Multiple sequence alignment - TraesCS3B01G241400

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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 TraesCS3B01G241400 chr3B 100.000 5445 0 0 1 5445 380867141 380872585 0.000000e+00 10056
1 TraesCS3B01G241400 chr3B 90.408 834 70 8 4617 5442 109067080 109066249 0.000000e+00 1088
2 TraesCS3B01G241400 chr3B 90.350 829 75 3 4617 5442 252851770 252852596 0.000000e+00 1083
3 TraesCS3B01G241400 chr3B 90.228 788 67 7 2117 2899 123094390 123093608 0.000000e+00 1020
4 TraesCS3B01G241400 chr3B 88.141 683 68 10 2269 2946 540636179 540635505 0.000000e+00 800
5 TraesCS3B01G241400 chr3B 76.031 509 74 32 399 883 433686555 433687039 2.550000e-53 220
6 TraesCS3B01G241400 chr3B 84.375 224 27 5 3994 4213 807073319 807073100 4.270000e-51 213
7 TraesCS3B01G241400 chr3B 82.553 235 41 0 1081 1315 806273661 806273427 1.990000e-49 207
8 TraesCS3B01G241400 chr3B 83.182 220 26 9 3999 4211 806272841 806272626 2.000000e-44 191
9 TraesCS3B01G241400 chr3A 91.477 4036 208 59 6 3983 377647075 377651032 0.000000e+00 5422
10 TraesCS3B01G241400 chr3A 95.373 389 16 2 4227 4614 377651138 377651525 7.750000e-173 617
11 TraesCS3B01G241400 chr3A 87.565 193 24 0 1110 1302 729173651 729173459 1.970000e-54 224
12 TraesCS3B01G241400 chr3D 97.323 2652 60 6 1592 4243 288097015 288099655 0.000000e+00 4494
13 TraesCS3B01G241400 chr3D 87.654 972 71 35 8 947 288047156 288048110 0.000000e+00 1085
14 TraesCS3B01G241400 chr3D 98.363 611 7 2 988 1595 288096103 288096713 0.000000e+00 1070
15 TraesCS3B01G241400 chr3D 91.457 398 12 8 4227 4612 288099715 288100102 1.340000e-145 527
16 TraesCS3B01G241400 chr2B 85.267 1534 144 39 1647 3163 464433616 464435084 0.000000e+00 1506
17 TraesCS3B01G241400 chr2B 77.843 2374 368 102 1083 3355 546423810 546426126 0.000000e+00 1325
18 TraesCS3B01G241400 chr2B 87.173 842 70 25 2117 2946 734929413 734928598 0.000000e+00 922
19 TraesCS3B01G241400 chr2B 85.926 405 35 11 3824 4213 464441756 464442153 3.920000e-111 412
20 TraesCS3B01G241400 chr2B 80.450 578 71 28 3163 3733 464440966 464441508 2.360000e-108 403
21 TraesCS3B01G241400 chr2B 90.753 292 22 2 1029 1320 464432342 464432628 8.560000e-103 385
22 TraesCS3B01G241400 chr2D 84.461 1448 148 38 1647 3085 392511968 392513347 0.000000e+00 1356
23 TraesCS3B01G241400 chr2D 78.725 2181 343 79 1083 3183 468094708 468096847 0.000000e+00 1345
24 TraesCS3B01G241400 chr2D 90.144 832 76 4 4616 5443 647798769 647797940 0.000000e+00 1077
25 TraesCS3B01G241400 chr2D 80.630 1079 126 49 3160 4213 392513550 392514570 0.000000e+00 758
26 TraesCS3B01G241400 chr2D 93.103 261 17 1 1060 1320 392510737 392510996 1.110000e-101 381
27 TraesCS3B01G241400 chr2D 79.888 537 86 20 402 921 109728570 109728039 1.850000e-99 374
28 TraesCS3B01G241400 chr5D 91.466 832 65 2 4615 5443 53871779 53872607 0.000000e+00 1138
29 TraesCS3B01G241400 chr5D 77.722 799 118 38 1 766 487285720 487286491 8.380000e-118 435
30 TraesCS3B01G241400 chr1D 90.931 838 69 5 4610 5443 473344625 473343791 0.000000e+00 1120
31 TraesCS3B01G241400 chr7D 90.334 838 70 8 4615 5443 1232130 1232965 0.000000e+00 1088
32 TraesCS3B01G241400 chr7D 90.370 810 74 2 4636 5442 130119528 130118720 0.000000e+00 1061
33 TraesCS3B01G241400 chr7D 75.546 961 150 57 11 923 160659001 160658078 1.420000e-105 394
34 TraesCS3B01G241400 chr1B 90.168 834 74 5 4613 5443 410332233 410331405 0.000000e+00 1079
35 TraesCS3B01G241400 chr7B 90.264 832 67 8 4616 5443 244696912 244696091 0.000000e+00 1075
36 TraesCS3B01G241400 chr7B 86.936 842 76 25 2117 2946 506478832 506478013 0.000000e+00 915
37 TraesCS3B01G241400 chr7B 79.417 515 85 19 426 921 658235975 658235463 1.450000e-90 344
38 TraesCS3B01G241400 chr2A 88.411 837 68 16 2117 2943 34631491 34632308 0.000000e+00 981
39 TraesCS3B01G241400 chr2A 87.219 712 69 13 2375 3076 530352175 530352874 0.000000e+00 791
40 TraesCS3B01G241400 chr2A 86.053 674 75 9 1647 2317 530351496 530352153 0.000000e+00 706
41 TraesCS3B01G241400 chr2A 80.619 872 102 38 3362 4213 530355093 530355917 3.610000e-171 612
42 TraesCS3B01G241400 chr2A 92.885 253 18 0 1068 1320 530350439 530350691 8.620000e-98 368
43 TraesCS3B01G241400 chr2A 79.737 533 83 21 407 922 459364602 459365126 4.010000e-96 363
44 TraesCS3B01G241400 chr2A 81.057 227 27 13 3160 3379 530354716 530354933 3.370000e-37 167
45 TraesCS3B01G241400 chr4D 86.699 827 84 10 2117 2939 177108698 177109502 0.000000e+00 894
46 TraesCS3B01G241400 chr4A 79.941 673 88 33 267 919 84945099 84944454 8.320000e-123 451
47 TraesCS3B01G241400 chr6D 82.405 449 62 14 402 836 4636322 4635877 5.150000e-100 375
48 TraesCS3B01G241400 chr7A 81.333 225 35 3 3991 4212 688857409 688857629 5.610000e-40 176


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 TraesCS3B01G241400 chr3B 380867141 380872585 5444 False 10056.000000 10056 100.000000 1 5445 1 chr3B.!!$F2 5444
1 TraesCS3B01G241400 chr3B 109066249 109067080 831 True 1088.000000 1088 90.408000 4617 5442 1 chr3B.!!$R1 825
2 TraesCS3B01G241400 chr3B 252851770 252852596 826 False 1083.000000 1083 90.350000 4617 5442 1 chr3B.!!$F1 825
3 TraesCS3B01G241400 chr3B 123093608 123094390 782 True 1020.000000 1020 90.228000 2117 2899 1 chr3B.!!$R2 782
4 TraesCS3B01G241400 chr3B 540635505 540636179 674 True 800.000000 800 88.141000 2269 2946 1 chr3B.!!$R3 677
5 TraesCS3B01G241400 chr3A 377647075 377651525 4450 False 3019.500000 5422 93.425000 6 4614 2 chr3A.!!$F1 4608
6 TraesCS3B01G241400 chr3D 288096103 288100102 3999 False 2030.333333 4494 95.714333 988 4612 3 chr3D.!!$F2 3624
7 TraesCS3B01G241400 chr3D 288047156 288048110 954 False 1085.000000 1085 87.654000 8 947 1 chr3D.!!$F1 939
8 TraesCS3B01G241400 chr2B 546423810 546426126 2316 False 1325.000000 1325 77.843000 1083 3355 1 chr2B.!!$F1 2272
9 TraesCS3B01G241400 chr2B 464432342 464435084 2742 False 945.500000 1506 88.010000 1029 3163 2 chr2B.!!$F2 2134
10 TraesCS3B01G241400 chr2B 734928598 734929413 815 True 922.000000 922 87.173000 2117 2946 1 chr2B.!!$R1 829
11 TraesCS3B01G241400 chr2B 464440966 464442153 1187 False 407.500000 412 83.188000 3163 4213 2 chr2B.!!$F3 1050
12 TraesCS3B01G241400 chr2D 468094708 468096847 2139 False 1345.000000 1345 78.725000 1083 3183 1 chr2D.!!$F1 2100
13 TraesCS3B01G241400 chr2D 647797940 647798769 829 True 1077.000000 1077 90.144000 4616 5443 1 chr2D.!!$R2 827
14 TraesCS3B01G241400 chr2D 392510737 392514570 3833 False 831.666667 1356 86.064667 1060 4213 3 chr2D.!!$F2 3153
15 TraesCS3B01G241400 chr2D 109728039 109728570 531 True 374.000000 374 79.888000 402 921 1 chr2D.!!$R1 519
16 TraesCS3B01G241400 chr5D 53871779 53872607 828 False 1138.000000 1138 91.466000 4615 5443 1 chr5D.!!$F1 828
17 TraesCS3B01G241400 chr5D 487285720 487286491 771 False 435.000000 435 77.722000 1 766 1 chr5D.!!$F2 765
18 TraesCS3B01G241400 chr1D 473343791 473344625 834 True 1120.000000 1120 90.931000 4610 5443 1 chr1D.!!$R1 833
19 TraesCS3B01G241400 chr7D 1232130 1232965 835 False 1088.000000 1088 90.334000 4615 5443 1 chr7D.!!$F1 828
20 TraesCS3B01G241400 chr7D 130118720 130119528 808 True 1061.000000 1061 90.370000 4636 5442 1 chr7D.!!$R1 806
21 TraesCS3B01G241400 chr7D 160658078 160659001 923 True 394.000000 394 75.546000 11 923 1 chr7D.!!$R2 912
22 TraesCS3B01G241400 chr1B 410331405 410332233 828 True 1079.000000 1079 90.168000 4613 5443 1 chr1B.!!$R1 830
23 TraesCS3B01G241400 chr7B 244696091 244696912 821 True 1075.000000 1075 90.264000 4616 5443 1 chr7B.!!$R1 827
24 TraesCS3B01G241400 chr7B 506478013 506478832 819 True 915.000000 915 86.936000 2117 2946 1 chr7B.!!$R2 829
25 TraesCS3B01G241400 chr7B 658235463 658235975 512 True 344.000000 344 79.417000 426 921 1 chr7B.!!$R3 495
26 TraesCS3B01G241400 chr2A 34631491 34632308 817 False 981.000000 981 88.411000 2117 2943 1 chr2A.!!$F1 826
27 TraesCS3B01G241400 chr2A 530350439 530355917 5478 False 528.800000 791 85.566600 1068 4213 5 chr2A.!!$F3 3145
28 TraesCS3B01G241400 chr2A 459364602 459365126 524 False 363.000000 363 79.737000 407 922 1 chr2A.!!$F2 515
29 TraesCS3B01G241400 chr4D 177108698 177109502 804 False 894.000000 894 86.699000 2117 2939 1 chr4D.!!$F1 822
30 TraesCS3B01G241400 chr4A 84944454 84945099 645 True 451.000000 451 79.941000 267 919 1 chr4A.!!$R1 652

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
901 1013 0.112412 TCTTTCTCCCCTTGCAACCC 59.888 55.0 0.0 0.00 0.00 4.11 F
902 1014 0.178964 CTTTCTCCCCTTGCAACCCA 60.179 55.0 0.0 0.00 0.00 4.51 F
1097 1240 0.179108 CAACCTAGTGCTCCGGCTAC 60.179 60.0 0.0 0.00 39.59 3.58 F
2841 4322 0.179233 CGAAGACGATGACGACGACA 60.179 55.0 0.0 0.88 42.66 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1736 3105 1.202770 CCCCGGATTCCAGTAATGGTC 60.203 57.143 9.41 0.0 0.00 4.02 R
2521 3937 4.752661 TTACCCAAATGTGAAACGCTAC 57.247 40.909 0.00 0.0 42.39 3.58 R
2981 4467 3.185246 CCAGCTAATGGTCTACAGTGG 57.815 52.381 0.00 0.0 44.91 4.00 R
4756 8526 0.249489 GTACTAGGTGGATGGCGCAG 60.249 60.000 10.83 0.0 0.00 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
91 95 4.145807 ACCTTCTATACTACGCTCTGCAT 58.854 43.478 0.00 0.00 0.00 3.96
130 134 1.519408 AGACACAACGCGCCTATTTT 58.481 45.000 5.73 0.00 0.00 1.82
311 354 8.545749 AAATGTTCGTGATTTTTCAAAAATGC 57.454 26.923 12.95 5.02 0.00 3.56
314 357 6.756074 TGTTCGTGATTTTTCAAAAATGCTCT 59.244 30.769 12.95 0.00 0.00 4.09
315 358 6.991485 TCGTGATTTTTCAAAAATGCTCTC 57.009 33.333 12.95 0.00 0.00 3.20
415 492 5.413213 TCCGTGTATTAAAACTGTTCATGGG 59.587 40.000 12.99 4.65 33.12 4.00
566 653 3.604314 GCATTTCAAATGTTGTTGCACCG 60.604 43.478 11.80 0.00 34.62 4.94
574 668 6.199908 TCAAATGTTGTTGCACCGATTTAAAG 59.800 34.615 0.00 0.00 0.00 1.85
767 874 8.093659 TGTTCACGATTTCAGATATGTTCAAA 57.906 30.769 0.00 0.00 0.00 2.69
774 881 9.478019 CGATTTCAGATATGTTCAAAAGTGTAC 57.522 33.333 0.00 0.00 0.00 2.90
852 964 7.920160 TGTATCTCAGTGATGCAACAAAATA 57.080 32.000 0.00 0.00 43.14 1.40
858 970 4.794762 CAGTGATGCAACAAAATATGGTCG 59.205 41.667 0.00 0.00 0.00 4.79
892 1004 8.971073 TGAAGATTATGATTTTTCTTTCTCCCC 58.029 33.333 0.00 0.00 0.00 4.81
901 1013 0.112412 TCTTTCTCCCCTTGCAACCC 59.888 55.000 0.00 0.00 0.00 4.11
902 1014 0.178964 CTTTCTCCCCTTGCAACCCA 60.179 55.000 0.00 0.00 0.00 4.51
903 1015 0.469144 TTTCTCCCCTTGCAACCCAC 60.469 55.000 0.00 0.00 0.00 4.61
904 1016 1.650242 TTCTCCCCTTGCAACCCACA 61.650 55.000 0.00 0.00 0.00 4.17
1097 1240 0.179108 CAACCTAGTGCTCCGGCTAC 60.179 60.000 0.00 0.00 39.59 3.58
1650 3011 4.096682 TGGGCGCATACAAAGTTAATAACC 59.903 41.667 10.83 0.00 0.00 2.85
1736 3105 3.744987 AGAGTGTCGAGTCGAATTTACG 58.255 45.455 18.42 0.00 37.72 3.18
1857 3241 6.037720 TCGGCGATGCTTATTTTCTTTATTGA 59.962 34.615 4.99 0.00 0.00 2.57
1858 3242 6.857964 CGGCGATGCTTATTTTCTTTATTGAT 59.142 34.615 0.00 0.00 0.00 2.57
2384 3783 6.268825 TGACTTTACTGACTACTGACATCC 57.731 41.667 0.00 0.00 0.00 3.51
2401 3800 6.446318 TGACATCCTTTTATTGTGCTGTTTC 58.554 36.000 0.00 0.00 0.00 2.78
2525 3941 9.769093 ATAATTGATAAAAGTTTCACGTGTAGC 57.231 29.630 16.51 8.30 0.00 3.58
2579 3997 1.212688 CTTATGGCATGGTGGTCCTGA 59.787 52.381 10.98 0.00 34.23 3.86
2738 4213 5.411361 TGTCAACTTTCATATGTACCTGCAC 59.589 40.000 1.90 0.00 0.00 4.57
2841 4322 0.179233 CGAAGACGATGACGACGACA 60.179 55.000 0.00 0.88 42.66 4.35
2967 4453 6.717289 TGTATGTTCTGTGGCCTTAAGTATT 58.283 36.000 3.32 0.00 0.00 1.89
2981 4467 7.755373 GGCCTTAAGTATTGATTGTTGAAAGAC 59.245 37.037 0.00 0.00 0.00 3.01
3000 4486 3.449018 AGACCACTGTAGACCATTAGCTG 59.551 47.826 0.00 0.00 0.00 4.24
3012 4498 8.957466 GTAGACCATTAGCTGGACTTTAATTTT 58.043 33.333 0.00 0.00 46.14 1.82
3411 6860 9.734620 CATAAATGTAATGGTGTTATGGTCTTG 57.265 33.333 0.00 0.00 31.46 3.02
3428 6885 1.833630 CTTGTGGAGTAGCCCTCATCA 59.166 52.381 3.66 0.00 42.40 3.07
3588 7052 5.304614 AGTGAGCTGACAGTTCCTACTTTTA 59.695 40.000 15.75 0.00 30.26 1.52
3604 7068 9.120538 TCCTACTTTTAATGCAGATTAATGGAC 57.879 33.333 0.00 0.00 34.64 4.02
3895 7547 4.364415 TGTTTTATGTCGCTATTTGCCC 57.636 40.909 0.00 0.00 38.78 5.36
3914 7566 7.784470 TTGCCCCTATTTTTACTTGTGTTAT 57.216 32.000 0.00 0.00 0.00 1.89
3915 7567 7.784470 TGCCCCTATTTTTACTTGTGTTATT 57.216 32.000 0.00 0.00 0.00 1.40
4125 7784 2.437359 GCACCGGCTGCTGAGAAT 60.437 61.111 18.16 0.00 43.33 2.40
4131 7790 2.749621 ACCGGCTGCTGAGAATAAAAAG 59.250 45.455 10.70 0.00 0.00 2.27
4214 7877 5.917462 TGAAAGTGATGACTGAAGACAAGA 58.083 37.500 0.00 0.00 30.61 3.02
4225 7888 2.507886 TGAAGACAAGACAAACCCCTGA 59.492 45.455 0.00 0.00 0.00 3.86
4372 8114 8.700973 AGTTGTGTTTGGGATAAATTTGTAACT 58.299 29.630 0.00 0.00 0.00 2.24
4485 8230 1.899814 TGTCTTTGTCCTATGACCGCT 59.100 47.619 0.00 0.00 41.01 5.52
4522 8269 5.239306 TGTGCAATTTTTCTCTTCGACATCT 59.761 36.000 0.00 0.00 0.00 2.90
4599 8354 2.438075 GAGGAGCAGCCAAGGCAG 60.438 66.667 14.40 6.48 44.88 4.85
4613 8368 4.809070 GCAGGAAGCCAACTGTCT 57.191 55.556 0.00 0.00 37.07 3.41
4683 8440 3.670627 GCAGGAAGCAACGGAAACATAAG 60.671 47.826 0.00 0.00 44.79 1.73
4756 8526 1.419374 CAGAACACTACACTCCACGC 58.581 55.000 0.00 0.00 0.00 5.34
4757 8527 1.000163 CAGAACACTACACTCCACGCT 60.000 52.381 0.00 0.00 0.00 5.07
4781 8551 1.141053 CCATCCACCTAGTACAAGGCC 59.859 57.143 0.00 0.00 40.62 5.19
4787 8557 1.447140 CTAGTACAAGGCCGCGCAA 60.447 57.895 8.75 0.00 0.00 4.85
4863 8633 0.243907 CCCAAGAGAGAAAGCGACGA 59.756 55.000 0.00 0.00 0.00 4.20
4866 8636 2.600731 CAAGAGAGAAAGCGACGATGT 58.399 47.619 0.00 0.00 0.00 3.06
4979 8749 0.817634 CAACAAGGGAGCGACACCAA 60.818 55.000 0.00 0.00 0.00 3.67
5047 8817 1.003355 CGACAGTCCCACCTGCATT 60.003 57.895 0.00 0.00 35.83 3.56
5073 8843 2.142761 CCCAGGATCCGATCAGCCA 61.143 63.158 5.98 0.00 0.00 4.75
5084 8854 1.676916 CGATCAGCCAACACACCAGAT 60.677 52.381 0.00 0.00 0.00 2.90
5161 8933 4.003788 CTTGTGTCCGCGTCCCCT 62.004 66.667 4.92 0.00 0.00 4.79
5162 8934 4.308458 TTGTGTCCGCGTCCCCTG 62.308 66.667 4.92 0.00 0.00 4.45
5189 8961 2.045926 GGATGCAACCCTCGCAGT 60.046 61.111 0.47 0.00 43.88 4.40
5298 9070 0.871722 CCGACGAAGGATGCAACAAA 59.128 50.000 0.00 0.00 0.00 2.83
5377 9149 2.434134 CGTCGAGCTTTCCGAACCG 61.434 63.158 0.00 0.00 37.81 4.44
5402 9174 1.194781 AGGAGGATGCAACACCGAGT 61.195 55.000 0.00 0.00 0.00 4.18
5404 9176 1.471676 GGAGGATGCAACACCGAGTAG 60.472 57.143 0.00 0.00 0.00 2.57
5425 9197 0.753111 GGTGCCATTCATCTCCCACC 60.753 60.000 0.00 0.00 36.36 4.61
5443 9215 2.320587 CGCTTCTTCCGCACAGCTT 61.321 57.895 0.00 0.00 0.00 3.74
5444 9216 1.208614 GCTTCTTCCGCACAGCTTG 59.791 57.895 0.00 0.00 0.00 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
168 181 5.413969 AAACTAAGACGGAAAAGGAAACG 57.586 39.130 0.00 0.00 0.00 3.60
555 640 6.576551 TTTTCTTTAAATCGGTGCAACAAC 57.423 33.333 0.98 0.00 39.98 3.32
801 913 6.706055 TCACTATCATTTTCGTGAAGTCAC 57.294 37.500 1.12 1.12 43.15 3.67
802 914 9.599866 AATATCACTATCATTTTCGTGAAGTCA 57.400 29.630 0.00 0.00 39.52 3.41
858 970 7.983484 AGAAAAATCATAATCTTCAATGGCCAC 59.017 33.333 8.16 0.00 0.00 5.01
887 999 1.604593 CTGTGGGTTGCAAGGGGAG 60.605 63.158 0.00 0.00 0.00 4.30
889 1001 3.305516 GCTGTGGGTTGCAAGGGG 61.306 66.667 0.00 0.00 0.00 4.79
892 1004 2.015227 AAACGGCTGTGGGTTGCAAG 62.015 55.000 0.00 0.00 0.00 4.01
901 1013 5.734855 ATAATACTAGCAAAACGGCTGTG 57.265 39.130 0.00 0.00 45.44 3.66
902 1014 6.373216 TGAAATAATACTAGCAAAACGGCTGT 59.627 34.615 0.00 0.00 45.44 4.40
903 1015 6.781138 TGAAATAATACTAGCAAAACGGCTG 58.219 36.000 0.00 0.00 45.44 4.85
968 1080 6.017109 GCGTGATGACAACCAAGGATATTATT 60.017 38.462 0.00 0.00 0.00 1.40
1035 1178 3.683937 GGGTCGGTCGTTTCGGGA 61.684 66.667 0.00 0.00 0.00 5.14
1283 1426 1.214589 GTCCTCCTTGCGCGAGTTA 59.785 57.895 22.94 10.04 0.00 2.24
1604 2098 1.443194 CTTTGTGCTGCATGCCGAC 60.443 57.895 16.68 9.47 42.00 4.79
1650 3011 4.946157 AGGGCACTTCAAGATGAAATGTAG 59.054 41.667 3.85 0.00 36.14 2.74
1736 3105 1.202770 CCCCGGATTCCAGTAATGGTC 60.203 57.143 9.41 0.00 0.00 4.02
2521 3937 4.752661 TTACCCAAATGTGAAACGCTAC 57.247 40.909 0.00 0.00 42.39 3.58
2522 3938 6.600032 ACATATTACCCAAATGTGAAACGCTA 59.400 34.615 2.10 0.00 42.39 4.26
2523 3939 5.417580 ACATATTACCCAAATGTGAAACGCT 59.582 36.000 2.10 0.00 42.39 5.07
2524 3940 5.646606 ACATATTACCCAAATGTGAAACGC 58.353 37.500 2.10 0.00 42.39 4.84
2525 3941 7.066525 ACCTACATATTACCCAAATGTGAAACG 59.933 37.037 2.10 0.00 42.39 3.60
2526 3942 8.288689 ACCTACATATTACCCAAATGTGAAAC 57.711 34.615 2.10 0.00 38.58 2.78
2527 3943 8.887264 AACCTACATATTACCCAAATGTGAAA 57.113 30.769 2.10 0.00 38.58 2.69
2534 3950 9.482175 AGCAAAATAACCTACATATTACCCAAA 57.518 29.630 0.00 0.00 0.00 3.28
2841 4322 7.838696 TCCTGGTATACCAAAATTGTCATCATT 59.161 33.333 24.59 0.00 46.97 2.57
2967 4453 5.758296 GTCTACAGTGGTCTTTCAACAATCA 59.242 40.000 0.00 0.00 0.00 2.57
2981 4467 3.185246 CCAGCTAATGGTCTACAGTGG 57.815 52.381 0.00 0.00 44.91 4.00
3012 4498 6.460781 TCAGGTCAGCTAGTTTCGAAATAAA 58.539 36.000 14.69 1.93 0.00 1.40
3392 6841 5.250200 TCCACAAGACCATAACACCATTAC 58.750 41.667 0.00 0.00 0.00 1.89
3411 6860 1.834263 ACTTGATGAGGGCTACTCCAC 59.166 52.381 6.52 2.46 46.01 4.02
3428 6885 8.579850 TTCCATAGAAATTGCTACAATGACTT 57.420 30.769 0.00 0.00 0.00 3.01
3588 7052 5.759059 TCAGAAGGTCCATTAATCTGCATT 58.241 37.500 0.00 0.00 37.89 3.56
3604 7068 4.877823 TGGATTCGTCATTGATTCAGAAGG 59.122 41.667 0.00 0.00 0.00 3.46
3712 7177 7.439955 TGTGCCCTTAACAATATTAGTGATACG 59.560 37.037 0.00 0.00 0.00 3.06
3780 7426 2.613595 CAAGGTCAGCGCATAAGCATTA 59.386 45.455 11.47 0.00 42.27 1.90
4125 7784 7.873505 GTCTTCTCTACTGAAGCTTCCTTTTTA 59.126 37.037 23.42 2.84 42.15 1.52
4131 7790 3.511934 TGGTCTTCTCTACTGAAGCTTCC 59.488 47.826 23.42 6.48 42.15 3.46
4214 7877 0.256464 TCCGTGTTTCAGGGGTTTGT 59.744 50.000 8.31 0.00 39.55 2.83
4300 8040 6.010219 ACTAGTTGCCATAGGTTTTCAACAT 58.990 36.000 0.00 0.00 39.39 2.71
4485 8230 8.134895 AGAAAAATTGCACAGAAAAATCGACTA 58.865 29.630 0.00 0.00 0.00 2.59
4653 8409 3.196901 TCCGTTGCTTCCTGCTAAATCTA 59.803 43.478 0.00 0.00 43.37 1.98
4756 8526 0.249489 GTACTAGGTGGATGGCGCAG 60.249 60.000 10.83 0.00 0.00 5.18
4757 8527 0.973496 TGTACTAGGTGGATGGCGCA 60.973 55.000 10.83 0.00 0.00 6.09
4770 8540 1.738830 GTTGCGCGGCCTTGTACTA 60.739 57.895 8.83 0.00 0.00 1.82
4787 8557 3.771160 GGCCATCGTGGTCGGAGT 61.771 66.667 0.00 0.00 40.46 3.85
4863 8633 0.596577 ACGATGGCGACGCTATACAT 59.403 50.000 19.18 13.51 41.64 2.29
4866 8636 1.577922 GGACGATGGCGACGCTATA 59.422 57.895 19.18 6.56 41.64 1.31
4996 8766 2.515398 CAGTTGTGGCTGGGGTCA 59.485 61.111 0.00 0.00 33.11 4.02
5073 8843 3.259374 CAGAGGTAGTGATCTGGTGTGTT 59.741 47.826 0.00 0.00 39.42 3.32
5084 8854 0.965866 CGTGGAGGCAGAGGTAGTGA 60.966 60.000 0.00 0.00 0.00 3.41
5161 8933 0.955428 GTTGCATCCTTCGTCCAGCA 60.955 55.000 0.00 0.00 0.00 4.41
5162 8934 1.648467 GGTTGCATCCTTCGTCCAGC 61.648 60.000 6.56 0.00 0.00 4.85
5189 8961 1.925285 ATGGGAGAAGAATGGCGCCA 61.925 55.000 34.80 34.80 0.00 5.69
5368 9140 2.238847 CTCCTGATGGCGGTTCGGAA 62.239 60.000 0.00 0.00 0.00 4.30
5402 9174 1.140312 GGAGATGAATGGCACCCCTA 58.860 55.000 0.00 0.00 0.00 3.53
5404 9176 1.152673 GGGAGATGAATGGCACCCC 60.153 63.158 0.00 0.00 0.00 4.95
5425 9197 2.320587 AAGCTGTGCGGAAGAAGCG 61.321 57.895 0.00 0.00 38.23 4.68


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

AutoCloner maintained by Alex Coulton.