Multiple sequence alignment - TraesCS3B01G282800

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 TraesCS3B01G282800 chr3B 100.000 4957 0 0 1 4957 452866250 452861294 0.000000e+00 9154
1 TraesCS3B01G282800 chr4B 95.288 1719 58 9 3 1710 24562206 24563912 0.000000e+00 2704
2 TraesCS3B01G282800 chr4B 92.998 1314 62 16 2869 4167 24565421 24566719 0.000000e+00 1890
3 TraesCS3B01G282800 chr4B 92.322 1042 53 9 1742 2757 24564000 24565040 0.000000e+00 1456
4 TraesCS3B01G282800 chr4B 96.879 801 21 3 4160 4957 24567491 24568290 0.000000e+00 1338
5 TraesCS3B01G282800 chr4D 87.967 2277 182 50 548 2776 14611929 14609697 0.000000e+00 2603
6 TraesCS3B01G282800 chr4D 89.375 1280 92 25 2870 4140 14664942 14666186 0.000000e+00 1570
7 TraesCS3B01G282800 chr4D 88.263 1278 80 34 2773 4015 14609600 14608358 0.000000e+00 1465
8 TraesCS3B01G282800 chr4D 87.863 964 72 18 1821 2757 14663896 14664841 0.000000e+00 1090
9 TraesCS3B01G282800 chr4D 90.521 844 33 20 890 1708 14662912 14663733 0.000000e+00 1072
10 TraesCS3B01G282800 chr4D 91.843 331 23 4 4630 4957 14667073 14667402 4.520000e-125 459
11 TraesCS3B01G282800 chr4D 90.840 262 24 0 4696 4957 14607275 14607014 7.890000e-93 351
12 TraesCS3B01G282800 chr4D 81.870 353 42 11 4198 4534 14607701 14607355 1.360000e-70 278
13 TraesCS3B01G282800 chr4D 80.114 352 44 13 4198 4533 14666704 14667045 6.410000e-59 239
14 TraesCS3B01G282800 chr4D 96.341 82 3 0 3 84 345726632 345726551 8.660000e-28 135
15 TraesCS3B01G282800 chr4A 87.778 1980 134 44 837 2757 586738612 586736682 0.000000e+00 2217
16 TraesCS3B01G282800 chr4A 85.813 2030 164 54 80 2024 456490060 456488070 0.000000e+00 2039
17 TraesCS3B01G282800 chr4A 88.787 1311 92 40 2879 4172 456484872 456483600 0.000000e+00 1555
18 TraesCS3B01G282800 chr4A 86.491 1325 98 43 2871 4170 586736569 586735301 0.000000e+00 1380
19 TraesCS3B01G282800 chr4A 85.584 1311 104 45 2885 4170 574196923 574195673 0.000000e+00 1295
20 TraesCS3B01G282800 chr4A 87.927 820 56 18 1162 1948 574198878 574198069 0.000000e+00 926
21 TraesCS3B01G282800 chr4A 82.127 1119 128 29 90 1161 574207852 574206759 0.000000e+00 893
22 TraesCS3B01G282800 chr4A 86.506 830 75 17 1960 2757 574197879 574197055 0.000000e+00 878
23 TraesCS3B01G282800 chr4A 85.289 605 57 19 2177 2757 456485527 456484931 3.300000e-166 595
24 TraesCS3B01G282800 chr4A 91.489 329 27 1 4630 4957 456482739 456482411 7.570000e-123 451
25 TraesCS3B01G282800 chr4A 90.244 328 31 1 4630 4957 586734566 586734240 1.280000e-115 427
26 TraesCS3B01G282800 chr4A 84.451 328 29 2 4630 4957 574194859 574194554 2.240000e-78 303
27 TraesCS3B01G282800 chr4A 80.508 354 46 15 4198 4533 456483115 456482767 2.960000e-62 250
28 TraesCS3B01G282800 chr4A 88.690 168 14 2 2030 2197 456485874 456485712 3.030000e-47 200
29 TraesCS3B01G282800 chr4A 88.690 168 14 2 2030 2197 456486679 456486517 3.030000e-47 200
30 TraesCS3B01G282800 chr4A 88.690 168 14 2 2030 2197 456487474 456487312 3.030000e-47 200
31 TraesCS3B01G282800 chr4A 88.166 169 14 3 2030 2197 456487974 456487811 3.910000e-46 196
32 TraesCS3B01G282800 chr4A 96.250 80 3 0 3 82 451266830 451266909 1.120000e-26 132
33 TraesCS3B01G282800 chr4A 96.250 80 3 0 3 82 451345558 451345637 1.120000e-26 132
34 TraesCS3B01G282800 chr5D 98.701 77 1 0 3 79 126479271 126479195 2.410000e-28 137
35 TraesCS3B01G282800 chr5A 97.436 78 2 0 3 80 377236437 377236360 3.110000e-27 134
36 TraesCS3B01G282800 chr3D 95.122 82 4 0 3 84 589310241 589310160 4.030000e-26 130
37 TraesCS3B01G282800 chr1D 95.122 82 4 0 3 84 335686861 335686942 4.030000e-26 130
38 TraesCS3B01G282800 chr1A 95.122 82 4 0 3 84 31966514 31966433 4.030000e-26 130


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 TraesCS3B01G282800 chr3B 452861294 452866250 4956 True 9154.000000 9154 100.000000 1 4957 1 chr3B.!!$R1 4956
1 TraesCS3B01G282800 chr4B 24562206 24568290 6084 False 1847.000000 2704 94.371750 3 4957 4 chr4B.!!$F1 4954
2 TraesCS3B01G282800 chr4D 14607014 14611929 4915 True 1174.250000 2603 87.235000 548 4957 4 chr4D.!!$R2 4409
3 TraesCS3B01G282800 chr4D 14662912 14667402 4490 False 886.000000 1570 87.943200 890 4957 5 chr4D.!!$F1 4067
4 TraesCS3B01G282800 chr4A 586734240 586738612 4372 True 1341.333333 2217 88.171000 837 4957 3 chr4A.!!$R4 4120
5 TraesCS3B01G282800 chr4A 574206759 574207852 1093 True 893.000000 893 82.127000 90 1161 1 chr4A.!!$R1 1071
6 TraesCS3B01G282800 chr4A 574194554 574198878 4324 True 850.500000 1295 86.117000 1162 4957 4 chr4A.!!$R3 3795
7 TraesCS3B01G282800 chr4A 456482411 456490060 7649 True 631.777778 2039 87.346889 80 4957 9 chr4A.!!$R2 4877

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
191 193 0.962489 CAGTCACTCTCTGGTCGGTT 59.038 55.000 0.00 0.0 0.00 4.44 F
1434 1516 1.352622 AAGAGGGACAGGGTGTGCAA 61.353 55.000 0.86 0.0 40.73 4.08 F
2173 4834 1.468127 TGCGAGCACCAAATATGTGTG 59.532 47.619 0.00 0.0 36.11 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1866 2122 1.705186 TCCAACCCAGAAAGGAAGAGG 59.295 52.381 0.00 0.0 41.22 3.69 R
2297 5164 0.170561 GCTTCAGCATCTGCACAAGG 59.829 55.000 4.79 0.0 45.16 3.61 R
4079 7470 0.528924 TGCATGAACAAGCCATCAGC 59.471 50.000 0.00 0.0 44.25 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
191 193 0.962489 CAGTCACTCTCTGGTCGGTT 59.038 55.000 0.00 0.00 0.00 4.44
202 204 2.560119 GGTCGGTTTGGCATGCACA 61.560 57.895 21.36 12.37 0.00 4.57
446 460 6.084326 GGAAAGTGCAAGTAATTTCCTTGA 57.916 37.500 18.46 4.62 46.08 3.02
603 617 2.813754 CACTGAGATCGCAAAAGGGAAA 59.186 45.455 0.00 0.00 0.00 3.13
610 624 3.085952 TCGCAAAAGGGAAATGAGGAT 57.914 42.857 0.00 0.00 0.00 3.24
653 667 9.672673 TTAGTGAGATTAAATCTTTAGCAGCTT 57.327 29.630 0.00 0.00 40.38 3.74
655 669 8.457261 AGTGAGATTAAATCTTTAGCAGCTTTG 58.543 33.333 0.00 0.00 40.38 2.77
763 806 2.094675 CATCACATTTGGTCCAGGTCC 58.905 52.381 0.00 0.00 0.00 4.46
935 989 2.742372 CCCGGAGTTTGGTCAGCG 60.742 66.667 0.73 0.00 0.00 5.18
1434 1516 1.352622 AAGAGGGACAGGGTGTGCAA 61.353 55.000 0.86 0.00 40.73 4.08
1770 1930 4.626172 GTGAAGTCCCGACAGTAGATTTTC 59.374 45.833 0.00 0.00 0.00 2.29
1866 2122 5.685728 AGTAGGATGAAATTCCTAGGTTGC 58.314 41.667 9.08 0.00 46.57 4.17
2094 4746 5.642063 AGTAGAATTGATTAACCACACCACG 59.358 40.000 0.00 0.00 0.00 4.94
2172 4833 1.819928 TGCGAGCACCAAATATGTGT 58.180 45.000 0.00 0.00 36.11 3.72
2173 4834 1.468127 TGCGAGCACCAAATATGTGTG 59.532 47.619 0.00 0.00 36.11 3.82
2211 5078 7.669304 TCATCTAGATCTGAGTCCTATTTCTGG 59.331 40.741 5.18 0.00 0.00 3.86
2297 5164 6.319141 ACCTTGAGTAAGAAAAAGCATGAC 57.681 37.500 0.00 0.00 35.92 3.06
2480 5364 8.356657 TGGATTTGACTGTTTTCATCGTTAATT 58.643 29.630 0.00 0.00 0.00 1.40
2493 5377 6.869695 TCATCGTTAATTGAGTAGCCACTTA 58.130 36.000 0.00 0.00 34.21 2.24
2494 5378 6.978659 TCATCGTTAATTGAGTAGCCACTTAG 59.021 38.462 0.00 0.00 34.21 2.18
2522 5406 5.207768 CACTGGTTCGAATGAGTTTTTCTG 58.792 41.667 0.00 0.00 0.00 3.02
2525 5412 5.816919 TGGTTCGAATGAGTTTTTCTGTTC 58.183 37.500 0.00 0.00 0.00 3.18
2529 5416 5.734311 TCGAATGAGTTTTTCTGTTCGAAC 58.266 37.500 21.42 21.42 43.60 3.95
2549 5436 9.515020 TTCGAACTATATGAATCCAAAAATTGC 57.485 29.630 0.00 0.00 0.00 3.56
2550 5437 7.855409 TCGAACTATATGAATCCAAAAATTGCG 59.145 33.333 0.00 0.00 0.00 4.85
2572 5459 5.541845 CGAACTTGCTATCCCATCTGAATA 58.458 41.667 0.00 0.00 0.00 1.75
2616 5507 6.560253 ATTCATAGTTCAAATATCCACCGC 57.440 37.500 0.00 0.00 0.00 5.68
2633 5524 5.419788 TCCACCGCTTTCTAATGAAGTACTA 59.580 40.000 0.00 0.00 33.28 1.82
2679 5576 3.662078 TCATCAGGATGGACAGGAAGAT 58.338 45.455 9.25 0.00 39.24 2.40
2682 5579 4.226427 TCAGGATGGACAGGAAGATTTG 57.774 45.455 0.00 0.00 36.16 2.32
2693 5590 5.831997 ACAGGAAGATTTGTGCAAAGTAAC 58.168 37.500 3.70 0.00 33.32 2.50
2696 5593 4.681483 GGAAGATTTGTGCAAAGTAACTGC 59.319 41.667 3.70 0.00 40.35 4.40
2717 5614 6.992123 ACTGCAGTTGCTTATATATGCTAACA 59.008 34.615 15.25 14.45 42.66 2.41
2732 5629 3.194755 TGCTAACAGACATAAGAAGCGGA 59.805 43.478 0.00 0.00 0.00 5.54
2761 5985 9.237846 GAATTTATAGTAGGCTTTCAAACATGC 57.762 33.333 0.00 0.00 0.00 4.06
2767 5991 3.391506 GGCTTTCAAACATGCCTCTTT 57.608 42.857 0.00 0.00 41.92 2.52
2877 6121 4.822036 TTTTGCGGGGAATATGTATTCG 57.178 40.909 6.66 0.00 42.25 3.34
2882 6126 3.846360 CGGGGAATATGTATTCGGAGTC 58.154 50.000 6.66 0.00 42.25 3.36
2961 6223 0.317479 GCGGTGGTCACTAGTCAGTT 59.683 55.000 0.00 0.00 30.46 3.16
3058 6320 1.859427 CTTCACTGCGTGCTGCCATT 61.859 55.000 0.00 0.00 45.60 3.16
3293 6556 3.140623 AGTTTTTGCAATGGCCATGTTC 58.859 40.909 21.63 11.93 40.13 3.18
3339 6612 7.811236 CGCTATTGGATGCTTTAATGAATCAAT 59.189 33.333 10.64 10.10 0.00 2.57
3340 6613 9.485206 GCTATTGGATGCTTTAATGAATCAATT 57.515 29.630 10.64 0.60 0.00 2.32
3441 6722 5.393962 GCTTGAGGATGTTGTTACATGTTC 58.606 41.667 2.30 0.00 44.90 3.18
3523 6805 8.523658 TCTAGTAGAATATAATGATTGCTGCGT 58.476 33.333 0.00 0.00 0.00 5.24
3526 6808 7.875041 AGTAGAATATAATGATTGCTGCGTTCT 59.125 33.333 0.00 0.00 0.00 3.01
3531 6813 4.606457 AATGATTGCTGCGTTCTAACTC 57.394 40.909 0.00 0.00 0.00 3.01
3545 6828 5.622460 CGTTCTAACTCTGTGCTATTGTCCT 60.622 44.000 0.00 0.00 0.00 3.85
3546 6829 6.166982 GTTCTAACTCTGTGCTATTGTCCTT 58.833 40.000 0.00 0.00 0.00 3.36
3549 6832 3.668447 ACTCTGTGCTATTGTCCTTGTG 58.332 45.455 0.00 0.00 0.00 3.33
3657 6949 2.311287 AGGTACTGGGCATCAAGGG 58.689 57.895 0.00 0.00 37.18 3.95
3814 7107 1.071699 AGGCCACAACGTACATGAGTT 59.928 47.619 5.01 0.00 0.00 3.01
3838 7132 4.494855 GCCGTGAATAGTTGAATGCTCTTC 60.495 45.833 0.00 0.00 0.00 2.87
3854 7148 3.861131 GCTCTTCGTACTCCTCTTTGCAA 60.861 47.826 0.00 0.00 0.00 4.08
3958 7258 2.857483 TGGTGCTAGTGCTGCTAAAAA 58.143 42.857 0.00 0.00 40.48 1.94
3992 7292 3.062466 CTCCGTGAGCCGAGGTCA 61.062 66.667 2.27 2.27 39.56 4.02
4073 7464 4.155826 TGTGAAATAGGGTTGAGCAATTCG 59.844 41.667 0.00 0.00 0.00 3.34
4079 7470 0.248215 GGTTGAGCAATTCGGCATCG 60.248 55.000 0.00 0.00 35.83 3.84
4163 7559 4.034742 TGCAGTTCTGTTTTAGTTTCCGAC 59.965 41.667 1.78 0.00 0.00 4.79
4171 7570 3.278668 TTTAGTTTCCGACCACCAACA 57.721 42.857 0.00 0.00 0.00 3.33
4173 7572 0.834612 AGTTTCCGACCACCAACAGA 59.165 50.000 0.00 0.00 0.00 3.41
4175 7574 2.018515 GTTTCCGACCACCAACAGAAA 58.981 47.619 0.00 0.00 0.00 2.52
4177 7576 1.961793 TCCGACCACCAACAGAAAAG 58.038 50.000 0.00 0.00 0.00 2.27
4178 7577 1.487142 TCCGACCACCAACAGAAAAGA 59.513 47.619 0.00 0.00 0.00 2.52
4179 7578 2.092861 TCCGACCACCAACAGAAAAGAA 60.093 45.455 0.00 0.00 0.00 2.52
4180 7579 2.685897 CCGACCACCAACAGAAAAGAAA 59.314 45.455 0.00 0.00 0.00 2.52
4196 8448 7.433425 CAGAAAAGAAAAATCAGGACACACTTC 59.567 37.037 0.00 0.00 0.00 3.01
4341 8610 5.301551 ACTTGATGTGTTCAATGCCTAACAA 59.698 36.000 0.00 0.00 43.30 2.83
4557 8831 7.122048 CAGGTCTCTATATAGGGATGTCATCA 58.878 42.308 15.43 0.00 34.86 3.07
4586 8860 8.894768 TTCACAAGAAAAACCAAGAAGAAAAA 57.105 26.923 0.00 0.00 0.00 1.94
4641 8917 4.153986 GTTTGTCAGTGATCAAGAATGCG 58.846 43.478 0.00 0.00 0.00 4.73
4677 8953 1.880027 CAAAAGGAAACGGAGTCCAGG 59.120 52.381 10.49 0.00 45.00 4.45
4714 8991 6.942532 TCTCTGTAGTTTGAAACAGCAAAT 57.057 33.333 11.02 0.00 42.31 2.32
4751 9030 9.638239 TGCCTCTCAAATATAATTTTTGTTCAC 57.362 29.630 2.01 0.00 35.90 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.041287 TCGAATACAACGAGGAGCTAAATG 58.959 41.667 0.00 0.00 34.85 2.32
1 2 5.041940 GTCGAATACAACGAGGAGCTAAAT 58.958 41.667 0.00 0.00 40.37 1.40
58 59 7.970102 GGTATTGATAACCCACAAGTATAGGA 58.030 38.462 0.00 0.00 0.00 2.94
202 204 2.032030 CCTTCGTGAACAACTTTGCGAT 60.032 45.455 0.00 0.00 0.00 4.58
446 460 2.641305 GAATGACCAATGCTGAGCTCT 58.359 47.619 16.19 0.00 0.00 4.09
603 617 3.627395 TTAGCACCGTTTCATCCTCAT 57.373 42.857 0.00 0.00 0.00 2.90
610 624 6.028146 TCACTAACTATTAGCACCGTTTCA 57.972 37.500 0.00 0.00 36.71 2.69
680 694 2.453983 TCATGATTGACAGCACGACA 57.546 45.000 0.00 0.00 0.00 4.35
763 806 6.441093 TCTATATTCAGCAAAAGCCACAAG 57.559 37.500 0.00 0.00 0.00 3.16
818 868 4.637483 TTGGTTTTTGAGAGAACAGCTG 57.363 40.909 13.48 13.48 0.00 4.24
1086 1156 4.643733 GAGATCGCCACCATCTCG 57.356 61.111 0.00 0.00 37.59 4.04
1330 1400 2.765356 CCTGATGCTGCTGCTGCTG 61.765 63.158 27.67 16.73 40.48 4.41
1331 1401 2.438614 CCTGATGCTGCTGCTGCT 60.439 61.111 27.67 15.76 40.48 4.24
1332 1402 4.194720 GCCTGATGCTGCTGCTGC 62.195 66.667 22.51 22.51 40.48 5.25
1400 1476 2.037620 CTCTTCCTCCCCCTGATGCG 62.038 65.000 0.00 0.00 0.00 4.73
1770 1930 3.470709 ACCATGATGAGTAGCAATTCCG 58.529 45.455 0.00 0.00 0.00 4.30
1866 2122 1.705186 TCCAACCCAGAAAGGAAGAGG 59.295 52.381 0.00 0.00 41.22 3.69
2172 4833 8.588472 TCAGATCTAGATGAAAAAGAGAACACA 58.412 33.333 10.74 0.00 0.00 3.72
2173 4834 8.994429 TCAGATCTAGATGAAAAAGAGAACAC 57.006 34.615 10.74 0.00 0.00 3.32
2211 5078 2.943036 TCAGGTTGACCCACCTAAAC 57.057 50.000 0.00 0.00 46.27 2.01
2297 5164 0.170561 GCTTCAGCATCTGCACAAGG 59.829 55.000 4.79 0.00 45.16 3.61
2480 5364 5.127194 CCAGTGTATTCTAAGTGGCTACTCA 59.873 44.000 2.06 0.00 35.69 3.41
2493 5377 5.407407 ACTCATTCGAACCAGTGTATTCT 57.593 39.130 0.00 0.00 0.00 2.40
2494 5378 6.481954 AAACTCATTCGAACCAGTGTATTC 57.518 37.500 10.76 0.00 0.00 1.75
2525 5412 7.855409 TCGCAATTTTTGGATTCATATAGTTCG 59.145 33.333 0.00 0.00 0.00 3.95
2529 5416 9.520204 AAGTTCGCAATTTTTGGATTCATATAG 57.480 29.630 0.00 0.00 0.00 1.31
2549 5436 3.459232 TCAGATGGGATAGCAAGTTCG 57.541 47.619 0.00 0.00 0.00 3.95
2550 5437 7.164122 TCATATTCAGATGGGATAGCAAGTTC 58.836 38.462 0.00 0.00 0.00 3.01
2603 5494 6.618287 TCATTAGAAAGCGGTGGATATTTG 57.382 37.500 0.00 0.00 0.00 2.32
2610 5501 4.504858 AGTACTTCATTAGAAAGCGGTGG 58.495 43.478 0.00 0.00 32.35 4.61
2652 5546 4.043310 TCCTGTCCATCCTGATGAACTTTT 59.957 41.667 8.69 0.00 41.20 2.27
2660 5554 4.229123 ACAAATCTTCCTGTCCATCCTGAT 59.771 41.667 0.00 0.00 0.00 2.90
2664 5558 2.424956 GCACAAATCTTCCTGTCCATCC 59.575 50.000 0.00 0.00 0.00 3.51
2679 5576 4.172505 CAACTGCAGTTACTTTGCACAAA 58.827 39.130 30.67 0.00 45.89 2.83
2682 5579 2.119457 GCAACTGCAGTTACTTTGCAC 58.881 47.619 30.67 9.87 45.89 4.57
2693 5590 7.386025 TCTGTTAGCATATATAAGCAACTGCAG 59.614 37.037 13.48 13.48 45.16 4.41
2696 5593 8.593492 TGTCTGTTAGCATATATAAGCAACTG 57.407 34.615 12.18 14.95 0.00 3.16
2717 5614 4.696479 ATTCCATCCGCTTCTTATGTCT 57.304 40.909 0.00 0.00 0.00 3.41
2728 5625 4.833390 AGCCTACTATAAATTCCATCCGC 58.167 43.478 0.00 0.00 0.00 5.54
2732 5629 9.474313 TGTTTGAAAGCCTACTATAAATTCCAT 57.526 29.630 0.00 0.00 0.00 3.41
2846 6071 9.892130 ACATATTCCCCGCAAAATAAAATAAAA 57.108 25.926 0.00 0.00 0.00 1.52
2850 6075 9.705290 GAATACATATTCCCCGCAAAATAAAAT 57.295 29.630 0.81 0.00 36.85 1.82
2852 6077 7.364200 CGAATACATATTCCCCGCAAAATAAA 58.636 34.615 6.13 0.00 39.04 1.40
2853 6078 6.072397 CCGAATACATATTCCCCGCAAAATAA 60.072 38.462 6.13 0.00 39.04 1.40
2854 6079 5.413213 CCGAATACATATTCCCCGCAAAATA 59.587 40.000 6.13 0.00 39.04 1.40
2855 6080 4.217550 CCGAATACATATTCCCCGCAAAAT 59.782 41.667 6.13 0.00 39.04 1.82
2859 6084 1.972075 TCCGAATACATATTCCCCGCA 59.028 47.619 6.13 0.00 39.04 5.69
2860 6085 2.028385 ACTCCGAATACATATTCCCCGC 60.028 50.000 6.13 0.00 39.04 6.13
2861 6086 3.257375 TGACTCCGAATACATATTCCCCG 59.743 47.826 6.13 0.00 39.04 5.73
2862 6087 4.039973 TGTGACTCCGAATACATATTCCCC 59.960 45.833 6.13 0.00 39.04 4.81
2863 6088 4.989168 GTGTGACTCCGAATACATATTCCC 59.011 45.833 6.13 0.00 39.04 3.97
2867 6111 5.854010 ACTGTGTGACTCCGAATACATAT 57.146 39.130 0.00 0.00 0.00 1.78
2894 6138 3.037431 TGCAACCACCAATATGTTTGC 57.963 42.857 1.54 1.54 0.00 3.68
3058 6320 1.302511 GTTTTCTGGCGGCTGAGGA 60.303 57.895 17.64 8.91 0.00 3.71
3293 6556 4.926238 AGCGAAATATAGATTTGAGCTCGG 59.074 41.667 9.64 0.00 39.51 4.63
3340 6613 9.565213 GTAGACTCATTTTCGCTAGTAACTTAA 57.435 33.333 0.00 0.00 0.00 1.85
3425 6706 7.029563 GGAAATCCAGAACATGTAACAACATC 58.970 38.462 0.00 0.00 35.64 3.06
3468 6750 9.948964 CACTTCATTCCACCATATTATATCTGA 57.051 33.333 0.00 0.00 0.00 3.27
3469 6751 9.730705 ACACTTCATTCCACCATATTATATCTG 57.269 33.333 0.00 0.00 0.00 2.90
3476 6758 8.938883 ACTAGATACACTTCATTCCACCATATT 58.061 33.333 0.00 0.00 0.00 1.28
3477 6759 8.497910 ACTAGATACACTTCATTCCACCATAT 57.502 34.615 0.00 0.00 0.00 1.78
3478 6760 7.914427 ACTAGATACACTTCATTCCACCATA 57.086 36.000 0.00 0.00 0.00 2.74
3479 6761 6.814954 ACTAGATACACTTCATTCCACCAT 57.185 37.500 0.00 0.00 0.00 3.55
3496 6778 9.526713 CGCAGCAATCATTATATTCTACTAGAT 57.473 33.333 0.00 0.00 0.00 1.98
3516 6798 1.783284 CACAGAGTTAGAACGCAGCA 58.217 50.000 0.00 0.00 0.00 4.41
3523 6805 6.166279 CAAGGACAATAGCACAGAGTTAGAA 58.834 40.000 0.00 0.00 0.00 2.10
3526 6808 5.221641 ACACAAGGACAATAGCACAGAGTTA 60.222 40.000 0.00 0.00 0.00 2.24
3531 6813 3.814842 TCAACACAAGGACAATAGCACAG 59.185 43.478 0.00 0.00 0.00 3.66
3545 6828 5.047660 ACAAAGTGGTTTTAGCTCAACACAA 60.048 36.000 10.41 0.00 0.00 3.33
3546 6829 4.461081 ACAAAGTGGTTTTAGCTCAACACA 59.539 37.500 10.41 4.39 0.00 3.72
3549 6832 7.649057 AGATAACAAAGTGGTTTTAGCTCAAC 58.351 34.615 0.00 0.00 32.29 3.18
3814 7107 2.677836 GAGCATTCAACTATTCACGGCA 59.322 45.455 0.00 0.00 0.00 5.69
3838 7132 4.929808 AGTAACATTGCAAAGAGGAGTACG 59.070 41.667 8.96 0.00 0.00 3.67
3958 7258 2.757868 CGGAGAAGAGAACATGACTCCT 59.242 50.000 16.42 10.25 40.89 3.69
4079 7470 0.528924 TGCATGAACAAGCCATCAGC 59.471 50.000 0.00 0.00 44.25 4.26
4163 7559 5.754890 CCTGATTTTTCTTTTCTGTTGGTGG 59.245 40.000 0.00 0.00 0.00 4.61
4171 7570 7.410120 AAGTGTGTCCTGATTTTTCTTTTCT 57.590 32.000 0.00 0.00 0.00 2.52
4173 7572 6.265577 CGAAGTGTGTCCTGATTTTTCTTTT 58.734 36.000 0.00 0.00 0.00 2.27
4175 7574 4.261197 GCGAAGTGTGTCCTGATTTTTCTT 60.261 41.667 0.00 0.00 0.00 2.52
4177 7576 3.003275 TGCGAAGTGTGTCCTGATTTTTC 59.997 43.478 0.00 0.00 0.00 2.29
4178 7577 2.948979 TGCGAAGTGTGTCCTGATTTTT 59.051 40.909 0.00 0.00 0.00 1.94
4179 7578 2.571212 TGCGAAGTGTGTCCTGATTTT 58.429 42.857 0.00 0.00 0.00 1.82
4180 7579 2.254546 TGCGAAGTGTGTCCTGATTT 57.745 45.000 0.00 0.00 0.00 2.17
4196 8448 6.183360 GCTTTTTACACCCTCATTTTAATGCG 60.183 38.462 0.00 0.00 36.36 4.73
4586 8860 8.220755 TGCAAACTTCTATGTTTACACTCTTT 57.779 30.769 0.00 0.00 37.98 2.52
4600 8876 5.769662 ACAAACATGGATCTGCAAACTTCTA 59.230 36.000 0.00 0.00 0.00 2.10
4607 8883 3.253921 CACTGACAAACATGGATCTGCAA 59.746 43.478 0.00 0.00 0.00 4.08
4677 8953 5.241662 ACTACAGAGAACCTTGCAGATTTC 58.758 41.667 0.00 0.00 0.00 2.17
4747 9026 9.173021 TGACTGAAGAGACATTTTTAAAGTGAA 57.827 29.630 7.19 0.00 0.00 3.18
4751 9030 9.766277 GCTATGACTGAAGAGACATTTTTAAAG 57.234 33.333 0.00 0.00 36.26 1.85
4763 9042 6.990798 TGGATCTATTGCTATGACTGAAGAG 58.009 40.000 0.00 0.00 0.00 2.85
4849 9129 4.780815 TCCAATCATCCCTGTTGATACAC 58.219 43.478 0.00 0.00 33.52 2.90


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

AutoCloner maintained by Alex Coulton.