Multiple sequence alignment - TraesCS3A01G239700

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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 TraesCS3A01G239700 chr3A 100.000 4008 0 0 1 4008 449666143 449670150 0.000000e+00 7402.0
1 TraesCS3A01G239700 chr3A 91.160 871 40 14 3165 4008 714369502 714370362 0.000000e+00 1147.0
2 TraesCS3A01G239700 chr3B 91.313 2429 133 24 430 2805 431536606 431539009 0.000000e+00 3245.0
3 TraesCS3A01G239700 chr3B 92.334 874 38 12 3162 4008 744643081 744643952 0.000000e+00 1216.0
4 TraesCS3A01G239700 chr3B 92.325 873 38 12 3163 4008 744633935 744634805 0.000000e+00 1214.0
5 TraesCS3A01G239700 chr3B 88.095 504 31 11 3162 3639 716984554 716985054 4.490000e-159 571.0
6 TraesCS3A01G239700 chr3B 95.028 362 13 4 2802 3160 431539186 431539545 7.520000e-157 564.0
7 TraesCS3A01G239700 chr3B 92.331 326 22 2 3165 3490 460246853 460246531 1.010000e-125 460.0
8 TraesCS3A01G239700 chr3B 93.069 101 7 0 283 383 431536500 431536600 8.970000e-32 148.0
9 TraesCS3A01G239700 chr3D 92.911 1848 81 19 1 1838 332489863 332491670 0.000000e+00 2641.0
10 TraesCS3A01G239700 chr3D 91.359 1354 78 18 1833 3160 332492548 332493888 0.000000e+00 1816.0
11 TraesCS3A01G239700 chr2B 92.719 879 34 15 3158 4008 557987401 557986525 0.000000e+00 1242.0
12 TraesCS3A01G239700 chr6B 91.123 721 34 15 3161 3854 710912904 710912187 0.000000e+00 950.0
13 TraesCS3A01G239700 chr6B 88.028 568 39 14 3161 3701 137386994 137386429 0.000000e+00 645.0
14 TraesCS3A01G239700 chr5D 88.640 713 52 8 3323 4008 528153064 528152354 0.000000e+00 841.0
15 TraesCS3A01G239700 chr5D 88.326 651 49 13 3164 3791 310575148 310574502 0.000000e+00 756.0
16 TraesCS3A01G239700 chr1A 93.524 525 31 3 3486 4008 586225033 586224510 0.000000e+00 778.0
17 TraesCS3A01G239700 chr5A 86.565 655 52 19 3164 3791 404060202 404059557 0.000000e+00 689.0
18 TraesCS3A01G239700 chr2D 77.551 539 99 11 3490 4008 106948942 106949478 5.030000e-79 305.0
19 TraesCS3A01G239700 chr4D 73.129 294 64 11 428 709 14439938 14440228 1.530000e-14 91.6
20 TraesCS3A01G239700 chr4A 85.393 89 8 5 536 621 665451537 665451623 1.980000e-13 87.9
21 TraesCS3A01G239700 chr5B 84.932 73 11 0 582 654 292165024 292164952 1.540000e-09 75.0


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 TraesCS3A01G239700 chr3A 449666143 449670150 4007 False 7402.0 7402 100.000000 1 4008 1 chr3A.!!$F1 4007
1 TraesCS3A01G239700 chr3A 714369502 714370362 860 False 1147.0 1147 91.160000 3165 4008 1 chr3A.!!$F2 843
2 TraesCS3A01G239700 chr3B 431536500 431539545 3045 False 1319.0 3245 93.136667 283 3160 3 chr3B.!!$F4 2877
3 TraesCS3A01G239700 chr3B 744643081 744643952 871 False 1216.0 1216 92.334000 3162 4008 1 chr3B.!!$F3 846
4 TraesCS3A01G239700 chr3B 744633935 744634805 870 False 1214.0 1214 92.325000 3163 4008 1 chr3B.!!$F2 845
5 TraesCS3A01G239700 chr3B 716984554 716985054 500 False 571.0 571 88.095000 3162 3639 1 chr3B.!!$F1 477
6 TraesCS3A01G239700 chr3D 332489863 332493888 4025 False 2228.5 2641 92.135000 1 3160 2 chr3D.!!$F1 3159
7 TraesCS3A01G239700 chr2B 557986525 557987401 876 True 1242.0 1242 92.719000 3158 4008 1 chr2B.!!$R1 850
8 TraesCS3A01G239700 chr6B 710912187 710912904 717 True 950.0 950 91.123000 3161 3854 1 chr6B.!!$R2 693
9 TraesCS3A01G239700 chr6B 137386429 137386994 565 True 645.0 645 88.028000 3161 3701 1 chr6B.!!$R1 540
10 TraesCS3A01G239700 chr5D 528152354 528153064 710 True 841.0 841 88.640000 3323 4008 1 chr5D.!!$R2 685
11 TraesCS3A01G239700 chr5D 310574502 310575148 646 True 756.0 756 88.326000 3164 3791 1 chr5D.!!$R1 627
12 TraesCS3A01G239700 chr1A 586224510 586225033 523 True 778.0 778 93.524000 3486 4008 1 chr1A.!!$R1 522
13 TraesCS3A01G239700 chr5A 404059557 404060202 645 True 689.0 689 86.565000 3164 3791 1 chr5A.!!$R1 627
14 TraesCS3A01G239700 chr2D 106948942 106949478 536 False 305.0 305 77.551000 3490 4008 1 chr2D.!!$F1 518

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
92 93 0.657368 GACAGAAAAACCGTGCGCAG 60.657 55.000 12.22 1.57 0.00 5.18 F
970 992 1.135315 CAAATCGCAAGTCCGGCAG 59.865 57.895 0.00 0.00 39.48 4.85 F
2027 2956 0.106569 TGGGCCATGCGAATTCTGAT 60.107 50.000 0.00 0.00 0.00 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1881 2810 0.181114 AGTGACTGTTGCTGCCTTCA 59.819 50.0 0.0 0.0 0.00 3.02 R
2163 3092 0.392998 ACTCATTTGCCCACTAGCGG 60.393 55.0 0.0 0.0 34.65 5.52 R
3110 4242 1.229975 TGGTTGTCAGATGTGCTGCG 61.230 55.0 0.0 0.0 44.52 5.18 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
72 73 4.717877 TGAAACAAAGAAGCTCATCTCCA 58.282 39.130 0.00 0.00 0.00 3.86
92 93 0.657368 GACAGAAAAACCGTGCGCAG 60.657 55.000 12.22 1.57 0.00 5.18
131 132 9.347777 TGTATCCCTCTAGTAATGACCTATCTA 57.652 37.037 0.00 0.00 0.00 1.98
168 169 7.639113 TTTTAGCCATAACTATTTGTGGGAG 57.361 36.000 10.05 0.00 42.81 4.30
187 188 7.036829 GTGGGAGAGAAATTACAGACTACTTC 58.963 42.308 0.00 0.00 0.00 3.01
193 194 9.175312 AGAGAAATTACAGACTACTTCGATACA 57.825 33.333 0.00 0.00 0.00 2.29
210 211 4.967575 CGATACAGTGACAACAACAAAACC 59.032 41.667 0.00 0.00 0.00 3.27
231 232 8.967664 AAACCACTGTTTGTAAGTTGTCTATA 57.032 30.769 0.00 0.00 42.97 1.31
268 269 3.650461 AGCCTATTTCTCTCTCCCCATTC 59.350 47.826 0.00 0.00 0.00 2.67
320 321 5.804639 TGTGGCAACTCTTACATTAGACAT 58.195 37.500 0.00 0.00 37.61 3.06
366 367 8.650143 AATTTGAAGAATTGTAGTACACCCAT 57.350 30.769 1.43 0.00 0.00 4.00
371 372 9.747898 TGAAGAATTGTAGTACACCCATTATTT 57.252 29.630 1.43 0.00 0.00 1.40
451 452 7.515514 AGTCTATGATTGAATGGTAAGGAGGAT 59.484 37.037 0.00 0.00 0.00 3.24
463 464 5.102783 TGGTAAGGAGGATAGTGGTATTCCT 60.103 44.000 0.00 0.00 36.65 3.36
520 525 9.504708 AGATGATCACATTTCCTAGATTCATTC 57.495 33.333 0.00 0.00 36.82 2.67
524 529 6.359804 TCACATTTCCTAGATTCATTCCAGG 58.640 40.000 0.00 0.00 0.00 4.45
576 582 1.542915 CGTTCCCCTCAACTACGAAGA 59.457 52.381 0.00 0.00 34.36 2.87
578 584 2.297698 TCCCCTCAACTACGAAGACA 57.702 50.000 0.00 0.00 0.00 3.41
579 585 2.816411 TCCCCTCAACTACGAAGACAT 58.184 47.619 0.00 0.00 0.00 3.06
580 586 3.170717 TCCCCTCAACTACGAAGACATT 58.829 45.455 0.00 0.00 0.00 2.71
617 623 5.292834 GTCAATGTCAAGATGATGTGTCGAT 59.707 40.000 0.00 0.00 0.00 3.59
621 627 5.237048 TGTCAAGATGATGTGTCGATTCAA 58.763 37.500 0.00 0.00 0.00 2.69
625 631 6.820152 TCAAGATGATGTGTCGATTCAATCTT 59.180 34.615 10.88 10.88 0.00 2.40
632 638 5.783111 TGTGTCGATTCAATCTTTCAGAGA 58.217 37.500 0.00 0.00 39.13 3.10
816 832 8.885494 TTTGATTTTCATCCGTTTCTCAAAAT 57.115 26.923 0.00 0.00 30.79 1.82
817 833 8.885494 TTGATTTTCATCCGTTTCTCAAAATT 57.115 26.923 0.00 0.00 0.00 1.82
968 990 2.485122 CCAAATCGCAAGTCCGGC 59.515 61.111 0.00 0.00 39.48 6.13
969 991 2.331893 CCAAATCGCAAGTCCGGCA 61.332 57.895 0.00 0.00 39.48 5.69
970 992 1.135315 CAAATCGCAAGTCCGGCAG 59.865 57.895 0.00 0.00 39.48 4.85
1038 1060 3.617143 TTCCGCTCCGTCCTCTCGA 62.617 63.158 0.00 0.00 0.00 4.04
1287 1315 3.691342 CCCGTCGCCAAGACCTCA 61.691 66.667 0.00 0.00 46.92 3.86
1377 1405 2.125912 GCATGCGAGGACGACTGT 60.126 61.111 0.00 0.00 42.66 3.55
1474 1502 1.539065 GGTGCCTGTCTATCCACATCG 60.539 57.143 0.00 0.00 0.00 3.84
1535 1580 6.369065 CCTGTACTGAGATTGTTGGTTACTTC 59.631 42.308 0.60 0.00 0.00 3.01
1675 1721 6.818644 TCCAAGCTAAATTCTACTAGCACTTG 59.181 38.462 9.05 6.00 42.51 3.16
1729 1775 1.485480 AGGGATCACAGAGATGCAGTG 59.515 52.381 0.00 0.00 45.99 3.66
1753 1799 8.497554 GTGTATTTAATTGAAGACGTTGGTACA 58.502 33.333 3.65 0.00 0.00 2.90
1877 2806 6.092807 ACGAAGGATTAGTGAAATTCTGCTTC 59.907 38.462 0.00 4.24 33.33 3.86
1881 2810 5.595952 GGATTAGTGAAATTCTGCTTCCCAT 59.404 40.000 0.00 0.00 0.00 4.00
1912 2841 4.322349 GCAACAGTCACTGGTTCTAGATCT 60.322 45.833 10.28 0.00 35.51 2.75
1974 2903 7.178983 AGACAGATGGGCTCATTTGAAAATAAA 59.821 33.333 23.05 0.00 37.60 1.40
2011 2940 6.546484 ACATGGATTAAGAATAGGATGTGGG 58.454 40.000 0.00 0.00 0.00 4.61
2013 2942 4.202567 TGGATTAAGAATAGGATGTGGGCC 60.203 45.833 0.00 0.00 0.00 5.80
2014 2943 4.202567 GGATTAAGAATAGGATGTGGGCCA 60.203 45.833 0.00 0.00 0.00 5.36
2017 2946 1.202976 AGAATAGGATGTGGGCCATGC 60.203 52.381 10.70 0.00 41.88 4.06
2027 2956 0.106569 TGGGCCATGCGAATTCTGAT 60.107 50.000 0.00 0.00 0.00 2.90
2033 2962 4.083802 GGCCATGCGAATTCTGATAACTAC 60.084 45.833 0.00 0.00 0.00 2.73
2058 2987 8.915036 ACATTTAGAGAAACAGTATATCGTCCT 58.085 33.333 0.00 0.00 0.00 3.85
2059 2988 9.186323 CATTTAGAGAAACAGTATATCGTCCTG 57.814 37.037 0.00 0.00 0.00 3.86
2060 2989 8.515695 TTTAGAGAAACAGTATATCGTCCTGA 57.484 34.615 0.00 0.00 0.00 3.86
2061 2990 6.380095 AGAGAAACAGTATATCGTCCTGAC 57.620 41.667 0.00 0.00 0.00 3.51
2063 2992 6.547880 AGAGAAACAGTATATCGTCCTGACAT 59.452 38.462 0.00 0.00 0.00 3.06
2067 2996 7.584122 AACAGTATATCGTCCTGACATAGTT 57.416 36.000 0.00 0.00 0.00 2.24
2081 3010 6.974622 CCTGACATAGTTATGTTGCCATTTTC 59.025 38.462 6.26 0.00 46.20 2.29
2127 3056 5.638234 CCTGTTTGAAGTTACTGGTAGCTAC 59.362 44.000 15.88 15.88 0.00 3.58
2264 3201 1.012086 CTCAACATGATCCGGTGCAG 58.988 55.000 0.00 0.00 0.00 4.41
2278 3215 2.797156 CGGTGCAGCAGATACAGATAAC 59.203 50.000 17.33 0.00 0.00 1.89
2289 3226 8.947115 AGCAGATACAGATAACTTTGGTTTAAC 58.053 33.333 0.00 0.00 36.92 2.01
2589 3537 6.832520 TCCTTGTCATTTTGCAAGCTTATA 57.167 33.333 0.00 0.00 40.34 0.98
2601 3549 7.744087 TTGCAAGCTTATAAGAAAGACTTCA 57.256 32.000 16.85 7.08 39.72 3.02
2667 3615 6.379703 CCCTTTGATCCATAAACATACACCAA 59.620 38.462 0.00 0.00 0.00 3.67
2671 3619 9.703892 TTTGATCCATAAACATACACCAAAAAG 57.296 29.630 0.00 0.00 0.00 2.27
2672 3620 8.415950 TGATCCATAAACATACACCAAAAAGT 57.584 30.769 0.00 0.00 0.00 2.66
2673 3621 8.865090 TGATCCATAAACATACACCAAAAAGTT 58.135 29.630 0.00 0.00 0.00 2.66
2674 3622 9.353999 GATCCATAAACATACACCAAAAAGTTC 57.646 33.333 0.00 0.00 0.00 3.01
2675 3623 7.662897 TCCATAAACATACACCAAAAAGTTCC 58.337 34.615 0.00 0.00 0.00 3.62
2676 3624 7.507616 TCCATAAACATACACCAAAAAGTTCCT 59.492 33.333 0.00 0.00 0.00 3.36
2677 3625 7.598493 CCATAAACATACACCAAAAAGTTCCTG 59.402 37.037 0.00 0.00 0.00 3.86
2678 3626 6.783708 AAACATACACCAAAAAGTTCCTGA 57.216 33.333 0.00 0.00 0.00 3.86
2705 3654 7.265599 TGAAGGGAAACATATCCTGACTAAA 57.734 36.000 0.00 0.00 39.57 1.85
2710 3659 7.127955 AGGGAAACATATCCTGACTAAATGACT 59.872 37.037 0.00 0.00 39.57 3.41
2910 4040 1.141657 TGACAGCCTGTTCTTTCAGCT 59.858 47.619 0.00 0.00 34.47 4.24
2974 4104 2.846371 GCAACCAGCCTCTAGTGTG 58.154 57.895 0.00 0.00 37.23 3.82
2989 4119 7.172703 GCCTCTAGTGTGTTTAAGTGTACAAAT 59.827 37.037 0.00 0.00 0.00 2.32
3110 4242 7.797123 GTGTATATAGCTAAAAATGCGTTCACC 59.203 37.037 0.00 0.00 35.28 4.02
3126 4258 1.071299 ACCGCAGCACATCTGACAA 59.929 52.632 0.00 0.00 45.72 3.18
3145 4277 5.412594 TGACAACCAGCAAATCTGATAGTTC 59.587 40.000 0.00 0.00 45.72 3.01
3269 4401 4.224370 GGTCCAGAACCTTACCAAGTCATA 59.776 45.833 0.00 0.00 45.45 2.15
3464 4598 4.088634 CCAAGGAATCAACCTCCAATTCA 58.911 43.478 0.00 0.00 39.62 2.57
3466 4600 5.473039 CAAGGAATCAACCTCCAATTCAAC 58.527 41.667 0.00 0.00 39.62 3.18
3508 4668 1.888512 GGCACAATTCTGCTTCCAAGA 59.111 47.619 5.64 0.00 37.33 3.02
3676 4838 4.256920 CCAAGATGAACTACTTCTGTGGG 58.743 47.826 0.00 0.00 34.06 4.61
3694 4856 2.695666 TGGGCAAAACCGAAGATTTTGA 59.304 40.909 13.00 0.00 40.62 2.69
3751 4931 3.252974 AGGACCGATGACTGAATTGAC 57.747 47.619 0.00 0.00 0.00 3.18
3789 4970 3.191371 GGTCTCCAAATAACTGCACAAGG 59.809 47.826 0.00 0.00 0.00 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 9.113838 GTTTCAGACTATTGTGTATGAATGGAT 57.886 33.333 5.71 0.00 44.25 3.41
38 39 7.715249 AGCTTCTTTGTTTCAGACTATTGTGTA 59.285 33.333 0.00 0.00 0.00 2.90
72 73 1.092921 TGCGCACGGTTTTTCTGTCT 61.093 50.000 5.66 0.00 32.67 3.41
92 93 1.009222 GATACATGCGCCTTGCTGC 60.009 57.895 4.18 0.00 46.63 5.25
105 106 8.233349 AGATAGGTCATTACTAGAGGGATACA 57.767 38.462 0.00 0.00 39.74 2.29
168 169 9.440784 CTGTATCGAAGTAGTCTGTAATTTCTC 57.559 37.037 0.00 0.00 0.00 2.87
187 188 4.967575 GGTTTTGTTGTTGTCACTGTATCG 59.032 41.667 0.00 0.00 0.00 2.92
193 194 3.572255 ACAGTGGTTTTGTTGTTGTCACT 59.428 39.130 0.00 0.00 34.78 3.41
236 237 8.866093 GGAGAGAGAAATAGGCTAATTCTAAGT 58.134 37.037 21.63 11.52 33.73 2.24
243 244 4.832492 TGGGGAGAGAGAAATAGGCTAAT 58.168 43.478 0.00 0.00 0.00 1.73
251 252 4.894622 AGAGAGAATGGGGAGAGAGAAAT 58.105 43.478 0.00 0.00 0.00 2.17
423 424 8.651389 CCTCCTTACCATTCAATCATAGACTAA 58.349 37.037 0.00 0.00 0.00 2.24
424 425 8.010697 TCCTCCTTACCATTCAATCATAGACTA 58.989 37.037 0.00 0.00 0.00 2.59
437 438 6.272558 GGAATACCACTATCCTCCTTACCATT 59.727 42.308 0.00 0.00 35.97 3.16
463 464 3.165657 GGGCTTGATCCCTAGGCTA 57.834 57.895 2.05 0.00 43.13 3.93
533 538 3.136443 TCTCCTCCACTGAACACACATTT 59.864 43.478 0.00 0.00 0.00 2.32
617 623 7.333323 TGTATGAGCATCTCTGAAAGATTGAA 58.667 34.615 0.00 0.00 45.62 2.69
621 627 5.366186 ACCTGTATGAGCATCTCTGAAAGAT 59.634 40.000 0.00 0.00 45.62 2.40
625 631 5.011431 CCATACCTGTATGAGCATCTCTGAA 59.989 44.000 16.87 0.00 44.22 3.02
632 638 3.745480 GCACACCATACCTGTATGAGCAT 60.745 47.826 16.87 0.00 44.22 3.79
725 741 7.065443 ACACGACTAAATTTTTATGTCTAGCCC 59.935 37.037 0.00 0.00 0.00 5.19
727 743 8.653338 TGACACGACTAAATTTTTATGTCTAGC 58.347 33.333 15.60 0.00 33.42 3.42
817 833 9.950680 GCTTCTTCGGATGAAAATCAAATTATA 57.049 29.630 7.60 0.00 32.66 0.98
819 835 7.257722 GGCTTCTTCGGATGAAAATCAAATTA 58.742 34.615 7.60 0.00 32.66 1.40
822 838 4.082245 GGGCTTCTTCGGATGAAAATCAAA 60.082 41.667 7.60 0.00 32.66 2.69
1287 1315 2.041686 GGAGAGACCGCTGTCGACT 61.042 63.158 17.92 6.67 46.51 4.18
1474 1502 2.288273 GGTCATACTCATAGCCCACGAC 60.288 54.545 0.00 0.00 0.00 4.34
1675 1721 8.533153 GTTGTTCTTCTAATACTCGATGTAAGC 58.467 37.037 0.00 0.00 34.45 3.09
1806 1852 2.875672 GCAAGGTCAGTGCACTCCAATA 60.876 50.000 22.75 3.33 41.80 1.90
1877 2806 0.896940 ACTGTTGCTGCCTTCATGGG 60.897 55.000 0.00 0.00 36.00 4.00
1881 2810 0.181114 AGTGACTGTTGCTGCCTTCA 59.819 50.000 0.00 0.00 0.00 3.02
1912 2841 8.023021 AGTAGATTCACACATTCTATTAGGCA 57.977 34.615 0.00 0.00 0.00 4.75
2001 2930 1.631071 TTCGCATGGCCCACATCCTA 61.631 55.000 0.00 0.00 37.84 2.94
2011 2940 4.511454 TGTAGTTATCAGAATTCGCATGGC 59.489 41.667 0.00 0.00 0.00 4.40
2013 2942 9.803130 CTAAATGTAGTTATCAGAATTCGCATG 57.197 33.333 0.00 0.00 0.00 4.06
2014 2943 9.764363 TCTAAATGTAGTTATCAGAATTCGCAT 57.236 29.630 0.00 0.00 0.00 4.73
2033 2962 9.186323 CAGGACGATATACTGTTTCTCTAAATG 57.814 37.037 0.00 0.00 0.00 2.32
2050 2979 6.213677 GCAACATAACTATGTCAGGACGATA 58.786 40.000 2.91 0.00 45.55 2.92
2054 2983 4.513442 TGGCAACATAACTATGTCAGGAC 58.487 43.478 2.91 0.00 45.55 3.85
2163 3092 0.392998 ACTCATTTGCCCACTAGCGG 60.393 55.000 0.00 0.00 34.65 5.52
2223 3160 0.988832 TGGGAAACATAACTCGGGCT 59.011 50.000 0.00 0.00 0.00 5.19
2264 3201 8.726988 TGTTAAACCAAAGTTATCTGTATCTGC 58.273 33.333 0.00 0.00 34.19 4.26
2289 3226 7.440556 ACTCGATCATGATAGGAACAAAATCTG 59.559 37.037 8.54 0.00 0.00 2.90
2440 3377 5.300539 TGAGTCTCTAGTATTGACATGAGCC 59.699 44.000 0.00 0.00 33.56 4.70
2589 3537 6.773638 AGTATGTCCACATGAAGTCTTTCTT 58.226 36.000 0.00 0.00 37.15 2.52
2601 3549 5.129320 TCTGATGCAAGTAGTATGTCCACAT 59.871 40.000 0.00 0.00 40.22 3.21
2667 3615 6.156083 TGTTTCCCTTCAATTCAGGAACTTTT 59.844 34.615 2.14 0.00 38.10 2.27
2671 3619 5.728637 ATGTTTCCCTTCAATTCAGGAAC 57.271 39.130 2.14 1.28 38.10 3.62
2672 3620 6.607198 GGATATGTTTCCCTTCAATTCAGGAA 59.393 38.462 2.14 0.00 36.61 3.36
2673 3621 6.068853 AGGATATGTTTCCCTTCAATTCAGGA 60.069 38.462 2.14 0.00 36.35 3.86
2674 3622 6.040166 CAGGATATGTTTCCCTTCAATTCAGG 59.960 42.308 0.00 0.00 36.35 3.86
2675 3623 6.830324 TCAGGATATGTTTCCCTTCAATTCAG 59.170 38.462 0.00 0.00 36.35 3.02
2676 3624 6.603201 GTCAGGATATGTTTCCCTTCAATTCA 59.397 38.462 0.00 0.00 36.35 2.57
2677 3625 6.830838 AGTCAGGATATGTTTCCCTTCAATTC 59.169 38.462 0.00 0.00 36.35 2.17
2678 3626 6.735556 AGTCAGGATATGTTTCCCTTCAATT 58.264 36.000 0.00 0.00 36.35 2.32
2817 3946 0.850100 TTTTGAACCAGGCAGGAGGA 59.150 50.000 1.67 0.00 41.22 3.71
2826 3955 7.049799 TGTTTCCCTTCTATTTTTGAACCAG 57.950 36.000 0.00 0.00 0.00 4.00
2974 4104 7.034685 ACTTGGTGGATTTGTACACTTAAAC 57.965 36.000 0.00 0.00 37.72 2.01
2989 4119 7.296628 AGTAAATTATTTGCAACTTGGTGGA 57.703 32.000 0.00 0.00 0.00 4.02
3110 4242 1.229975 TGGTTGTCAGATGTGCTGCG 61.230 55.000 0.00 0.00 44.52 5.18
3126 4258 4.851639 AGGAACTATCAGATTTGCTGGT 57.148 40.909 0.00 0.00 40.87 4.00
3189 4321 7.051623 TGTAACACTGTTGGAGTTTGAGTAAT 58.948 34.615 4.57 0.00 29.75 1.89
3190 4322 6.408035 TGTAACACTGTTGGAGTTTGAGTAA 58.592 36.000 4.57 0.00 29.75 2.24
3258 4390 6.500336 AGGAAGGTAGAACTATGACTTGGTA 58.500 40.000 0.00 0.00 0.00 3.25
3269 4401 4.594675 TGCTAGAGAGGAAGGTAGAACT 57.405 45.455 0.00 0.00 0.00 3.01
3464 4598 5.105146 CCTTATGAGAACTGAGCTACCTGTT 60.105 44.000 0.00 0.00 0.00 3.16
3466 4600 4.202202 CCCTTATGAGAACTGAGCTACCTG 60.202 50.000 0.00 0.00 0.00 4.00
3508 4668 3.181479 ACGTTGTATAGATGCCGTGATGT 60.181 43.478 0.00 0.00 0.00 3.06
3651 4812 3.258372 ACAGAAGTAGTTCATCTTGGCGA 59.742 43.478 12.77 0.00 34.82 5.54
3676 4838 6.417930 GCCTATATCAAAATCTTCGGTTTTGC 59.582 38.462 7.30 0.00 43.04 3.68
3694 4856 5.103686 ACCCCAGTTTATGTTGTGCCTATAT 60.104 40.000 0.00 0.00 0.00 0.86
3735 4915 5.122869 ACATCAAAGTCAATTCAGTCATCGG 59.877 40.000 0.00 0.00 0.00 4.18
3739 4919 6.940831 TGAACATCAAAGTCAATTCAGTCA 57.059 33.333 0.00 0.00 0.00 3.41
3789 4970 3.743396 CCTGTAGAAGTGTCAAAGCAGTC 59.257 47.826 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.