Multiple sequence alignment - TraesCS2A01G018600

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 TraesCS2A01G018600 chr2A 100.000 3491 0 0 1 3491 8726312 8729802 0.000000e+00 6447.0
1 TraesCS2A01G018600 chr2A 80.040 1979 313 50 599 2533 9394707 9396647 0.000000e+00 1391.0
2 TraesCS2A01G018600 chr2A 79.990 1979 314 50 599 2533 9847184 9849124 0.000000e+00 1386.0
3 TraesCS2A01G018600 chr2A 80.897 1628 256 30 913 2517 7727305 7728900 0.000000e+00 1232.0
4 TraesCS2A01G018600 chr2A 80.745 1584 247 33 983 2547 8627407 8628951 0.000000e+00 1182.0
5 TraesCS2A01G018600 chr2D 93.545 2773 107 28 4 2715 9641948 9644709 0.000000e+00 4063.0
6 TraesCS2A01G018600 chr2D 82.157 1558 230 26 984 2531 8670673 8672192 0.000000e+00 1293.0
7 TraesCS2A01G018600 chr2D 81.907 1542 241 17 912 2434 8659700 8661222 0.000000e+00 1267.0
8 TraesCS2A01G018600 chr2D 78.900 1981 331 50 599 2533 9880180 9878241 0.000000e+00 1262.0
9 TraesCS2A01G018600 chr2D 80.519 1581 253 32 985 2547 9371499 9373042 0.000000e+00 1162.0
10 TraesCS2A01G018600 chr2D 97.395 499 12 1 2787 3285 9644729 9645226 0.000000e+00 848.0
11 TraesCS2A01G018600 chr2D 78.627 772 130 19 911 1662 8791580 8790824 2.440000e-131 479.0
12 TraesCS2A01G018600 chr2D 99.405 168 1 0 3324 3491 9645224 9645391 4.380000e-79 305.0
13 TraesCS2A01G018600 chr2B 89.796 2499 178 25 279 2715 11454978 11452495 0.000000e+00 3131.0
14 TraesCS2A01G018600 chr2B 94.183 1891 84 9 849 2715 12966279 12968167 0.000000e+00 2859.0
15 TraesCS2A01G018600 chr2B 81.186 1552 246 29 998 2533 768807004 768805483 0.000000e+00 1206.0
16 TraesCS2A01G018600 chr2B 80.774 1550 255 27 998 2533 768929424 768927904 0.000000e+00 1171.0
17 TraesCS2A01G018600 chr2B 80.564 1559 241 36 998 2530 12422311 12423833 0.000000e+00 1144.0
18 TraesCS2A01G018600 chr2B 86.203 790 51 20 2733 3491 12968150 12968912 0.000000e+00 802.0
19 TraesCS2A01G018600 chr2B 83.191 702 54 30 2733 3405 11452512 11451846 5.020000e-163 584.0
20 TraesCS2A01G018600 chr2B 78.667 225 32 7 904 1125 4759867 4759656 6.080000e-28 135.0
21 TraesCS2A01G018600 chr2B 93.846 65 4 0 3426 3490 11451848 11451784 7.970000e-17 99.0
22 TraesCS2A01G018600 chr2B 89.474 57 2 2 2450 2503 11221863 11221808 6.250000e-08 69.4
23 TraesCS2A01G018600 chr3D 79.275 772 125 17 911 1662 563994099 563993343 1.120000e-139 507.0
24 TraesCS2A01G018600 chr5B 87.069 116 12 2 2444 2559 485909903 485909791 1.020000e-25 128.0


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 TraesCS2A01G018600 chr2A 8726312 8729802 3490 False 6447.000000 6447 100.000000 1 3491 1 chr2A.!!$F3 3490
1 TraesCS2A01G018600 chr2A 9394707 9396647 1940 False 1391.000000 1391 80.040000 599 2533 1 chr2A.!!$F4 1934
2 TraesCS2A01G018600 chr2A 9847184 9849124 1940 False 1386.000000 1386 79.990000 599 2533 1 chr2A.!!$F5 1934
3 TraesCS2A01G018600 chr2A 7727305 7728900 1595 False 1232.000000 1232 80.897000 913 2517 1 chr2A.!!$F1 1604
4 TraesCS2A01G018600 chr2A 8627407 8628951 1544 False 1182.000000 1182 80.745000 983 2547 1 chr2A.!!$F2 1564
5 TraesCS2A01G018600 chr2D 9641948 9645391 3443 False 1738.666667 4063 96.781667 4 3491 3 chr2D.!!$F4 3487
6 TraesCS2A01G018600 chr2D 8670673 8672192 1519 False 1293.000000 1293 82.157000 984 2531 1 chr2D.!!$F2 1547
7 TraesCS2A01G018600 chr2D 8659700 8661222 1522 False 1267.000000 1267 81.907000 912 2434 1 chr2D.!!$F1 1522
8 TraesCS2A01G018600 chr2D 9878241 9880180 1939 True 1262.000000 1262 78.900000 599 2533 1 chr2D.!!$R2 1934
9 TraesCS2A01G018600 chr2D 9371499 9373042 1543 False 1162.000000 1162 80.519000 985 2547 1 chr2D.!!$F3 1562
10 TraesCS2A01G018600 chr2D 8790824 8791580 756 True 479.000000 479 78.627000 911 1662 1 chr2D.!!$R1 751
11 TraesCS2A01G018600 chr2B 12966279 12968912 2633 False 1830.500000 2859 90.193000 849 3491 2 chr2B.!!$F2 2642
12 TraesCS2A01G018600 chr2B 11451784 11454978 3194 True 1271.333333 3131 88.944333 279 3490 3 chr2B.!!$R5 3211
13 TraesCS2A01G018600 chr2B 768805483 768807004 1521 True 1206.000000 1206 81.186000 998 2533 1 chr2B.!!$R3 1535
14 TraesCS2A01G018600 chr2B 768927904 768929424 1520 True 1171.000000 1171 80.774000 998 2533 1 chr2B.!!$R4 1535
15 TraesCS2A01G018600 chr2B 12422311 12423833 1522 False 1144.000000 1144 80.564000 998 2530 1 chr2B.!!$F1 1532
16 TraesCS2A01G018600 chr3D 563993343 563994099 756 True 507.000000 507 79.275000 911 1662 1 chr3D.!!$R1 751

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
60 61 0.324285 AGGTTGCAAGAGCTCTCTGG 59.676 55.000 18.55 11.02 40.36 3.86 F
555 574 1.499502 GAGTTGCGCTCTGCTTTCC 59.500 57.895 9.73 0.00 46.63 3.13 F
900 967 2.029918 GCCACCCTTGTCTGAATCAAAC 60.030 50.000 0.00 0.00 0.00 2.93 F
1143 1238 2.566279 TCTTCTGATGAGAGCTTGCACT 59.434 45.455 0.00 0.00 0.00 4.40 F
1982 2098 3.072468 CGGGAGCGTAGACCCCAA 61.072 66.667 0.00 0.00 41.25 4.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1271 1366 3.782244 CGTCGAAGCCTGCACTGC 61.782 66.667 0.00 0.00 0.00 4.40 R
2247 2366 0.034477 CATTAAGTGGCGGTTCCCCT 60.034 55.000 0.00 0.00 0.00 4.79 R
2434 2553 0.881796 GCACTACCTTCCAACTTGGC 59.118 55.000 2.52 0.00 37.47 4.52 R
2435 2554 1.534729 GGCACTACCTTCCAACTTGG 58.465 55.000 0.74 0.74 35.25 3.61 R
3321 3524 5.616270 TCAGCTGGATAAAAACAGTACACA 58.384 37.500 15.13 0.00 37.07 3.72 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
30 31 2.742053 TCACTTTTGCTAAGATGGACGC 59.258 45.455 6.22 0.00 0.00 5.19
54 55 0.475906 ACAAGGAGGTTGCAAGAGCT 59.524 50.000 0.00 0.00 40.15 4.09
60 61 0.324285 AGGTTGCAAGAGCTCTCTGG 59.676 55.000 18.55 11.02 40.36 3.86
186 187 6.372659 TCTCAGTCAGTAAATTTCAGAATGCC 59.627 38.462 0.00 0.00 34.76 4.40
213 214 4.154737 TGCTTTTGGTCATTTCTCTCATCG 59.845 41.667 0.00 0.00 0.00 3.84
252 253 4.798387 GCAAATATACAGGGCGACAAAAAG 59.202 41.667 0.00 0.00 0.00 2.27
254 255 6.258160 CAAATATACAGGGCGACAAAAAGAG 58.742 40.000 0.00 0.00 0.00 2.85
257 258 1.947456 ACAGGGCGACAAAAAGAGTTC 59.053 47.619 0.00 0.00 0.00 3.01
261 262 3.078837 GGGCGACAAAAAGAGTTCCATA 58.921 45.455 0.00 0.00 0.00 2.74
322 323 2.159254 CGCTATTTTGGGGGTCAACATG 60.159 50.000 0.00 0.00 34.67 3.21
419 421 1.623811 GCCTGAACCCTGTAGACTGAA 59.376 52.381 0.00 0.00 0.00 3.02
481 483 9.357652 GTTAAATACATGTTCACTGCATGATTT 57.642 29.630 2.30 2.45 44.60 2.17
484 486 5.717078 ACATGTTCACTGCATGATTTCTT 57.283 34.783 11.58 0.00 44.60 2.52
521 523 2.583024 TGCCATCATCACTGACCAAA 57.417 45.000 0.00 0.00 33.22 3.28
555 574 1.499502 GAGTTGCGCTCTGCTTTCC 59.500 57.895 9.73 0.00 46.63 3.13
750 774 3.648339 ACATGTTTCATGGACAGTTGC 57.352 42.857 13.15 0.00 0.00 4.17
751 775 2.030893 ACATGTTTCATGGACAGTTGCG 60.031 45.455 13.15 0.00 0.00 4.85
769 812 6.757010 CAGTTGCGGATATAACTGTAGAAAGT 59.243 38.462 7.62 0.00 45.33 2.66
770 813 7.277981 CAGTTGCGGATATAACTGTAGAAAGTT 59.722 37.037 7.62 0.00 45.33 2.66
778 821 9.668497 GATATAACTGTAGAAAGTTTCCAAGGT 57.332 33.333 12.05 8.46 40.77 3.50
780 823 6.694877 AACTGTAGAAAGTTTCCAAGGTTC 57.305 37.500 12.05 0.00 37.05 3.62
794 857 7.883391 TTCCAAGGTTCGGCAATAATTAATA 57.117 32.000 0.00 0.00 0.00 0.98
900 967 2.029918 GCCACCCTTGTCTGAATCAAAC 60.030 50.000 0.00 0.00 0.00 2.93
903 970 3.503748 CACCCTTGTCTGAATCAAACTCC 59.496 47.826 0.00 0.00 0.00 3.85
1143 1238 2.566279 TCTTCTGATGAGAGCTTGCACT 59.434 45.455 0.00 0.00 0.00 4.40
1709 1818 3.318839 TCTGTTTTGCACTTGAATGGAGG 59.681 43.478 0.00 0.00 0.00 4.30
1982 2098 3.072468 CGGGAGCGTAGACCCCAA 61.072 66.667 0.00 0.00 41.25 4.12
2247 2366 4.779696 TGCATCCACTTAGCATGACATTA 58.220 39.130 0.00 0.00 32.55 1.90
2279 2398 5.564651 CGCCACTTAATGTTTCAATCAAGGT 60.565 40.000 0.00 0.00 0.00 3.50
2418 2537 6.413892 TCATTATGTTACAAGTCATGCTCCA 58.586 36.000 0.00 0.00 0.00 3.86
2434 2553 4.264253 TGCTCCAGAAACATATGAAGGTG 58.736 43.478 10.38 5.72 0.00 4.00
2435 2554 3.065925 GCTCCAGAAACATATGAAGGTGC 59.934 47.826 10.38 11.18 0.00 5.01
2572 2710 7.581476 ACGGTTGTGTTTATCATTGAACTAAG 58.419 34.615 0.00 0.00 0.00 2.18
2587 2734 9.329913 CATTGAACTAAGTGTAACAATTACTGC 57.670 33.333 0.00 0.00 41.43 4.40
2589 2736 8.439993 TGAACTAAGTGTAACAATTACTGCAA 57.560 30.769 0.00 0.00 41.43 4.08
2651 2801 8.325046 AGCACCTTCTCTTCTTAGATAACAATT 58.675 33.333 0.00 0.00 0.00 2.32
2715 2865 6.879458 AGTAAGGTGGCTTACAGTTAAAGATG 59.121 38.462 0.00 0.00 41.01 2.90
2716 2866 4.589908 AGGTGGCTTACAGTTAAAGATGG 58.410 43.478 0.00 0.00 0.00 3.51
2717 2867 3.128764 GGTGGCTTACAGTTAAAGATGGC 59.871 47.826 0.00 0.00 0.00 4.40
2718 2868 4.010349 GTGGCTTACAGTTAAAGATGGCT 58.990 43.478 0.00 0.00 0.00 4.75
2719 2869 4.459337 GTGGCTTACAGTTAAAGATGGCTT 59.541 41.667 0.00 0.00 35.37 4.35
2720 2870 4.700213 TGGCTTACAGTTAAAGATGGCTTC 59.300 41.667 0.00 0.00 31.82 3.86
2721 2871 4.096532 GGCTTACAGTTAAAGATGGCTTCC 59.903 45.833 0.00 0.00 31.82 3.46
2722 2872 4.700213 GCTTACAGTTAAAGATGGCTTCCA 59.300 41.667 0.00 0.00 38.19 3.53
2723 2873 5.163713 GCTTACAGTTAAAGATGGCTTCCAG 60.164 44.000 0.00 0.00 36.75 3.86
2724 2874 4.373156 ACAGTTAAAGATGGCTTCCAGT 57.627 40.909 0.00 0.00 36.75 4.00
2725 2875 4.729868 ACAGTTAAAGATGGCTTCCAGTT 58.270 39.130 0.00 0.00 36.75 3.16
2726 2876 5.876357 ACAGTTAAAGATGGCTTCCAGTTA 58.124 37.500 0.00 0.00 36.75 2.24
2727 2877 6.303839 ACAGTTAAAGATGGCTTCCAGTTAA 58.696 36.000 0.00 0.00 36.75 2.01
2728 2878 6.775629 ACAGTTAAAGATGGCTTCCAGTTAAA 59.224 34.615 0.00 0.00 36.75 1.52
2729 2879 7.040409 ACAGTTAAAGATGGCTTCCAGTTAAAG 60.040 37.037 0.00 0.00 36.75 1.85
2730 2880 7.174946 CAGTTAAAGATGGCTTCCAGTTAAAGA 59.825 37.037 0.00 0.00 36.75 2.52
2731 2881 7.890655 AGTTAAAGATGGCTTCCAGTTAAAGAT 59.109 33.333 0.00 0.00 36.75 2.40
2732 2882 8.523658 GTTAAAGATGGCTTCCAGTTAAAGATT 58.476 33.333 0.00 0.00 36.75 2.40
2733 2883 6.521151 AAGATGGCTTCCAGTTAAAGATTG 57.479 37.500 0.00 0.00 36.75 2.67
2749 2899 9.827411 GTTAAAGATTGGCTTACAGTTAAAGAG 57.173 33.333 0.00 0.00 35.24 2.85
2770 2920 1.079127 GCTTAAGTCTGCTGGGCGA 60.079 57.895 4.02 0.00 0.00 5.54
2820 2970 9.788960 CTCCCATAAAAGCAGTAATTTTCTAAC 57.211 33.333 0.00 0.00 32.38 2.34
3127 3304 9.063484 TGTGGGCAAATGTATCCCTATATATAA 57.937 33.333 0.00 0.00 40.69 0.98
3164 3341 8.467598 CACTATTCTACTCAAAGGTAAGCACTA 58.532 37.037 0.00 0.00 0.00 2.74
3241 3425 4.331159 TTTTAGCTAGCCTTCCCCAAAT 57.669 40.909 12.13 0.00 0.00 2.32
3294 3497 6.457851 GCTAATTGCCTTGTTTTCTCTTTG 57.542 37.500 0.00 0.00 35.15 2.77
3295 3498 5.107337 GCTAATTGCCTTGTTTTCTCTTTGC 60.107 40.000 0.00 0.00 35.15 3.68
3296 3499 3.883830 TTGCCTTGTTTTCTCTTTGCA 57.116 38.095 0.00 0.00 0.00 4.08
3297 3500 4.405116 TTGCCTTGTTTTCTCTTTGCAT 57.595 36.364 0.00 0.00 0.00 3.96
3298 3501 5.528043 TTGCCTTGTTTTCTCTTTGCATA 57.472 34.783 0.00 0.00 0.00 3.14
3299 3502 5.726980 TGCCTTGTTTTCTCTTTGCATAT 57.273 34.783 0.00 0.00 0.00 1.78
3300 3503 6.100404 TGCCTTGTTTTCTCTTTGCATATT 57.900 33.333 0.00 0.00 0.00 1.28
3301 3504 6.523840 TGCCTTGTTTTCTCTTTGCATATTT 58.476 32.000 0.00 0.00 0.00 1.40
3302 3505 6.424509 TGCCTTGTTTTCTCTTTGCATATTTG 59.575 34.615 0.00 0.00 0.00 2.32
3303 3506 6.646240 GCCTTGTTTTCTCTTTGCATATTTGA 59.354 34.615 0.00 0.00 0.00 2.69
3304 3507 7.332678 GCCTTGTTTTCTCTTTGCATATTTGAT 59.667 33.333 0.00 0.00 0.00 2.57
3305 3508 8.866956 CCTTGTTTTCTCTTTGCATATTTGATC 58.133 33.333 0.00 0.00 0.00 2.92
3306 3509 9.414295 CTTGTTTTCTCTTTGCATATTTGATCA 57.586 29.630 0.00 0.00 0.00 2.92
3307 3510 9.932207 TTGTTTTCTCTTTGCATATTTGATCAT 57.068 25.926 0.00 0.00 0.00 2.45
3308 3511 9.361315 TGTTTTCTCTTTGCATATTTGATCATG 57.639 29.630 0.00 0.00 0.00 3.07
3309 3512 9.362539 GTTTTCTCTTTGCATATTTGATCATGT 57.637 29.630 0.00 0.00 0.00 3.21
3310 3513 8.920509 TTTCTCTTTGCATATTTGATCATGTG 57.079 30.769 0.00 0.00 0.00 3.21
3311 3514 7.868906 TCTCTTTGCATATTTGATCATGTGA 57.131 32.000 0.00 0.00 0.00 3.58
3312 3515 8.283699 TCTCTTTGCATATTTGATCATGTGAA 57.716 30.769 0.00 0.00 0.00 3.18
3313 3516 8.909923 TCTCTTTGCATATTTGATCATGTGAAT 58.090 29.630 0.00 0.00 0.00 2.57
3325 3528 8.741603 TTGATCATGTGAATATCATTCTGTGT 57.258 30.769 0.00 0.00 30.17 3.72
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 5.064071 GTCCATCTTAGCAAAAGTGAGCTAC 59.936 44.000 0.00 0.00 42.55 3.58
5 6 5.178797 GTCCATCTTAGCAAAAGTGAGCTA 58.821 41.667 0.00 0.00 42.05 3.32
6 7 4.006319 GTCCATCTTAGCAAAAGTGAGCT 58.994 43.478 0.00 0.00 44.55 4.09
7 8 3.181516 CGTCCATCTTAGCAAAAGTGAGC 60.182 47.826 0.00 0.00 0.00 4.26
8 9 3.181516 GCGTCCATCTTAGCAAAAGTGAG 60.182 47.826 0.00 0.00 0.00 3.51
30 31 1.108727 TTGCAACCTCCTTGTGCAGG 61.109 55.000 0.00 0.00 45.64 4.85
93 94 1.015607 GTTGTAACCGGGGTGCTACG 61.016 60.000 6.32 0.00 0.00 3.51
186 187 5.182570 TGAGAGAAATGACCAAAAGCATCAG 59.817 40.000 0.00 0.00 0.00 2.90
193 194 7.606073 TGATTACGATGAGAGAAATGACCAAAA 59.394 33.333 0.00 0.00 0.00 2.44
213 214 9.502091 TGTATATTTGCTCCCTGTAATGATTAC 57.498 33.333 8.35 8.35 36.67 1.89
252 253 5.350365 TGACTTGTTTGCGTATATGGAACTC 59.650 40.000 0.00 0.00 0.00 3.01
254 255 5.539582 TGACTTGTTTGCGTATATGGAAC 57.460 39.130 0.00 0.00 0.00 3.62
257 258 7.246674 AGTAATGACTTGTTTGCGTATATGG 57.753 36.000 0.00 0.00 28.61 2.74
261 262 9.769093 GAAAATAGTAATGACTTGTTTGCGTAT 57.231 29.630 0.00 0.00 37.10 3.06
419 421 4.746466 TGGTTGGTTTCTTCATAACCCAT 58.254 39.130 0.00 0.00 43.55 4.00
470 472 4.951715 TCCATGCTTAAGAAATCATGCAGT 59.048 37.500 6.67 0.00 37.72 4.40
481 483 4.156556 GCAATCACAACTCCATGCTTAAGA 59.843 41.667 6.67 0.00 0.00 2.10
484 486 2.754552 GGCAATCACAACTCCATGCTTA 59.245 45.455 0.00 0.00 34.37 3.09
521 523 3.005791 GCAACTCTGTGTGCCCTTTTATT 59.994 43.478 0.00 0.00 0.00 1.40
555 574 3.049708 TGCAGATGAACTTCAGTGGAG 57.950 47.619 0.00 0.00 0.00 3.86
739 763 4.380531 CAGTTATATCCGCAACTGTCCAT 58.619 43.478 7.62 0.00 44.24 3.41
750 774 8.712285 TTGGAAACTTTCTACAGTTATATCCG 57.288 34.615 1.57 0.00 35.31 4.18
751 775 9.110502 CCTTGGAAACTTTCTACAGTTATATCC 57.889 37.037 1.57 0.00 35.87 2.59
769 812 6.591750 TTAATTATTGCCGAACCTTGGAAA 57.408 33.333 0.00 0.00 0.00 3.13
770 813 6.783708 ATTAATTATTGCCGAACCTTGGAA 57.216 33.333 0.00 0.00 0.00 3.53
778 821 8.158132 TGTAGGTCCATATTAATTATTGCCGAA 58.842 33.333 0.00 0.00 0.00 4.30
779 822 7.681679 TGTAGGTCCATATTAATTATTGCCGA 58.318 34.615 0.00 0.00 0.00 5.54
780 823 7.915293 TGTAGGTCCATATTAATTATTGCCG 57.085 36.000 0.00 0.00 0.00 5.69
825 890 4.074259 AGCAGCATGAAACAGTTGACATA 58.926 39.130 0.00 0.00 39.69 2.29
826 891 2.889045 AGCAGCATGAAACAGTTGACAT 59.111 40.909 0.00 0.00 39.69 3.06
900 967 4.095036 GGCAAAATAGAAAAGTCTCCGGAG 59.905 45.833 26.32 26.32 35.12 4.63
903 970 5.181245 TCTTGGCAAAATAGAAAAGTCTCCG 59.819 40.000 0.00 0.00 35.12 4.63
1143 1238 4.710167 TCCGCCTCCTCGACGACA 62.710 66.667 0.00 0.00 0.00 4.35
1269 1364 4.704833 TCGAAGCCTGCACTGCCC 62.705 66.667 0.00 0.00 0.00 5.36
1271 1366 3.782244 CGTCGAAGCCTGCACTGC 61.782 66.667 0.00 0.00 0.00 4.40
1428 1526 6.567050 CACAACAAATTCTGCCATATTAGCT 58.433 36.000 0.00 0.00 0.00 3.32
1594 1703 4.122776 CCACCTATGATCGGAAGAACAAG 58.877 47.826 0.00 0.00 46.17 3.16
1709 1818 5.880332 TGGTCAAGTATTCTCAATAGGTTGC 59.120 40.000 0.00 0.00 35.26 4.17
1982 2098 5.483685 TTGTACTAGCTGTGGATGTTCTT 57.516 39.130 0.00 0.00 0.00 2.52
2247 2366 0.034477 CATTAAGTGGCGGTTCCCCT 60.034 55.000 0.00 0.00 0.00 4.79
2256 2375 5.634859 CACCTTGATTGAAACATTAAGTGGC 59.365 40.000 0.00 0.00 0.00 5.01
2279 2398 5.013547 CCAATATAACACTTGGTGGTTCCA 58.986 41.667 2.75 0.00 45.60 3.53
2297 2416 4.938575 TTTGCTAGAAGTTCCCCCAATA 57.061 40.909 0.00 0.00 0.00 1.90
2418 2537 4.666512 ACTTGGCACCTTCATATGTTTCT 58.333 39.130 1.90 0.00 0.00 2.52
2434 2553 0.881796 GCACTACCTTCCAACTTGGC 59.118 55.000 2.52 0.00 37.47 4.52
2435 2554 1.534729 GGCACTACCTTCCAACTTGG 58.465 55.000 0.74 0.74 35.25 3.61
2654 2804 2.571653 AGGTACTGCCACTTTAGATGCA 59.428 45.455 0.00 0.00 37.18 3.96
2655 2805 3.268023 AGGTACTGCCACTTTAGATGC 57.732 47.619 0.00 0.00 37.18 3.91
2715 2865 3.092301 AGCCAATCTTTAACTGGAAGCC 58.908 45.455 0.00 0.00 37.60 4.35
2716 2866 4.790765 AAGCCAATCTTTAACTGGAAGC 57.209 40.909 0.00 0.00 37.60 3.86
2717 2867 6.431234 ACTGTAAGCCAATCTTTAACTGGAAG 59.569 38.462 0.00 0.00 37.60 3.46
2718 2868 6.303839 ACTGTAAGCCAATCTTTAACTGGAA 58.696 36.000 0.00 0.00 37.60 3.53
2719 2869 5.876357 ACTGTAAGCCAATCTTTAACTGGA 58.124 37.500 0.00 0.00 37.60 3.86
2720 2870 6.575162 AACTGTAAGCCAATCTTTAACTGG 57.425 37.500 0.00 0.00 37.60 4.00
2721 2871 9.612620 CTTTAACTGTAAGCCAATCTTTAACTG 57.387 33.333 0.00 0.00 37.60 3.16
2722 2872 9.569122 TCTTTAACTGTAAGCCAATCTTTAACT 57.431 29.630 0.00 0.00 37.60 2.24
2723 2873 9.827411 CTCTTTAACTGTAAGCCAATCTTTAAC 57.173 33.333 0.00 0.00 37.60 2.01
2724 2874 9.569122 ACTCTTTAACTGTAAGCCAATCTTTAA 57.431 29.630 0.00 0.00 37.60 1.52
2726 2876 9.220767 CTACTCTTTAACTGTAAGCCAATCTTT 57.779 33.333 0.00 0.00 37.60 2.52
2727 2877 7.334671 GCTACTCTTTAACTGTAAGCCAATCTT 59.665 37.037 0.00 0.00 37.60 2.40
2728 2878 6.819146 GCTACTCTTTAACTGTAAGCCAATCT 59.181 38.462 0.00 0.00 37.60 2.40
2729 2879 6.819146 AGCTACTCTTTAACTGTAAGCCAATC 59.181 38.462 0.00 0.00 37.60 2.67
2730 2880 6.712276 AGCTACTCTTTAACTGTAAGCCAAT 58.288 36.000 0.00 0.00 37.60 3.16
2731 2881 6.110411 AGCTACTCTTTAACTGTAAGCCAA 57.890 37.500 0.00 0.00 37.60 4.52
2732 2882 5.740290 AGCTACTCTTTAACTGTAAGCCA 57.260 39.130 0.00 0.00 37.60 4.75
2733 2883 7.818446 ACTTAAGCTACTCTTTAACTGTAAGCC 59.182 37.037 1.29 0.00 34.85 4.35
2749 2899 1.657822 GCCCAGCAGACTTAAGCTAC 58.342 55.000 1.29 0.00 39.50 3.58
2770 2920 3.971702 GCCTGGGAAGGGTGCTGT 61.972 66.667 0.00 0.00 0.00 4.40
2820 2970 7.925483 TGTATTGTTTCAGTTTCCCAAATTCTG 59.075 33.333 0.00 0.00 0.00 3.02
3285 3488 8.741841 TCACATGATCAAATATGCAAAGAGAAA 58.258 29.630 0.00 0.00 0.00 2.52
3286 3489 8.283699 TCACATGATCAAATATGCAAAGAGAA 57.716 30.769 0.00 0.00 0.00 2.87
3287 3490 7.868906 TCACATGATCAAATATGCAAAGAGA 57.131 32.000 0.00 0.00 0.00 3.10
3299 3502 9.181061 ACACAGAATGATATTCACATGATCAAA 57.819 29.630 0.00 0.00 39.69 2.69
3300 3503 8.741603 ACACAGAATGATATTCACATGATCAA 57.258 30.769 0.00 0.00 39.69 2.57
3301 3504 9.264719 GTACACAGAATGATATTCACATGATCA 57.735 33.333 0.00 0.00 39.69 2.92
3302 3505 9.486497 AGTACACAGAATGATATTCACATGATC 57.514 33.333 0.00 0.00 39.69 2.92
3303 3506 9.269453 CAGTACACAGAATGATATTCACATGAT 57.731 33.333 0.00 0.00 39.69 2.45
3304 3507 8.260114 ACAGTACACAGAATGATATTCACATGA 58.740 33.333 0.00 0.00 39.69 3.07
3305 3508 8.429493 ACAGTACACAGAATGATATTCACATG 57.571 34.615 0.00 0.00 39.69 3.21
3306 3509 9.453572 AAACAGTACACAGAATGATATTCACAT 57.546 29.630 0.00 0.00 39.69 3.21
3307 3510 8.846943 AAACAGTACACAGAATGATATTCACA 57.153 30.769 0.00 0.00 39.69 3.58
3313 3516 9.952030 TGGATAAAAACAGTACACAGAATGATA 57.048 29.630 0.00 0.00 39.69 2.15
3314 3517 8.862325 TGGATAAAAACAGTACACAGAATGAT 57.138 30.769 0.00 0.00 39.69 2.45
3315 3518 7.094805 GCTGGATAAAAACAGTACACAGAATGA 60.095 37.037 0.00 0.00 36.93 2.57
3316 3519 7.023575 GCTGGATAAAAACAGTACACAGAATG 58.976 38.462 0.00 0.00 38.50 2.67
3317 3520 6.942576 AGCTGGATAAAAACAGTACACAGAAT 59.057 34.615 0.00 0.00 37.07 2.40
3318 3521 6.204688 CAGCTGGATAAAAACAGTACACAGAA 59.795 38.462 5.57 0.00 37.07 3.02
3319 3522 5.700832 CAGCTGGATAAAAACAGTACACAGA 59.299 40.000 5.57 0.00 37.07 3.41
3320 3523 5.700832 TCAGCTGGATAAAAACAGTACACAG 59.299 40.000 15.13 0.00 37.07 3.66
3321 3524 5.616270 TCAGCTGGATAAAAACAGTACACA 58.384 37.500 15.13 0.00 37.07 3.72
3322 3525 6.546395 CATCAGCTGGATAAAAACAGTACAC 58.454 40.000 15.13 0.00 37.07 2.90
3323 3526 6.741992 CATCAGCTGGATAAAAACAGTACA 57.258 37.500 15.13 0.00 37.07 2.90


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

AutoCloner maintained by Alex Coulton.