Multiple sequence alignment - TraesCS3A01G069800

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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 TraesCS3A01G069800 chr3A 100.000 5051 0 0 1 5051 42015913 42020963 0.000000e+00 9328.0
1 TraesCS3A01G069800 chr3A 81.855 3180 530 34 892 4036 41149844 41153011 0.000000e+00 2632.0
2 TraesCS3A01G069800 chr3A 81.731 520 77 14 904 1406 41115636 41116154 7.820000e-113 418.0
3 TraesCS3A01G069800 chr3A 95.122 41 2 0 4863 4903 41626986 41627026 1.170000e-06 65.8
4 TraesCS3A01G069800 chr3D 94.540 4487 182 26 1 4466 30277344 30281788 0.000000e+00 6870.0
5 TraesCS3A01G069800 chr3D 79.443 1508 268 28 2777 4266 30060226 30061709 0.000000e+00 1029.0
6 TraesCS3A01G069800 chr3D 91.806 598 31 11 4462 5042 30287772 30288368 0.000000e+00 817.0
7 TraesCS3A01G069800 chr3B 95.402 3480 153 3 797 4273 52742850 52739375 0.000000e+00 5533.0
8 TraesCS3A01G069800 chr3B 95.607 2481 103 4 796 3272 51856894 51859372 0.000000e+00 3973.0
9 TraesCS3A01G069800 chr3B 82.482 3368 504 56 881 4207 51726919 51730241 0.000000e+00 2872.0
10 TraesCS3A01G069800 chr3B 82.512 3208 512 37 914 4092 52777840 52774653 0.000000e+00 2771.0
11 TraesCS3A01G069800 chr3B 81.071 3492 582 55 588 4035 52854127 52850671 0.000000e+00 2713.0
12 TraesCS3A01G069800 chr3B 82.168 3090 524 22 962 4036 52426291 52429368 0.000000e+00 2628.0
13 TraesCS3A01G069800 chr3B 79.883 2729 525 19 1319 4036 52551643 52554358 0.000000e+00 1977.0
14 TraesCS3A01G069800 chr3B 87.859 766 76 10 43 799 52743688 52742931 0.000000e+00 883.0
15 TraesCS3A01G069800 chr3B 95.247 547 26 0 3305 3851 51859370 51859916 0.000000e+00 867.0
16 TraesCS3A01G069800 chr3B 79.036 954 179 7 3193 4137 52166624 52167565 7.130000e-178 634.0
17 TraesCS3A01G069800 chr3B 85.831 367 34 12 252 616 51856368 51856718 1.720000e-99 374.0
18 TraesCS3A01G069800 chr3B 91.513 271 19 1 4007 4273 51859915 51860185 2.220000e-98 370.0
19 TraesCS3A01G069800 chr3B 78.458 506 68 25 4574 5042 52739058 52738557 4.950000e-75 292.0
20 TraesCS3A01G069800 chr3B 73.789 702 92 51 4396 5049 51860279 51860936 5.160000e-45 193.0
21 TraesCS3A01G069800 chr3B 86.709 158 18 3 656 812 51856718 51856873 6.720000e-39 172.0
22 TraesCS3A01G069800 chr3B 86.458 96 7 1 4263 4358 52739363 52739274 3.220000e-17 100.0


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 TraesCS3A01G069800 chr3A 42015913 42020963 5050 False 9328.0 9328 100.00000 1 5051 1 chr3A.!!$F4 5050
1 TraesCS3A01G069800 chr3A 41149844 41153011 3167 False 2632.0 2632 81.85500 892 4036 1 chr3A.!!$F2 3144
2 TraesCS3A01G069800 chr3A 41115636 41116154 518 False 418.0 418 81.73100 904 1406 1 chr3A.!!$F1 502
3 TraesCS3A01G069800 chr3D 30277344 30281788 4444 False 6870.0 6870 94.54000 1 4466 1 chr3D.!!$F2 4465
4 TraesCS3A01G069800 chr3D 30060226 30061709 1483 False 1029.0 1029 79.44300 2777 4266 1 chr3D.!!$F1 1489
5 TraesCS3A01G069800 chr3D 30287772 30288368 596 False 817.0 817 91.80600 4462 5042 1 chr3D.!!$F3 580
6 TraesCS3A01G069800 chr3B 51726919 51730241 3322 False 2872.0 2872 82.48200 881 4207 1 chr3B.!!$F1 3326
7 TraesCS3A01G069800 chr3B 52774653 52777840 3187 True 2771.0 2771 82.51200 914 4092 1 chr3B.!!$R1 3178
8 TraesCS3A01G069800 chr3B 52850671 52854127 3456 True 2713.0 2713 81.07100 588 4035 1 chr3B.!!$R2 3447
9 TraesCS3A01G069800 chr3B 52426291 52429368 3077 False 2628.0 2628 82.16800 962 4036 1 chr3B.!!$F3 3074
10 TraesCS3A01G069800 chr3B 52551643 52554358 2715 False 1977.0 1977 79.88300 1319 4036 1 chr3B.!!$F4 2717
11 TraesCS3A01G069800 chr3B 52738557 52743688 5131 True 1702.0 5533 87.04425 43 5042 4 chr3B.!!$R3 4999
12 TraesCS3A01G069800 chr3B 51856368 51860936 4568 False 991.5 3973 88.11600 252 5049 6 chr3B.!!$F5 4797
13 TraesCS3A01G069800 chr3B 52166624 52167565 941 False 634.0 634 79.03600 3193 4137 1 chr3B.!!$F2 944

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
156 157 0.032117 TCAGATGGTCCGGTGGAGAT 60.032 55.000 0.00 0.00 29.39 2.75 F
308 328 0.792640 GATCCATAATCGCGGCACTG 59.207 55.000 6.13 0.00 0.00 3.66 F
658 688 0.884514 GGCCCTTCAGCTGAGAAAAC 59.115 55.000 17.43 6.88 0.00 2.43 F
659 689 1.609208 GCCCTTCAGCTGAGAAAACA 58.391 50.000 17.43 0.00 0.00 2.83 F
886 1009 2.095161 ACGCCTTCTAAGACTTGTCTCG 60.095 50.000 3.58 4.35 0.00 4.04 F
1352 1518 2.095415 GCTTTTGTAACATCGGGTCACC 60.095 50.000 0.00 0.00 0.00 4.02 F
2531 2698 2.351726 ACGAATGCTTTATTGGAGACGC 59.648 45.455 0.00 0.00 0.00 5.19 F
3708 3890 0.106015 AAGGTTGCCCAAAGCTGAGT 60.106 50.000 0.00 0.00 45.87 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1352 1518 0.937304 CCGAACAGCAATATCGTGGG 59.063 55.000 0.00 0.0 34.90 4.61 R
1441 1607 1.985159 ACCATTTCCAGTAGGCTGTGA 59.015 47.619 0.00 0.0 41.02 3.58 R
2567 2734 1.878953 ATCGACAACAGAAAGGCGTT 58.121 45.000 0.00 0.0 0.00 4.84 R
2799 2969 4.630644 TTCTGGAAGATGAGATATGCCC 57.369 45.455 0.00 0.0 46.36 5.36 R
2997 3167 1.011968 TGTCGCCGACAAGAAATCCG 61.012 55.000 18.96 0.0 39.78 4.18 R
3125 3295 4.225042 TGTCCTCCAGCACTACATTTGTAT 59.775 41.667 0.00 0.0 0.00 2.29 R
3776 3958 0.169009 GTCATTCACGGCCTTCAAGC 59.831 55.000 0.00 0.0 0.00 4.01 R
4763 5050 0.302589 ACGAAACGAAACGCCAGTTC 59.697 50.000 0.00 0.0 40.18 3.01 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
31 32 6.042093 TGAAGATATTGTTCGCCCTATTCTCT 59.958 38.462 0.00 0.00 0.00 3.10
34 35 1.120530 TGTTCGCCCTATTCTCTCCC 58.879 55.000 0.00 0.00 0.00 4.30
59 60 1.314730 TCGCGGTATGCATCTACTCA 58.685 50.000 6.13 0.00 46.97 3.41
64 65 3.243569 GCGGTATGCATCTACTCAACTCT 60.244 47.826 0.19 0.00 45.45 3.24
80 81 6.867662 TCAACTCTGAGGAAATTTTGTCTC 57.132 37.500 9.85 1.58 0.00 3.36
84 85 2.813754 CTGAGGAAATTTTGTCTCGGCA 59.186 45.455 10.77 0.00 0.00 5.69
114 115 1.609072 GTTCCTTTGCTCTTGGTCCAC 59.391 52.381 0.00 0.00 0.00 4.02
127 128 3.961480 TGGTCCACTGATCACTAACTG 57.039 47.619 0.00 0.00 0.00 3.16
133 134 5.016831 TCCACTGATCACTAACTGAAGCTA 58.983 41.667 0.00 0.00 30.60 3.32
156 157 0.032117 TCAGATGGTCCGGTGGAGAT 60.032 55.000 0.00 0.00 29.39 2.75
173 174 4.349636 TGGAGATAGGAAACAGTTTGTGGA 59.650 41.667 2.34 0.00 0.00 4.02
216 218 2.047844 TCTCCTCTTGCAGCACGC 60.048 61.111 0.00 0.00 42.89 5.34
217 219 2.047465 CTCCTCTTGCAGCACGCT 60.047 61.111 0.00 0.00 43.06 5.07
218 220 2.047844 TCCTCTTGCAGCACGCTC 60.048 61.111 0.00 0.00 43.06 5.03
219 221 2.357881 CCTCTTGCAGCACGCTCA 60.358 61.111 0.00 0.00 43.06 4.26
220 222 1.744368 CCTCTTGCAGCACGCTCAT 60.744 57.895 0.00 0.00 43.06 2.90
221 223 1.703438 CCTCTTGCAGCACGCTCATC 61.703 60.000 0.00 0.00 43.06 2.92
222 224 1.004679 TCTTGCAGCACGCTCATCA 60.005 52.632 0.00 0.00 43.06 3.07
223 225 1.017701 TCTTGCAGCACGCTCATCAG 61.018 55.000 0.00 0.00 43.06 2.90
224 226 1.296755 CTTGCAGCACGCTCATCAGT 61.297 55.000 0.00 0.00 43.06 3.41
225 227 1.571215 TTGCAGCACGCTCATCAGTG 61.571 55.000 0.00 0.00 43.06 3.66
261 274 5.206587 AGTTACTGACCCGTATTCAGGTAT 58.793 41.667 9.28 0.00 44.19 2.73
308 328 0.792640 GATCCATAATCGCGGCACTG 59.207 55.000 6.13 0.00 0.00 3.66
322 342 2.602217 CGGCACTGCTTTTGTTCACTAC 60.602 50.000 0.00 0.00 0.00 2.73
369 389 4.191033 TGGCAGCATGGTTTTATTCTTG 57.809 40.909 0.00 0.00 35.86 3.02
374 394 5.625197 GCAGCATGGTTTTATTCTTGGTGAT 60.625 40.000 0.00 0.00 38.17 3.06
455 475 2.655090 TGAAAGCAGTGATGGGTTGA 57.345 45.000 0.00 0.00 0.00 3.18
503 523 9.159254 AGGTCATCAATATTGATTCCTACTGTA 57.841 33.333 30.67 12.08 45.13 2.74
592 617 9.262472 GATTAAGATGTAACACTTAAAGCAACG 57.738 33.333 0.00 0.00 40.38 4.10
599 624 6.962678 TGTAACACTTAAAGCAACGTTTTCTC 59.037 34.615 0.00 0.00 0.00 2.87
607 636 2.614057 AGCAACGTTTTCTCTGGTTCAG 59.386 45.455 0.00 0.00 0.00 3.02
621 650 6.041637 TCTCTGGTTCAGTATGTACACTGTTT 59.958 38.462 11.91 0.00 45.11 2.83
624 653 6.350103 TGGTTCAGTATGTACACTGTTTTGA 58.650 36.000 11.91 2.83 45.11 2.69
658 688 0.884514 GGCCCTTCAGCTGAGAAAAC 59.115 55.000 17.43 6.88 0.00 2.43
659 689 1.609208 GCCCTTCAGCTGAGAAAACA 58.391 50.000 17.43 0.00 0.00 2.83
660 690 2.165998 GCCCTTCAGCTGAGAAAACAT 58.834 47.619 17.43 0.00 0.00 2.71
662 692 3.950395 GCCCTTCAGCTGAGAAAACATAT 59.050 43.478 17.43 0.00 0.00 1.78
663 693 5.126067 GCCCTTCAGCTGAGAAAACATATA 58.874 41.667 17.43 0.00 0.00 0.86
665 695 5.529060 CCCTTCAGCTGAGAAAACATATACC 59.471 44.000 17.43 0.00 0.00 2.73
667 697 6.599244 CCTTCAGCTGAGAAAACATATACCAA 59.401 38.462 17.43 0.00 0.00 3.67
668 698 7.284034 CCTTCAGCTGAGAAAACATATACCAAT 59.716 37.037 17.43 0.00 0.00 3.16
669 699 9.330063 CTTCAGCTGAGAAAACATATACCAATA 57.670 33.333 17.43 0.00 0.00 1.90
794 830 4.471386 ACTACTCAGGGTGCTGAATATGTT 59.529 41.667 0.00 0.00 32.43 2.71
795 831 3.614092 ACTCAGGGTGCTGAATATGTTG 58.386 45.455 0.00 0.00 32.43 3.33
796 832 3.009473 ACTCAGGGTGCTGAATATGTTGT 59.991 43.478 0.00 0.00 32.43 3.32
797 833 4.225042 ACTCAGGGTGCTGAATATGTTGTA 59.775 41.667 0.00 0.00 32.43 2.41
798 834 4.513442 TCAGGGTGCTGAATATGTTGTAC 58.487 43.478 0.00 0.00 0.00 2.90
799 835 3.309682 CAGGGTGCTGAATATGTTGTACG 59.690 47.826 0.00 0.00 0.00 3.67
886 1009 2.095161 ACGCCTTCTAAGACTTGTCTCG 60.095 50.000 3.58 4.35 0.00 4.04
917 1058 5.046910 AGCATGTTTACCTTGTGAATTCG 57.953 39.130 0.04 0.00 0.00 3.34
1029 1186 5.440610 ACCATACTAGAATCTTTGCTTGGG 58.559 41.667 0.00 0.00 0.00 4.12
1114 1274 2.627515 AGAGCTTGCAGAAGTGTTGA 57.372 45.000 0.00 0.00 0.00 3.18
1137 1297 4.096984 AGACGGGTAGAACTAATACGTTGG 59.903 45.833 0.00 0.00 32.84 3.77
1283 1449 2.200081 ACTACTGCCTGACCATCCATT 58.800 47.619 0.00 0.00 0.00 3.16
1352 1518 2.095415 GCTTTTGTAACATCGGGTCACC 60.095 50.000 0.00 0.00 0.00 4.02
1407 1573 7.806690 TGAACAAAAGGATAGAGAACATTTCG 58.193 34.615 0.00 0.00 34.02 3.46
1441 1607 9.248291 CAACATTTTTAACATTCAGCAGTAGTT 57.752 29.630 0.00 0.00 0.00 2.24
1533 1699 8.504811 TTGTGGGTAAGGAGATCATATATTCA 57.495 34.615 0.00 0.00 0.00 2.57
1807 1973 3.305199 GCAGAGAAAGCTTGCAGAAACAT 60.305 43.478 7.33 0.00 0.00 2.71
1923 2089 5.909477 TCTGGAGTAATATTGGTAACCACG 58.091 41.667 0.00 0.00 30.78 4.94
2069 2236 5.221402 TGCATAATTTGAGAAACACAGGCAA 60.221 36.000 0.00 0.00 0.00 4.52
2221 2388 4.162888 TGCTCTCTGATGAAATAGAAGGCA 59.837 41.667 0.00 0.00 32.26 4.75
2380 2547 3.003480 CAACAAGGCCAGCTACTAGAAC 58.997 50.000 5.01 0.00 0.00 3.01
2531 2698 2.351726 ACGAATGCTTTATTGGAGACGC 59.648 45.455 0.00 0.00 0.00 5.19
2567 2734 5.105392 GGGGTGAGAATATGTCAAAATTGCA 60.105 40.000 0.00 0.00 0.00 4.08
2799 2969 4.051922 GCCTACTTGATCTTGGTCATACG 58.948 47.826 0.00 0.00 0.00 3.06
2997 3167 6.801862 AGTTAAATTTGCTCACTGAATTACGC 59.198 34.615 0.00 0.00 0.00 4.42
3122 3292 4.871933 AATTGGAAAGAACGGCTCATTT 57.128 36.364 0.00 0.00 0.00 2.32
3125 3295 3.218453 TGGAAAGAACGGCTCATTTTCA 58.782 40.909 0.00 0.00 31.19 2.69
3437 3613 3.945921 CTGAGAATTGATGGAGCACATGT 59.054 43.478 0.00 0.00 40.72 3.21
3532 3708 5.001232 TCCCTAAACTTGAATGGTTCTTCG 58.999 41.667 0.00 0.00 0.00 3.79
3606 3788 4.008074 TGTTGTTGATGAAGGAGGAGAC 57.992 45.455 0.00 0.00 0.00 3.36
3708 3890 0.106015 AAGGTTGCCCAAAGCTGAGT 60.106 50.000 0.00 0.00 45.87 3.41
3776 3958 4.670221 GCTCTTGTTAATTGGAGCGAACAG 60.670 45.833 9.54 0.00 41.03 3.16
3790 3972 0.884704 GAACAGCTTGAAGGCCGTGA 60.885 55.000 0.00 0.00 0.00 4.35
4483 4703 2.049156 CCACAGCTCGCTTCGACA 60.049 61.111 0.00 0.00 0.00 4.35
4535 4755 4.148079 TGTCAATGGTAAGGATGTGCAAA 58.852 39.130 0.00 0.00 0.00 3.68
4583 4838 4.153117 CAGGCTGCACTATATCGAATTTCC 59.847 45.833 0.00 0.00 0.00 3.13
4618 4876 0.605589 CTGAACTTGAGCCGGAGACT 59.394 55.000 5.05 0.00 0.00 3.24
4728 4989 3.003378 GCCTTTGTTGTACTGAACCTGTC 59.997 47.826 0.00 0.00 0.00 3.51
4731 5018 5.357032 CCTTTGTTGTACTGAACCTGTCTTT 59.643 40.000 0.00 0.00 0.00 2.52
4733 5020 5.092554 TGTTGTACTGAACCTGTCTTTGA 57.907 39.130 0.00 0.00 0.00 2.69
4918 5250 1.271871 TGTGCATGAATTTCGGGAGGT 60.272 47.619 0.00 0.00 0.00 3.85
5049 5383 1.534595 CAAGCTCTGTTCTCTGCAACC 59.465 52.381 0.00 0.00 0.00 3.77
5050 5384 0.320247 AGCTCTGTTCTCTGCAACCG 60.320 55.000 0.00 0.00 0.00 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 0.032267 CGGGAGAGAATAGGGCGAAC 59.968 60.000 0.00 0.00 0.00 3.95
19 20 0.249489 CAACGGGAGAGAATAGGGCG 60.249 60.000 0.00 0.00 0.00 6.13
34 35 0.161658 GATGCATACCGCGATCAACG 59.838 55.000 8.23 0.00 46.97 4.10
59 60 4.757149 CCGAGACAAAATTTCCTCAGAGTT 59.243 41.667 12.60 0.00 0.00 3.01
64 65 2.552315 GTGCCGAGACAAAATTTCCTCA 59.448 45.455 12.60 0.00 0.00 3.86
80 81 4.696172 GAACGAACACGCGTGCCG 62.696 66.667 36.17 36.17 44.86 5.69
114 115 7.487484 TGAATCTAGCTTCAGTTAGTGATCAG 58.513 38.462 4.91 0.00 34.17 2.90
127 128 3.553922 CCGGACCATCTGAATCTAGCTTC 60.554 52.174 0.00 0.00 0.00 3.86
133 134 0.833287 CCACCGGACCATCTGAATCT 59.167 55.000 9.46 0.00 0.00 2.40
141 142 0.561184 TCCTATCTCCACCGGACCAT 59.439 55.000 9.46 0.00 0.00 3.55
156 157 5.063204 CACAGATCCACAAACTGTTTCCTA 58.937 41.667 2.13 0.00 41.93 2.94
191 193 1.153667 GCAAGAGGAGAGAGGCACG 60.154 63.158 0.00 0.00 0.00 5.34
216 218 6.344500 ACTAAACTGATAAGGCACTGATGAG 58.656 40.000 0.00 0.00 40.86 2.90
217 219 6.299805 ACTAAACTGATAAGGCACTGATGA 57.700 37.500 0.00 0.00 40.86 2.92
218 220 6.992063 AACTAAACTGATAAGGCACTGATG 57.008 37.500 0.00 0.00 40.86 3.07
219 221 7.852263 AGTAACTAAACTGATAAGGCACTGAT 58.148 34.615 0.00 0.00 40.86 2.90
220 222 7.241042 AGTAACTAAACTGATAAGGCACTGA 57.759 36.000 0.00 0.00 40.86 3.41
308 328 9.899226 ATCATCTAAAAAGTAGTGAACAAAAGC 57.101 29.630 0.00 0.00 0.00 3.51
322 342 7.044181 TCACCTGCAGTAGATCATCTAAAAAG 58.956 38.462 13.81 0.00 29.58 2.27
369 389 9.351570 GAAGAGAAGAAAATCAATCAAATCACC 57.648 33.333 0.00 0.00 0.00 4.02
455 475 1.798813 GAAGACACGGTTTGCTTCGAT 59.201 47.619 0.00 0.00 32.40 3.59
517 538 4.453819 CCTTAGAAAGCAGTCTTCCAACAG 59.546 45.833 0.00 0.00 0.00 3.16
572 597 7.642586 AGAAAACGTTGCTTTAAGTGTTACATC 59.357 33.333 0.00 0.00 0.00 3.06
575 600 7.163682 CAGAGAAAACGTTGCTTTAAGTGTTAC 59.836 37.037 0.00 0.00 0.00 2.50
586 611 2.614057 CTGAACCAGAGAAAACGTTGCT 59.386 45.455 0.00 2.01 32.44 3.91
592 617 6.929606 AGTGTACATACTGAACCAGAGAAAAC 59.070 38.462 0.00 0.00 35.18 2.43
607 636 5.147162 GCAGCTTCAAAACAGTGTACATAC 58.853 41.667 0.00 0.00 0.00 2.39
621 650 0.685131 CCATCCCATGGCAGCTTCAA 60.685 55.000 6.09 0.00 44.70 2.69
790 826 4.377021 TGAAGCTCTGAAACGTACAACAT 58.623 39.130 0.00 0.00 0.00 2.71
794 830 5.063438 GCATAATGAAGCTCTGAAACGTACA 59.937 40.000 0.00 0.00 0.00 2.90
795 831 5.292101 AGCATAATGAAGCTCTGAAACGTAC 59.708 40.000 0.00 0.00 36.00 3.67
796 832 5.419542 AGCATAATGAAGCTCTGAAACGTA 58.580 37.500 0.00 0.00 36.00 3.57
797 833 4.256920 AGCATAATGAAGCTCTGAAACGT 58.743 39.130 0.00 0.00 36.00 3.99
798 834 4.871993 AGCATAATGAAGCTCTGAAACG 57.128 40.909 0.00 0.00 36.00 3.60
799 835 9.578439 AAATTTAGCATAATGAAGCTCTGAAAC 57.422 29.630 0.00 0.00 42.05 2.78
850 970 8.958119 TTAGAAGGCGTGAAAAATATCACTAT 57.042 30.769 5.96 0.00 45.98 2.12
860 980 4.448210 ACAAGTCTTAGAAGGCGTGAAAA 58.552 39.130 15.24 0.00 41.64 2.29
867 987 2.231721 ACCGAGACAAGTCTTAGAAGGC 59.768 50.000 3.96 0.00 40.61 4.35
886 1009 5.221244 ACAAGGTAAACATGCTTTCAGAACC 60.221 40.000 0.00 0.00 0.00 3.62
917 1058 4.760878 TGGCAAAACTAAAGGGTGAAAAC 58.239 39.130 0.00 0.00 0.00 2.43
930 1071 0.105246 TGTTGGGGGATGGCAAAACT 60.105 50.000 0.00 0.00 0.00 2.66
931 1072 0.321346 CTGTTGGGGGATGGCAAAAC 59.679 55.000 0.00 0.00 0.00 2.43
960 1108 0.190815 AGGAGGCCCACCAAAAACAT 59.809 50.000 17.23 0.00 39.06 2.71
997 1147 4.823989 AGATTCTAGTATGGTTGCCATTGC 59.176 41.667 5.94 0.92 42.23 3.56
1029 1186 3.574284 TGCAACTTATTGGCACATGAC 57.426 42.857 0.00 0.00 39.30 3.06
1114 1274 4.096984 CCAACGTATTAGTTCTACCCGTCT 59.903 45.833 0.00 0.00 30.96 4.18
1137 1297 9.149225 CTCCTTTTCTCAGCATCATATATACAC 57.851 37.037 0.00 0.00 0.00 2.90
1233 1393 2.804986 TGCATCTAGCCATGTCCAAA 57.195 45.000 0.00 0.00 44.83 3.28
1352 1518 0.937304 CCGAACAGCAATATCGTGGG 59.063 55.000 0.00 0.00 34.90 4.61
1360 1526 4.872691 CAGACTTCTAATCCGAACAGCAAT 59.127 41.667 0.00 0.00 0.00 3.56
1441 1607 1.985159 ACCATTTCCAGTAGGCTGTGA 59.015 47.619 0.00 0.00 41.02 3.58
1468 1634 6.782494 AGGTTGGAACTTCTTATCAATTTGGT 59.218 34.615 0.00 0.00 0.00 3.67
1528 1694 6.769512 AGTCTACCAACTTCTTGCTTGAATA 58.230 36.000 0.00 0.00 0.00 1.75
1533 1699 4.998033 GCTAAGTCTACCAACTTCTTGCTT 59.002 41.667 0.00 0.00 40.01 3.91
1807 1973 5.594317 CCAGAAAGAAACTCTTCCCTTCAAA 59.406 40.000 0.00 0.00 35.27 2.69
1923 2089 4.603985 TCATTGCAATTTGATCATCTCGC 58.396 39.130 9.83 0.00 0.00 5.03
2069 2236 5.586243 CGACCACATTTATCAACAATCTCCT 59.414 40.000 0.00 0.00 0.00 3.69
2380 2547 4.775058 AGTAGTACTCTTCTGCTGTGTG 57.225 45.455 0.00 0.00 0.00 3.82
2531 2698 3.423539 TCTCACCCCTCAATGTTTCAG 57.576 47.619 0.00 0.00 0.00 3.02
2567 2734 1.878953 ATCGACAACAGAAAGGCGTT 58.121 45.000 0.00 0.00 0.00 4.84
2799 2969 4.630644 TTCTGGAAGATGAGATATGCCC 57.369 45.455 0.00 0.00 46.36 5.36
2869 3039 1.406898 CGGAAGACTCTGCAGAGCATA 59.593 52.381 37.78 7.79 45.79 3.14
2971 3141 7.007456 GCGTAATTCAGTGAGCAAATTTAACTC 59.993 37.037 11.64 11.64 0.00 3.01
2973 3143 6.236941 CGCGTAATTCAGTGAGCAAATTTAAC 60.237 38.462 0.00 0.00 0.00 2.01
2997 3167 1.011968 TGTCGCCGACAAGAAATCCG 61.012 55.000 18.96 0.00 39.78 4.18
3122 3292 5.045942 TCCTCCAGCACTACATTTGTATGAA 60.046 40.000 0.00 0.00 35.65 2.57
3125 3295 4.225042 TGTCCTCCAGCACTACATTTGTAT 59.775 41.667 0.00 0.00 0.00 2.29
3532 3708 2.301346 CCAGTTGGGCATATCCTTGAC 58.699 52.381 0.00 0.00 34.39 3.18
3606 3788 2.130395 CGAATCTCATCACCACCATCG 58.870 52.381 0.00 0.00 0.00 3.84
3729 3911 2.501223 TTAAGCTGGCGGTGTCCTCG 62.501 60.000 0.00 0.00 0.00 4.63
3776 3958 0.169009 GTCATTCACGGCCTTCAAGC 59.831 55.000 0.00 0.00 0.00 4.01
3790 3972 1.004044 CTCAAGCACTGGGAGGTCATT 59.996 52.381 0.00 0.00 0.00 2.57
3862 4050 6.408428 CACGTACTTGTAGTTTTGACACTTC 58.592 40.000 0.00 0.00 0.00 3.01
4158 4356 3.096489 TGAGGCAGAAAATTGTGTTGC 57.904 42.857 0.00 0.00 0.00 4.17
4483 4703 2.109739 TGTCACGTGCGTTTTGCCT 61.110 52.632 11.67 0.00 45.60 4.75
4535 4755 4.444022 CCAGCTTGCTACAGATCAAGGTAT 60.444 45.833 6.39 0.00 45.70 2.73
4583 4838 6.094048 TCAAGTTCAGGAAGAAAACACAAGAG 59.906 38.462 0.00 0.00 38.13 2.85
4618 4876 7.539436 TGACACACATTTTAAGTACAGCAAAA 58.461 30.769 0.00 0.00 0.00 2.44
4758 5045 4.489841 CGAAACGAAACGCCAGTTCTATAC 60.490 45.833 0.00 0.00 40.18 1.47
4762 5049 0.580104 CGAAACGAAACGCCAGTTCT 59.420 50.000 0.00 0.00 40.18 3.01
4763 5050 0.302589 ACGAAACGAAACGCCAGTTC 59.697 50.000 0.00 0.00 40.18 3.01
4764 5051 0.728542 AACGAAACGAAACGCCAGTT 59.271 45.000 0.00 0.00 43.50 3.16
4765 5052 0.302589 GAACGAAACGAAACGCCAGT 59.697 50.000 0.00 0.00 0.00 4.00
4766 5053 0.716926 CGAACGAAACGAAACGCCAG 60.717 55.000 0.00 0.00 0.00 4.85
4767 5054 1.273300 CGAACGAAACGAAACGCCA 59.727 52.632 0.00 0.00 0.00 5.69
4768 5055 0.315301 AACGAACGAAACGAAACGCC 60.315 50.000 0.14 0.00 34.70 5.68
4918 5250 1.407299 CGCTGAGGTTCCCATCATTGA 60.407 52.381 0.00 0.00 0.00 2.57
4945 5277 4.880696 GCCTTAGTCATCTTCTGCATTTCT 59.119 41.667 0.00 0.00 0.00 2.52
4953 5285 2.433970 GCCTCTGCCTTAGTCATCTTCT 59.566 50.000 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.