Multiple sequence alignment - TraesCS3B01G435700

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 TraesCS3B01G435700 chr3B 100.000 2895 0 0 1 2895 674064482 674061588 0.000000e+00 5347
1 TraesCS3B01G435700 chr3B 81.507 292 52 2 1112 1401 74294239 74294530 3.730000e-59 239
2 TraesCS3B01G435700 chr3D 94.452 2091 61 19 1 2060 511727805 511725739 0.000000e+00 3168
3 TraesCS3B01G435700 chr3D 88.348 575 29 15 2049 2607 511725712 511725160 0.000000e+00 656
4 TraesCS3B01G435700 chr3D 81.849 292 51 2 1112 1401 47493594 47493885 8.010000e-61 244
5 TraesCS3B01G435700 chr3D 88.614 202 11 4 2693 2892 511725158 511724967 4.820000e-58 235
6 TraesCS3B01G435700 chr3A 95.055 1092 44 8 973 2060 647755639 647754554 0.000000e+00 1709
7 TraesCS3B01G435700 chr3A 90.761 920 36 20 1 891 647756532 647755633 0.000000e+00 1182
8 TraesCS3B01G435700 chr3A 90.657 578 29 11 2050 2608 647754530 647753959 0.000000e+00 745
9 TraesCS3B01G435700 chr3A 90.732 205 11 2 2690 2892 647753961 647753763 1.710000e-67 267
10 TraesCS3B01G435700 chr3A 81.849 292 51 2 1112 1401 59532244 59532535 8.010000e-61 244
11 TraesCS3B01G435700 chr1B 91.818 330 27 0 1099 1428 475470121 475469792 7.310000e-126 460
12 TraesCS3B01G435700 chr1B 88.660 97 11 0 2607 2703 345500327 345500231 5.070000e-23 119
13 TraesCS3B01G435700 chr1B 86.000 100 14 0 2604 2703 669231306 669231207 1.100000e-19 108
14 TraesCS3B01G435700 chr1D 91.515 330 28 0 1099 1428 353557696 353557367 3.400000e-124 455
15 TraesCS3B01G435700 chr1A 87.310 394 45 4 1039 1428 453523585 453523193 2.050000e-121 446
16 TraesCS3B01G435700 chr1A 92.045 88 7 0 2606 2693 285042790 285042703 1.090000e-24 124
17 TraesCS3B01G435700 chr4B 94.606 241 10 1 1545 1785 37400109 37399872 1.270000e-98 370
18 TraesCS3B01G435700 chr4B 82.890 263 39 5 1109 1368 77651297 77651556 6.240000e-57 231
19 TraesCS3B01G435700 chr4B 89.773 88 9 0 2605 2692 139142673 139142586 2.360000e-21 113
20 TraesCS3B01G435700 chr2B 97.778 135 3 0 1651 1785 728932995 728933129 1.730000e-57 233
21 TraesCS3B01G435700 chr4A 90.323 93 8 1 2606 2698 100639872 100639963 1.410000e-23 121
22 TraesCS3B01G435700 chr2A 90.805 87 8 0 2608 2694 352442268 352442354 1.820000e-22 117
23 TraesCS3B01G435700 chr2A 86.735 98 12 1 2606 2703 744984883 744984787 1.100000e-19 108
24 TraesCS3B01G435700 chrUn 89.130 92 10 0 2605 2696 55795706 55795797 6.560000e-22 115
25 TraesCS3B01G435700 chr6B 89.773 88 9 0 2605 2692 646944562 646944649 2.360000e-21 113


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 TraesCS3B01G435700 chr3B 674061588 674064482 2894 True 5347.00 5347 100.000000 1 2895 1 chr3B.!!$R1 2894
1 TraesCS3B01G435700 chr3D 511724967 511727805 2838 True 1353.00 3168 90.471333 1 2892 3 chr3D.!!$R1 2891
2 TraesCS3B01G435700 chr3A 647753763 647756532 2769 True 975.75 1709 91.801250 1 2892 4 chr3A.!!$R1 2891

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
345 369 0.033011 CTCTCCCTCTCCTTCCGGAA 60.033 60.0 17.73 17.73 39.29 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1925 1963 0.878416 GTGTTTAATGCCGCACCTGA 59.122 50.0 0.0 0.0 0.0 3.86 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
136 160 5.303971 CATTCTCTCTCTCTCTCTCTCTCC 58.696 50.000 0.00 0.00 0.00 3.71
269 293 2.289694 CCCCCTTCCTCGCAACATATAG 60.290 54.545 0.00 0.00 0.00 1.31
338 362 0.047176 TCTCCCTCTCTCCCTCTCCT 59.953 60.000 0.00 0.00 0.00 3.69
341 365 0.105709 CCCTCTCTCCCTCTCCTTCC 60.106 65.000 0.00 0.00 0.00 3.46
342 366 0.467290 CCTCTCTCCCTCTCCTTCCG 60.467 65.000 0.00 0.00 0.00 4.30
343 367 0.467290 CTCTCTCCCTCTCCTTCCGG 60.467 65.000 0.00 0.00 0.00 5.14
344 368 0.919780 TCTCTCCCTCTCCTTCCGGA 60.920 60.000 0.00 0.00 37.82 5.14
345 369 0.033011 CTCTCCCTCTCCTTCCGGAA 60.033 60.000 17.73 17.73 39.29 4.30
347 371 0.614979 CTCCCTCTCCTTCCGGAACA 60.615 60.000 14.35 1.40 39.29 3.18
348 372 0.614979 TCCCTCTCCTTCCGGAACAG 60.615 60.000 14.35 12.29 39.29 3.16
349 373 0.614979 CCCTCTCCTTCCGGAACAGA 60.615 60.000 14.35 15.92 39.29 3.41
350 374 0.533032 CCTCTCCTTCCGGAACAGAC 59.467 60.000 14.35 0.00 39.29 3.51
590 617 3.606687 TCCTTTCTTTTATCCACTCGGC 58.393 45.455 0.00 0.00 0.00 5.54
659 689 2.233186 GTCCCAGTTAACTACGCTTCCT 59.767 50.000 8.04 0.00 0.00 3.36
890 920 2.100916 TCTGGTTATACGCTGCTTCCTC 59.899 50.000 0.00 0.00 0.00 3.71
926 956 4.737946 GCATCTAGCTTCCTGACAACGTAT 60.738 45.833 0.00 0.00 41.15 3.06
927 957 5.507482 GCATCTAGCTTCCTGACAACGTATA 60.507 44.000 0.00 0.00 41.15 1.47
928 958 6.504398 CATCTAGCTTCCTGACAACGTATAA 58.496 40.000 0.00 0.00 0.00 0.98
947 977 9.667107 ACGTATAAAGATTTCATGGAAGAAGAA 57.333 29.630 0.00 0.00 0.00 2.52
953 983 6.302269 AGATTTCATGGAAGAAGAACACACT 58.698 36.000 0.00 0.00 0.00 3.55
954 984 5.756195 TTTCATGGAAGAAGAACACACTG 57.244 39.130 0.00 0.00 0.00 3.66
955 985 4.422073 TCATGGAAGAAGAACACACTGT 57.578 40.909 0.00 0.00 0.00 3.55
981 1019 2.158813 TCACCTTTCGTGCTTCCTCTTT 60.159 45.455 0.00 0.00 42.69 2.52
983 1021 2.618709 ACCTTTCGTGCTTCCTCTTTTG 59.381 45.455 0.00 0.00 0.00 2.44
1245 1283 1.447317 CCAGCAACGTGACCAAGCTT 61.447 55.000 0.00 0.00 32.35 3.74
1472 1510 3.063725 AGACTCGTCGATCTTCTTTACCG 59.936 47.826 0.00 0.00 34.09 4.02
1507 1545 4.448732 TCATACGCTGATGCACATACATTC 59.551 41.667 0.00 0.00 39.64 2.67
1725 1763 0.681564 CTGTCCAGGAGCTACGAGGT 60.682 60.000 9.90 0.00 0.00 3.85
1774 1812 2.967615 GGCGGCTATGAGTTCGGC 60.968 66.667 0.00 0.00 40.61 5.54
1858 1896 1.678970 GTTCCTGAAGCCCGGCATT 60.679 57.895 13.15 2.85 0.00 3.56
1925 1963 2.681778 CTCGCCCCTCTGTCAGGT 60.682 66.667 0.00 0.00 41.51 4.00
1941 1979 0.037590 AGGTCAGGTGCGGCATTAAA 59.962 50.000 5.72 0.00 0.00 1.52
1972 2013 1.627297 GGCCGGTCTTCCTCTTCCAT 61.627 60.000 1.90 0.00 0.00 3.41
2002 2043 7.498570 TGATCATGAATAAATCATCACGGTTCA 59.501 33.333 0.00 0.00 45.91 3.18
2007 2048 3.508744 AAATCATCACGGTTCATTGGC 57.491 42.857 0.00 0.00 0.00 4.52
2060 2101 7.257722 GTTGGTACCCAATTAATGTTGATGAG 58.742 38.462 10.07 0.00 45.80 2.90
2064 2143 5.496556 ACCCAATTAATGTTGATGAGTCGA 58.503 37.500 0.00 0.00 0.00 4.20
2144 2224 4.436852 GGTTATTGTTAGTGTCCATGCACG 60.437 45.833 0.00 0.00 43.61 5.34
2161 2241 1.069703 CACGCTCTTGTGGTGAACATG 60.070 52.381 0.00 0.00 38.99 3.21
2201 2281 1.736645 GAGTACATGCACGCCACGT 60.737 57.895 0.00 0.00 42.36 4.49
2252 2334 3.073678 TGGTCGATCAATGTGGAAACAG 58.926 45.455 0.00 0.00 44.46 3.16
2284 2366 8.375506 TGTTTCATACTTGACCTCTTGATAGTT 58.624 33.333 0.00 0.00 0.00 2.24
2299 2381 3.135167 TGATAGTTCTCCAGCATGCATGA 59.865 43.478 30.64 14.40 31.97 3.07
2320 2402 5.007682 TGATTAGTTTCAACTTAGGTGCCC 58.992 41.667 0.00 0.00 40.37 5.36
2336 2418 2.123589 TGCCCATGCCTAGCTAAGTAA 58.876 47.619 0.00 0.00 36.33 2.24
2359 2441 9.553064 GTAACTATAGCTAGTGGAGTACTGTAA 57.447 37.037 0.00 0.00 40.65 2.41
2515 2612 2.649516 CGCGTGCATCTCTTTTTCAAA 58.350 42.857 0.00 0.00 0.00 2.69
2517 2614 3.058520 CGCGTGCATCTCTTTTTCAAATG 59.941 43.478 0.00 0.00 0.00 2.32
2545 2648 9.338622 AGTGTAAGTTGTAAGACAAATTAAGCT 57.661 29.630 12.28 10.62 45.96 3.74
2571 2674 2.368439 AGAATGAGCTAAAATGGCGCA 58.632 42.857 10.83 0.00 42.84 6.09
2580 2683 7.432869 TGAGCTAAAATGGCGCAAATAATAAT 58.567 30.769 10.83 0.00 36.64 1.28
2581 2684 7.925483 TGAGCTAAAATGGCGCAAATAATAATT 59.075 29.630 10.83 0.00 36.64 1.40
2607 2711 8.579850 AAATTAGCATTGATCTTTCCAGTGTA 57.420 30.769 0.00 0.00 0.00 2.90
2608 2712 6.985188 TTAGCATTGATCTTTCCAGTGTAC 57.015 37.500 0.00 0.00 0.00 2.90
2609 2713 5.171339 AGCATTGATCTTTCCAGTGTACT 57.829 39.130 0.00 0.00 0.00 2.73
2610 2714 5.181748 AGCATTGATCTTTCCAGTGTACTC 58.818 41.667 0.00 0.00 0.00 2.59
2611 2715 4.333926 GCATTGATCTTTCCAGTGTACTCC 59.666 45.833 0.00 0.00 0.00 3.85
2612 2716 5.491070 CATTGATCTTTCCAGTGTACTCCA 58.509 41.667 0.00 0.00 0.00 3.86
2613 2717 5.762179 TTGATCTTTCCAGTGTACTCCAT 57.238 39.130 0.00 0.00 0.00 3.41
2614 2718 5.762179 TGATCTTTCCAGTGTACTCCATT 57.238 39.130 0.00 0.00 0.00 3.16
2615 2719 5.734720 TGATCTTTCCAGTGTACTCCATTC 58.265 41.667 0.00 0.00 0.00 2.67
2616 2720 4.188247 TCTTTCCAGTGTACTCCATTCG 57.812 45.455 0.00 0.00 0.00 3.34
2617 2721 3.576982 TCTTTCCAGTGTACTCCATTCGT 59.423 43.478 0.00 0.00 0.00 3.85
2618 2722 4.039973 TCTTTCCAGTGTACTCCATTCGTT 59.960 41.667 0.00 0.00 0.00 3.85
2619 2723 3.587797 TCCAGTGTACTCCATTCGTTC 57.412 47.619 0.00 0.00 0.00 3.95
2620 2724 3.162666 TCCAGTGTACTCCATTCGTTCT 58.837 45.455 0.00 0.00 0.00 3.01
2621 2725 4.338012 TCCAGTGTACTCCATTCGTTCTA 58.662 43.478 0.00 0.00 0.00 2.10
2622 2726 4.768448 TCCAGTGTACTCCATTCGTTCTAA 59.232 41.667 0.00 0.00 0.00 2.10
2623 2727 5.244402 TCCAGTGTACTCCATTCGTTCTAAA 59.756 40.000 0.00 0.00 0.00 1.85
2624 2728 5.929992 CCAGTGTACTCCATTCGTTCTAAAA 59.070 40.000 0.00 0.00 0.00 1.52
2625 2729 6.594159 CCAGTGTACTCCATTCGTTCTAAAAT 59.406 38.462 0.00 0.00 0.00 1.82
2626 2730 7.762615 CCAGTGTACTCCATTCGTTCTAAAATA 59.237 37.037 0.00 0.00 0.00 1.40
2627 2731 8.808529 CAGTGTACTCCATTCGTTCTAAAATAG 58.191 37.037 0.00 0.00 0.00 1.73
2628 2732 8.746530 AGTGTACTCCATTCGTTCTAAAATAGA 58.253 33.333 0.00 0.00 0.00 1.98
2629 2733 9.530633 GTGTACTCCATTCGTTCTAAAATAGAT 57.469 33.333 0.00 0.00 34.22 1.98
2630 2734 9.529325 TGTACTCCATTCGTTCTAAAATAGATG 57.471 33.333 0.00 0.00 34.22 2.90
2631 2735 9.745880 GTACTCCATTCGTTCTAAAATAGATGA 57.254 33.333 0.00 0.00 34.22 2.92
2632 2736 8.649973 ACTCCATTCGTTCTAAAATAGATGAC 57.350 34.615 0.00 0.00 34.22 3.06
2633 2737 7.711339 ACTCCATTCGTTCTAAAATAGATGACC 59.289 37.037 0.00 0.00 34.22 4.02
2634 2738 6.990349 TCCATTCGTTCTAAAATAGATGACCC 59.010 38.462 0.00 0.00 34.22 4.46
2635 2739 6.765989 CCATTCGTTCTAAAATAGATGACCCA 59.234 38.462 0.00 0.00 34.22 4.51
2636 2740 7.282224 CCATTCGTTCTAAAATAGATGACCCAA 59.718 37.037 0.00 0.00 34.22 4.12
2637 2741 7.605410 TTCGTTCTAAAATAGATGACCCAAC 57.395 36.000 0.00 0.00 34.22 3.77
2638 2742 6.942976 TCGTTCTAAAATAGATGACCCAACT 58.057 36.000 0.00 0.00 34.22 3.16
2639 2743 7.391620 TCGTTCTAAAATAGATGACCCAACTT 58.608 34.615 0.00 0.00 34.22 2.66
2640 2744 7.881232 TCGTTCTAAAATAGATGACCCAACTTT 59.119 33.333 0.00 0.00 34.22 2.66
2641 2745 9.158233 CGTTCTAAAATAGATGACCCAACTTTA 57.842 33.333 0.00 0.00 34.22 1.85
2683 2787 7.133891 AGTTGAGTCATCTATTTTGAAACGG 57.866 36.000 1.70 0.00 0.00 4.44
2684 2788 6.934645 AGTTGAGTCATCTATTTTGAAACGGA 59.065 34.615 1.70 0.00 0.00 4.69
2685 2789 7.444183 AGTTGAGTCATCTATTTTGAAACGGAA 59.556 33.333 1.70 0.00 0.00 4.30
2686 2790 7.921786 TGAGTCATCTATTTTGAAACGGAAT 57.078 32.000 0.00 0.00 0.00 3.01
2687 2791 7.751732 TGAGTCATCTATTTTGAAACGGAATG 58.248 34.615 0.00 0.00 0.00 2.67
2688 2792 7.606073 TGAGTCATCTATTTTGAAACGGAATGA 59.394 33.333 0.00 0.00 0.00 2.57
2721 2825 7.332430 TCGAAGAAGAAGAAAACTGTTTGTACA 59.668 33.333 6.53 0.00 0.00 2.90
2731 2837 8.448615 AGAAAACTGTTTGTACAAGTGAAGTAC 58.551 33.333 8.56 3.02 41.63 2.73
2751 2857 4.104383 ACCTGATCATGAACAGTTTGGT 57.896 40.909 25.85 17.27 32.93 3.67
2762 2868 1.202855 ACAGTTTGGTGCTGATCTGCT 60.203 47.619 23.02 0.66 37.40 4.24
2794 2900 4.274705 TGCGTTGTGTTGTCATATTCAACT 59.725 37.500 16.46 0.00 43.54 3.16
2847 2953 8.973182 GGGCATTAAGCTAGTCTTCTACTATAT 58.027 37.037 3.17 0.00 44.79 0.86
2886 2992 6.530019 AAGCGGAAATAATCTGTCCATTTT 57.470 33.333 0.00 0.00 36.73 1.82
2892 2998 9.669353 CGGAAATAATCTGTCCATTTTATTCTG 57.331 33.333 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
136 160 9.449719 GTAGATATTAAGGAAGAGAGAGAGAGG 57.550 40.741 0.00 0.00 0.00 3.69
269 293 0.739813 GATGGTGAGGTGCGTGGTAC 60.740 60.000 0.00 0.00 0.00 3.34
338 362 0.761323 TGGAGGTGTCTGTTCCGGAA 60.761 55.000 14.35 14.35 33.60 4.30
341 365 0.319900 CTGTGGAGGTGTCTGTTCCG 60.320 60.000 0.00 0.00 33.60 4.30
342 366 0.035458 CCTGTGGAGGTGTCTGTTCC 59.965 60.000 0.00 0.00 34.16 3.62
343 367 0.035458 CCCTGTGGAGGTGTCTGTTC 59.965 60.000 0.00 0.00 37.73 3.18
344 368 0.694444 ACCCTGTGGAGGTGTCTGTT 60.694 55.000 0.00 0.00 37.73 3.16
345 369 0.190069 TACCCTGTGGAGGTGTCTGT 59.810 55.000 0.00 0.00 38.36 3.41
347 371 2.112279 TTTACCCTGTGGAGGTGTCT 57.888 50.000 0.00 0.00 38.36 3.41
348 372 2.355818 GGATTTACCCTGTGGAGGTGTC 60.356 54.545 0.00 0.00 38.36 3.67
349 373 1.633945 GGATTTACCCTGTGGAGGTGT 59.366 52.381 0.00 0.00 38.36 4.16
350 374 1.406887 CGGATTTACCCTGTGGAGGTG 60.407 57.143 0.00 0.00 38.36 4.00
524 551 2.203070 GGTGGATGGCTGCCTACG 60.203 66.667 21.03 0.00 0.00 3.51
568 595 3.623510 GCCGAGTGGATAAAAGAAAGGAG 59.376 47.826 0.00 0.00 37.49 3.69
590 617 2.397044 AGCAAGGGGAGAGAGATAGG 57.603 55.000 0.00 0.00 0.00 2.57
659 689 1.826720 GCCTTTCTTGGATCAATGGCA 59.173 47.619 12.79 0.00 38.99 4.92
890 920 2.478134 GCTAGATGCAAGCATAGAACCG 59.522 50.000 7.64 0.00 42.31 4.44
926 956 8.567948 GTGTGTTCTTCTTCCATGAAATCTTTA 58.432 33.333 0.00 0.00 0.00 1.85
927 957 7.286316 AGTGTGTTCTTCTTCCATGAAATCTTT 59.714 33.333 0.00 0.00 0.00 2.52
928 958 6.774656 AGTGTGTTCTTCTTCCATGAAATCTT 59.225 34.615 0.00 0.00 0.00 2.40
981 1019 1.080093 CCTTCGCGCCTACTGACAA 60.080 57.895 0.00 0.00 0.00 3.18
983 1021 0.872021 CATCCTTCGCGCCTACTGAC 60.872 60.000 0.00 0.00 0.00 3.51
1191 1229 1.564622 CACGTGCACGAACTTCTGG 59.435 57.895 42.94 17.75 43.02 3.86
1245 1283 2.636412 CGGGTGGAGCTCGTTCAGA 61.636 63.158 7.83 0.00 36.08 3.27
1451 1489 3.181512 ACGGTAAAGAAGATCGACGAGTC 60.182 47.826 3.01 0.75 0.00 3.36
1472 1510 0.978385 GCGTATGAGCGATGATCGAC 59.022 55.000 20.25 11.82 43.74 4.20
1507 1545 1.091537 ACAGTCAAACACCACCAACG 58.908 50.000 0.00 0.00 0.00 4.10
1765 1803 2.882876 GCCGAGTAGCCGAACTCA 59.117 61.111 10.90 0.00 45.13 3.41
1837 1875 4.016706 CCGGGCTTCAGGAACGGT 62.017 66.667 0.00 0.00 39.70 4.83
1906 1944 3.465403 CTGACAGAGGGGCGAGGG 61.465 72.222 0.00 0.00 0.00 4.30
1925 1963 0.878416 GTGTTTAATGCCGCACCTGA 59.122 50.000 0.00 0.00 0.00 3.86
1941 1979 2.100879 GACCGGCCAGAAGAGTGTGT 62.101 60.000 0.00 0.00 0.00 3.72
1972 2013 8.562052 CCGTGATGATTTATTCATGATCAGAAA 58.438 33.333 0.09 0.00 45.29 2.52
2002 2043 6.432783 TGCACACAGTAAATAAACTAGCCAAT 59.567 34.615 0.00 0.00 0.00 3.16
2007 2048 9.494479 CATCATTGCACACAGTAAATAAACTAG 57.506 33.333 0.00 0.00 0.00 2.57
2040 2081 6.645306 TCGACTCATCAACATTAATTGGGTA 58.355 36.000 0.00 0.00 0.00 3.69
2060 2101 4.247828 GCGCGCACACGTATCGAC 62.248 66.667 29.10 0.00 42.83 4.20
2144 2224 2.498167 AGACATGTTCACCACAAGAGC 58.502 47.619 0.00 0.00 39.50 4.09
2161 2241 5.488341 TCCTACTAACCAAATGCTGAAGAC 58.512 41.667 0.00 0.00 0.00 3.01
2252 2334 7.913674 AGAGGTCAAGTATGAAACAGATTTC 57.086 36.000 0.00 0.00 43.96 2.17
2284 2366 3.851458 ACTAATCATGCATGCTGGAGA 57.149 42.857 22.25 11.41 0.00 3.71
2336 2418 7.804147 ACTTACAGTACTCCACTAGCTATAGT 58.196 38.462 0.84 0.00 43.24 2.12
2359 2441 7.012421 GGCCATGACTTCGAAATTTAGAATACT 59.988 37.037 13.21 1.14 0.00 2.12
2429 2526 2.111999 TTTAGGTCGCAGTGGCAGCT 62.112 55.000 0.00 0.00 41.24 4.24
2492 2589 2.513065 AAAAAGAGATGCACGCGCCG 62.513 55.000 5.73 0.00 37.32 6.46
2493 2590 0.794605 GAAAAAGAGATGCACGCGCC 60.795 55.000 5.73 0.00 37.32 6.53
2528 2631 8.445275 TCTTGTTGAGCTTAATTTGTCTTACA 57.555 30.769 0.00 0.00 0.00 2.41
2545 2648 5.619757 CGCCATTTTAGCTCATTCTTGTTGA 60.620 40.000 0.00 0.00 0.00 3.18
2580 2683 9.023962 ACACTGGAAAGATCAATGCTAATTTAA 57.976 29.630 0.00 0.00 0.00 1.52
2581 2684 8.579850 ACACTGGAAAGATCAATGCTAATTTA 57.420 30.769 0.00 0.00 0.00 1.40
2607 2711 7.711339 GGTCATCTATTTTAGAACGAATGGAGT 59.289 37.037 0.00 0.00 38.50 3.85
2608 2712 7.171678 GGGTCATCTATTTTAGAACGAATGGAG 59.828 40.741 0.00 0.00 38.50 3.86
2609 2713 6.990349 GGGTCATCTATTTTAGAACGAATGGA 59.010 38.462 0.00 0.00 38.50 3.41
2610 2714 6.765989 TGGGTCATCTATTTTAGAACGAATGG 59.234 38.462 0.00 0.00 38.50 3.16
2611 2715 7.786178 TGGGTCATCTATTTTAGAACGAATG 57.214 36.000 0.00 0.00 38.50 2.67
2612 2716 8.047310 AGTTGGGTCATCTATTTTAGAACGAAT 58.953 33.333 0.00 0.00 38.50 3.34
2613 2717 7.391620 AGTTGGGTCATCTATTTTAGAACGAA 58.608 34.615 0.00 0.00 38.50 3.85
2614 2718 6.942976 AGTTGGGTCATCTATTTTAGAACGA 58.057 36.000 0.00 0.00 38.50 3.85
2615 2719 7.611213 AAGTTGGGTCATCTATTTTAGAACG 57.389 36.000 0.00 0.00 38.50 3.95
2657 2761 8.076178 CCGTTTCAAAATAGATGACTCAACTTT 58.924 33.333 0.00 0.00 0.00 2.66
2658 2762 7.444183 TCCGTTTCAAAATAGATGACTCAACTT 59.556 33.333 0.00 0.00 0.00 2.66
2659 2763 6.934645 TCCGTTTCAAAATAGATGACTCAACT 59.065 34.615 0.00 0.00 0.00 3.16
2660 2764 7.129109 TCCGTTTCAAAATAGATGACTCAAC 57.871 36.000 0.00 0.00 0.00 3.18
2661 2765 7.737972 TTCCGTTTCAAAATAGATGACTCAA 57.262 32.000 0.00 0.00 0.00 3.02
2662 2766 7.606073 TCATTCCGTTTCAAAATAGATGACTCA 59.394 33.333 0.00 0.00 0.00 3.41
2663 2767 7.974675 TCATTCCGTTTCAAAATAGATGACTC 58.025 34.615 0.00 0.00 0.00 3.36
2664 2768 7.607991 ACTCATTCCGTTTCAAAATAGATGACT 59.392 33.333 0.00 0.00 0.00 3.41
2665 2769 7.752695 ACTCATTCCGTTTCAAAATAGATGAC 58.247 34.615 0.00 0.00 0.00 3.06
2666 2770 7.921786 ACTCATTCCGTTTCAAAATAGATGA 57.078 32.000 0.00 0.00 0.00 2.92
2667 2771 7.852945 GCTACTCATTCCGTTTCAAAATAGATG 59.147 37.037 0.00 0.00 0.00 2.90
2668 2772 7.770897 AGCTACTCATTCCGTTTCAAAATAGAT 59.229 33.333 0.00 0.00 0.00 1.98
2669 2773 7.103641 AGCTACTCATTCCGTTTCAAAATAGA 58.896 34.615 0.00 0.00 0.00 1.98
2670 2774 7.308782 AGCTACTCATTCCGTTTCAAAATAG 57.691 36.000 0.00 0.00 0.00 1.73
2671 2775 7.412563 CGAAGCTACTCATTCCGTTTCAAAATA 60.413 37.037 0.00 0.00 0.00 1.40
2672 2776 6.575162 AAGCTACTCATTCCGTTTCAAAAT 57.425 33.333 0.00 0.00 0.00 1.82
2673 2777 5.333798 CGAAGCTACTCATTCCGTTTCAAAA 60.334 40.000 0.00 0.00 0.00 2.44
2674 2778 4.151689 CGAAGCTACTCATTCCGTTTCAAA 59.848 41.667 0.00 0.00 0.00 2.69
2675 2779 3.678072 CGAAGCTACTCATTCCGTTTCAA 59.322 43.478 0.00 0.00 0.00 2.69
2676 2780 3.057104 TCGAAGCTACTCATTCCGTTTCA 60.057 43.478 0.00 0.00 0.00 2.69
2677 2781 3.508762 TCGAAGCTACTCATTCCGTTTC 58.491 45.455 0.00 0.00 0.00 2.78
2678 2782 3.587797 TCGAAGCTACTCATTCCGTTT 57.412 42.857 0.00 0.00 0.00 3.60
2679 2783 3.192844 TCTTCGAAGCTACTCATTCCGTT 59.807 43.478 20.56 0.00 0.00 4.44
2680 2784 2.753452 TCTTCGAAGCTACTCATTCCGT 59.247 45.455 20.56 0.00 0.00 4.69
2681 2785 3.422417 TCTTCGAAGCTACTCATTCCG 57.578 47.619 20.56 0.00 0.00 4.30
2682 2786 5.000012 TCTTCTTCGAAGCTACTCATTCC 58.000 43.478 20.56 0.00 0.00 3.01
2683 2787 6.326375 TCTTCTTCTTCGAAGCTACTCATTC 58.674 40.000 20.56 0.00 40.11 2.67
2684 2788 6.274157 TCTTCTTCTTCGAAGCTACTCATT 57.726 37.500 20.56 0.00 40.11 2.57
2685 2789 5.906113 TCTTCTTCTTCGAAGCTACTCAT 57.094 39.130 20.56 0.00 40.11 2.90
2686 2790 5.707242 TTCTTCTTCTTCGAAGCTACTCA 57.293 39.130 20.56 0.00 40.11 3.41
2687 2791 6.643360 AGTTTTCTTCTTCTTCGAAGCTACTC 59.357 38.462 20.56 3.46 40.11 2.59
2688 2792 6.422400 CAGTTTTCTTCTTCTTCGAAGCTACT 59.578 38.462 20.56 9.02 40.11 2.57
2721 2825 6.114187 TGTTCATGATCAGGTACTTCACTT 57.886 37.500 16.41 0.00 34.60 3.16
2731 2837 3.366679 GCACCAAACTGTTCATGATCAGG 60.367 47.826 28.79 18.55 36.17 3.86
2751 2857 3.528532 CAACTGTATCAGCAGATCAGCA 58.471 45.455 13.03 0.00 39.62 4.41
2762 2868 2.939756 ACAACACAACGCAACTGTATCA 59.060 40.909 0.00 0.00 0.00 2.15
2794 2900 1.894466 CTGAAATTGGGGTGCATCACA 59.106 47.619 0.00 0.00 35.86 3.58
2866 2972 9.669353 CAGAATAAAATGGACAGATTATTTCCG 57.331 33.333 6.58 0.00 30.36 4.30


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

AutoCloner maintained by Alex Coulton.