Multiple sequence alignment - TraesCS4A01G162800

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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 TraesCS4A01G162800 chr4A 100.000 4602 0 0 1 4602 359641066 359636465 0.000000e+00 8499.0
1 TraesCS4A01G162800 chr4A 94.780 613 31 1 1 613 280830701 280831312 0.000000e+00 953.0
2 TraesCS4A01G162800 chr4A 88.225 552 46 7 610 1142 725532126 725532677 3.880000e-180 641.0
3 TraesCS4A01G162800 chr2D 96.002 4002 137 17 613 4602 575270233 575266243 0.000000e+00 6482.0
4 TraesCS4A01G162800 chr2D 95.623 3998 122 29 612 4602 263424009 263420058 0.000000e+00 6364.0
5 TraesCS4A01G162800 chr2D 95.896 2461 64 11 2150 4602 118381872 118379441 0.000000e+00 3951.0
6 TraesCS4A01G162800 chr2D 95.698 1418 45 8 692 2093 118383285 118381868 0.000000e+00 2266.0
7 TraesCS4A01G162800 chr4D 96.098 3921 130 16 692 4602 264461336 264465243 0.000000e+00 6372.0
8 TraesCS4A01G162800 chr2B 95.463 3681 133 14 929 4602 706585075 706588728 0.000000e+00 5842.0
9 TraesCS4A01G162800 chr2B 91.772 316 25 1 612 926 706584822 706585137 5.470000e-119 438.0
10 TraesCS4A01G162800 chr6A 96.240 2713 86 10 668 3373 526165135 526162432 0.000000e+00 4431.0
11 TraesCS4A01G162800 chr6A 92.636 1616 95 13 3002 4600 393799769 393801377 0.000000e+00 2303.0
12 TraesCS4A01G162800 chr6A 96.906 1228 34 3 3378 4602 526162359 526161133 0.000000e+00 2054.0
13 TraesCS4A01G162800 chr6A 94.788 614 31 1 1 613 210643259 210642646 0.000000e+00 955.0
14 TraesCS4A01G162800 chr3B 96.729 2415 73 5 1627 4036 739840915 739843328 0.000000e+00 4017.0
15 TraesCS4A01G162800 chr3B 93.222 1682 71 19 2925 4602 758392218 758393860 0.000000e+00 2435.0
16 TraesCS4A01G162800 chr3B 93.939 1056 41 5 1884 2925 758390654 758391700 0.000000e+00 1574.0
17 TraesCS4A01G162800 chr3B 90.787 966 79 6 3532 4492 749558713 749559673 0.000000e+00 1282.0
18 TraesCS4A01G162800 chr3B 94.484 417 23 0 907 1323 739839848 739840264 1.080000e-180 643.0
19 TraesCS4A01G162800 chr3B 97.826 276 4 2 1316 1590 739840645 739840919 4.170000e-130 475.0
20 TraesCS4A01G162800 chr3B 88.055 293 22 10 2925 3214 749557418 749557700 7.380000e-88 335.0
21 TraesCS4A01G162800 chr3B 93.564 202 12 1 1252 1452 758389167 758389368 2.690000e-77 300.0
22 TraesCS4A01G162800 chr3B 88.000 175 12 5 2925 3099 68212897 68213062 1.010000e-46 198.0
23 TraesCS4A01G162800 chr6D 93.341 1682 91 14 2925 4602 249490104 249491768 0.000000e+00 2466.0
24 TraesCS4A01G162800 chr6D 93.701 381 20 4 2547 2925 249489221 249489599 6.680000e-158 568.0
25 TraesCS4A01G162800 chr5B 93.540 805 44 3 3799 4602 203450729 203451526 0.000000e+00 1192.0
26 TraesCS4A01G162800 chr5B 92.581 310 23 0 1416 1725 203112650 203112959 3.270000e-121 446.0
27 TraesCS4A01G162800 chr5B 100.000 45 0 0 1720 1764 203295909 203295953 2.950000e-12 84.2
28 TraesCS4A01G162800 chr5B 95.455 44 2 0 1762 1805 203338480 203338523 2.300000e-08 71.3
29 TraesCS4A01G162800 chr2A 95.277 614 28 1 1 613 621617801 621617188 0.000000e+00 972.0
30 TraesCS4A01G162800 chr2A 94.797 615 30 2 1 613 572293310 572292696 0.000000e+00 957.0
31 TraesCS4A01G162800 chr2A 94.788 614 31 1 1 613 601207293 601206680 0.000000e+00 955.0
32 TraesCS4A01G162800 chr3A 95.106 613 30 0 1 613 536693866 536693254 0.000000e+00 966.0
33 TraesCS4A01G162800 chr3A 88.839 224 18 6 738 955 648609607 648609385 7.590000e-68 268.0
34 TraesCS4A01G162800 chr5A 94.943 613 29 1 1 613 104511122 104511732 0.000000e+00 959.0
35 TraesCS4A01G162800 chr7A 94.788 614 31 1 1 613 83307936 83307323 0.000000e+00 955.0
36 TraesCS4A01G162800 chr7A 94.788 614 30 2 1 613 106368485 106367873 0.000000e+00 955.0
37 TraesCS4A01G162800 chr7A 76.699 618 104 27 1731 2318 705295436 705296043 1.610000e-79 307.0
38 TraesCS4A01G162800 chr4B 88.443 822 49 12 608 1425 626780517 626781296 0.000000e+00 950.0
39 TraesCS4A01G162800 chr4B 90.446 157 8 5 611 762 37091890 37092044 2.810000e-47 200.0
40 TraesCS4A01G162800 chr1D 88.587 552 34 14 2170 2719 209572294 209571770 1.080000e-180 643.0
41 TraesCS4A01G162800 chr1D 95.356 323 15 0 1403 1725 209725239 209724917 8.830000e-142 514.0
42 TraesCS4A01G162800 chr1D 90.253 277 27 0 994 1270 209725512 209725236 3.380000e-96 363.0
43 TraesCS4A01G162800 chr1D 87.449 247 25 5 746 988 395800046 395800290 3.510000e-71 279.0
44 TraesCS4A01G162800 chr1D 100.000 45 0 0 1720 1764 209635207 209635163 2.950000e-12 84.2
45 TraesCS4A01G162800 chr1D 95.455 44 2 0 1762 1805 209574746 209574703 2.300000e-08 71.3
46 TraesCS4A01G162800 chr7B 81.010 574 65 29 997 1548 704286998 704287549 2.560000e-112 416.0
47 TraesCS4A01G162800 chr7B 77.544 619 97 31 1726 2318 728932660 728933262 7.380000e-88 335.0
48 TraesCS4A01G162800 chr7B 88.034 234 26 2 1791 2022 704287701 704287934 4.540000e-70 276.0
49 TraesCS4A01G162800 chr7B 93.750 128 6 2 610 735 745753983 745753856 1.690000e-44 191.0
50 TraesCS4A01G162800 chr7B 85.093 161 18 3 1605 1762 704287548 704287705 4.770000e-35 159.0
51 TraesCS4A01G162800 chr7D 90.909 308 27 1 1716 2022 613624395 613624702 3.310000e-111 412.0
52 TraesCS4A01G162800 chr7D 84.043 376 41 4 997 1356 613623834 613624206 1.230000e-90 344.0
53 TraesCS4A01G162800 chr6B 93.701 127 7 1 610 735 79872955 79872829 6.080000e-44 189.0
54 TraesCS4A01G162800 chr3D 97.500 40 1 0 1618 1657 600410880 600410919 8.260000e-08 69.4


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 TraesCS4A01G162800 chr4A 359636465 359641066 4601 True 8499.000000 8499 100.000000 1 4602 1 chr4A.!!$R1 4601
1 TraesCS4A01G162800 chr4A 280830701 280831312 611 False 953.000000 953 94.780000 1 613 1 chr4A.!!$F1 612
2 TraesCS4A01G162800 chr4A 725532126 725532677 551 False 641.000000 641 88.225000 610 1142 1 chr4A.!!$F2 532
3 TraesCS4A01G162800 chr2D 575266243 575270233 3990 True 6482.000000 6482 96.002000 613 4602 1 chr2D.!!$R2 3989
4 TraesCS4A01G162800 chr2D 263420058 263424009 3951 True 6364.000000 6364 95.623000 612 4602 1 chr2D.!!$R1 3990
5 TraesCS4A01G162800 chr2D 118379441 118383285 3844 True 3108.500000 3951 95.797000 692 4602 2 chr2D.!!$R3 3910
6 TraesCS4A01G162800 chr4D 264461336 264465243 3907 False 6372.000000 6372 96.098000 692 4602 1 chr4D.!!$F1 3910
7 TraesCS4A01G162800 chr2B 706584822 706588728 3906 False 3140.000000 5842 93.617500 612 4602 2 chr2B.!!$F1 3990
8 TraesCS4A01G162800 chr6A 526161133 526165135 4002 True 3242.500000 4431 96.573000 668 4602 2 chr6A.!!$R2 3934
9 TraesCS4A01G162800 chr6A 393799769 393801377 1608 False 2303.000000 2303 92.636000 3002 4600 1 chr6A.!!$F1 1598
10 TraesCS4A01G162800 chr6A 210642646 210643259 613 True 955.000000 955 94.788000 1 613 1 chr6A.!!$R1 612
11 TraesCS4A01G162800 chr3B 739839848 739843328 3480 False 1711.666667 4017 96.346333 907 4036 3 chr3B.!!$F2 3129
12 TraesCS4A01G162800 chr3B 758389167 758393860 4693 False 1436.333333 2435 93.575000 1252 4602 3 chr3B.!!$F4 3350
13 TraesCS4A01G162800 chr3B 749557418 749559673 2255 False 808.500000 1282 89.421000 2925 4492 2 chr3B.!!$F3 1567
14 TraesCS4A01G162800 chr6D 249489221 249491768 2547 False 1517.000000 2466 93.521000 2547 4602 2 chr6D.!!$F1 2055
15 TraesCS4A01G162800 chr5B 203450729 203451526 797 False 1192.000000 1192 93.540000 3799 4602 1 chr5B.!!$F4 803
16 TraesCS4A01G162800 chr2A 621617188 621617801 613 True 972.000000 972 95.277000 1 613 1 chr2A.!!$R3 612
17 TraesCS4A01G162800 chr2A 572292696 572293310 614 True 957.000000 957 94.797000 1 613 1 chr2A.!!$R1 612
18 TraesCS4A01G162800 chr2A 601206680 601207293 613 True 955.000000 955 94.788000 1 613 1 chr2A.!!$R2 612
19 TraesCS4A01G162800 chr3A 536693254 536693866 612 True 966.000000 966 95.106000 1 613 1 chr3A.!!$R1 612
20 TraesCS4A01G162800 chr5A 104511122 104511732 610 False 959.000000 959 94.943000 1 613 1 chr5A.!!$F1 612
21 TraesCS4A01G162800 chr7A 83307323 83307936 613 True 955.000000 955 94.788000 1 613 1 chr7A.!!$R1 612
22 TraesCS4A01G162800 chr7A 106367873 106368485 612 True 955.000000 955 94.788000 1 613 1 chr7A.!!$R2 612
23 TraesCS4A01G162800 chr7A 705295436 705296043 607 False 307.000000 307 76.699000 1731 2318 1 chr7A.!!$F1 587
24 TraesCS4A01G162800 chr4B 626780517 626781296 779 False 950.000000 950 88.443000 608 1425 1 chr4B.!!$F2 817
25 TraesCS4A01G162800 chr1D 209724917 209725512 595 True 438.500000 514 92.804500 994 1725 2 chr1D.!!$R3 731
26 TraesCS4A01G162800 chr1D 209571770 209574746 2976 True 357.150000 643 92.021000 1762 2719 2 chr1D.!!$R2 957
27 TraesCS4A01G162800 chr7B 728932660 728933262 602 False 335.000000 335 77.544000 1726 2318 1 chr7B.!!$F1 592
28 TraesCS4A01G162800 chr7B 704286998 704287934 936 False 283.666667 416 84.712333 997 2022 3 chr7B.!!$F2 1025
29 TraesCS4A01G162800 chr7D 613623834 613624702 868 False 378.000000 412 87.476000 997 2022 2 chr7D.!!$F1 1025

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
715 725 0.326927 TTTTCGTCATCCTCCCACCC 59.673 55.000 0.0 0.0 0.00 4.61 F
1488 2105 0.882042 CTCTCTTGCGTGTGCCAAGT 60.882 55.000 0.0 0.0 41.78 3.16 F
1800 2425 1.979308 TGAGAACCCCGATTTGTACCA 59.021 47.619 0.0 0.0 0.00 3.25 F
2925 6134 0.824759 GAGCTCGGTATTGGTGGTCT 59.175 55.000 0.0 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2211 5402 0.108615 AAGACTCGATTCCTGGCGTG 60.109 55.000 0.00 0.0 0.00 5.34 R
2926 6135 4.790790 AGAAATACAGGGATGAAAGGGAGT 59.209 41.667 0.00 0.0 0.00 3.85 R
3526 7348 0.247460 TCGTGCCCTTCATCTGACAG 59.753 55.000 0.00 0.0 0.00 3.51 R
4469 8310 1.000938 CAGCCTTCACAAGTTCCTTGC 60.001 52.381 3.96 0.0 44.43 4.01 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
65 66 6.099701 AGCACTCTTTTTCCCATTTTTAGGTT 59.900 34.615 0.00 0.00 0.00 3.50
74 75 4.287585 TCCCATTTTTAGGTTCTTCGAGGA 59.712 41.667 0.00 0.00 0.00 3.71
302 304 2.567615 ACGACCAGTTCTTGCCTTATCT 59.432 45.455 0.00 0.00 0.00 1.98
462 465 5.297776 CCAACTATTGACCCAAGACATGATC 59.702 44.000 0.00 0.00 0.00 2.92
482 485 6.475504 TGATCCGGAGTTGATGCATATAATT 58.524 36.000 11.34 0.00 0.00 1.40
583 586 3.056458 TGGCCGTACCAGACTGTG 58.944 61.111 0.00 0.00 46.36 3.66
715 725 0.326927 TTTTCGTCATCCTCCCACCC 59.673 55.000 0.00 0.00 0.00 4.61
825 838 4.148825 CGCTAGGGTTCCTGCGCT 62.149 66.667 9.73 0.00 41.28 5.92
891 925 4.554036 GCCGCCCCTCACCTGATC 62.554 72.222 0.00 0.00 0.00 2.92
892 926 4.227134 CCGCCCCTCACCTGATCG 62.227 72.222 0.00 0.00 0.00 3.69
893 927 4.899239 CGCCCCTCACCTGATCGC 62.899 72.222 0.00 0.00 0.00 4.58
894 928 4.554036 GCCCCTCACCTGATCGCC 62.554 72.222 0.00 0.00 0.00 5.54
895 929 4.227134 CCCCTCACCTGATCGCCG 62.227 72.222 0.00 0.00 0.00 6.46
896 930 4.899239 CCCTCACCTGATCGCCGC 62.899 72.222 0.00 0.00 0.00 6.53
897 931 4.899239 CCTCACCTGATCGCCGCC 62.899 72.222 0.00 0.00 0.00 6.13
946 1001 4.514577 CGGATCGCCACCTTCGCT 62.515 66.667 0.00 0.00 0.00 4.93
947 1002 2.125106 GGATCGCCACCTTCGCTT 60.125 61.111 0.00 0.00 0.00 4.68
961 1016 2.739704 CGCTTTCGGAATCGCTGCA 61.740 57.895 0.00 0.00 36.13 4.41
1023 1186 2.266627 GGTGGAGGTCGACGACACT 61.267 63.158 27.77 21.33 33.68 3.55
1033 1196 1.007734 GACGACACTCGGAAGCACA 60.008 57.895 0.00 0.00 45.59 4.57
1037 1200 2.100879 GACACTCGGAAGCACAGGGT 62.101 60.000 0.00 0.00 0.00 4.34
1063 1226 1.486145 TTTCCTGGACGACCCCTTCC 61.486 60.000 0.34 0.00 34.81 3.46
1069 1235 1.911766 GACGACCCCTTCCAGGTGA 60.912 63.158 0.00 0.00 37.88 4.02
1169 1338 4.052229 CGTCGAGGCGGTCCAGTT 62.052 66.667 0.00 0.00 33.74 3.16
1397 2014 7.779798 TCGATTCATATCCCCTTTCTTGAATTT 59.220 33.333 0.00 0.00 34.81 1.82
1488 2105 0.882042 CTCTCTTGCGTGTGCCAAGT 60.882 55.000 0.00 0.00 41.78 3.16
1697 2320 6.282930 ACTGAAAACAAATAGCTTGCACATT 58.717 32.000 0.00 0.00 38.75 2.71
1800 2425 1.979308 TGAGAACCCCGATTTGTACCA 59.021 47.619 0.00 0.00 0.00 3.25
1850 2919 5.939764 ATTTTGGGGAATTTCTAGCTTCC 57.060 39.130 0.00 9.05 40.22 3.46
1990 3538 6.839124 TGGCTGACATGACTGAAAAATAAT 57.161 33.333 0.00 0.00 0.00 1.28
2004 3552 7.120432 ACTGAAAAATAATCCTGACTGCTTCTC 59.880 37.037 0.00 0.00 0.00 2.87
2261 5452 4.566545 TGAAATGTTCGACAAATGTGCT 57.433 36.364 0.00 0.00 0.00 4.40
2414 5606 7.335171 CCATAGTCAGAAAATCACAACATGAGA 59.665 37.037 0.00 0.00 41.91 3.27
2442 5634 9.590451 ACAAAGCTAATGATATCAAATTTGTGG 57.410 29.630 22.53 10.80 37.07 4.17
2500 5692 6.886459 TGATTAGTGCTTGAGCCTAGAAAATT 59.114 34.615 0.00 0.00 41.18 1.82
2540 5732 4.641868 TCTGGAAAGGGGGTAGTTGATAT 58.358 43.478 0.00 0.00 0.00 1.63
2789 5998 9.261180 TGATATCGAGCTCCTTATTTTAAAGTG 57.739 33.333 8.47 0.00 0.00 3.16
2925 6134 0.824759 GAGCTCGGTATTGGTGGTCT 59.175 55.000 0.00 0.00 0.00 3.85
2926 6135 2.029623 GAGCTCGGTATTGGTGGTCTA 58.970 52.381 0.00 0.00 0.00 2.59
2927 6136 1.755380 AGCTCGGTATTGGTGGTCTAC 59.245 52.381 0.00 0.00 0.00 2.59
3126 6863 6.377146 TGCAGTGTATAGTGTGTAGAATGAGA 59.623 38.462 0.00 0.00 0.00 3.27
3388 7207 8.951787 AAGTTTTACATTCCGTATGTATAGCA 57.048 30.769 8.03 0.00 46.36 3.49
3726 7559 2.535012 TGACAGTAACATTGGCGACA 57.465 45.000 0.00 0.00 39.83 4.35
3763 7598 5.136068 TCTCTGGATCCTGAATCTACAGT 57.864 43.478 20.52 0.00 36.30 3.55
3767 7602 5.362143 TCTGGATCCTGAATCTACAGTTCTG 59.638 44.000 18.25 0.00 36.30 3.02
3773 7608 7.718334 TCCTGAATCTACAGTTCTGTAATCA 57.282 36.000 12.71 14.27 36.30 2.57
3774 7609 8.311395 TCCTGAATCTACAGTTCTGTAATCAT 57.689 34.615 12.71 4.31 36.30 2.45
3791 7626 7.039270 TGTAATCATCAAATACACGCAGTAGT 58.961 34.615 0.00 0.00 41.61 2.73
4146 7985 6.417191 TTGTTGAGCGGTTATAATGACTTC 57.583 37.500 0.00 0.00 0.00 3.01
4379 8219 8.042515 TGCTAAAGTACTATTTATTTGACCGGT 58.957 33.333 6.92 6.92 0.00 5.28
4469 8310 2.370189 GGGAGGTGATGGAGAAGTATGG 59.630 54.545 0.00 0.00 0.00 2.74
4471 8312 2.435805 GAGGTGATGGAGAAGTATGGCA 59.564 50.000 0.00 0.00 0.00 4.92
4535 8376 3.719871 TCTAAGTGGGAGGCTGACATTA 58.280 45.455 0.00 0.00 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 66 0.891373 CTGAGCACCTTCCTCGAAGA 59.109 55.000 2.95 0.00 41.71 2.87
302 304 6.349300 AGAGAAAGCTAAAACTGACTGTCAA 58.651 36.000 12.16 0.00 0.00 3.18
462 465 9.599866 TTATAGAATTATATGCATCAACTCCGG 57.400 33.333 0.19 0.00 0.00 5.14
482 485 1.406539 GCGACACCCCGAACTTATAGA 59.593 52.381 0.00 0.00 0.00 1.98
579 582 3.129502 CATCCAGCACCCGCACAG 61.130 66.667 0.00 0.00 42.27 3.66
583 586 2.124570 ATGACATCCAGCACCCGC 60.125 61.111 0.00 0.00 38.99 6.13
715 725 1.004200 AGGGTTGCGAGTTAACGGG 60.004 57.895 0.00 0.00 0.00 5.28
895 929 4.554036 GATCAGGTGAGGGGCGGC 62.554 72.222 0.00 0.00 0.00 6.53
896 930 4.227134 CGATCAGGTGAGGGGCGG 62.227 72.222 0.00 0.00 0.00 6.13
897 931 4.899239 GCGATCAGGTGAGGGGCG 62.899 72.222 0.00 0.00 0.00 6.13
898 932 4.554036 GGCGATCAGGTGAGGGGC 62.554 72.222 0.00 0.00 0.00 5.80
899 933 4.227134 CGGCGATCAGGTGAGGGG 62.227 72.222 0.00 0.00 0.00 4.79
900 934 4.899239 GCGGCGATCAGGTGAGGG 62.899 72.222 12.98 0.00 0.00 4.30
901 935 4.899239 GGCGGCGATCAGGTGAGG 62.899 72.222 12.98 0.00 0.00 3.86
946 1001 0.110419 CGTTTGCAGCGATTCCGAAA 60.110 50.000 6.89 0.00 38.22 3.46
947 1002 1.225376 ACGTTTGCAGCGATTCCGAA 61.225 50.000 17.50 0.00 38.22 4.30
961 1016 4.712425 CGGGGCGACGAGACGTTT 62.712 66.667 0.00 0.00 41.37 3.60
988 1151 4.248842 CGCCATGGCCCGGTGATA 62.249 66.667 30.79 0.00 36.02 2.15
1023 1186 4.329545 GCCACCCTGTGCTTCCGA 62.330 66.667 0.00 0.00 31.34 4.55
1033 1196 4.351054 CAGGAAAGCCGCCACCCT 62.351 66.667 0.00 0.00 39.96 4.34
1037 1200 4.697756 CGTCCAGGAAAGCCGCCA 62.698 66.667 0.00 0.00 39.96 5.69
1044 1207 1.486145 GGAAGGGGTCGTCCAGGAAA 61.486 60.000 0.04 0.00 40.57 3.13
1063 1226 2.758089 GCTTCGCCTGCATCACCTG 61.758 63.158 0.00 0.00 0.00 4.00
1397 2014 9.467796 TCAATCTCTGAACTCTTAGTCTATTCA 57.532 33.333 0.00 0.00 0.00 2.57
1488 2105 4.554292 TGTAACGGTTTATACACGAAGCA 58.446 39.130 0.00 0.00 0.00 3.91
1697 2320 6.237901 ACTTCTGTGCACAAGGATATAACAA 58.762 36.000 21.98 0.00 0.00 2.83
1702 2325 4.940046 CAGAACTTCTGTGCACAAGGATAT 59.060 41.667 21.98 5.71 39.58 1.63
1800 2425 6.286758 CCATTAGACATGTACAGAGCAAGAT 58.713 40.000 0.00 0.00 0.00 2.40
1850 2919 2.049985 CTTCGAGATAGCCCCGCG 60.050 66.667 0.00 0.00 0.00 6.46
1990 3538 2.824936 CAAGAGAGAGAAGCAGTCAGGA 59.175 50.000 0.00 0.00 0.00 3.86
2004 3552 7.721402 ACTATAACTATCAGGCAACAAGAGAG 58.279 38.462 0.00 0.00 37.95 3.20
2211 5402 0.108615 AAGACTCGATTCCTGGCGTG 60.109 55.000 0.00 0.00 0.00 5.34
2381 5573 6.539826 TGTGATTTTCTGACTATGGCACTATG 59.460 38.462 0.00 0.00 0.00 2.23
2383 5575 6.048732 TGTGATTTTCTGACTATGGCACTA 57.951 37.500 0.00 0.00 0.00 2.74
2442 5634 7.416154 TCTAATAACACATACTTTATGGCGC 57.584 36.000 0.00 0.00 40.47 6.53
2671 5877 9.013229 CAGCCCAAAATAGTTGCTATAATCATA 57.987 33.333 0.00 0.00 0.00 2.15
2851 6060 6.139679 AGACCAAAAATCCATTCAGTCCTA 57.860 37.500 0.00 0.00 0.00 2.94
2857 6066 8.303780 TGCAATATAGACCAAAAATCCATTCA 57.696 30.769 0.00 0.00 0.00 2.57
2925 6134 5.970640 AGAAATACAGGGATGAAAGGGAGTA 59.029 40.000 0.00 0.00 0.00 2.59
2926 6135 4.790790 AGAAATACAGGGATGAAAGGGAGT 59.209 41.667 0.00 0.00 0.00 3.85
2927 6136 5.379706 AGAAATACAGGGATGAAAGGGAG 57.620 43.478 0.00 0.00 0.00 4.30
3126 6863 6.942532 TTGTGCTCTAGATTCACAAGTTTT 57.057 33.333 24.86 0.00 43.30 2.43
3221 6959 4.824848 CTGAAAGCTACACGTATCACAC 57.175 45.455 0.00 0.00 0.00 3.82
3515 7336 7.325694 CCCTTCATCTGACAGCAAAAATATTT 58.674 34.615 0.00 0.00 0.00 1.40
3526 7348 0.247460 TCGTGCCCTTCATCTGACAG 59.753 55.000 0.00 0.00 0.00 3.51
3683 7516 3.521937 TGATCCAAAAATCCCTAGGACGT 59.478 43.478 11.48 0.00 32.98 4.34
3684 7517 4.150897 TGATCCAAAAATCCCTAGGACG 57.849 45.455 11.48 0.00 32.98 4.79
3726 7559 6.213195 GGATCCAGAGATGGAAGAAGATATGT 59.787 42.308 6.95 0.00 41.90 2.29
3763 7598 6.593770 ACTGCGTGTATTTGATGATTACAGAA 59.406 34.615 0.00 0.00 0.00 3.02
3767 7602 7.222031 TCACTACTGCGTGTATTTGATGATTAC 59.778 37.037 0.00 0.00 36.33 1.89
3773 7608 4.811024 CCATCACTACTGCGTGTATTTGAT 59.189 41.667 0.00 7.51 35.69 2.57
3774 7609 4.180817 CCATCACTACTGCGTGTATTTGA 58.819 43.478 0.00 0.00 36.33 2.69
3791 7626 3.831333 ACAACCATGCAATTGTACCATCA 59.169 39.130 7.40 0.00 37.27 3.07
4146 7985 8.561738 TTTTAGCATAGACTTACCCAAAGAAG 57.438 34.615 0.00 0.00 38.67 2.85
4379 8219 4.515944 CGGTAAAGGTCAATGTACACCAAA 59.484 41.667 0.00 0.00 34.80 3.28
4469 8310 1.000938 CAGCCTTCACAAGTTCCTTGC 60.001 52.381 3.96 0.00 44.43 4.01
4471 8312 2.487986 CCTCAGCCTTCACAAGTTCCTT 60.488 50.000 0.00 0.00 0.00 3.36
4535 8376 1.686052 CATCTAGCCTTCTCCTTCGCT 59.314 52.381 0.00 0.00 35.34 4.93


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

AutoCloner maintained by Alex Coulton.