Multiple sequence alignment - TraesCS3B01G372400

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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 TraesCS3B01G372400 chr3B 100.000 2621 0 0 1 2621 585024425 585021805 0.000000e+00 4841
1 TraesCS3B01G372400 chr3B 87.201 1172 107 25 931 2079 585139066 585137915 0.000000e+00 1293
2 TraesCS3B01G372400 chr3B 85.461 846 78 26 968 1785 584985200 584984372 0.000000e+00 839
3 TraesCS3B01G372400 chr3B 82.027 523 76 16 2104 2621 585137925 585137416 1.860000e-116 429
4 TraesCS3B01G372400 chr5D 97.228 938 25 1 1 938 321691924 321692860 0.000000e+00 1587
5 TraesCS3B01G372400 chr5D 96.774 930 30 0 1 930 408227671 408228600 0.000000e+00 1552
6 TraesCS3B01G372400 chr5D 82.449 490 86 0 15 504 478571920 478572409 1.860000e-116 429
7 TraesCS3B01G372400 chr7A 96.989 930 28 0 1 930 735987994 735987065 0.000000e+00 1563
8 TraesCS3B01G372400 chr7A 95.812 191 8 0 741 931 735991904 735991714 2.530000e-80 309
9 TraesCS3B01G372400 chr1A 96.667 930 31 0 1 930 79115365 79116294 0.000000e+00 1546
10 TraesCS3B01G372400 chr3D 96.474 936 32 1 1 936 566133676 566132742 0.000000e+00 1544
11 TraesCS3B01G372400 chr3D 90.391 1176 93 13 949 2107 446110101 446108929 0.000000e+00 1528
12 TraesCS3B01G372400 chr3D 90.691 1085 77 11 931 1997 446191779 446190701 0.000000e+00 1423
13 TraesCS3B01G372400 chr3D 86.512 860 78 23 949 1785 446075596 446074752 0.000000e+00 911
14 TraesCS3B01G372400 chr3D 82.051 507 59 13 2115 2619 446190627 446190151 1.130000e-108 403
15 TraesCS3B01G372400 chr1B 96.344 930 31 2 1 930 22955104 22956030 0.000000e+00 1526
16 TraesCS3B01G372400 chr3A 89.991 1139 86 18 931 2051 587966500 587965372 0.000000e+00 1447
17 TraesCS3B01G372400 chr3A 90.289 1071 83 16 950 2004 587906306 587905241 0.000000e+00 1382
18 TraesCS3B01G372400 chr3A 86.914 810 67 25 1000 1785 587884712 587883918 0.000000e+00 872
19 TraesCS3B01G372400 chr3A 89.362 141 13 2 2462 2601 587965229 587965090 2.680000e-40 176
20 TraesCS3B01G372400 chr5A 94.652 935 34 8 1 933 632438196 632437276 0.000000e+00 1435
21 TraesCS3B01G372400 chr4B 89.592 932 91 6 1 930 473841977 473842904 0.000000e+00 1179


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 TraesCS3B01G372400 chr3B 585021805 585024425 2620 True 4841.0 4841 100.0000 1 2621 1 chr3B.!!$R2 2620
1 TraesCS3B01G372400 chr3B 585137416 585139066 1650 True 861.0 1293 84.6140 931 2621 2 chr3B.!!$R3 1690
2 TraesCS3B01G372400 chr3B 584984372 584985200 828 True 839.0 839 85.4610 968 1785 1 chr3B.!!$R1 817
3 TraesCS3B01G372400 chr5D 321691924 321692860 936 False 1587.0 1587 97.2280 1 938 1 chr5D.!!$F1 937
4 TraesCS3B01G372400 chr5D 408227671 408228600 929 False 1552.0 1552 96.7740 1 930 1 chr5D.!!$F2 929
5 TraesCS3B01G372400 chr7A 735987065 735991904 4839 True 936.0 1563 96.4005 1 931 2 chr7A.!!$R1 930
6 TraesCS3B01G372400 chr1A 79115365 79116294 929 False 1546.0 1546 96.6670 1 930 1 chr1A.!!$F1 929
7 TraesCS3B01G372400 chr3D 566132742 566133676 934 True 1544.0 1544 96.4740 1 936 1 chr3D.!!$R3 935
8 TraesCS3B01G372400 chr3D 446108929 446110101 1172 True 1528.0 1528 90.3910 949 2107 1 chr3D.!!$R2 1158
9 TraesCS3B01G372400 chr3D 446190151 446191779 1628 True 913.0 1423 86.3710 931 2619 2 chr3D.!!$R4 1688
10 TraesCS3B01G372400 chr3D 446074752 446075596 844 True 911.0 911 86.5120 949 1785 1 chr3D.!!$R1 836
11 TraesCS3B01G372400 chr1B 22955104 22956030 926 False 1526.0 1526 96.3440 1 930 1 chr1B.!!$F1 929
12 TraesCS3B01G372400 chr3A 587905241 587906306 1065 True 1382.0 1382 90.2890 950 2004 1 chr3A.!!$R2 1054
13 TraesCS3B01G372400 chr3A 587883918 587884712 794 True 872.0 872 86.9140 1000 1785 1 chr3A.!!$R1 785
14 TraesCS3B01G372400 chr3A 587965090 587966500 1410 True 811.5 1447 89.6765 931 2601 2 chr3A.!!$R3 1670
15 TraesCS3B01G372400 chr5A 632437276 632438196 920 True 1435.0 1435 94.6520 1 933 1 chr5A.!!$R1 932
16 TraesCS3B01G372400 chr4B 473841977 473842904 927 False 1179.0 1179 89.5920 1 930 1 chr4B.!!$F1 929

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
959 4875 0.108186 CCGACCAATCAGCTACAGCA 60.108 55.0 3.7 0.0 45.16 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2516 6514 1.002502 GGGTAGTGGTGTTCCAGGC 60.003 63.158 0.0 0.0 45.24 4.85 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
132 4044 0.809385 AGTAGTCACCGACGGTCATG 59.191 55.000 18.72 6.60 37.67 3.07
256 4168 3.740128 GATCTGGGGCGCATGACGT 62.740 63.158 10.83 0.00 46.11 4.34
298 4210 5.271598 AGATAGAGCCATAGATCCAAGAGG 58.728 45.833 0.00 0.00 0.00 3.69
429 4341 2.591715 AACAGCTCGCGCCAGTTT 60.592 55.556 0.00 0.00 32.93 2.66
763 4677 6.109156 TGTAATGTAATATGATCGGGCTGT 57.891 37.500 0.00 0.00 0.00 4.40
776 4690 1.318576 GGGCTGTTAAAGTGCACACT 58.681 50.000 21.04 7.82 44.94 3.55
876 4792 9.216148 ACCTTATATGGTAACCAACTATACACA 57.784 33.333 8.51 0.00 38.79 3.72
917 4833 2.300723 CGATCCGGTTGGGGATACATAA 59.699 50.000 0.00 0.00 46.75 1.90
945 4861 2.185310 AACACTCATCCAGCCCGACC 62.185 60.000 0.00 0.00 0.00 4.79
947 4863 1.918293 ACTCATCCAGCCCGACCAA 60.918 57.895 0.00 0.00 0.00 3.67
956 4872 1.220749 GCCCGACCAATCAGCTACA 59.779 57.895 0.00 0.00 0.00 2.74
959 4875 0.108186 CCGACCAATCAGCTACAGCA 60.108 55.000 3.70 0.00 45.16 4.41
966 4882 1.407936 ATCAGCTACAGCATCTCCGT 58.592 50.000 3.70 0.00 45.16 4.69
967 4883 0.741326 TCAGCTACAGCATCTCCGTC 59.259 55.000 3.70 0.00 45.16 4.79
968 4884 0.743688 CAGCTACAGCATCTCCGTCT 59.256 55.000 3.70 0.00 45.16 4.18
969 4885 1.028905 AGCTACAGCATCTCCGTCTC 58.971 55.000 3.70 0.00 45.16 3.36
980 4896 0.967887 CTCCGTCTCCAGCTCCTTCA 60.968 60.000 0.00 0.00 0.00 3.02
984 4900 0.980423 GTCTCCAGCTCCTTCAACCT 59.020 55.000 0.00 0.00 0.00 3.50
998 4928 3.710326 TCAACCTTGATCGATACTCCG 57.290 47.619 0.00 0.00 31.01 4.63
1147 5080 0.464735 CAAGGGGTTCACGGTGTTCA 60.465 55.000 8.17 0.00 0.00 3.18
1149 5082 0.476771 AGGGGTTCACGGTGTTCAAT 59.523 50.000 8.17 0.00 0.00 2.57
1150 5083 1.700739 AGGGGTTCACGGTGTTCAATA 59.299 47.619 8.17 0.00 0.00 1.90
1331 5264 0.031043 CGTCCCGTGTACACAGTCAA 59.969 55.000 24.98 3.40 0.00 3.18
1575 5520 2.959071 GTGGCGCTCGAGCAGATC 60.959 66.667 34.69 20.60 42.21 2.75
1648 5610 4.503767 TGTTTGTTTGTTACGTCTCGAC 57.496 40.909 0.00 0.00 0.00 4.20
1728 5699 0.179100 ATTGTGATGGCGAGAGTCGG 60.179 55.000 0.00 0.00 40.84 4.79
1735 5706 2.328639 GCGAGAGTCGGTCGATCC 59.671 66.667 6.01 0.00 40.84 3.36
1748 5719 3.118454 GATCCGTGTGTGTGGGCG 61.118 66.667 0.00 0.00 0.00 6.13
1789 5762 2.955660 TCGATGATGCCCCCAAAATTAC 59.044 45.455 0.00 0.00 0.00 1.89
1793 5766 2.291282 TGATGCCCCCAAAATTACGAGT 60.291 45.455 0.00 0.00 0.00 4.18
1845 5818 1.337821 CTACTGCGTTTCTGTCGGTC 58.662 55.000 0.00 0.00 0.00 4.79
1875 5848 9.759473 ATATTCTTTGAATTCTTGAAGAAGGGA 57.241 29.630 23.49 16.75 40.30 4.20
1880 5853 7.687941 TTGAATTCTTGAAGAAGGGATGTAC 57.312 36.000 13.56 0.00 37.69 2.90
1886 5859 6.640518 TCTTGAAGAAGGGATGTACATGTAC 58.359 40.000 25.99 25.99 36.63 2.90
2005 5996 7.970614 GTGTTGTCTTTGATCTTCTTTCAAACT 59.029 33.333 0.00 0.00 37.97 2.66
2012 6003 9.884465 CTTTGATCTTCTTTCAAACTTTCGTAT 57.116 29.630 0.00 0.00 37.97 3.06
2041 6032 0.306533 TTCGTGGCTTGCGAGTTTTC 59.693 50.000 2.14 0.00 39.61 2.29
2073 6064 3.467374 TTTTTGGGCAAAAGAATCGCT 57.533 38.095 0.00 0.00 40.83 4.93
2117 6112 4.963878 GGAATCGCCCATGTGACT 57.036 55.556 0.00 0.00 32.92 3.41
2226 6224 2.799562 GCTTGGCAGTTCAGGTTTTCAC 60.800 50.000 0.00 0.00 0.00 3.18
2227 6225 2.435372 TGGCAGTTCAGGTTTTCACT 57.565 45.000 0.00 0.00 0.00 3.41
2236 6234 2.960384 TCAGGTTTTCACTAGTCGGACA 59.040 45.455 11.27 0.00 0.00 4.02
2247 6245 4.158025 CACTAGTCGGACAGTAGGTTCATT 59.842 45.833 11.27 0.00 32.72 2.57
2253 6251 3.435671 CGGACAGTAGGTTCATTTGGTTC 59.564 47.826 0.00 0.00 0.00 3.62
2254 6252 4.394729 GGACAGTAGGTTCATTTGGTTCA 58.605 43.478 0.00 0.00 0.00 3.18
2259 6257 3.302365 AGGTTCATTTGGTTCAATGCG 57.698 42.857 0.00 0.00 0.00 4.73
2267 6265 3.296322 TTGGTTCAATGCGGATTCAAC 57.704 42.857 7.88 7.88 0.00 3.18
2268 6266 2.234143 TGGTTCAATGCGGATTCAACA 58.766 42.857 17.39 5.46 24.48 3.33
2297 6295 9.919348 CAATTTTGTTTTGCATATAATGTAGCC 57.081 29.630 0.00 0.00 0.00 3.93
2309 6307 9.401058 GCATATAATGTAGCCCAGATAGAAATT 57.599 33.333 0.00 0.00 0.00 1.82
2337 6335 7.896894 TGTTTAATACGGAAAACAAAACAAGC 58.103 30.769 0.00 0.00 41.34 4.01
2338 6336 7.010275 TGTTTAATACGGAAAACAAAACAAGCC 59.990 33.333 0.00 0.00 41.34 4.35
2339 6337 4.929819 ATACGGAAAACAAAACAAGCCT 57.070 36.364 0.00 0.00 0.00 4.58
2340 6338 6.394025 AATACGGAAAACAAAACAAGCCTA 57.606 33.333 0.00 0.00 0.00 3.93
2341 6339 4.301637 ACGGAAAACAAAACAAGCCTAG 57.698 40.909 0.00 0.00 0.00 3.02
2342 6340 3.049912 CGGAAAACAAAACAAGCCTAGC 58.950 45.455 0.00 0.00 0.00 3.42
2343 6341 3.243401 CGGAAAACAAAACAAGCCTAGCT 60.243 43.478 0.00 0.00 42.56 3.32
2352 6350 2.251818 ACAAGCCTAGCTCTCAGTTGA 58.748 47.619 0.00 0.00 38.25 3.18
2364 6362 2.642311 TCTCAGTTGACTATTGGGCCAA 59.358 45.455 23.33 23.33 0.00 4.52
2389 6387 2.365105 CCCCTCGGCCTCTAACCA 60.365 66.667 0.00 0.00 0.00 3.67
2391 6389 1.987855 CCCTCGGCCTCTAACCACA 60.988 63.158 0.00 0.00 0.00 4.17
2394 6392 1.065418 CCTCGGCCTCTAACCACAATT 60.065 52.381 0.00 0.00 0.00 2.32
2410 6408 3.377172 CACAATTACCTGGGTTCGATTCC 59.623 47.826 0.00 0.00 0.00 3.01
2430 6428 3.197766 TCCCTTGAGAAGCACGTGATTAT 59.802 43.478 20.45 17.35 0.00 1.28
2431 6429 3.310774 CCCTTGAGAAGCACGTGATTATG 59.689 47.826 19.42 4.20 0.00 1.90
2435 6433 5.530519 TGAGAAGCACGTGATTATGAAAC 57.469 39.130 19.42 5.46 0.00 2.78
2440 6438 4.569943 AGCACGTGATTATGAAACTGTCT 58.430 39.130 22.23 0.00 0.00 3.41
2441 6439 4.389992 AGCACGTGATTATGAAACTGTCTG 59.610 41.667 22.23 0.00 0.00 3.51
2455 6453 9.899226 ATGAAACTGTCTGATTAGCTTAAAAAC 57.101 29.630 0.00 0.00 0.00 2.43
2461 6459 6.945435 TGTCTGATTAGCTTAAAAACCCATCA 59.055 34.615 0.00 0.00 0.00 3.07
2472 6470 3.593442 AAACCCATCAAGACAAGACCA 57.407 42.857 0.00 0.00 0.00 4.02
2516 6514 3.003378 TCGCATTATGTCGTGGACTCTAG 59.997 47.826 8.35 0.00 33.15 2.43
2534 6532 1.002502 GCCTGGAACACCACTACCC 60.003 63.158 0.00 0.00 0.00 3.69
2535 6533 1.683441 CCTGGAACACCACTACCCC 59.317 63.158 0.00 0.00 0.00 4.95
2583 6581 5.067805 GGAATAAACATGGCCACCTTTAGAG 59.932 44.000 8.16 0.00 0.00 2.43
2601 6599 3.798202 AGAGCAGAAAGAACAACGACTT 58.202 40.909 0.00 0.00 0.00 3.01
2606 6604 5.049405 AGCAGAAAGAACAACGACTTATTGG 60.049 40.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 3972 0.392863 TGGATGTTGGCCAGACGATG 60.393 55.000 5.11 0.00 0.00 3.84
298 4210 1.799121 GCGACGACTACACGGTTCC 60.799 63.158 0.00 0.00 37.61 3.62
429 4341 1.116536 TGACCGCCTCCAACTACACA 61.117 55.000 0.00 0.00 0.00 3.72
776 4690 9.948964 ATATACCAATCAATGAGATCAATCGAA 57.051 29.630 0.00 0.00 35.39 3.71
875 4791 4.084276 TCGACCACGTGTTGTAATTGATTG 60.084 41.667 15.65 0.00 40.69 2.67
876 4792 4.059511 TCGACCACGTGTTGTAATTGATT 58.940 39.130 15.65 0.00 40.69 2.57
917 4833 5.128919 GGCTGGATGAGTGTTAGATGATTT 58.871 41.667 0.00 0.00 0.00 2.17
945 4861 2.133553 CGGAGATGCTGTAGCTGATTG 58.866 52.381 5.38 0.00 42.66 2.67
947 4863 1.339610 GACGGAGATGCTGTAGCTGAT 59.660 52.381 5.38 0.00 42.66 2.90
956 4872 1.381056 AGCTGGAGACGGAGATGCT 60.381 57.895 0.00 0.00 39.98 3.79
959 4875 0.032615 AAGGAGCTGGAGACGGAGAT 60.033 55.000 0.00 0.00 39.98 2.75
966 4882 1.349026 CAAGGTTGAAGGAGCTGGAGA 59.651 52.381 0.00 0.00 0.00 3.71
967 4883 1.349026 TCAAGGTTGAAGGAGCTGGAG 59.651 52.381 0.00 0.00 33.55 3.86
968 4884 1.434188 TCAAGGTTGAAGGAGCTGGA 58.566 50.000 0.00 0.00 33.55 3.86
969 4885 2.363683 GATCAAGGTTGAAGGAGCTGG 58.636 52.381 0.00 0.00 41.13 4.85
980 4896 1.754803 TGCGGAGTATCGATCAAGGTT 59.245 47.619 0.00 0.00 34.37 3.50
984 4900 1.605457 GCCATGCGGAGTATCGATCAA 60.605 52.381 0.00 0.00 34.37 2.57
1086 5019 2.657296 CACACCGTGAGCGTCGTT 60.657 61.111 5.28 0.00 35.23 3.85
1095 5028 4.012895 GACTTGCGCCACACCGTG 62.013 66.667 4.18 0.00 0.00 4.94
1147 5080 0.614697 GCCAGGTTGCCCTTGGTATT 60.615 55.000 3.99 0.00 39.89 1.89
1149 5082 2.438795 GCCAGGTTGCCCTTGGTA 59.561 61.111 3.99 0.00 39.89 3.25
1150 5083 4.621087 GGCCAGGTTGCCCTTGGT 62.621 66.667 0.00 0.00 46.11 3.67
1314 5247 0.032952 GCTTGACTGTGTACACGGGA 59.967 55.000 32.69 19.29 41.89 5.14
1404 5349 2.682494 GCGTAGGACCCCTCCACA 60.682 66.667 0.00 0.00 39.39 4.17
1475 5420 4.796231 CGACCACCTCCTTCGGCG 62.796 72.222 0.00 0.00 0.00 6.46
1684 5653 1.075151 TCCAACCCAACCCCAAACC 60.075 57.895 0.00 0.00 0.00 3.27
1728 5699 1.736645 CCCACACACACGGATCGAC 60.737 63.158 0.00 0.00 0.00 4.20
1735 5706 3.337889 CTCACGCCCACACACACG 61.338 66.667 0.00 0.00 0.00 4.49
1748 5719 0.108424 ACAGATCGGCTTGCTCTCAC 60.108 55.000 0.00 0.00 0.00 3.51
1914 5887 7.170320 TGAGAACCGTATACAAAAGAACTGTTC 59.830 37.037 12.54 12.54 36.75 3.18
2005 5996 8.373048 AGCCACGAAATATGAATTATACGAAA 57.627 30.769 0.00 0.00 0.00 3.46
2012 6003 4.572795 TCGCAAGCCACGAAATATGAATTA 59.427 37.500 0.00 0.00 36.44 1.40
2041 6032 9.311916 TCTTTTGCCCAAAAATCAAATATATCG 57.688 29.630 7.50 0.00 39.49 2.92
2057 6048 1.838112 ATGAGCGATTCTTTTGCCCA 58.162 45.000 0.00 0.00 35.03 5.36
2059 6050 6.892310 AAAAATATGAGCGATTCTTTTGCC 57.108 33.333 0.00 0.00 35.03 4.52
2107 6102 7.963361 ATGTCTAGATCTCTCTAGTCACATGGG 60.963 44.444 0.00 0.00 46.07 4.00
2108 6103 6.942005 ATGTCTAGATCTCTCTAGTCACATGG 59.058 42.308 0.00 0.00 46.07 3.66
2109 6104 7.809665 CATGTCTAGATCTCTCTAGTCACATG 58.190 42.308 19.34 19.34 46.86 3.21
2110 6105 6.942005 CCATGTCTAGATCTCTCTAGTCACAT 59.058 42.308 0.00 9.88 46.07 3.21
2111 6106 6.100424 TCCATGTCTAGATCTCTCTAGTCACA 59.900 42.308 0.00 8.43 46.07 3.58
2112 6107 6.426937 GTCCATGTCTAGATCTCTCTAGTCAC 59.573 46.154 0.00 4.08 46.07 3.67
2116 6111 9.330578 AGGGTGTCCATGTCTAGATCTCTCTAG 62.331 48.148 0.00 3.71 42.69 2.43
2117 6112 5.456907 GGGTGTCCATGTCTAGATCTCTCTA 60.457 48.000 0.00 0.00 32.66 2.43
2156 6151 7.376615 AGTAGTTATACATTCGATGGTAAGCC 58.623 38.462 1.44 0.00 34.07 4.35
2170 6166 8.124823 CCGAAAACTATGACGAGTAGTTATACA 58.875 37.037 10.55 0.00 40.49 2.29
2171 6167 8.338259 TCCGAAAACTATGACGAGTAGTTATAC 58.662 37.037 10.55 6.42 40.49 1.47
2172 6168 8.338259 GTCCGAAAACTATGACGAGTAGTTATA 58.662 37.037 10.55 0.00 40.49 0.98
2226 6224 4.985538 AATGAACCTACTGTCCGACTAG 57.014 45.455 0.00 0.00 0.00 2.57
2227 6225 4.081862 CCAAATGAACCTACTGTCCGACTA 60.082 45.833 0.00 0.00 0.00 2.59
2236 6234 4.082787 CGCATTGAACCAAATGAACCTACT 60.083 41.667 1.22 0.00 39.46 2.57
2247 6245 2.625314 TGTTGAATCCGCATTGAACCAA 59.375 40.909 0.00 0.00 35.78 3.67
2253 6251 6.890663 AAATTGTATGTTGAATCCGCATTG 57.109 33.333 0.00 0.00 0.00 2.82
2254 6252 6.873076 ACAAAATTGTATGTTGAATCCGCATT 59.127 30.769 0.00 0.00 40.16 3.56
2259 6257 8.341173 TGCAAAACAAAATTGTATGTTGAATCC 58.659 29.630 15.68 4.78 41.31 3.01
2288 6286 9.474313 ACAAAAATTTCTATCTGGGCTACATTA 57.526 29.630 0.00 0.00 0.00 1.90
2321 6319 3.049912 GCTAGGCTTGTTTTGTTTTCCG 58.950 45.455 0.00 0.00 0.00 4.30
2332 6330 2.028567 GTCAACTGAGAGCTAGGCTTGT 60.029 50.000 0.00 0.00 39.88 3.16
2333 6331 2.233431 AGTCAACTGAGAGCTAGGCTTG 59.767 50.000 0.00 0.00 39.88 4.01
2335 6333 2.230130 AGTCAACTGAGAGCTAGGCT 57.770 50.000 0.00 0.00 43.88 4.58
2336 6334 4.367450 CAATAGTCAACTGAGAGCTAGGC 58.633 47.826 0.00 0.00 0.00 3.93
2337 6335 4.202202 CCCAATAGTCAACTGAGAGCTAGG 60.202 50.000 0.00 0.00 0.00 3.02
2338 6336 4.739137 GCCCAATAGTCAACTGAGAGCTAG 60.739 50.000 0.00 0.00 0.00 3.42
2339 6337 3.133003 GCCCAATAGTCAACTGAGAGCTA 59.867 47.826 0.00 0.00 0.00 3.32
2340 6338 2.093235 GCCCAATAGTCAACTGAGAGCT 60.093 50.000 0.00 0.00 0.00 4.09
2341 6339 2.284190 GCCCAATAGTCAACTGAGAGC 58.716 52.381 0.00 0.00 0.00 4.09
2342 6340 2.237143 TGGCCCAATAGTCAACTGAGAG 59.763 50.000 0.00 0.00 0.00 3.20
2343 6341 2.265367 TGGCCCAATAGTCAACTGAGA 58.735 47.619 0.00 0.00 0.00 3.27
2352 6350 3.096852 GGCTTAAACTTGGCCCAATAGT 58.903 45.455 0.00 0.00 39.96 2.12
2389 6387 3.617284 GGAATCGAACCCAGGTAATTGT 58.383 45.455 0.00 0.00 0.00 2.71
2391 6389 3.292492 GGGAATCGAACCCAGGTAATT 57.708 47.619 21.26 0.00 46.05 1.40
2410 6408 4.183865 TCATAATCACGTGCTTCTCAAGG 58.816 43.478 11.67 0.00 0.00 3.61
2430 6428 8.349983 GGTTTTTAAGCTAATCAGACAGTTTCA 58.650 33.333 0.00 0.00 0.00 2.69
2431 6429 7.808381 GGGTTTTTAAGCTAATCAGACAGTTTC 59.192 37.037 0.00 0.00 0.00 2.78
2435 6433 6.817765 TGGGTTTTTAAGCTAATCAGACAG 57.182 37.500 0.00 0.00 0.00 3.51
2440 6438 7.450014 TGTCTTGATGGGTTTTTAAGCTAATCA 59.550 33.333 0.00 0.00 33.43 2.57
2441 6439 7.826690 TGTCTTGATGGGTTTTTAAGCTAATC 58.173 34.615 0.00 0.00 0.00 1.75
2450 6448 4.099419 GTGGTCTTGTCTTGATGGGTTTTT 59.901 41.667 0.00 0.00 0.00 1.94
2455 6453 2.816087 CAAGTGGTCTTGTCTTGATGGG 59.184 50.000 0.00 0.00 44.09 4.00
2516 6514 1.002502 GGGTAGTGGTGTTCCAGGC 60.003 63.158 0.00 0.00 45.24 4.85
2534 6532 1.145738 AGCCATGTTGCTATAAGGGGG 59.854 52.381 0.00 0.00 40.56 5.40
2535 6533 2.233271 CAGCCATGTTGCTATAAGGGG 58.767 52.381 0.00 0.00 40.32 4.79
2583 6581 5.049680 TCCAATAAGTCGTTGTTCTTTCTGC 60.050 40.000 0.00 0.00 0.00 4.26
2601 6599 2.128771 GCTGTTGGCCTTCTCCAATA 57.871 50.000 3.32 0.00 46.64 1.90


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

AutoCloner maintained by Alex Coulton.