 0.00 0.00 4.20
5093 5628 3.966543 CCAGTCACCACCACCCCC 61.967 72.222 0.00 0.00 0.00 5.40
5094 5629 3.174987 CAGTCACCACCACCCCCA 61.175 66.667 0.00 0.00 0.00 4.96
5097 5632 4.845307 TCACCACCACCCCCACCA 62.845 66.667 0.00 0.00 0.00 4.17
5344 5884 4.445052 TCGAAAATGATGCTGTTTTGCTTG 59.555 37.500 0.00 0.00 0.00 4.01
5345 5885 4.209703 CGAAAATGATGCTGTTTTGCTTGT 59.790 37.500 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 33 4.647424 AGTGCAACCTTCAAATTTTCGA 57.353 36.364 0.00 0.00 37.80 3.71
262 284 5.361427 GTCTGAGGAGGTTTATTAAGAGGC 58.639 45.833 0.00 0.00 0.00 4.70
263 285 5.163290 GGGTCTGAGGAGGTTTATTAAGAGG 60.163 48.000 0.00 0.00 0.00 3.69
264 286 5.663556 AGGGTCTGAGGAGGTTTATTAAGAG 59.336 44.000 0.00 0.00 0.00 2.85
265 287 5.600749 AGGGTCTGAGGAGGTTTATTAAGA 58.399 41.667 0.00 0.00 0.00 2.10
266 288 5.959583 AGGGTCTGAGGAGGTTTATTAAG 57.040 43.478 0.00 0.00 0.00 1.85
267 289 6.504279 AGAAAGGGTCTGAGGAGGTTTATTAA 59.496 38.462 0.00 0.00 34.29 1.40
269 291 4.852697 AGAAAGGGTCTGAGGAGGTTTATT 59.147 41.667 0.00 0.00 34.29 1.40
270 292 4.439860 AGAAAGGGTCTGAGGAGGTTTAT 58.560 43.478 0.00 0.00 34.29 1.40
287 310 5.068987 TGGGAATTCACTCACCAAAAGAAAG 59.931 40.000 9.56 0.00 0.00 2.62
331 362 1.203313 GACCAAGCGAACGAAACCG 59.797 57.895 0.00 0.00 0.00 4.44
418 458 5.277601 ACGTTTGTCAGATAACATTTCCG 57.722 39.130 0.00 0.00 0.00 4.30
433 473 2.460918 CTCTCACTGACGAACGTTTGT 58.539 47.619 21.10 21.10 0.00 2.83
435 475 1.868519 GCCTCTCACTGACGAACGTTT 60.869 52.381 0.46 0.00 0.00 3.60
448 488 3.777087 TGATTTTTGATTGGGCCTCTCA 58.223 40.909 4.53 4.66 0.00 3.27
465 506 9.293404 CCACTATTATGACCTGATTTCATGATT 57.707 33.333 0.00 0.00 35.31 2.57
468 509 7.040892 CCACCACTATTATGACCTGATTTCATG 60.041 40.741 0.00 0.00 35.31 3.07
469 510 7.000472 CCACCACTATTATGACCTGATTTCAT 59.000 38.462 0.00 0.00 37.47 2.57
477 518 3.460825 ACCACCACCACTATTATGACCT 58.539 45.455 0.00 0.00 0.00 3.85
488 529 2.006888 CATTGTCGATACCACCACCAC 58.993 52.381 0.00 0.00 0.00 4.16
489 530 1.065782 CCATTGTCGATACCACCACCA 60.066 52.381 0.00 0.00 0.00 4.17
490 531 1.663695 CCATTGTCGATACCACCACC 58.336 55.000 0.00 0.00 0.00 4.61
491 532 1.014352 GCCATTGTCGATACCACCAC 58.986 55.000 0.00 0.00 0.00 4.16
492 533 0.461163 CGCCATTGTCGATACCACCA 60.461 55.000 0.00 0.00 0.00 4.17
493 534 0.461339 ACGCCATTGTCGATACCACC 60.461 55.000 0.00 0.00 0.00 4.61
505 546 2.031508 CGCCGGAATTAATAACGCCATT 60.032 45.455 5.05 0.00 0.00 3.16
532 573 1.003233 AGACGTTTCCATTCACCCCTC 59.997 52.381 0.00 0.00 0.00 4.30
580 621 4.446371 GTCATGTTGGAATCCGATCTTCT 58.554 43.478 0.00 0.00 0.00 2.85
593 634 8.915871 AAAATCAGATAAAATCGTCATGTTGG 57.084 30.769 0.00 0.00 0.00 3.77
645 711 2.224185 ACCTCGTGTCATTTACTGTGCA 60.224 45.455 0.00 0.00 0.00 4.57
659 763 0.249868 ATGTGTGTGGTCACCTCGTG 60.250 55.000 0.00 0.00 43.26 4.35
661 765 2.066262 GTAATGTGTGTGGTCACCTCG 58.934 52.381 0.00 0.00 43.26 4.63
674 778 5.016173 TCAGGGGAAAAATGGAGTAATGTG 58.984 41.667 0.00 0.00 0.00 3.21
691 795 7.342799 TGGAAAAATCAAGATATTTCTCAGGGG 59.657 37.037 0.00 0.00 33.42 4.79
808 918 3.803162 GGCCCCTCTCCTCCTTGC 61.803 72.222 0.00 0.00 0.00 4.01
809 919 2.041928 AGGCCCCTCTCCTCCTTG 59.958 66.667 0.00 0.00 0.00 3.61
810 920 2.370633 GAGGCCCCTCTCCTCCTT 59.629 66.667 0.00 0.00 43.32 3.36
1294 1690 2.284151 GGGGAGGGAGAGGGAGAC 59.716 72.222 0.00 0.00 0.00 3.36
1447 1843 4.593864 GTCGGCGAGGGAGATGGC 62.594 72.222 11.20 0.00 0.00 4.40
1697 2093 0.387929 TCCGACATCAGCCGGTATTC 59.612 55.000 1.90 0.00 45.48 1.75
1884 2280 1.741770 GCGATTGCCCGACAAGTCT 60.742 57.895 0.00 0.00 42.87 3.24
1888 2284 2.387445 CGAAGCGATTGCCCGACAA 61.387 57.895 10.79 0.00 44.31 3.18
2049 2445 2.531942 GGGACCTTGACCCACCCT 60.532 66.667 0.00 0.00 46.05 4.34
2399 2795 1.337118 TGGAGTCAAATTTGGTGGCC 58.663 50.000 17.90 13.85 0.00 5.36
2415 2824 5.559770 TCACTAACAAGCAATCTGAATGGA 58.440 37.500 0.00 0.00 0.00 3.41
2417 2826 6.906659 ACTTCACTAACAAGCAATCTGAATG 58.093 36.000 0.00 0.00 0.00 2.67
2555 2965 5.881923 ATTTGCGGTTAAGGACTCCTATA 57.118 39.130 0.00 0.00 31.13 1.31
2556 2966 4.772886 ATTTGCGGTTAAGGACTCCTAT 57.227 40.909 0.00 0.00 31.13 2.57
2567 2977 2.156098 GAGACCCACAATTTGCGGTTA 58.844 47.619 9.46 0.00 31.06 2.85
2618 3028 4.704965 AGCGTATCCTAGAAAATGAACCC 58.295 43.478 0.00 0.00 0.00 4.11
2718 3128 4.502016 TCTGTTTGATCAGCTTGCTAGAG 58.498 43.478 0.00 0.00 35.63 2.43
2798 3283 7.484035 AACTGAGTTTATATTTGCTCGATCC 57.516 36.000 0.00 0.00 0.00 3.36
2834 3324 2.808906 AATGACCCCTAACCTTCAGC 57.191 50.000 0.00 0.00 0.00 4.26
2840 3330 8.528044 TGTATCAATTAAAATGACCCCTAACC 57.472 34.615 0.00 0.00 0.00 2.85
2841 3331 9.185680 ACTGTATCAATTAAAATGACCCCTAAC 57.814 33.333 0.00 0.00 0.00 2.34
2989 3479 3.620966 GCAGATTAGAAAGCTCCACTGGT 60.621 47.826 0.00 0.00 0.00 4.00
3070 3560 4.158949 TCAGGGATATTGTCGAAGAAACGA 59.841 41.667 0.00 0.00 39.69 3.85
3091 3581 6.183360 CGGAATTGTCTGATAGGAAGTAGTCA 60.183 42.308 0.00 0.00 30.94 3.41
3448 3938 0.538057 TGAACTCTGGGCTGCCTTTG 60.538 55.000 19.68 9.04 0.00 2.77
3496 3986 2.164865 CTCGCCCAAGCTCACAGTCT 62.165 60.000 0.00 0.00 36.60 3.24
3583 4073 2.965831 AGACTTCACCAAGCTAGACACA 59.034 45.455 0.00 0.00 32.09 3.72
3625 4115 2.185004 TCTTGCTAAGCACCTTCACC 57.815 50.000 0.00 0.00 38.71 4.02
3658 4148 4.623932 AAAGCCTCTCAGTGTGACAATA 57.376 40.909 0.00 0.00 0.00 1.90
3763 4253 3.262915 CCATCCAGGAAAGAGTGTTCTCT 59.737 47.826 0.00 0.00 46.18 3.10
3907 4397 2.359900 CTTGCAAGACCATAGTCACCC 58.640 52.381 22.31 0.00 46.15 4.61
4006 4496 1.461127 GTGATCTTCACCGTCTTGCAC 59.539 52.381 0.00 0.00 41.37 4.57
4090 4580 4.038763 ACGTCATCTTCCAAGTACTCAACA 59.961 41.667 0.00 0.00 0.00 3.33
4207 4697 1.427809 TGATGATCGGAATGGCCTCT 58.572 50.000 3.32 0.00 0.00 3.69
4246 4736 4.287781 TTCGACGGCACCTGCGAA 62.288 61.111 8.72 8.72 43.26 4.70
4370 4865 5.454966 AGAGAAACAAAAACCCAGGTACAT 58.545 37.500 0.00 0.00 0.00 2.29
4466 4961 5.597806 TCACAACCAAACTACAGACTACAG 58.402 41.667 0.00 0.00 0.00 2.74
4473 4968 7.651704 CCCTAAAATTTCACAACCAAACTACAG 59.348 37.037 0.00 0.00 0.00 2.74
4486 4981 2.353307 CGCCAACCCCCTAAAATTTCAC 60.353 50.000 0.00 0.00 0.00 3.18
4579 5075 1.077787 CCTCTGCGGCAATACCCAA 60.078 57.895 3.44 0.00 33.26 4.12
4593 5089 3.011517 AGATGCCGGCCAACCTCT 61.012 61.111 26.77 14.78 0.00 3.69
4736 5242 3.120060 GCAGCATCAGACCAGTAACAAAG 60.120 47.826 0.00 0.00 0.00 2.77
4792 5298 8.796475 ACATTTTGCTGTTAGTGAATAGTGAAT 58.204 29.630 0.00 0.00 0.00 2.57
4793 5299 8.165239 ACATTTTGCTGTTAGTGAATAGTGAA 57.835 30.769 0.00 0.00 0.00 3.18
4794 5300 7.744087 ACATTTTGCTGTTAGTGAATAGTGA 57.256 32.000 0.00 0.00 0.00 3.41
4795 5301 8.075574 TGAACATTTTGCTGTTAGTGAATAGTG 58.924 33.333 0.00 0.00 39.40 2.74
4796 5302 8.165239 TGAACATTTTGCTGTTAGTGAATAGT 57.835 30.769 0.00 0.00 39.40 2.12
4986 5505 4.135153 CCCGGACAGTCGAGGCTG 62.135 72.222 0.73 2.81 41.92 4.85
4990 5509 2.439701 TAGGCCCGGACAGTCGAG 60.440 66.667 0.73 0.00 0.00 4.04
4991 5510 2.439701 CTAGGCCCGGACAGTCGA 60.440 66.667 0.73 0.00 0.00 4.20
4993 5512 2.893398 CACTAGGCCCGGACAGTC 59.107 66.667 0.73 0.00 0.00 3.51
4994 5513 3.391382 GCACTAGGCCCGGACAGT 61.391 66.667 0.73 0.00 36.11 3.55
5006 5541 0.324943 GGAAGCTTCACAGGGCACTA 59.675 55.000 27.02 0.00 0.00 2.74
5033 5568 2.645567 CAGTCACTGCCGAGACGT 59.354 61.111 0.00 0.00 39.67 4.34
5093 5628 1.073763 TCAATTCCTCTGGTGGTGGTG 59.926 52.381 0.00 0.00 0.00 4.17
5094 5629 1.444933 TCAATTCCTCTGGTGGTGGT 58.555 50.000 0.00 0.00 0.00 4.16
5097 5632 2.571653 TCGATTCAATTCCTCTGGTGGT 59.428 45.455 0.00 0.00 0.00 4.16


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

AutoCloner maintained by Alex Coulton.