Multiple sequence alignment - TraesCS4B01G241100

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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 TraesCS4B01G241100 chr4B 100.000 3572 0 0 1 3572 500051828 500055399 0.000000e+00 6597.0
1 TraesCS4B01G241100 chr4B 89.940 1670 143 12 990 2650 500079136 500080789 0.000000e+00 2130.0
2 TraesCS4B01G241100 chr4B 97.554 368 6 1 235 599 483755805 483755438 8.420000e-176 627.0
3 TraesCS4B01G241100 chr4B 99.156 237 2 0 1 237 483756536 483756300 9.160000e-116 427.0
4 TraesCS4B01G241100 chr4A 94.672 2121 87 10 600 2704 60730094 60732204 0.000000e+00 3267.0
5 TraesCS4B01G241100 chr4A 89.251 1842 164 17 819 2650 60879813 60881630 0.000000e+00 2274.0
6 TraesCS4B01G241100 chr4A 90.977 399 23 2 3046 3433 60737690 60738086 3.160000e-145 525.0
7 TraesCS4B01G241100 chr4A 99.156 237 2 0 1 237 580137127 580136891 9.160000e-116 427.0
8 TraesCS4B01G241100 chr4A 86.920 237 21 6 2814 3041 60737359 60737594 1.270000e-64 257.0
9 TraesCS4B01G241100 chr4D 93.799 1919 78 20 872 2763 403182029 403183933 0.000000e+00 2846.0
10 TraesCS4B01G241100 chr4D 88.711 1807 164 19 868 2650 403199631 403201421 0.000000e+00 2170.0
11 TraesCS4B01G241100 chr4D 87.370 578 32 16 2814 3361 403183929 403184495 3.030000e-175 625.0
12 TraesCS4B01G241100 chr4D 91.346 208 17 1 600 807 403181739 403181945 2.100000e-72 283.0
13 TraesCS4B01G241100 chr4D 97.521 121 3 0 3452 3572 403185586 403185706 1.300000e-49 207.0
14 TraesCS4B01G241100 chr4D 98.077 52 1 0 2763 2814 384967246 384967195 1.370000e-14 91.6
15 TraesCS4B01G241100 chr4D 92.727 55 2 1 3379 3433 403184495 403184547 1.060000e-10 78.7
16 TraesCS4B01G241100 chr2D 88.313 1446 155 5 1132 2564 645838270 645839714 0.000000e+00 1722.0
17 TraesCS4B01G241100 chr2A 88.194 1423 157 7 1132 2547 771538750 771540168 0.000000e+00 1687.0
18 TraesCS4B01G241100 chr2B 87.310 591 63 6 1132 1722 789672745 789673323 0.000000e+00 665.0
19 TraesCS4B01G241100 chr7B 97.581 372 5 2 235 602 713052727 713053098 5.030000e-178 634.0
20 TraesCS4B01G241100 chr7B 94.906 373 14 3 235 603 614616917 614617288 2.390000e-161 579.0
21 TraesCS4B01G241100 chr7B 98.734 237 3 0 1 237 713051892 713052128 4.260000e-114 422.0
22 TraesCS4B01G241100 chrUn 94.974 378 15 2 235 609 40794695 40794319 1.100000e-164 590.0
23 TraesCS4B01G241100 chr3B 94.933 375 12 4 235 603 52831752 52831379 6.650000e-162 580.0
24 TraesCS4B01G241100 chr6A 94.595 370 15 3 235 599 176994636 176994267 5.180000e-158 568.0
25 TraesCS4B01G241100 chr6A 98.734 237 3 0 1 237 176995471 176995235 4.260000e-114 422.0
26 TraesCS4B01G241100 chr1A 94.355 372 15 4 235 601 579136528 579136158 1.860000e-157 566.0
27 TraesCS4B01G241100 chr1A 98.734 237 3 0 1 237 518088883 518088647 4.260000e-114 422.0
28 TraesCS4B01G241100 chr6B 94.355 372 14 4 235 599 703037943 703037572 6.690000e-157 564.0
29 TraesCS4B01G241100 chr5B 94.324 370 15 4 235 599 4591060 4591428 2.410000e-156 562.0
30 TraesCS4B01G241100 chr5B 99.156 237 2 0 1 237 309370859 309371095 9.160000e-116 427.0
31 TraesCS4B01G241100 chr3D 99.156 237 2 0 1 237 575156124 575156360 9.160000e-116 427.0
32 TraesCS4B01G241100 chr7D 99.153 236 2 0 2 237 203050042 203049807 3.300000e-115 425.0
33 TraesCS4B01G241100 chr1B 98.734 237 3 0 1 237 82052751 82052987 4.260000e-114 422.0
34 TraesCS4B01G241100 chr5D 73.159 611 127 33 1872 2471 242848380 242848964 6.090000e-43 185.0
35 TraesCS4B01G241100 chr5A 98.113 53 1 0 2762 2814 4130418 4130366 3.800000e-15 93.5
36 TraesCS4B01G241100 chr5A 89.552 67 5 2 2749 2814 32062614 32062549 2.290000e-12 84.2
37 TraesCS4B01G241100 chr6D 100.000 41 0 0 1373 1413 267729391 267729351 3.820000e-10 76.8


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 TraesCS4B01G241100 chr4B 500051828 500055399 3571 False 6597.00 6597 100.0000 1 3572 1 chr4B.!!$F1 3571
1 TraesCS4B01G241100 chr4B 500079136 500080789 1653 False 2130.00 2130 89.9400 990 2650 1 chr4B.!!$F2 1660
2 TraesCS4B01G241100 chr4B 483755438 483756536 1098 True 527.00 627 98.3550 1 599 2 chr4B.!!$R1 598
3 TraesCS4B01G241100 chr4A 60730094 60732204 2110 False 3267.00 3267 94.6720 600 2704 1 chr4A.!!$F1 2104
4 TraesCS4B01G241100 chr4A 60879813 60881630 1817 False 2274.00 2274 89.2510 819 2650 1 chr4A.!!$F2 1831
5 TraesCS4B01G241100 chr4A 60737359 60738086 727 False 391.00 525 88.9485 2814 3433 2 chr4A.!!$F3 619
6 TraesCS4B01G241100 chr4D 403199631 403201421 1790 False 2170.00 2170 88.7110 868 2650 1 chr4D.!!$F1 1782
7 TraesCS4B01G241100 chr4D 403181739 403185706 3967 False 807.94 2846 92.5526 600 3572 5 chr4D.!!$F2 2972
8 TraesCS4B01G241100 chr2D 645838270 645839714 1444 False 1722.00 1722 88.3130 1132 2564 1 chr2D.!!$F1 1432
9 TraesCS4B01G241100 chr2A 771538750 771540168 1418 False 1687.00 1687 88.1940 1132 2547 1 chr2A.!!$F1 1415
10 TraesCS4B01G241100 chr2B 789672745 789673323 578 False 665.00 665 87.3100 1132 1722 1 chr2B.!!$F1 590
11 TraesCS4B01G241100 chr7B 713051892 713053098 1206 False 528.00 634 98.1575 1 602 2 chr7B.!!$F2 601
12 TraesCS4B01G241100 chr6A 176994267 176995471 1204 True 495.00 568 96.6645 1 599 2 chr6A.!!$R1 598

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
788 1399 1.420138 ACGGAAAGTCCACATCAGGTT 59.58 47.619 0.0 0.0 35.91 3.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2737 3460 0.250234 CCATCGAAGTCCTTGGAGCA 59.75 55.0 0.0 0.0 31.07 4.26 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
50 51 6.224665 ACCATTATGCACATTGTTAGCATT 57.775 33.333 16.82 1.46 45.98 3.56
338 941 4.009675 GGATGTGTTCATGGAAGTAAGCA 58.990 43.478 0.00 0.00 34.06 3.91
451 1057 8.879342 AGACTAGTATTGTAATTGAGCACATC 57.121 34.615 0.00 0.00 0.00 3.06
602 1210 4.641645 TGGGTCCGCCACTGCTTG 62.642 66.667 0.00 0.00 36.17 4.01
693 1304 5.680619 TGTGGAGCATAAACTCGGAATATT 58.319 37.500 0.00 0.00 37.57 1.28
718 1329 1.608025 GGAATATCTTCCGATGCGCCA 60.608 52.381 4.18 0.00 41.60 5.69
788 1399 1.420138 ACGGAAAGTCCACATCAGGTT 59.580 47.619 0.00 0.00 35.91 3.50
1117 1798 2.740055 CGCAGCGGCAGAAGAACT 60.740 61.111 7.00 0.00 41.24 3.01
1128 1809 1.153804 GAAGAACTCGCCGAGGACC 60.154 63.158 19.61 6.80 33.35 4.46
1186 1867 2.515991 CCAACCGGCACCGCATAT 60.516 61.111 0.00 0.00 38.24 1.78
1323 2004 1.784525 GCGCCAGCTTCGATAACTAT 58.215 50.000 9.12 0.00 41.01 2.12
1368 2049 2.584391 GCTCCACGACTTCCTGGGT 61.584 63.158 0.00 0.00 0.00 4.51
1758 2463 4.824537 GGATTCTGGAAGATAAAGAAGGCC 59.175 45.833 0.00 0.00 46.36 5.19
1818 2523 2.699073 CATAGTGCATGGCTTCGCT 58.301 52.632 0.00 0.00 0.00 4.93
1823 2528 1.078285 TGCATGGCTTCGCTGATGA 60.078 52.632 0.00 0.00 0.00 2.92
1983 2691 1.218316 GGAAACGACATCCTCCGCT 59.782 57.895 0.00 0.00 33.98 5.52
2475 3192 2.427506 GTGCTGGAGGAGTTCGAATTT 58.572 47.619 0.00 0.00 0.00 1.82
2597 3314 3.855379 CGACGACAAGATGACGGAAAATA 59.145 43.478 7.10 0.00 39.65 1.40
2669 3390 3.260888 TGGGGCCGGATGGTTTCA 61.261 61.111 5.05 0.00 37.67 2.69
2670 3391 2.278738 GGGGCCGGATGGTTTCAT 59.721 61.111 5.05 0.00 37.67 2.57
2685 3406 3.254903 GGTTTCATGGGCGTTTCTACTTT 59.745 43.478 0.00 0.00 0.00 2.66
2704 3425 3.524095 TTGGTCTGTTGGTCCATCATT 57.476 42.857 3.03 0.00 0.00 2.57
2720 3441 4.212847 CCATCATTAAGCTCGATCTTGTGG 59.787 45.833 11.67 7.91 0.00 4.17
2721 3442 4.471904 TCATTAAGCTCGATCTTGTGGT 57.528 40.909 11.67 0.00 0.00 4.16
2723 3444 2.672961 TAAGCTCGATCTTGTGGTGG 57.327 50.000 11.67 0.00 0.00 4.61
2737 3460 0.820871 TGGTGGCTTTTCACGCTTTT 59.179 45.000 0.00 0.00 38.46 2.27
2745 3469 2.490328 TTTCACGCTTTTGCTCCAAG 57.510 45.000 0.00 0.00 44.80 3.61
2752 3476 1.068954 GCTTTTGCTCCAAGGACTTCG 60.069 52.381 0.00 0.00 43.35 3.79
2758 3482 1.139853 GCTCCAAGGACTTCGATGGAT 59.860 52.381 3.74 0.00 40.94 3.41
2759 3483 2.420687 GCTCCAAGGACTTCGATGGATT 60.421 50.000 3.74 0.00 40.94 3.01
2760 3484 3.878778 CTCCAAGGACTTCGATGGATTT 58.121 45.455 3.74 0.00 40.94 2.17
2761 3485 4.683400 GCTCCAAGGACTTCGATGGATTTA 60.683 45.833 3.74 0.00 40.94 1.40
2762 3486 5.023533 TCCAAGGACTTCGATGGATTTAG 57.976 43.478 0.00 0.00 37.05 1.85
2763 3487 4.130118 CCAAGGACTTCGATGGATTTAGG 58.870 47.826 3.12 0.00 34.82 2.69
2764 3488 4.130118 CAAGGACTTCGATGGATTTAGGG 58.870 47.826 3.12 0.00 0.00 3.53
2765 3489 2.104963 AGGACTTCGATGGATTTAGGGC 59.895 50.000 3.12 0.00 0.00 5.19
2766 3490 2.135933 GACTTCGATGGATTTAGGGCG 58.864 52.381 3.12 0.00 0.00 6.13
2767 3491 1.485066 ACTTCGATGGATTTAGGGCGT 59.515 47.619 3.12 0.00 0.00 5.68
2768 3492 1.867233 CTTCGATGGATTTAGGGCGTG 59.133 52.381 0.00 0.00 0.00 5.34
2769 3493 0.828022 TCGATGGATTTAGGGCGTGT 59.172 50.000 0.00 0.00 0.00 4.49
2770 3494 1.208535 TCGATGGATTTAGGGCGTGTT 59.791 47.619 0.00 0.00 0.00 3.32
2771 3495 2.014128 CGATGGATTTAGGGCGTGTTT 58.986 47.619 0.00 0.00 0.00 2.83
2772 3496 2.422127 CGATGGATTTAGGGCGTGTTTT 59.578 45.455 0.00 0.00 0.00 2.43
2773 3497 3.730662 CGATGGATTTAGGGCGTGTTTTG 60.731 47.826 0.00 0.00 0.00 2.44
2774 3498 2.865079 TGGATTTAGGGCGTGTTTTGA 58.135 42.857 0.00 0.00 0.00 2.69
2775 3499 3.426615 TGGATTTAGGGCGTGTTTTGAT 58.573 40.909 0.00 0.00 0.00 2.57
2776 3500 3.442273 TGGATTTAGGGCGTGTTTTGATC 59.558 43.478 0.00 0.00 0.00 2.92
2777 3501 3.694566 GGATTTAGGGCGTGTTTTGATCT 59.305 43.478 0.00 0.00 0.00 2.75
2778 3502 4.201920 GGATTTAGGGCGTGTTTTGATCTC 60.202 45.833 0.00 0.00 0.00 2.75
2779 3503 2.396590 TAGGGCGTGTTTTGATCTCC 57.603 50.000 0.00 0.00 0.00 3.71
2780 3504 0.693049 AGGGCGTGTTTTGATCTCCT 59.307 50.000 0.00 0.00 0.00 3.69
2781 3505 1.087501 GGGCGTGTTTTGATCTCCTC 58.912 55.000 0.00 0.00 0.00 3.71
2782 3506 1.087501 GGCGTGTTTTGATCTCCTCC 58.912 55.000 0.00 0.00 0.00 4.30
2783 3507 1.610624 GGCGTGTTTTGATCTCCTCCA 60.611 52.381 0.00 0.00 0.00 3.86
2784 3508 1.734465 GCGTGTTTTGATCTCCTCCAG 59.266 52.381 0.00 0.00 0.00 3.86
2785 3509 2.612972 GCGTGTTTTGATCTCCTCCAGA 60.613 50.000 0.00 0.00 34.78 3.86
2786 3510 3.866651 CGTGTTTTGATCTCCTCCAGAT 58.133 45.455 0.00 0.00 45.41 2.90
2787 3511 4.256920 CGTGTTTTGATCTCCTCCAGATT 58.743 43.478 0.00 0.00 42.48 2.40
2788 3512 4.331168 CGTGTTTTGATCTCCTCCAGATTC 59.669 45.833 0.00 0.00 42.48 2.52
2789 3513 5.495640 GTGTTTTGATCTCCTCCAGATTCT 58.504 41.667 0.00 0.00 42.48 2.40
2790 3514 5.584251 GTGTTTTGATCTCCTCCAGATTCTC 59.416 44.000 0.00 0.00 42.48 2.87
2791 3515 5.122519 GTTTTGATCTCCTCCAGATTCTCC 58.877 45.833 0.00 0.00 42.48 3.71
2792 3516 3.695357 TGATCTCCTCCAGATTCTCCA 57.305 47.619 0.00 0.00 42.48 3.86
2793 3517 3.999603 TGATCTCCTCCAGATTCTCCAA 58.000 45.455 0.00 0.00 42.48 3.53
2794 3518 4.365368 TGATCTCCTCCAGATTCTCCAAA 58.635 43.478 0.00 0.00 42.48 3.28
2795 3519 4.163078 TGATCTCCTCCAGATTCTCCAAAC 59.837 45.833 0.00 0.00 42.48 2.93
2796 3520 3.796111 TCTCCTCCAGATTCTCCAAACT 58.204 45.455 0.00 0.00 0.00 2.66
2797 3521 4.171234 TCTCCTCCAGATTCTCCAAACTT 58.829 43.478 0.00 0.00 0.00 2.66
2798 3522 4.223923 TCTCCTCCAGATTCTCCAAACTTC 59.776 45.833 0.00 0.00 0.00 3.01
2799 3523 4.171234 TCCTCCAGATTCTCCAAACTTCT 58.829 43.478 0.00 0.00 0.00 2.85
2800 3524 4.223923 TCCTCCAGATTCTCCAAACTTCTC 59.776 45.833 0.00 0.00 0.00 2.87
2801 3525 4.019860 CCTCCAGATTCTCCAAACTTCTCA 60.020 45.833 0.00 0.00 0.00 3.27
2802 3526 5.513788 CCTCCAGATTCTCCAAACTTCTCAA 60.514 44.000 0.00 0.00 0.00 3.02
2803 3527 5.940617 TCCAGATTCTCCAAACTTCTCAAA 58.059 37.500 0.00 0.00 0.00 2.69
2804 3528 6.546484 TCCAGATTCTCCAAACTTCTCAAAT 58.454 36.000 0.00 0.00 0.00 2.32
2805 3529 6.656693 TCCAGATTCTCCAAACTTCTCAAATC 59.343 38.462 0.00 0.00 0.00 2.17
2806 3530 6.127786 CCAGATTCTCCAAACTTCTCAAATCC 60.128 42.308 0.00 0.00 0.00 3.01
2807 3531 6.432162 CAGATTCTCCAAACTTCTCAAATCCA 59.568 38.462 0.00 0.00 0.00 3.41
2808 3532 6.658391 AGATTCTCCAAACTTCTCAAATCCAG 59.342 38.462 0.00 0.00 0.00 3.86
2809 3533 4.074970 TCTCCAAACTTCTCAAATCCAGC 58.925 43.478 0.00 0.00 0.00 4.85
2810 3534 4.077822 CTCCAAACTTCTCAAATCCAGCT 58.922 43.478 0.00 0.00 0.00 4.24
2811 3535 4.473444 TCCAAACTTCTCAAATCCAGCTT 58.527 39.130 0.00 0.00 0.00 3.74
2812 3536 4.520492 TCCAAACTTCTCAAATCCAGCTTC 59.480 41.667 0.00 0.00 0.00 3.86
2846 3570 2.664402 AAAACAGTGATGGAGCCAGT 57.336 45.000 0.00 0.00 0.00 4.00
2959 3689 5.845953 CGGCGCTATAAAAACATCATTACAG 59.154 40.000 7.64 0.00 0.00 2.74
2991 3724 4.725790 AATTTGCCTCTATGCTTCCAAC 57.274 40.909 0.00 0.00 0.00 3.77
2993 3726 2.877097 TGCCTCTATGCTTCCAACAA 57.123 45.000 0.00 0.00 0.00 2.83
2999 3732 5.532406 GCCTCTATGCTTCCAACAAATCATA 59.468 40.000 0.00 0.00 0.00 2.15
3215 4052 2.289547 GGTGTTTGACTGCGCTTTTCTA 59.710 45.455 9.73 0.00 0.00 2.10
3337 4174 5.831525 TGCATCAAAATGATTCCTAGAGCAT 59.168 36.000 0.00 0.00 34.28 3.79
3361 4198 5.690409 TGTACAAGATCGAAACTCTTCACAC 59.310 40.000 0.00 0.00 30.60 3.82
3433 4270 4.955811 AACAGTCACCAGTTCACATAGA 57.044 40.909 0.00 0.00 0.00 1.98
3434 4271 5.489792 AACAGTCACCAGTTCACATAGAT 57.510 39.130 0.00 0.00 0.00 1.98
3435 4272 6.605471 AACAGTCACCAGTTCACATAGATA 57.395 37.500 0.00 0.00 0.00 1.98
3436 4273 6.605471 ACAGTCACCAGTTCACATAGATAA 57.395 37.500 0.00 0.00 0.00 1.75
3439 4276 6.035005 CAGTCACCAGTTCACATAGATAAACG 59.965 42.308 0.00 0.00 0.00 3.60
3440 4277 6.071560 AGTCACCAGTTCACATAGATAAACGA 60.072 38.462 0.00 0.00 0.00 3.85
3441 4278 6.588756 GTCACCAGTTCACATAGATAAACGAA 59.411 38.462 0.00 0.00 0.00 3.85
3443 4280 7.117236 TCACCAGTTCACATAGATAAACGAAAC 59.883 37.037 0.00 0.00 0.00 2.78
3444 4281 6.370718 ACCAGTTCACATAGATAAACGAAACC 59.629 38.462 0.00 0.00 0.00 3.27
3445 4282 6.594159 CCAGTTCACATAGATAAACGAAACCT 59.406 38.462 0.00 0.00 0.00 3.50
3446 4283 7.201530 CCAGTTCACATAGATAAACGAAACCTC 60.202 40.741 0.00 0.00 0.00 3.85
3447 4284 6.817140 AGTTCACATAGATAAACGAAACCTCC 59.183 38.462 0.00 0.00 0.00 4.30
3448 4285 5.667466 TCACATAGATAAACGAAACCTCCC 58.333 41.667 0.00 0.00 0.00 4.30
3469 5326 4.326826 CCAACAATAGGAGAAGAGCACAA 58.673 43.478 0.00 0.00 0.00 3.33
3490 5347 5.942826 ACAAGGAAGGAAGAGCTTAAATGAG 59.057 40.000 0.00 0.00 0.00 2.90
3526 5383 5.243426 TCAGTCTAGCCAAAAACAAACAC 57.757 39.130 0.00 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
338 941 7.692460 TGAAAGCATCAACTATGTCATCTTT 57.308 32.000 0.00 0.00 37.93 2.52
480 1086 9.570468 ACATGAGTATCTTAATGCAAATCTCAT 57.430 29.630 0.00 0.00 39.60 2.90
602 1210 3.151022 CTGTCCCCCGGAGCTCTC 61.151 72.222 14.64 2.76 29.39 3.20
980 1645 1.360911 GTCGCTAGCTAGCTGGACC 59.639 63.158 36.02 19.81 46.85 4.46
1109 1790 1.596895 GGTCCTCGGCGAGTTCTTCT 61.597 60.000 32.41 0.00 0.00 2.85
1111 1792 2.647158 GGGTCCTCGGCGAGTTCTT 61.647 63.158 32.41 0.00 0.00 2.52
1112 1793 3.069318 GGGTCCTCGGCGAGTTCT 61.069 66.667 32.41 0.00 0.00 3.01
1186 1867 2.583441 CCTCGGTGAGCCAGTCCAA 61.583 63.158 0.00 0.00 34.09 3.53
1368 2049 2.435938 GCGTTGAAGATGCCCCGA 60.436 61.111 0.00 0.00 34.03 5.14
1478 2159 4.166888 GCCTGCCATGGAGCTCGA 62.167 66.667 18.40 3.70 0.00 4.04
1758 2463 1.296715 CTCGGAACCCAGGTTGAGG 59.703 63.158 6.84 0.00 38.60 3.86
1983 2691 0.687354 GCCAGAAGAACCAGGTGAGA 59.313 55.000 0.00 0.00 0.00 3.27
2208 2916 2.029964 GTGCCGTCCGGAAGAACA 59.970 61.111 19.75 13.43 37.50 3.18
2597 3314 6.112734 TCTACACGGTTATCATTCAAAGCAT 58.887 36.000 0.00 0.00 0.00 3.79
2652 3372 2.621445 ATGAAACCATCCGGCCCCA 61.621 57.895 0.00 0.00 34.57 4.96
2669 3390 2.039879 AGACCAAAGTAGAAACGCCCAT 59.960 45.455 0.00 0.00 0.00 4.00
2670 3391 1.418637 AGACCAAAGTAGAAACGCCCA 59.581 47.619 0.00 0.00 0.00 5.36
2685 3406 4.588899 CTTAATGATGGACCAACAGACCA 58.411 43.478 10.49 0.00 44.64 4.02
2704 3425 1.405526 GCCACCACAAGATCGAGCTTA 60.406 52.381 16.70 0.00 0.00 3.09
2720 3441 0.576798 GCAAAAGCGTGAAAAGCCAC 59.423 50.000 0.00 0.00 44.61 5.01
2721 3442 0.459489 AGCAAAAGCGTGAAAAGCCA 59.541 45.000 0.00 0.00 44.61 4.75
2723 3444 1.131771 GGAGCAAAAGCGTGAAAAGC 58.868 50.000 0.00 0.00 43.53 3.51
2737 3460 0.250234 CCATCGAAGTCCTTGGAGCA 59.750 55.000 0.00 0.00 31.07 4.26
2745 3469 2.495084 GCCCTAAATCCATCGAAGTCC 58.505 52.381 0.00 0.00 0.00 3.85
2752 3476 3.442273 TCAAAACACGCCCTAAATCCATC 59.558 43.478 0.00 0.00 0.00 3.51
2758 3482 3.078837 GGAGATCAAAACACGCCCTAAA 58.921 45.455 0.00 0.00 0.00 1.85
2759 3483 2.304761 AGGAGATCAAAACACGCCCTAA 59.695 45.455 0.00 0.00 0.00 2.69
2760 3484 1.906574 AGGAGATCAAAACACGCCCTA 59.093 47.619 0.00 0.00 0.00 3.53
2761 3485 0.693049 AGGAGATCAAAACACGCCCT 59.307 50.000 0.00 0.00 0.00 5.19
2762 3486 1.087501 GAGGAGATCAAAACACGCCC 58.912 55.000 0.00 0.00 0.00 6.13
2763 3487 1.087501 GGAGGAGATCAAAACACGCC 58.912 55.000 0.00 0.00 0.00 5.68
2764 3488 1.734465 CTGGAGGAGATCAAAACACGC 59.266 52.381 0.00 0.00 0.00 5.34
2765 3489 3.319137 TCTGGAGGAGATCAAAACACG 57.681 47.619 0.00 0.00 0.00 4.49
2766 3490 5.495640 AGAATCTGGAGGAGATCAAAACAC 58.504 41.667 0.00 0.00 40.89 3.32
2767 3491 5.338708 GGAGAATCTGGAGGAGATCAAAACA 60.339 44.000 0.00 0.00 40.89 2.83
2768 3492 5.122519 GGAGAATCTGGAGGAGATCAAAAC 58.877 45.833 0.00 0.00 40.89 2.43
2769 3493 4.784838 TGGAGAATCTGGAGGAGATCAAAA 59.215 41.667 0.00 0.00 40.89 2.44
2770 3494 4.365368 TGGAGAATCTGGAGGAGATCAAA 58.635 43.478 0.00 0.00 40.89 2.69
2771 3495 3.999603 TGGAGAATCTGGAGGAGATCAA 58.000 45.455 0.00 0.00 40.89 2.57
2772 3496 3.695357 TGGAGAATCTGGAGGAGATCA 57.305 47.619 0.00 0.00 40.89 2.92
2773 3497 4.408596 AGTTTGGAGAATCTGGAGGAGATC 59.591 45.833 0.00 0.00 40.89 2.75
2774 3498 4.369872 AGTTTGGAGAATCTGGAGGAGAT 58.630 43.478 0.00 0.00 43.91 2.75
2775 3499 3.796111 AGTTTGGAGAATCTGGAGGAGA 58.204 45.455 0.00 0.00 33.73 3.71
2776 3500 4.224818 AGAAGTTTGGAGAATCTGGAGGAG 59.775 45.833 0.00 0.00 33.73 3.69
2777 3501 4.171234 AGAAGTTTGGAGAATCTGGAGGA 58.829 43.478 0.00 0.00 33.73 3.71
2778 3502 4.019860 TGAGAAGTTTGGAGAATCTGGAGG 60.020 45.833 0.00 0.00 33.73 4.30
2779 3503 5.157940 TGAGAAGTTTGGAGAATCTGGAG 57.842 43.478 0.00 0.00 33.73 3.86
2780 3504 5.567037 TTGAGAAGTTTGGAGAATCTGGA 57.433 39.130 0.00 0.00 33.73 3.86
2781 3505 6.127786 GGATTTGAGAAGTTTGGAGAATCTGG 60.128 42.308 0.00 0.00 33.73 3.86
2782 3506 6.432162 TGGATTTGAGAAGTTTGGAGAATCTG 59.568 38.462 0.00 0.00 33.73 2.90
2783 3507 6.546484 TGGATTTGAGAAGTTTGGAGAATCT 58.454 36.000 0.00 0.00 33.73 2.40
2784 3508 6.624642 GCTGGATTTGAGAAGTTTGGAGAATC 60.625 42.308 0.00 0.00 0.00 2.52
2785 3509 5.184671 GCTGGATTTGAGAAGTTTGGAGAAT 59.815 40.000 0.00 0.00 0.00 2.40
2786 3510 4.520492 GCTGGATTTGAGAAGTTTGGAGAA 59.480 41.667 0.00 0.00 0.00 2.87
2787 3511 4.074970 GCTGGATTTGAGAAGTTTGGAGA 58.925 43.478 0.00 0.00 0.00 3.71
2788 3512 4.077822 AGCTGGATTTGAGAAGTTTGGAG 58.922 43.478 0.00 0.00 0.00 3.86
2789 3513 4.104383 AGCTGGATTTGAGAAGTTTGGA 57.896 40.909 0.00 0.00 0.00 3.53
2790 3514 4.522022 AGAAGCTGGATTTGAGAAGTTTGG 59.478 41.667 0.00 0.00 0.00 3.28
2791 3515 5.702349 AGAAGCTGGATTTGAGAAGTTTG 57.298 39.130 0.00 0.00 0.00 2.93
2792 3516 6.721704 AAAGAAGCTGGATTTGAGAAGTTT 57.278 33.333 0.00 0.00 0.00 2.66
2793 3517 7.001073 ACTAAAGAAGCTGGATTTGAGAAGTT 58.999 34.615 0.00 0.00 0.00 2.66
2794 3518 6.429385 CACTAAAGAAGCTGGATTTGAGAAGT 59.571 38.462 0.00 0.00 0.00 3.01
2795 3519 6.622462 GCACTAAAGAAGCTGGATTTGAGAAG 60.622 42.308 0.00 0.00 0.00 2.85
2796 3520 5.182001 GCACTAAAGAAGCTGGATTTGAGAA 59.818 40.000 0.00 0.00 0.00 2.87
2797 3521 4.697352 GCACTAAAGAAGCTGGATTTGAGA 59.303 41.667 0.00 0.00 0.00 3.27
2798 3522 4.142513 GGCACTAAAGAAGCTGGATTTGAG 60.143 45.833 0.00 0.00 0.00 3.02
2799 3523 3.758554 GGCACTAAAGAAGCTGGATTTGA 59.241 43.478 0.00 0.00 0.00 2.69
2800 3524 3.507233 TGGCACTAAAGAAGCTGGATTTG 59.493 43.478 0.00 0.00 0.00 2.32
2801 3525 3.766545 TGGCACTAAAGAAGCTGGATTT 58.233 40.909 0.00 0.00 0.00 2.17
2802 3526 3.439857 TGGCACTAAAGAAGCTGGATT 57.560 42.857 0.00 0.00 0.00 3.01
2803 3527 3.285484 CATGGCACTAAAGAAGCTGGAT 58.715 45.455 0.00 0.00 0.00 3.41
2804 3528 2.618816 CCATGGCACTAAAGAAGCTGGA 60.619 50.000 0.00 0.00 0.00 3.86
2805 3529 1.747355 CCATGGCACTAAAGAAGCTGG 59.253 52.381 0.00 0.00 0.00 4.85
2806 3530 2.715046 TCCATGGCACTAAAGAAGCTG 58.285 47.619 6.96 0.00 0.00 4.24
2807 3531 3.439857 TTCCATGGCACTAAAGAAGCT 57.560 42.857 6.96 0.00 0.00 3.74
2808 3532 4.519540 TTTTCCATGGCACTAAAGAAGC 57.480 40.909 6.96 0.00 0.00 3.86
2809 3533 5.841810 TGTTTTTCCATGGCACTAAAGAAG 58.158 37.500 6.96 0.00 0.00 2.85
2810 3534 5.362430 ACTGTTTTTCCATGGCACTAAAGAA 59.638 36.000 6.96 0.00 0.00 2.52
2811 3535 4.892934 ACTGTTTTTCCATGGCACTAAAGA 59.107 37.500 6.96 2.56 0.00 2.52
2812 3536 4.984161 CACTGTTTTTCCATGGCACTAAAG 59.016 41.667 6.96 3.35 0.00 1.85
2846 3570 2.570415 TTTGGTCTCCCGTGCAAATA 57.430 45.000 0.00 0.00 0.00 1.40
2922 3652 0.321653 AGCGCCGAAATGAAACCTCT 60.322 50.000 2.29 0.00 0.00 3.69
2923 3653 1.365699 TAGCGCCGAAATGAAACCTC 58.634 50.000 2.29 0.00 0.00 3.85
2930 3660 5.270083 TGATGTTTTTATAGCGCCGAAATG 58.730 37.500 2.29 0.00 0.00 2.32
2931 3661 5.493133 TGATGTTTTTATAGCGCCGAAAT 57.507 34.783 2.29 0.00 0.00 2.17
2932 3662 4.948608 TGATGTTTTTATAGCGCCGAAA 57.051 36.364 2.29 0.00 0.00 3.46
2935 3665 5.743467 TGTAATGATGTTTTTATAGCGCCG 58.257 37.500 2.29 0.00 0.00 6.46
2959 3689 8.624776 AGCATAGAGGCAAATTTGAACTAATAC 58.375 33.333 22.31 12.69 35.83 1.89
3044 3861 5.568482 TGCTTCACAATTGCACGATAATAC 58.432 37.500 5.05 0.00 0.00 1.89
3052 3877 3.189285 ACAACTTGCTTCACAATTGCAC 58.811 40.909 5.05 0.00 37.72 4.57
3139 3965 5.878406 ATAATTCTCCGAGTCTCAATGGT 57.122 39.130 0.00 0.00 0.00 3.55
3202 4039 5.665459 ACTCTATGAATAGAAAAGCGCAGT 58.335 37.500 11.47 0.00 38.80 4.40
3265 4102 6.473131 TCAATGACGCAAAGATTTCATATTGC 59.527 34.615 0.00 0.00 43.51 3.56
3272 4109 7.912250 AGTTCATATCAATGACGCAAAGATTTC 59.088 33.333 0.00 0.00 41.87 2.17
3337 4174 5.690409 GTGTGAAGAGTTTCGATCTTGTACA 59.310 40.000 4.53 7.04 37.14 2.90
3361 4198 5.381174 ACTGATTGTGTGATTTGTGATGG 57.619 39.130 0.00 0.00 0.00 3.51
3433 4270 5.650703 CCTATTGTTGGGAGGTTTCGTTTAT 59.349 40.000 0.00 0.00 0.00 1.40
3434 4271 5.005094 CCTATTGTTGGGAGGTTTCGTTTA 58.995 41.667 0.00 0.00 0.00 2.01
3435 4272 3.824443 CCTATTGTTGGGAGGTTTCGTTT 59.176 43.478 0.00 0.00 0.00 3.60
3436 4273 3.073356 TCCTATTGTTGGGAGGTTTCGTT 59.927 43.478 0.00 0.00 0.00 3.85
3445 4282 3.055094 GTGCTCTTCTCCTATTGTTGGGA 60.055 47.826 0.00 0.00 0.00 4.37
3446 4283 3.274288 GTGCTCTTCTCCTATTGTTGGG 58.726 50.000 0.00 0.00 0.00 4.12
3447 4284 3.942829 TGTGCTCTTCTCCTATTGTTGG 58.057 45.455 0.00 0.00 0.00 3.77
3448 4285 4.394300 CCTTGTGCTCTTCTCCTATTGTTG 59.606 45.833 0.00 0.00 0.00 3.33
3469 5326 4.018960 TGCTCATTTAAGCTCTTCCTTCCT 60.019 41.667 0.00 0.00 42.94 3.36
3526 5383 3.361158 TTGTTGGGATGGCGCGTG 61.361 61.111 8.43 0.00 0.00 5.34


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

AutoCloner maintained by Alex Coulton.