Multiple sequence alignment - TraesCS2D01G131300

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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 TraesCS2D01G131300 chr2D 100.000 2627 0 0 1 2627 76651218 76653844 0.000000e+00 4852
1 TraesCS2D01G131300 chr2D 82.131 582 67 25 2035 2607 74527174 74527727 5.120000e-127 464
2 TraesCS2D01G131300 chr2D 81.250 576 71 24 2035 2607 634168033 634167492 5.190000e-117 431
3 TraesCS2D01G131300 chr2B 91.057 2650 146 40 1 2627 117930715 117933296 0.000000e+00 3496
4 TraesCS2D01G131300 chr2A 91.836 1727 72 32 936 2627 77194803 77196495 0.000000e+00 2344
5 TraesCS2D01G131300 chr2A 88.249 434 34 12 1 418 77193536 77193968 1.090000e-138 503
6 TraesCS2D01G131300 chr2A 87.255 408 15 19 475 874 77194128 77194506 5.190000e-117 431
7 TraesCS2D01G131300 chr2A 81.871 342 33 18 2269 2607 766085681 766085996 7.210000e-66 261
8 TraesCS2D01G131300 chr4A 83.925 535 73 8 1082 1608 279472391 279471862 1.400000e-137 499
9 TraesCS2D01G131300 chr6A 86.328 256 31 3 2374 2627 5278036 5277783 2.580000e-70 276
10 TraesCS2D01G131300 chr6A 85.199 277 14 9 2111 2374 5278393 5278131 2.590000e-65 259


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 TraesCS2D01G131300 chr2D 76651218 76653844 2626 False 4852.000000 4852 100.000000 1 2627 1 chr2D.!!$F2 2626
1 TraesCS2D01G131300 chr2D 74527174 74527727 553 False 464.000000 464 82.131000 2035 2607 1 chr2D.!!$F1 572
2 TraesCS2D01G131300 chr2D 634167492 634168033 541 True 431.000000 431 81.250000 2035 2607 1 chr2D.!!$R1 572
3 TraesCS2D01G131300 chr2B 117930715 117933296 2581 False 3496.000000 3496 91.057000 1 2627 1 chr2B.!!$F1 2626
4 TraesCS2D01G131300 chr2A 77193536 77196495 2959 False 1092.666667 2344 89.113333 1 2627 3 chr2A.!!$F2 2626
5 TraesCS2D01G131300 chr4A 279471862 279472391 529 True 499.000000 499 83.925000 1082 1608 1 chr4A.!!$R1 526
6 TraesCS2D01G131300 chr6A 5277783 5278393 610 True 267.500000 276 85.763500 2111 2627 2 chr6A.!!$R1 516

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
596 746 0.250338 AACTGGAAACGCCCTCTGTC 60.25 55.0 0.0 0.0 34.97 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1695 2101 0.038618 AAGAAACCGAAAATGCGCCC 60.039 50.0 4.18 0.0 0.0 6.13 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
41 43 8.991243 ATTCACCACAATGTCAAATCTAAATG 57.009 30.769 0.00 0.00 0.00 2.32
42 44 6.923012 TCACCACAATGTCAAATCTAAATGG 58.077 36.000 0.00 0.00 0.00 3.16
52 54 8.196802 TGTCAAATCTAAATGGACTATTCACG 57.803 34.615 0.00 0.00 0.00 4.35
65 67 6.127563 TGGACTATTCACGTAATGTAAGAGCA 60.128 38.462 0.00 0.00 0.00 4.26
138 144 4.525487 ACGCTTTCATATTATAGGTCGGGA 59.475 41.667 0.00 0.00 0.00 5.14
140 146 5.929992 CGCTTTCATATTATAGGTCGGGAAA 59.070 40.000 0.00 0.00 0.00 3.13
172 178 2.042464 TGTCCATGCTCTGTCCCTATC 58.958 52.381 0.00 0.00 0.00 2.08
215 221 2.158608 CCCAGTCAAAACCTCCTGAACT 60.159 50.000 0.00 0.00 0.00 3.01
216 222 2.880890 CCAGTCAAAACCTCCTGAACTG 59.119 50.000 0.00 0.00 0.00 3.16
220 226 4.640647 AGTCAAAACCTCCTGAACTGAAAC 59.359 41.667 0.00 0.00 0.00 2.78
223 229 3.553828 AACCTCCTGAACTGAAACGAA 57.446 42.857 0.00 0.00 0.00 3.85
335 341 1.216710 GACAGGCTCTCGTTGAGGG 59.783 63.158 9.45 0.00 42.87 4.30
367 374 4.461431 ACAAACGTTCAAGAACCTTCCTTT 59.539 37.500 0.00 0.00 38.03 3.11
372 379 4.207955 GTTCAAGAACCTTCCTTTCCAGT 58.792 43.478 1.51 0.00 35.36 4.00
380 387 3.517500 ACCTTCCTTTCCAGTTGCAAAAA 59.482 39.130 0.00 0.00 0.00 1.94
381 388 4.164030 ACCTTCCTTTCCAGTTGCAAAAAT 59.836 37.500 0.00 0.00 0.00 1.82
418 435 1.003851 CGGTAATAACTGCCACACCG 58.996 55.000 0.00 0.00 42.41 4.94
419 436 1.375551 GGTAATAACTGCCACACCGG 58.624 55.000 0.00 0.00 38.11 5.28
420 437 1.375551 GTAATAACTGCCACACCGGG 58.624 55.000 6.32 0.00 34.06 5.73
421 438 1.065998 GTAATAACTGCCACACCGGGA 60.066 52.381 6.32 0.00 34.06 5.14
422 439 0.322187 AATAACTGCCACACCGGGAC 60.322 55.000 6.32 0.00 34.06 4.46
423 440 1.485294 ATAACTGCCACACCGGGACA 61.485 55.000 6.32 0.00 34.06 4.02
424 441 1.697082 TAACTGCCACACCGGGACAA 61.697 55.000 6.32 0.00 34.06 3.18
425 442 2.203280 CTGCCACACCGGGACAAA 60.203 61.111 6.32 0.00 34.06 2.83
426 443 1.603455 CTGCCACACCGGGACAAAT 60.603 57.895 6.32 0.00 34.06 2.32
427 444 0.322098 CTGCCACACCGGGACAAATA 60.322 55.000 6.32 0.00 34.06 1.40
428 445 0.606944 TGCCACACCGGGACAAATAC 60.607 55.000 6.32 0.00 34.06 1.89
429 446 0.322187 GCCACACCGGGACAAATACT 60.322 55.000 6.32 0.00 34.06 2.12
430 447 1.065998 GCCACACCGGGACAAATACTA 60.066 52.381 6.32 0.00 34.06 1.82
431 448 2.901249 CCACACCGGGACAAATACTAG 58.099 52.381 6.32 0.00 0.00 2.57
432 449 2.277084 CACACCGGGACAAATACTAGC 58.723 52.381 6.32 0.00 0.00 3.42
433 450 1.208776 ACACCGGGACAAATACTAGCC 59.791 52.381 6.32 0.00 0.00 3.93
434 451 1.208535 CACCGGGACAAATACTAGCCA 59.791 52.381 6.32 0.00 0.00 4.75
435 452 1.485066 ACCGGGACAAATACTAGCCAG 59.515 52.381 6.32 0.00 0.00 4.85
436 453 1.583054 CGGGACAAATACTAGCCAGC 58.417 55.000 0.00 0.00 0.00 4.85
437 454 1.810412 CGGGACAAATACTAGCCAGCC 60.810 57.143 0.00 0.00 0.00 4.85
438 455 1.211949 GGGACAAATACTAGCCAGCCA 59.788 52.381 0.00 0.00 0.00 4.75
439 456 2.565841 GGACAAATACTAGCCAGCCAG 58.434 52.381 0.00 0.00 0.00 4.85
494 635 5.344884 GCAAGTAGCAACCACAAAAACTAA 58.655 37.500 0.00 0.00 44.79 2.24
495 636 5.983118 GCAAGTAGCAACCACAAAAACTAAT 59.017 36.000 0.00 0.00 44.79 1.73
496 637 6.074356 GCAAGTAGCAACCACAAAAACTAATG 60.074 38.462 0.00 0.00 44.79 1.90
557 699 6.797995 AGAAATGCGCAAAAATGCTTATTTTG 59.202 30.769 17.11 14.00 45.87 2.44
562 704 5.390779 GCGCAAAAATGCTTATTTTGGTCAT 60.391 36.000 0.30 0.00 44.20 3.06
593 743 1.073199 CCAACTGGAAACGCCCTCT 59.927 57.895 0.00 0.00 37.39 3.69
596 746 0.250338 AACTGGAAACGCCCTCTGTC 60.250 55.000 0.00 0.00 34.97 3.51
618 768 6.321181 TGTCTCTCAATTAGTTGCTGGTTTTT 59.679 34.615 0.00 0.00 35.26 1.94
619 769 6.858478 GTCTCTCAATTAGTTGCTGGTTTTTC 59.142 38.462 0.00 0.00 35.26 2.29
621 771 6.738114 TCTCAATTAGTTGCTGGTTTTTCTG 58.262 36.000 0.00 0.00 35.26 3.02
622 772 5.288804 TCAATTAGTTGCTGGTTTTTCTGC 58.711 37.500 0.00 0.00 35.26 4.26
685 835 5.957842 TCGCAAGATTTAGTTGGTGAATT 57.042 34.783 0.00 0.00 45.01 2.17
686 836 5.938322 TCGCAAGATTTAGTTGGTGAATTC 58.062 37.500 0.00 0.00 45.01 2.17
711 861 3.119495 AGCTGAGTTGTTTTTGACACACC 60.119 43.478 0.00 0.00 38.18 4.16
719 869 2.064434 TTTTGACACACCCAGCATCA 57.936 45.000 0.00 0.00 0.00 3.07
720 870 2.064434 TTTGACACACCCAGCATCAA 57.936 45.000 0.00 0.00 0.00 2.57
721 871 1.608055 TTGACACACCCAGCATCAAG 58.392 50.000 0.00 0.00 0.00 3.02
894 1050 4.287326 TCTTTCTTTCTCCCCTTTCCTCTC 59.713 45.833 0.00 0.00 0.00 3.20
943 1334 1.300697 GAGGTAACCGCCATAGCCG 60.301 63.158 0.00 0.00 34.57 5.52
967 1358 1.203287 GGAATCAAGAACCTTGCCTGC 59.797 52.381 2.04 0.00 0.00 4.85
1630 2036 1.202330 CAACTGCTCCTCCTGATCCT 58.798 55.000 0.00 0.00 0.00 3.24
1636 2042 1.075226 TCCTCCTGATCCTTCCCCG 60.075 63.158 0.00 0.00 0.00 5.73
1637 2043 2.812619 CCTCCTGATCCTTCCCCGC 61.813 68.421 0.00 0.00 0.00 6.13
1638 2044 2.768344 TCCTGATCCTTCCCCGCC 60.768 66.667 0.00 0.00 0.00 6.13
1639 2045 4.241555 CCTGATCCTTCCCCGCCG 62.242 72.222 0.00 0.00 0.00 6.46
1695 2101 2.354510 GTCGTCAGTCAGATCAGAGAGG 59.645 54.545 0.00 0.00 0.00 3.69
1717 2128 1.696988 CGCATTTTCGGTTTCTTGGG 58.303 50.000 0.00 0.00 0.00 4.12
1718 2129 1.268352 CGCATTTTCGGTTTCTTGGGA 59.732 47.619 0.00 0.00 0.00 4.37
1719 2130 2.668279 CGCATTTTCGGTTTCTTGGGAG 60.668 50.000 0.00 0.00 0.00 4.30
1721 2132 3.243737 GCATTTTCGGTTTCTTGGGAGTT 60.244 43.478 0.00 0.00 0.00 3.01
1722 2133 4.546570 CATTTTCGGTTTCTTGGGAGTTC 58.453 43.478 0.00 0.00 0.00 3.01
1723 2134 3.570912 TTTCGGTTTCTTGGGAGTTCT 57.429 42.857 0.00 0.00 0.00 3.01
1724 2135 3.570912 TTCGGTTTCTTGGGAGTTCTT 57.429 42.857 0.00 0.00 0.00 2.52
1725 2136 2.846193 TCGGTTTCTTGGGAGTTCTTG 58.154 47.619 0.00 0.00 0.00 3.02
1726 2137 2.436542 TCGGTTTCTTGGGAGTTCTTGA 59.563 45.455 0.00 0.00 0.00 3.02
1727 2138 2.548480 CGGTTTCTTGGGAGTTCTTGAC 59.452 50.000 0.00 0.00 0.00 3.18
1728 2139 3.744530 CGGTTTCTTGGGAGTTCTTGACT 60.745 47.826 0.00 0.00 42.70 3.41
1729 2140 4.207955 GGTTTCTTGGGAGTTCTTGACTT 58.792 43.478 0.00 0.00 39.19 3.01
1730 2141 5.374071 GGTTTCTTGGGAGTTCTTGACTTA 58.626 41.667 0.00 0.00 39.19 2.24
1825 2252 2.863809 ACGAATTGTTCTTGGCTCCTT 58.136 42.857 0.00 0.00 0.00 3.36
1860 2295 2.361104 CCCGGTGGTGGTGATTGG 60.361 66.667 0.00 0.00 0.00 3.16
1900 2335 6.905076 CGGTGCTTGTATATGTGTGTAAAATC 59.095 38.462 0.00 0.00 0.00 2.17
1910 2345 2.076100 TGTGTAAAATCTGGCGCTGAG 58.924 47.619 7.64 3.70 0.00 3.35
1924 2359 2.141517 CGCTGAGATTAGCCTGATTGG 58.858 52.381 0.00 0.00 40.59 3.16
1963 2398 8.485976 AAGAACTGATGTAAATACTTGAGCTC 57.514 34.615 6.82 6.82 0.00 4.09
2032 2468 6.312141 TGGTCAAATCTCTTCATGGATGTA 57.688 37.500 0.00 0.00 0.00 2.29
2033 2469 6.115446 TGGTCAAATCTCTTCATGGATGTAC 58.885 40.000 0.00 0.00 0.00 2.90
2045 2481 5.902681 TCATGGATGTACTACAGTAGCAAC 58.097 41.667 7.57 7.06 0.00 4.17
2187 2636 4.095036 GCTGTGTTCTAAATTAGAGCCACC 59.905 45.833 21.48 10.94 37.53 4.61
2192 2641 6.655425 GTGTTCTAAATTAGAGCCACCTCTTT 59.345 38.462 17.12 0.00 46.16 2.52
2214 2670 7.652909 TCTTTTGTTCTTTAATCATGCAAGGTG 59.347 33.333 0.00 0.00 0.00 4.00
2219 2675 6.258230 TCTTTAATCATGCAAGGTGAGTTG 57.742 37.500 0.00 0.00 0.00 3.16
2234 2694 6.370453 AGGTGAGTTGGGTATTTAACAAGTT 58.630 36.000 0.00 0.00 0.00 2.66
2300 2764 9.234827 TGATCTCTTTATCTTTCATTGCTTTGA 57.765 29.630 0.00 0.00 0.00 2.69
2348 2812 5.705902 TTGATTTCTTCATGCACAGATGTG 58.294 37.500 8.62 8.62 40.55 3.21
2349 2813 5.242171 TTGATTTCTTCATGCACAGATGTGT 59.758 36.000 14.08 0.00 40.11 3.72
2350 2814 6.569035 TTGATTTCTTCATGCACAGATGTGTC 60.569 38.462 14.08 7.46 40.11 3.67
2351 2815 8.864515 TTGATTTCTTCATGCACAGATGTGTCA 61.865 37.037 14.08 12.28 40.11 3.58
2361 2830 3.376234 CACAGATGTGTCATTCCATGGAC 59.624 47.826 15.91 3.84 40.96 4.02
2472 3040 5.523188 TCATGTTGCATTCAAGTTGTTTTCC 59.477 36.000 2.11 0.00 31.93 3.13
2489 3057 0.968405 TCCAAAATTGCAGCCACCTC 59.032 50.000 0.00 0.00 0.00 3.85
2497 3065 1.064003 TGCAGCCACCTCCTTCTTTA 58.936 50.000 0.00 0.00 0.00 1.85
2533 3101 3.270877 GAGGTAATGTGACCATGGTGAC 58.729 50.000 25.78 25.78 42.47 3.67
2554 3122 6.206634 GTGACCAATTCATCCACAAGAACTTA 59.793 38.462 0.00 0.00 36.32 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 43 6.270815 TGCTCTTACATTACGTGAATAGTCC 58.729 40.000 0.00 0.00 0.00 3.85
42 44 7.932120 ATGCTCTTACATTACGTGAATAGTC 57.068 36.000 0.00 0.00 0.00 2.59
106 111 9.950680 CCTATAATATGAAAGCGTTTTTGACAT 57.049 29.630 0.00 0.99 0.00 3.06
138 144 7.443575 CAGAGCATGGACAATTAGCTACTATTT 59.556 37.037 0.00 0.00 35.36 1.40
140 146 6.042552 ACAGAGCATGGACAATTAGCTACTAT 59.957 38.462 0.00 0.00 35.36 2.12
172 178 2.160417 GCAGATCGTTTTGGAGGACTTG 59.840 50.000 0.00 0.00 0.00 3.16
215 221 0.387929 ACGGCTCTCTGTTCGTTTCA 59.612 50.000 0.00 0.00 31.38 2.69
216 222 0.784778 CACGGCTCTCTGTTCGTTTC 59.215 55.000 0.00 0.00 33.31 2.78
220 226 2.375766 GCACACGGCTCTCTGTTCG 61.376 63.158 0.00 0.00 40.25 3.95
335 341 0.247894 TGAACGTTTGTTGTGCTCGC 60.248 50.000 0.46 0.00 38.78 5.03
367 374 4.441356 GGACTTGTGATTTTTGCAACTGGA 60.441 41.667 0.00 0.00 0.00 3.86
372 379 5.055812 GGAATGGACTTGTGATTTTTGCAA 58.944 37.500 0.00 0.00 0.00 4.08
380 387 1.340017 CGGTGGGAATGGACTTGTGAT 60.340 52.381 0.00 0.00 0.00 3.06
381 388 0.036164 CGGTGGGAATGGACTTGTGA 59.964 55.000 0.00 0.00 0.00 3.58
418 435 1.211949 TGGCTGGCTAGTATTTGTCCC 59.788 52.381 2.00 0.00 0.00 4.46
419 436 2.170607 TCTGGCTGGCTAGTATTTGTCC 59.829 50.000 2.00 0.00 0.00 4.02
420 437 3.462021 CTCTGGCTGGCTAGTATTTGTC 58.538 50.000 2.00 0.00 0.00 3.18
421 438 2.420687 GCTCTGGCTGGCTAGTATTTGT 60.421 50.000 2.00 0.00 35.22 2.83
422 439 2.216898 GCTCTGGCTGGCTAGTATTTG 58.783 52.381 2.00 0.00 35.22 2.32
423 440 2.629336 GCTCTGGCTGGCTAGTATTT 57.371 50.000 2.00 0.00 35.22 1.40
435 452 1.143620 CTGAGTGGCTAGCTCTGGC 59.856 63.158 15.72 0.00 36.25 4.85
436 453 0.459489 GACTGAGTGGCTAGCTCTGG 59.541 60.000 15.72 10.43 36.60 3.86
437 454 1.473258 AGACTGAGTGGCTAGCTCTG 58.527 55.000 15.72 10.83 37.74 3.35
438 455 2.241176 AGTAGACTGAGTGGCTAGCTCT 59.759 50.000 15.72 13.25 36.86 4.09
439 456 2.616842 GAGTAGACTGAGTGGCTAGCTC 59.383 54.545 15.72 5.01 36.86 4.09
494 635 9.382275 GGAAGCATTTTATGTTTATTTGGTCAT 57.618 29.630 0.00 0.00 33.70 3.06
495 636 8.370940 TGGAAGCATTTTATGTTTATTTGGTCA 58.629 29.630 0.00 0.00 33.70 4.02
496 637 8.770438 TGGAAGCATTTTATGTTTATTTGGTC 57.230 30.769 0.00 0.00 33.70 4.02
536 677 4.455190 ACCAAAATAAGCATTTTTGCGCAT 59.545 33.333 12.75 0.00 41.41 4.73
537 678 3.812053 ACCAAAATAAGCATTTTTGCGCA 59.188 34.783 5.66 5.66 41.41 6.09
540 681 6.242829 CGATGACCAAAATAAGCATTTTTGC 58.757 36.000 11.22 0.00 41.41 3.68
557 699 4.778143 AACCAGCGGGCGATGACC 62.778 66.667 1.46 0.00 37.90 4.02
588 738 4.081198 AGCAACTAATTGAGAGACAGAGGG 60.081 45.833 0.00 0.00 38.15 4.30
593 743 4.623932 ACCAGCAACTAATTGAGAGACA 57.376 40.909 0.00 0.00 38.15 3.41
596 746 6.860023 CAGAAAAACCAGCAACTAATTGAGAG 59.140 38.462 0.00 0.00 38.15 3.20
618 768 7.315142 CCAATTTAGCAACTAATTTCTGCAGA 58.685 34.615 13.74 13.74 38.58 4.26
619 769 6.035327 GCCAATTTAGCAACTAATTTCTGCAG 59.965 38.462 7.63 7.63 38.58 4.41
621 771 6.035327 CAGCCAATTTAGCAACTAATTTCTGC 59.965 38.462 0.37 0.00 36.29 4.26
622 772 7.062605 CACAGCCAATTTAGCAACTAATTTCTG 59.937 37.037 0.37 0.00 0.00 3.02
676 826 3.678056 ACTCAGCTACGAATTCACCAA 57.322 42.857 6.22 0.00 0.00 3.67
685 835 4.033587 GTGTCAAAAACAACTCAGCTACGA 59.966 41.667 0.00 0.00 40.31 3.43
686 836 4.201773 TGTGTCAAAAACAACTCAGCTACG 60.202 41.667 0.00 0.00 40.31 3.51
711 861 1.836166 TCCTCCTCTTCTTGATGCTGG 59.164 52.381 0.00 0.00 0.00 4.85
719 869 3.977326 ACTTTGGTTCTCCTCCTCTTCTT 59.023 43.478 0.00 0.00 34.23 2.52
720 870 3.592865 ACTTTGGTTCTCCTCCTCTTCT 58.407 45.455 0.00 0.00 34.23 2.85
721 871 5.485209 TTACTTTGGTTCTCCTCCTCTTC 57.515 43.478 0.00 0.00 34.23 2.87
797 953 2.028203 GGGTTTACTTAGTGGTGGCGTA 60.028 50.000 0.00 0.00 0.00 4.42
798 954 1.271001 GGGTTTACTTAGTGGTGGCGT 60.271 52.381 0.00 0.00 0.00 5.68
943 1334 1.131315 GCAAGGTTCTTGATTCCTCGC 59.869 52.381 11.35 0.00 0.00 5.03
967 1358 4.778415 CTCAGGGACGACGTGCGG 62.778 72.222 13.52 8.31 46.49 5.69
1630 2036 0.106918 ATTCAATTAGCGGCGGGGAA 60.107 50.000 9.78 0.00 0.00 3.97
1636 2042 1.338020 CCCTTGGATTCAATTAGCGGC 59.662 52.381 0.00 0.00 31.75 6.53
1637 2043 2.654863 ACCCTTGGATTCAATTAGCGG 58.345 47.619 0.00 0.00 31.75 5.52
1638 2044 5.123227 TCTAACCCTTGGATTCAATTAGCG 58.877 41.667 1.98 0.00 29.65 4.26
1639 2045 6.122964 ACTCTAACCCTTGGATTCAATTAGC 58.877 40.000 1.98 0.00 29.65 3.09
1695 2101 0.038618 AAGAAACCGAAAATGCGCCC 60.039 50.000 4.18 0.00 0.00 6.13
1854 2289 4.129380 CGGCTCTTATTCATCACCAATCA 58.871 43.478 0.00 0.00 0.00 2.57
1860 2295 1.599542 GCACCGGCTCTTATTCATCAC 59.400 52.381 0.00 0.00 36.96 3.06
1900 2335 0.879400 CAGGCTAATCTCAGCGCCAG 60.879 60.000 2.29 0.00 44.85 4.85
1910 2345 6.699575 ACACATTAACCAATCAGGCTAATC 57.300 37.500 0.00 0.00 36.69 1.75
1924 2359 7.793902 ACATCAGTTCTTCGTTACACATTAAC 58.206 34.615 0.00 0.00 0.00 2.01
2032 2468 3.317149 TCGAACTGTGTTGCTACTGTAGT 59.683 43.478 15.71 0.00 33.21 2.73
2033 2469 3.897325 TCGAACTGTGTTGCTACTGTAG 58.103 45.455 10.48 10.48 33.21 2.74
2045 2481 4.998788 TCTTGATGAGGTATCGAACTGTG 58.001 43.478 0.00 0.00 38.71 3.66
2187 2636 7.869429 ACCTTGCATGATTAAAGAACAAAAGAG 59.131 33.333 0.00 0.00 0.00 2.85
2192 2641 6.265196 ACTCACCTTGCATGATTAAAGAACAA 59.735 34.615 0.00 0.00 0.00 2.83
2214 2670 7.381408 GCTCAAAACTTGTTAAATACCCAACTC 59.619 37.037 0.00 0.00 0.00 3.01
2219 2675 6.156519 CAGGCTCAAAACTTGTTAAATACCC 58.843 40.000 0.00 0.00 0.00 3.69
2234 2694 3.756082 ATTAATCACCCCAGGCTCAAA 57.244 42.857 0.00 0.00 0.00 2.69
2290 2751 9.841880 CTTATAAGATGGATCATCAAAGCAATG 57.158 33.333 6.64 0.00 42.72 2.82
2300 2764 7.540474 ACCGTGTACTTATAAGATGGATCAT 57.460 36.000 19.38 0.00 0.00 2.45
2301 2765 6.971726 ACCGTGTACTTATAAGATGGATCA 57.028 37.500 19.38 5.89 0.00 2.92
2302 2766 7.924412 TCAAACCGTGTACTTATAAGATGGATC 59.076 37.037 19.38 3.91 0.00 3.36
2350 2814 8.085909 TGTATATAACTGTACGTCCATGGAATG 58.914 37.037 18.20 14.84 46.21 2.67
2351 2815 8.185506 TGTATATAACTGTACGTCCATGGAAT 57.814 34.615 18.20 10.66 0.00 3.01
2352 2816 7.585579 TGTATATAACTGTACGTCCATGGAA 57.414 36.000 18.20 0.00 0.00 3.53
2353 2817 7.668469 AGATGTATATAACTGTACGTCCATGGA 59.332 37.037 11.44 11.44 36.28 3.41
2354 2818 7.827701 AGATGTATATAACTGTACGTCCATGG 58.172 38.462 4.97 4.97 36.28 3.66
2472 3040 0.971386 AGGAGGTGGCTGCAATTTTG 59.029 50.000 0.50 0.00 0.00 2.44
2489 3057 8.443937 CCTCAACGAATCTTAAAGTAAAGAAGG 58.556 37.037 0.00 0.00 38.90 3.46
2497 3065 7.876068 TCACATTACCTCAACGAATCTTAAAGT 59.124 33.333 0.00 0.00 0.00 2.66
2533 3101 7.395190 TCATAAGTTCTTGTGGATGAATTGG 57.605 36.000 8.87 0.00 0.00 3.16
2584 3153 8.256611 TCTAGCTACATCAATCACAAGTTTTC 57.743 34.615 0.00 0.00 0.00 2.29
2592 3161 5.751028 GTGGACTTCTAGCTACATCAATCAC 59.249 44.000 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.