Multiple sequence alignment - TraesCS2A01G086000

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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 TraesCS2A01G086000 chr2A 100.000 2876 0 0 1 2876 39467489 39470364 0.000000e+00 5312.0
1 TraesCS2A01G086000 chr2A 84.323 421 58 6 883 1302 15012960 15012547 3.450000e-109 405.0
2 TraesCS2A01G086000 chr2A 89.855 69 6 1 2808 2876 218623999 218624066 1.420000e-13 87.9
3 TraesCS2A01G086000 chr2B 94.199 1379 69 5 1 1368 61285945 61284567 0.000000e+00 2093.0
4 TraesCS2A01G086000 chr2B 93.424 1399 58 5 1454 2818 61339683 61338285 0.000000e+00 2043.0
5 TraesCS2A01G086000 chr2B 94.949 990 45 4 441 1425 61340658 61339669 0.000000e+00 1546.0
6 TraesCS2A01G086000 chr2B 94.789 403 14 1 1454 1856 61284545 61284150 3.150000e-174 621.0
7 TraesCS2A01G086000 chr2B 91.855 442 23 4 4 439 61341126 61340692 3.170000e-169 604.0
8 TraesCS2A01G086000 chr2B 82.689 543 76 12 889 1420 23597882 23597347 1.560000e-127 466.0
9 TraesCS2A01G086000 chr2B 87.225 227 28 1 1458 1683 23597352 23597126 1.020000e-64 257.0
10 TraesCS2A01G086000 chr2B 85.106 94 12 2 1 93 61340435 61340343 8.480000e-16 95.3
11 TraesCS2A01G086000 chr2B 93.651 63 1 3 2817 2876 459879018 459878956 1.100000e-14 91.6
12 TraesCS2A01G086000 chr2B 97.917 48 1 0 1860 1907 61284119 61284072 1.840000e-12 84.2
13 TraesCS2A01G086000 chr2B 95.000 40 2 0 469 508 492089856 492089895 2.390000e-06 63.9
14 TraesCS2A01G086000 chr2D 92.806 1390 65 9 1454 2809 36113091 36114479 0.000000e+00 1980.0
15 TraesCS2A01G086000 chr2D 90.789 912 49 9 1454 2331 36123846 36122936 0.000000e+00 1186.0
16 TraesCS2A01G086000 chr2D 93.425 730 17 5 703 1420 36112390 36113100 0.000000e+00 1053.0
17 TraesCS2A01G086000 chr2D 91.593 678 48 3 1 669 36111711 36112388 0.000000e+00 928.0
18 TraesCS2A01G086000 chr2D 98.000 50 1 0 1376 1425 36123881 36123832 1.420000e-13 87.9
19 TraesCS2A01G086000 chr3D 92.593 783 25 10 1454 2203 380045778 380044996 0.000000e+00 1094.0
20 TraesCS2A01G086000 chr3D 94.761 649 28 2 781 1425 380046410 380045764 0.000000e+00 1005.0
21 TraesCS2A01G086000 chr3D 93.750 624 35 2 2196 2818 380032050 380031430 0.000000e+00 933.0
22 TraesCS2A01G086000 chr3D 91.051 447 32 4 2 440 380047401 380046955 5.300000e-167 597.0
23 TraesCS2A01G086000 chr3D 93.304 224 14 1 528 751 380046630 380046408 2.140000e-86 329.0
24 TraesCS2A01G086000 chr3D 93.182 44 3 0 469 512 449735578 449735621 6.650000e-07 65.8
25 TraesCS2A01G086000 chr3D 100.000 29 0 0 442 470 384144048 384144076 1.000000e-03 54.7
26 TraesCS2A01G086000 chr7B 96.491 57 1 1 2820 2876 572132313 572132258 3.050000e-15 93.5
27 TraesCS2A01G086000 chr7D 93.651 63 1 3 2817 2876 41023661 41023723 1.100000e-14 91.6
28 TraesCS2A01G086000 chr7A 93.651 63 1 3 2817 2876 157631351 157631413 1.100000e-14 91.6
29 TraesCS2A01G086000 chr5B 93.548 62 2 2 2817 2876 486396589 486396650 1.100000e-14 91.6
30 TraesCS2A01G086000 chr1D 93.651 63 1 3 2817 2876 215019634 215019696 1.100000e-14 91.6
31 TraesCS2A01G086000 chr1D 100.000 29 0 0 442 470 189644745 189644717 1.000000e-03 54.7
32 TraesCS2A01G086000 chr1D 100.000 29 0 0 442 470 206313630 206313602 1.000000e-03 54.7
33 TraesCS2A01G086000 chr4A 89.855 69 6 1 2808 2876 87091243 87091310 1.420000e-13 87.9
34 TraesCS2A01G086000 chr4A 92.857 42 3 0 466 507 685756101 685756060 8.600000e-06 62.1
35 TraesCS2A01G086000 chr5D 88.571 70 7 1 2807 2876 558451954 558452022 1.840000e-12 84.2
36 TraesCS2A01G086000 chr1B 93.182 44 3 0 472 515 535878680 535878637 6.650000e-07 65.8
37 TraesCS2A01G086000 chr1B 100.000 29 0 0 442 470 2406552 2406524 1.000000e-03 54.7
38 TraesCS2A01G086000 chr1B 100.000 29 0 0 441 469 667904588 667904560 1.000000e-03 54.7
39 TraesCS2A01G086000 chr1A 97.297 37 1 0 472 508 27378221 27378185 2.390000e-06 63.9
40 TraesCS2A01G086000 chr1A 97.297 37 1 0 472 508 332051492 332051528 2.390000e-06 63.9
41 TraesCS2A01G086000 chr6A 100.000 29 0 0 442 470 48788961 48788989 1.000000e-03 54.7


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 TraesCS2A01G086000 chr2A 39467489 39470364 2875 False 5312.000000 5312 100.00000 1 2876 1 chr2A.!!$F1 2875
1 TraesCS2A01G086000 chr2B 61338285 61341126 2841 True 1072.075000 2043 91.33350 1 2818 4 chr2B.!!$R4 2817
2 TraesCS2A01G086000 chr2B 61284072 61285945 1873 True 932.733333 2093 95.63500 1 1907 3 chr2B.!!$R3 1906
3 TraesCS2A01G086000 chr2B 23597126 23597882 756 True 361.500000 466 84.95700 889 1683 2 chr2B.!!$R2 794
4 TraesCS2A01G086000 chr2D 36111711 36114479 2768 False 1320.333333 1980 92.60800 1 2809 3 chr2D.!!$F1 2808
5 TraesCS2A01G086000 chr2D 36122936 36123881 945 True 636.950000 1186 94.39450 1376 2331 2 chr2D.!!$R1 955
6 TraesCS2A01G086000 chr3D 380031430 380032050 620 True 933.000000 933 93.75000 2196 2818 1 chr3D.!!$R1 622
7 TraesCS2A01G086000 chr3D 380044996 380047401 2405 True 756.250000 1094 92.92725 2 2203 4 chr3D.!!$R2 2201

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
765 1061 0.106708 TCAGCACCACCAGTTCTGTC 59.893 55.0 0.0 0.0 40.27 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2483 2842 0.099968 CATGCATCCCAAGCAAGACG 59.9 55.0 0.0 0.0 46.27 4.18 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
149 152 6.348132 CGCAAACGGGCTGAATTATGAATATA 60.348 38.462 0.00 0.00 34.97 0.86
179 182 9.667107 TTTATCAAGGGATAGTGAGTTTTACAG 57.333 33.333 0.00 0.00 37.31 2.74
286 298 1.202818 ACACCTGGGCTCTGAAGTTTC 60.203 52.381 0.00 0.00 0.00 2.78
302 314 2.747446 AGTTTCAAAATAGGCGCGATGT 59.253 40.909 12.10 0.00 0.00 3.06
365 377 3.373438 CCCTTCATTTCATGGTCCATCCT 60.373 47.826 0.00 0.00 37.07 3.24
465 520 6.049955 TCCATTTCTCCGACAAGTATTTCT 57.950 37.500 0.00 0.00 0.00 2.52
502 557 3.992427 GACAAGTATTTTCGAACGGAGGT 59.008 43.478 0.00 0.00 0.00 3.85
523 783 7.767659 GGAGGTAGTACCAAATTACTAACAAGG 59.232 40.741 21.49 0.00 42.54 3.61
545 809 4.189231 GTGCACCTAAGGATCGTTGTATT 58.811 43.478 5.22 0.00 0.00 1.89
561 825 5.277974 CGTTGTATTCTAATGATGGCCTTGG 60.278 44.000 3.32 0.00 0.00 3.61
591 855 3.785486 TCTTATCCTGATTGTGAGCACG 58.215 45.455 0.00 0.00 0.00 5.34
669 933 0.950071 TTGCCCGTACGTGCCTTTAC 60.950 55.000 19.95 0.00 0.00 2.01
671 935 1.080435 GCCCGTACGTGCCTTTACTC 61.080 60.000 11.96 0.00 0.00 2.59
741 1037 1.370810 TGCTCGTGATGCACAAGGA 59.629 52.632 0.00 0.00 35.31 3.36
765 1061 0.106708 TCAGCACCACCAGTTCTGTC 59.893 55.000 0.00 0.00 40.27 3.51
827 1124 3.220940 TCCTCACATGCACAAAACATCA 58.779 40.909 0.00 0.00 0.00 3.07
865 1168 4.776837 CCATCTAATCCTAGACATGCTCCT 59.223 45.833 0.00 0.00 36.98 3.69
909 1212 5.124138 AGCGATCTATAAATACGACTCCCAG 59.876 44.000 0.00 0.00 0.00 4.45
942 1245 5.470368 TCTCACACACAACAATCTACTAGC 58.530 41.667 0.00 0.00 0.00 3.42
1117 1427 3.834489 ACCAGAATCAGTCAGGCATAG 57.166 47.619 0.00 0.00 36.35 2.23
1292 1602 3.985925 GAGGTTGAAAGGTACGTACACAG 59.014 47.826 26.02 0.00 0.00 3.66
1410 1732 6.290605 TGTATATTGCAGTGCATGATACAGT 58.709 36.000 30.32 13.79 39.39 3.55
1411 1733 6.767423 TGTATATTGCAGTGCATGATACAGTT 59.233 34.615 30.32 13.54 39.39 3.16
1412 1734 7.930865 TGTATATTGCAGTGCATGATACAGTTA 59.069 33.333 30.32 18.14 39.39 2.24
1413 1735 7.806409 ATATTGCAGTGCATGATACAGTTAA 57.194 32.000 20.50 0.00 38.76 2.01
1414 1736 4.944962 TGCAGTGCATGATACAGTTAAC 57.055 40.909 15.37 0.00 31.71 2.01
1415 1737 4.322567 TGCAGTGCATGATACAGTTAACA 58.677 39.130 15.37 0.00 31.71 2.41
1416 1738 4.759183 TGCAGTGCATGATACAGTTAACAA 59.241 37.500 15.37 0.00 31.71 2.83
1417 1739 5.088739 GCAGTGCATGATACAGTTAACAAC 58.911 41.667 11.09 0.00 0.00 3.32
1418 1740 5.631026 CAGTGCATGATACAGTTAACAACC 58.369 41.667 8.61 0.00 0.00 3.77
1419 1741 5.181056 CAGTGCATGATACAGTTAACAACCA 59.819 40.000 8.61 0.00 0.00 3.67
1420 1742 5.181245 AGTGCATGATACAGTTAACAACCAC 59.819 40.000 8.61 2.32 0.00 4.16
1421 1743 5.049060 GTGCATGATACAGTTAACAACCACA 60.049 40.000 8.61 3.12 0.00 4.17
1422 1744 5.709631 TGCATGATACAGTTAACAACCACAT 59.290 36.000 8.61 5.27 0.00 3.21
1423 1745 6.128035 TGCATGATACAGTTAACAACCACATC 60.128 38.462 8.61 2.70 0.00 3.06
1424 1746 6.094048 GCATGATACAGTTAACAACCACATCT 59.906 38.462 8.61 0.00 0.00 2.90
1425 1747 7.362056 GCATGATACAGTTAACAACCACATCTT 60.362 37.037 8.61 0.00 0.00 2.40
1426 1748 8.514594 CATGATACAGTTAACAACCACATCTTT 58.485 33.333 8.61 0.00 0.00 2.52
1427 1749 8.458573 TGATACAGTTAACAACCACATCTTTT 57.541 30.769 8.61 0.00 0.00 2.27
1428 1750 8.908903 TGATACAGTTAACAACCACATCTTTTT 58.091 29.630 8.61 0.00 0.00 1.94
1569 1892 1.476891 GGACAGGACAGTTCGCTATGA 59.523 52.381 0.00 0.00 0.00 2.15
1793 2117 8.539770 AATTGTCTTATCATATTGTAGAGCCG 57.460 34.615 0.00 0.00 0.00 5.52
1858 2209 0.960861 AGACATCGTCGAGGCACAGA 60.961 55.000 6.84 0.00 37.67 3.41
1952 2310 6.437477 GGAGGTTCTGGAGGAAAACAAAATAT 59.563 38.462 0.00 0.00 35.51 1.28
2043 2401 7.756722 ACTTATTTATTCTTGTGCAATGCAGTC 59.243 33.333 8.73 0.00 40.08 3.51
2080 2438 8.758256 ACTTCTGAGTTTGTGAAGGAAGTTTCC 61.758 40.741 2.59 2.59 40.83 3.13
2234 2592 0.674581 CAGCATCGTGGGCTTCTTCA 60.675 55.000 0.00 0.00 40.23 3.02
2445 2803 9.677567 TTAGCTTTGTTGTGATGAATAAAAGTC 57.322 29.630 0.00 0.00 0.00 3.01
2483 2842 7.094248 TGTGGGATGTGATTTGCTTATATATGC 60.094 37.037 12.51 12.51 0.00 3.14
2504 2863 2.368439 GTCTTGCTTGGGATGCATGTA 58.632 47.619 2.46 0.00 40.34 2.29
2506 2865 3.193267 GTCTTGCTTGGGATGCATGTAAA 59.807 43.478 2.46 0.00 40.34 2.01
2519 2878 5.361135 TGCATGTAAAGTGATGACAACTG 57.639 39.130 0.00 0.00 0.00 3.16
2644 3003 2.835895 GCTCCTCGTCCTCCTCCC 60.836 72.222 0.00 0.00 0.00 4.30
2651 3010 0.471211 TCGTCCTCCTCCCACTTTGT 60.471 55.000 0.00 0.00 0.00 2.83
2752 3111 9.667107 CACTAGAGATTGTGGTAAATAAAAGGA 57.333 33.333 0.00 0.00 0.00 3.36
2755 3114 8.336801 AGAGATTGTGGTAAATAAAAGGACAC 57.663 34.615 0.00 0.00 0.00 3.67
2756 3115 7.942341 AGAGATTGTGGTAAATAAAAGGACACA 59.058 33.333 0.00 0.00 35.79 3.72
2757 3116 7.882179 AGATTGTGGTAAATAAAAGGACACAC 58.118 34.615 0.00 0.00 37.13 3.82
2763 3122 9.005777 GTGGTAAATAAAAGGACACACATAAGA 57.994 33.333 0.00 0.00 0.00 2.10
2815 3174 2.767505 AGAACTGCTTACAAGAACGGG 58.232 47.619 0.00 0.00 0.00 5.28
2818 3177 0.669318 CTGCTTACAAGAACGGGCGA 60.669 55.000 0.00 0.00 0.00 5.54
2819 3178 0.249953 TGCTTACAAGAACGGGCGAA 60.250 50.000 0.00 0.00 0.00 4.70
2820 3179 1.084289 GCTTACAAGAACGGGCGAAT 58.916 50.000 0.00 0.00 0.00 3.34
2821 3180 1.062148 GCTTACAAGAACGGGCGAATC 59.938 52.381 0.00 0.00 0.00 2.52
2822 3181 2.343101 CTTACAAGAACGGGCGAATCA 58.657 47.619 0.00 0.00 0.00 2.57
2823 3182 2.684001 TACAAGAACGGGCGAATCAT 57.316 45.000 0.00 0.00 0.00 2.45
2824 3183 2.684001 ACAAGAACGGGCGAATCATA 57.316 45.000 0.00 0.00 0.00 2.15
2825 3184 2.277084 ACAAGAACGGGCGAATCATAC 58.723 47.619 0.00 0.00 0.00 2.39
2826 3185 2.276201 CAAGAACGGGCGAATCATACA 58.724 47.619 0.00 0.00 0.00 2.29
2827 3186 2.675844 CAAGAACGGGCGAATCATACAA 59.324 45.455 0.00 0.00 0.00 2.41
2828 3187 2.550978 AGAACGGGCGAATCATACAAG 58.449 47.619 0.00 0.00 0.00 3.16
2829 3188 1.003866 GAACGGGCGAATCATACAAGC 60.004 52.381 0.00 0.00 0.00 4.01
2830 3189 0.107897 ACGGGCGAATCATACAAGCA 60.108 50.000 0.00 0.00 0.00 3.91
2831 3190 0.304705 CGGGCGAATCATACAAGCAC 59.695 55.000 0.00 0.00 0.00 4.40
2832 3191 0.663153 GGGCGAATCATACAAGCACC 59.337 55.000 0.00 0.00 0.00 5.01
2833 3192 1.668419 GGCGAATCATACAAGCACCT 58.332 50.000 0.00 0.00 0.00 4.00
2834 3193 1.599542 GGCGAATCATACAAGCACCTC 59.400 52.381 0.00 0.00 0.00 3.85
2835 3194 2.555199 GCGAATCATACAAGCACCTCT 58.445 47.619 0.00 0.00 0.00 3.69
2836 3195 2.939103 GCGAATCATACAAGCACCTCTT 59.061 45.455 0.00 0.00 34.78 2.85
2837 3196 3.001736 GCGAATCATACAAGCACCTCTTC 59.998 47.826 0.00 0.00 31.27 2.87
2838 3197 4.437239 CGAATCATACAAGCACCTCTTCT 58.563 43.478 0.00 0.00 31.27 2.85
2839 3198 4.505922 CGAATCATACAAGCACCTCTTCTC 59.494 45.833 0.00 0.00 31.27 2.87
2840 3199 5.423015 GAATCATACAAGCACCTCTTCTCA 58.577 41.667 0.00 0.00 31.27 3.27
2841 3200 5.627182 ATCATACAAGCACCTCTTCTCAT 57.373 39.130 0.00 0.00 31.27 2.90
2842 3201 5.426689 TCATACAAGCACCTCTTCTCATT 57.573 39.130 0.00 0.00 31.27 2.57
2843 3202 5.181009 TCATACAAGCACCTCTTCTCATTG 58.819 41.667 0.00 0.00 31.27 2.82
2844 3203 2.157738 ACAAGCACCTCTTCTCATTGC 58.842 47.619 0.00 0.00 31.27 3.56
2845 3204 2.156917 CAAGCACCTCTTCTCATTGCA 58.843 47.619 0.00 0.00 35.57 4.08
2846 3205 2.555325 CAAGCACCTCTTCTCATTGCAA 59.445 45.455 0.00 0.00 35.57 4.08
2847 3206 2.434428 AGCACCTCTTCTCATTGCAAG 58.566 47.619 4.94 0.00 35.57 4.01
2848 3207 2.039480 AGCACCTCTTCTCATTGCAAGA 59.961 45.455 4.94 1.87 35.57 3.02
2849 3208 3.015327 GCACCTCTTCTCATTGCAAGAT 58.985 45.455 4.94 0.00 33.24 2.40
2850 3209 4.080695 AGCACCTCTTCTCATTGCAAGATA 60.081 41.667 4.94 0.00 35.57 1.98
2851 3210 4.637534 GCACCTCTTCTCATTGCAAGATAA 59.362 41.667 4.94 1.55 33.24 1.75
2852 3211 5.124457 GCACCTCTTCTCATTGCAAGATAAA 59.876 40.000 4.94 0.00 33.24 1.40
2853 3212 6.183360 GCACCTCTTCTCATTGCAAGATAAAT 60.183 38.462 4.94 0.00 33.24 1.40
2854 3213 7.012704 GCACCTCTTCTCATTGCAAGATAAATA 59.987 37.037 4.94 0.00 33.24 1.40
2855 3214 8.557864 CACCTCTTCTCATTGCAAGATAAATAG 58.442 37.037 4.94 0.00 0.00 1.73
2856 3215 8.489489 ACCTCTTCTCATTGCAAGATAAATAGA 58.511 33.333 4.94 1.29 0.00 1.98
2857 3216 9.504708 CCTCTTCTCATTGCAAGATAAATAGAT 57.495 33.333 4.94 0.00 0.00 1.98
2862 3221 9.842775 TCTCATTGCAAGATAAATAGATCAAGT 57.157 29.630 4.94 0.00 0.00 3.16
2865 3224 9.459640 CATTGCAAGATAAATAGATCAAGTTGG 57.540 33.333 4.94 0.00 0.00 3.77
2866 3225 7.031226 TGCAAGATAAATAGATCAAGTTGGC 57.969 36.000 2.34 0.00 0.00 4.52
2867 3226 6.039717 TGCAAGATAAATAGATCAAGTTGGCC 59.960 38.462 2.34 0.00 0.00 5.36
2868 3227 6.039717 GCAAGATAAATAGATCAAGTTGGCCA 59.960 38.462 0.00 0.00 0.00 5.36
2869 3228 7.646314 CAAGATAAATAGATCAAGTTGGCCAG 58.354 38.462 5.11 0.00 0.00 4.85
2870 3229 7.141758 AGATAAATAGATCAAGTTGGCCAGA 57.858 36.000 5.11 0.00 0.00 3.86
2871 3230 6.995091 AGATAAATAGATCAAGTTGGCCAGAC 59.005 38.462 5.11 7.77 0.00 3.51
2872 3231 4.574674 AATAGATCAAGTTGGCCAGACA 57.425 40.909 5.11 0.00 0.00 3.41
2873 3232 2.957402 AGATCAAGTTGGCCAGACAA 57.043 45.000 5.11 0.00 0.00 3.18
2874 3233 3.228188 AGATCAAGTTGGCCAGACAAA 57.772 42.857 5.11 0.00 31.17 2.83
2875 3234 3.565307 AGATCAAGTTGGCCAGACAAAA 58.435 40.909 5.11 0.00 31.17 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
157 160 6.681729 ACTGTAAAACTCACTATCCCTTGA 57.318 37.500 0.00 0.00 0.00 3.02
286 298 1.855978 TCGTACATCGCGCCTATTTTG 59.144 47.619 0.00 0.00 39.67 2.44
302 314 4.851843 TGTTCAAGAGAGATAGGGTCGTA 58.148 43.478 0.00 0.00 0.00 3.43
365 377 6.159575 TGAATGGGAACTTGTGGAATCCTATA 59.840 38.462 0.00 0.00 32.65 1.31
465 520 4.286297 ACTTGTCGAAGAAATGGATCCA 57.714 40.909 18.88 18.88 39.69 3.41
502 557 7.388500 GTGCACCTTGTTAGTAATTTGGTACTA 59.612 37.037 5.22 0.00 35.85 1.82
523 783 2.094762 ACAACGATCCTTAGGTGCAC 57.905 50.000 8.80 8.80 0.00 4.57
545 809 2.775418 TCCTCCAAGGCCATCATTAGA 58.225 47.619 5.01 0.00 34.61 2.10
561 825 8.511604 TCACAATCAGGATAAGATTTTTCCTC 57.488 34.615 0.00 0.00 37.80 3.71
621 885 5.675575 GCATGCTTTCTTGACTAAGGATGTG 60.676 44.000 11.37 0.00 46.00 3.21
624 888 4.592942 TGCATGCTTTCTTGACTAAGGAT 58.407 39.130 20.33 0.00 33.41 3.24
652 916 1.079612 AGTAAAGGCACGTACGGGC 60.080 57.895 33.82 33.82 45.23 6.13
669 933 1.168714 GCTTTGGTGGCAGTAAGGAG 58.831 55.000 0.00 0.00 0.00 3.69
671 935 0.883833 CAGCTTTGGTGGCAGTAAGG 59.116 55.000 0.00 0.00 0.00 2.69
741 1037 0.767375 AACTGGTGGTGCTGACTCAT 59.233 50.000 0.00 0.00 0.00 2.90
765 1061 0.598562 ACGCTAGGATGCATACGAGG 59.401 55.000 19.37 12.19 0.00 4.63
827 1124 0.683973 GATGGAGCGAGACATCCCAT 59.316 55.000 0.00 0.00 40.05 4.00
909 1212 3.386768 TGTGTGTGAGAACTAGAAGGC 57.613 47.619 0.00 0.00 0.00 4.35
942 1245 4.999950 GGGATGTTGTAGGCTTATGAGATG 59.000 45.833 0.00 0.00 0.00 2.90
1117 1427 4.333926 ACCGGTAGTAACATTCGAGTCTAC 59.666 45.833 4.49 0.00 0.00 2.59
1450 1772 6.030849 CACGTTCAGATGTGGTTGTTAAAAA 58.969 36.000 0.00 0.00 38.79 1.94
1451 1773 5.354513 TCACGTTCAGATGTGGTTGTTAAAA 59.645 36.000 0.00 0.00 42.00 1.52
1452 1774 4.876679 TCACGTTCAGATGTGGTTGTTAAA 59.123 37.500 0.00 0.00 42.00 1.52
1858 2209 1.406539 GAATCAATGATGGTGCCGCTT 59.593 47.619 0.00 0.00 0.00 4.68
1923 2281 0.104144 TTCCTCCAGAACCTCCCCAA 60.104 55.000 0.00 0.00 0.00 4.12
1952 2310 5.560722 TCATTAAAAGAGTCCACTGACCA 57.439 39.130 0.00 0.00 42.81 4.02
2031 2389 0.721718 GAGTACGGACTGCATTGCAC 59.278 55.000 4.10 0.00 35.45 4.57
2080 2438 1.333619 CCATAAAGGCCGAATGTTCCG 59.666 52.381 12.24 0.00 0.00 4.30
2234 2592 2.750166 CGAGATATATCCCACTGCGTCT 59.250 50.000 9.18 0.00 0.00 4.18
2422 2780 7.059945 CGAGACTTTTATTCATCACAACAAAGC 59.940 37.037 0.00 0.00 0.00 3.51
2445 2803 5.364778 TCACATCCCACATATAAAACCGAG 58.635 41.667 0.00 0.00 0.00 4.63
2483 2842 0.099968 CATGCATCCCAAGCAAGACG 59.900 55.000 0.00 0.00 46.27 4.18
2519 2878 9.176181 GAAGATATGATTCGACTCAACTCTTAC 57.824 37.037 22.12 15.77 33.57 2.34
2644 3003 2.422597 TCCGAACCTGCATACAAAGTG 58.577 47.619 0.00 0.00 0.00 3.16
2651 3010 3.358111 TCCATTTTCCGAACCTGCATA 57.642 42.857 0.00 0.00 0.00 3.14
2752 3111 7.446769 TGTTACCACTACAATCTTATGTGTGT 58.553 34.615 0.00 0.00 33.94 3.72
2755 3114 8.251026 TCTCTGTTACCACTACAATCTTATGTG 58.749 37.037 0.00 0.00 34.75 3.21
2756 3115 8.251721 GTCTCTGTTACCACTACAATCTTATGT 58.748 37.037 0.00 0.00 37.32 2.29
2757 3116 8.251026 TGTCTCTGTTACCACTACAATCTTATG 58.749 37.037 0.00 0.00 0.00 1.90
2763 3122 5.721960 AGGATGTCTCTGTTACCACTACAAT 59.278 40.000 0.00 0.00 0.00 2.71
2778 3137 5.695816 GCAGTTCTATGATGAAGGATGTCTC 59.304 44.000 0.00 0.00 0.00 3.36
2815 3174 2.555199 AGAGGTGCTTGTATGATTCGC 58.445 47.619 0.00 0.00 0.00 4.70
2818 3177 5.426689 TGAGAAGAGGTGCTTGTATGATT 57.573 39.130 0.00 0.00 36.83 2.57
2819 3178 5.627182 ATGAGAAGAGGTGCTTGTATGAT 57.373 39.130 0.00 0.00 36.83 2.45
2820 3179 5.181009 CAATGAGAAGAGGTGCTTGTATGA 58.819 41.667 0.00 0.00 36.83 2.15
2821 3180 4.201891 GCAATGAGAAGAGGTGCTTGTATG 60.202 45.833 0.00 0.00 36.83 2.39
2822 3181 3.944015 GCAATGAGAAGAGGTGCTTGTAT 59.056 43.478 0.00 0.00 36.83 2.29
2823 3182 3.244526 TGCAATGAGAAGAGGTGCTTGTA 60.245 43.478 0.00 0.00 36.83 2.41
2824 3183 2.157738 GCAATGAGAAGAGGTGCTTGT 58.842 47.619 0.00 0.00 36.83 3.16
2825 3184 2.156917 TGCAATGAGAAGAGGTGCTTG 58.843 47.619 0.00 0.00 36.83 4.01
2826 3185 2.574006 TGCAATGAGAAGAGGTGCTT 57.426 45.000 0.00 0.00 40.25 3.91
2827 3186 2.039480 TCTTGCAATGAGAAGAGGTGCT 59.961 45.455 0.00 0.00 36.18 4.40
2828 3187 2.430465 TCTTGCAATGAGAAGAGGTGC 58.570 47.619 0.00 0.00 35.75 5.01
2829 3188 6.748333 TTTATCTTGCAATGAGAAGAGGTG 57.252 37.500 0.00 0.00 31.83 4.00
2830 3189 8.489489 TCTATTTATCTTGCAATGAGAAGAGGT 58.511 33.333 0.00 0.00 31.83 3.85
2831 3190 8.899427 TCTATTTATCTTGCAATGAGAAGAGG 57.101 34.615 0.00 0.00 31.83 3.69
2836 3195 9.842775 ACTTGATCTATTTATCTTGCAATGAGA 57.157 29.630 0.00 0.00 0.00 3.27
2839 3198 9.459640 CCAACTTGATCTATTTATCTTGCAATG 57.540 33.333 0.00 0.00 0.00 2.82
2840 3199 8.139989 GCCAACTTGATCTATTTATCTTGCAAT 58.860 33.333 0.00 0.00 0.00 3.56
2841 3200 7.416664 GGCCAACTTGATCTATTTATCTTGCAA 60.417 37.037 0.00 0.00 0.00 4.08
2842 3201 6.039717 GGCCAACTTGATCTATTTATCTTGCA 59.960 38.462 0.00 0.00 0.00 4.08
2843 3202 6.039717 TGGCCAACTTGATCTATTTATCTTGC 59.960 38.462 0.61 0.00 0.00 4.01
2844 3203 7.500227 TCTGGCCAACTTGATCTATTTATCTTG 59.500 37.037 7.01 0.00 0.00 3.02
2845 3204 7.500559 GTCTGGCCAACTTGATCTATTTATCTT 59.499 37.037 7.01 0.00 0.00 2.40
2846 3205 6.995091 GTCTGGCCAACTTGATCTATTTATCT 59.005 38.462 7.01 0.00 0.00 1.98
2847 3206 6.767902 TGTCTGGCCAACTTGATCTATTTATC 59.232 38.462 7.01 0.00 0.00 1.75
2848 3207 6.662755 TGTCTGGCCAACTTGATCTATTTAT 58.337 36.000 7.01 0.00 0.00 1.40
2849 3208 6.061022 TGTCTGGCCAACTTGATCTATTTA 57.939 37.500 7.01 0.00 0.00 1.40
2850 3209 4.922206 TGTCTGGCCAACTTGATCTATTT 58.078 39.130 7.01 0.00 0.00 1.40
2851 3210 4.574674 TGTCTGGCCAACTTGATCTATT 57.425 40.909 7.01 0.00 0.00 1.73
2852 3211 4.574674 TTGTCTGGCCAACTTGATCTAT 57.425 40.909 7.01 0.00 0.00 1.98
2853 3212 4.365514 TTTGTCTGGCCAACTTGATCTA 57.634 40.909 7.01 0.00 0.00 1.98
2854 3213 2.957402 TTGTCTGGCCAACTTGATCT 57.043 45.000 7.01 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.