Multiple sequence alignment - TraesCS1B01G419600

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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 TraesCS1B01G419600 chr1B 100.000 2363 0 0 1 2363 642989657 642992019 0.000000e+00 4364
1 TraesCS1B01G419600 chr1B 89.648 937 56 19 3 924 642790991 642791901 0.000000e+00 1155
2 TraesCS1B01G419600 chr1B 90.704 796 39 10 1600 2363 642844012 642844804 0.000000e+00 1027
3 TraesCS1B01G419600 chr1B 94.599 574 28 2 927 1497 642792735 642793308 0.000000e+00 885
4 TraesCS1B01G419600 chr1B 89.583 288 21 1 1182 1469 642811144 642811422 8.030000e-95 357
5 TraesCS1B01G419600 chr1A 91.859 651 40 6 927 1567 558322198 558322845 0.000000e+00 896
6 TraesCS1B01G419600 chr1A 86.792 159 19 2 35 192 8091168 8091325 2.410000e-40 176
7 TraesCS1B01G419600 chr1D 90.937 651 46 6 927 1567 465979604 465980251 0.000000e+00 863
8 TraesCS1B01G419600 chr1D 84.733 655 72 15 273 920 465978101 465978734 4.290000e-177 630
9 TraesCS1B01G419600 chr1D 94.253 87 2 3 202 286 465977999 465978084 1.910000e-26 130
10 TraesCS1B01G419600 chr5A 86.986 146 17 2 49 193 672016894 672017038 1.880000e-36 163
11 TraesCS1B01G419600 chr4B 93.204 103 7 0 95 197 172375703 172375601 4.070000e-33 152


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 TraesCS1B01G419600 chr1B 642989657 642992019 2362 False 4364 4364 100.000000 1 2363 1 chr1B.!!$F3 2362
1 TraesCS1B01G419600 chr1B 642844012 642844804 792 False 1027 1027 90.704000 1600 2363 1 chr1B.!!$F2 763
2 TraesCS1B01G419600 chr1B 642790991 642793308 2317 False 1020 1155 92.123500 3 1497 2 chr1B.!!$F4 1494
3 TraesCS1B01G419600 chr1A 558322198 558322845 647 False 896 896 91.859000 927 1567 1 chr1A.!!$F2 640
4 TraesCS1B01G419600 chr1D 465977999 465980251 2252 False 541 863 89.974333 202 1567 3 chr1D.!!$F1 1365

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
466 503 0.035056 CCCAGCGAGGATGAGGTTTT 60.035 55.0 0.0 0.0 41.22 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2285 3255 0.039978 ATCCTAATCGAGCGCTCACG 60.04 55.0 34.69 23.72 44.07 4.35 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
36 37 1.137872 GTTGAATGTTGTGGTGGGCAA 59.862 47.619 0.00 0.00 0.00 4.52
141 142 4.256920 CCATGCGGATAGAAATCTTAGGG 58.743 47.826 0.00 0.00 32.29 3.53
159 160 2.594131 GGGTTAACCTTCAGTTTGGCT 58.406 47.619 23.69 0.00 40.05 4.75
186 187 4.403453 CAACTTATTTGTTGTAGCTCCGC 58.597 43.478 0.00 0.00 41.50 5.54
196 197 1.000019 TAGCTCCGCTACTGGTGGT 60.000 57.895 0.00 0.00 45.32 4.16
197 198 1.320344 TAGCTCCGCTACTGGTGGTG 61.320 60.000 0.00 0.00 45.32 4.17
198 199 2.579201 CTCCGCTACTGGTGGTGG 59.421 66.667 9.87 9.87 45.32 4.61
383 420 0.247854 GCCTTTGAGATTTCGCGAGC 60.248 55.000 9.59 0.70 0.00 5.03
396 433 1.143373 CGCGAGCGGTAGTAATGCAA 61.143 55.000 9.90 0.00 35.56 4.08
397 434 0.300789 GCGAGCGGTAGTAATGCAAC 59.699 55.000 0.00 0.00 0.00 4.17
426 463 2.014068 GCTGGATCTAAAACCTGCGCT 61.014 52.381 9.73 0.00 40.18 5.92
450 487 1.302511 GACTCGCCTTTGAAGCCCA 60.303 57.895 0.00 0.00 0.00 5.36
453 490 4.107051 CGCCTTTGAAGCCCAGCG 62.107 66.667 0.00 0.00 37.39 5.18
461 498 1.227497 GAAGCCCAGCGAGGATGAG 60.227 63.158 0.00 0.00 41.22 2.90
465 502 1.604378 CCCAGCGAGGATGAGGTTT 59.396 57.895 0.00 0.00 41.22 3.27
466 503 0.035056 CCCAGCGAGGATGAGGTTTT 60.035 55.000 0.00 0.00 41.22 2.43
487 524 5.670792 TTACCGACATAGTTGAGGACAAT 57.329 39.130 0.00 0.00 38.32 2.71
510 547 2.202987 GAGCCAGATGGAGCACGG 60.203 66.667 2.18 0.00 37.39 4.94
568 605 4.423209 ACCCCCAGAGGAGAGGCC 62.423 72.222 0.00 0.00 38.24 5.19
574 611 2.841988 AGAGGAGAGGCCGCCATC 60.842 66.667 13.15 9.13 43.43 3.51
626 668 2.822561 TGCCAATGCAAACCGATCTTTA 59.177 40.909 0.00 0.00 46.66 1.85
634 676 5.007034 TGCAAACCGATCTTTAGATGGAAA 58.993 37.500 12.27 0.00 34.37 3.13
705 751 7.422399 TCGATATATTTGCAAAAGTTTAGGCC 58.578 34.615 17.19 0.00 0.00 5.19
714 760 4.816392 CAAAAGTTTAGGCCCGCTATTTT 58.184 39.130 0.00 0.00 0.00 1.82
837 889 2.162716 CGGAAGCACAGCCTGTAAC 58.837 57.895 0.00 0.00 0.00 2.50
838 890 0.602638 CGGAAGCACAGCCTGTAACA 60.603 55.000 0.00 0.00 0.00 2.41
839 891 1.604604 GGAAGCACAGCCTGTAACAA 58.395 50.000 0.00 0.00 0.00 2.83
840 892 1.953686 GGAAGCACAGCCTGTAACAAA 59.046 47.619 0.00 0.00 0.00 2.83
841 893 2.360801 GGAAGCACAGCCTGTAACAAAA 59.639 45.455 0.00 0.00 0.00 2.44
842 894 3.372060 GAAGCACAGCCTGTAACAAAAC 58.628 45.455 0.00 0.00 0.00 2.43
843 895 2.654863 AGCACAGCCTGTAACAAAACT 58.345 42.857 0.00 0.00 0.00 2.66
844 896 3.815809 AGCACAGCCTGTAACAAAACTA 58.184 40.909 0.00 0.00 0.00 2.24
845 897 4.398319 AGCACAGCCTGTAACAAAACTAT 58.602 39.130 0.00 0.00 0.00 2.12
846 898 4.216257 AGCACAGCCTGTAACAAAACTATG 59.784 41.667 0.00 0.00 0.00 2.23
847 899 4.475944 CACAGCCTGTAACAAAACTATGC 58.524 43.478 0.00 0.00 0.00 3.14
848 900 4.216257 CACAGCCTGTAACAAAACTATGCT 59.784 41.667 0.00 0.00 0.00 3.79
849 901 4.455877 ACAGCCTGTAACAAAACTATGCTC 59.544 41.667 0.00 0.00 0.00 4.26
850 902 4.455533 CAGCCTGTAACAAAACTATGCTCA 59.544 41.667 0.00 0.00 0.00 4.26
851 903 5.048782 CAGCCTGTAACAAAACTATGCTCAA 60.049 40.000 0.00 0.00 0.00 3.02
852 904 5.534654 AGCCTGTAACAAAACTATGCTCAAA 59.465 36.000 0.00 0.00 0.00 2.69
853 905 6.040391 AGCCTGTAACAAAACTATGCTCAAAA 59.960 34.615 0.00 0.00 0.00 2.44
854 906 6.699642 GCCTGTAACAAAACTATGCTCAAAAA 59.300 34.615 0.00 0.00 0.00 1.94
912 964 2.423892 GAGAATCGTGAGCTGTGGACTA 59.576 50.000 0.00 0.00 0.00 2.59
924 989 0.250597 GTGGACTACGCCAGGGTTTT 60.251 55.000 0.00 0.00 38.95 2.43
925 990 0.035739 TGGACTACGCCAGGGTTTTC 59.964 55.000 0.00 0.00 33.10 2.29
976 1906 4.779733 GCTCTCCTCGGGTCCCCA 62.780 72.222 1.00 0.00 35.37 4.96
1176 2106 2.202878 GCCATCTGCTACGGCGAA 60.203 61.111 16.62 0.00 42.25 4.70
1179 2109 1.153647 CATCTGCTACGGCGAACCA 60.154 57.895 16.62 5.90 42.25 3.67
1466 2398 7.430502 GCTTGATTATGGTGAAGATTTCTTTCG 59.569 37.037 0.00 0.00 36.11 3.46
1497 2429 6.461640 TGAACTTTTAGACAAGCTAGGTACC 58.538 40.000 2.73 2.73 0.00 3.34
1499 2431 4.224594 ACTTTTAGACAAGCTAGGTACCCC 59.775 45.833 8.74 0.00 0.00 4.95
1502 2440 1.080666 AGACAAGCTAGGTACCCCCTT 59.919 52.381 8.74 5.89 42.73 3.95
1567 2506 5.682943 TTCGACAATCCAAAGGTAGTTTG 57.317 39.130 0.00 0.00 44.64 2.93
1575 2514 2.687370 CAAAGGTAGTTTGGGCAATGC 58.313 47.619 0.00 0.00 41.78 3.56
1576 2515 2.299867 CAAAGGTAGTTTGGGCAATGCT 59.700 45.455 4.82 0.00 41.78 3.79
1577 2516 3.449746 AAGGTAGTTTGGGCAATGCTA 57.550 42.857 4.82 0.00 0.00 3.49
1578 2517 2.723273 AGGTAGTTTGGGCAATGCTAC 58.277 47.619 4.82 0.00 32.93 3.58
1579 2518 2.041081 AGGTAGTTTGGGCAATGCTACA 59.959 45.455 4.82 1.81 34.14 2.74
1580 2519 2.163613 GGTAGTTTGGGCAATGCTACAC 59.836 50.000 4.82 0.00 34.14 2.90
1581 2520 0.881118 AGTTTGGGCAATGCTACACG 59.119 50.000 4.82 0.00 0.00 4.49
1582 2521 0.596082 GTTTGGGCAATGCTACACGT 59.404 50.000 4.82 0.00 0.00 4.49
1583 2522 0.878416 TTTGGGCAATGCTACACGTC 59.122 50.000 4.82 0.00 0.00 4.34
1584 2523 0.958382 TTGGGCAATGCTACACGTCC 60.958 55.000 4.82 0.00 0.00 4.79
1585 2524 2.461110 GGGCAATGCTACACGTCCG 61.461 63.158 4.82 0.00 0.00 4.79
1586 2525 1.740296 GGCAATGCTACACGTCCGT 60.740 57.895 4.82 0.00 0.00 4.69
1587 2526 1.693083 GGCAATGCTACACGTCCGTC 61.693 60.000 4.82 0.00 0.00 4.79
1588 2527 1.988409 CAATGCTACACGTCCGTCG 59.012 57.895 0.00 0.00 46.00 5.12
1589 2528 0.455464 CAATGCTACACGTCCGTCGA 60.455 55.000 0.00 0.00 42.86 4.20
1590 2529 0.241749 AATGCTACACGTCCGTCGAA 59.758 50.000 0.00 0.00 42.86 3.71
1591 2530 0.454600 ATGCTACACGTCCGTCGAAT 59.545 50.000 0.00 0.00 42.86 3.34
1592 2531 0.455464 TGCTACACGTCCGTCGAATG 60.455 55.000 0.00 0.00 42.86 2.67
1593 2532 0.179181 GCTACACGTCCGTCGAATGA 60.179 55.000 0.00 0.00 42.86 2.57
1594 2533 1.533338 GCTACACGTCCGTCGAATGAT 60.533 52.381 0.00 0.00 42.86 2.45
1595 2534 2.286595 GCTACACGTCCGTCGAATGATA 60.287 50.000 0.00 0.00 42.86 2.15
1596 2535 2.925578 ACACGTCCGTCGAATGATAA 57.074 45.000 0.00 0.00 42.86 1.75
1597 2536 3.220507 ACACGTCCGTCGAATGATAAA 57.779 42.857 0.00 0.00 42.86 1.40
1598 2537 3.777478 ACACGTCCGTCGAATGATAAAT 58.223 40.909 0.00 0.00 42.86 1.40
1601 2540 4.266739 CACGTCCGTCGAATGATAAATCAA 59.733 41.667 0.00 0.00 40.17 2.57
1605 2544 7.223193 ACGTCCGTCGAATGATAAATCAATTAA 59.777 33.333 0.00 0.00 40.17 1.40
1626 2565 1.000359 GGGCTACCTTGGCAACCAT 60.000 57.895 0.00 0.00 31.53 3.55
1627 2566 1.037579 GGGCTACCTTGGCAACCATC 61.038 60.000 0.00 0.00 31.53 3.51
1631 2570 2.684927 GCTACCTTGGCAACCATCAGAT 60.685 50.000 0.00 0.00 31.53 2.90
1673 2612 1.351017 TCTTCTAACCCAGCCAGTTGG 59.649 52.381 0.00 0.00 38.00 3.77
1785 2752 2.111043 CACACCCTTGGCACGAGT 59.889 61.111 0.00 0.00 0.00 4.18
1786 2753 2.111043 ACACCCTTGGCACGAGTG 59.889 61.111 4.08 4.08 34.61 3.51
1787 2754 2.425592 CACCCTTGGCACGAGTGA 59.574 61.111 7.50 0.00 0.00 3.41
1799 2766 2.507324 GAGTGAAGTCGCCGCTCC 60.507 66.667 0.00 0.00 35.69 4.70
1801 2768 4.719369 GTGAAGTCGCCGCTCCGT 62.719 66.667 0.00 0.00 0.00 4.69
1822 2789 2.589540 CCCGCCATGGCTTGAGTA 59.410 61.111 33.07 0.00 39.32 2.59
1869 2836 1.538950 CCAAAGTTGCTGCTTCTCCTC 59.461 52.381 0.00 0.00 0.00 3.71
1890 2857 1.442148 CCTTAGCCCCGTGAGTAGC 59.558 63.158 0.00 0.00 0.00 3.58
1893 2860 1.327690 TTAGCCCCGTGAGTAGCTGG 61.328 60.000 0.00 0.00 37.97 4.85
1940 2907 1.817099 CCTCTCATGTTGGGCGCTC 60.817 63.158 7.64 2.47 0.00 5.03
1999 2966 0.796312 ACGCATGTTGAATGTCCGAC 59.204 50.000 0.00 0.00 0.00 4.79
2014 2981 1.104630 CCGACCCCTCACTCTCTAAC 58.895 60.000 0.00 0.00 0.00 2.34
2024 2991 0.889306 ACTCTCTAACGCCAGTCACC 59.111 55.000 0.00 0.00 0.00 4.02
2106 3073 0.966179 AAACCTTCATCGCCAAACCC 59.034 50.000 0.00 0.00 0.00 4.11
2107 3074 0.178975 AACCTTCATCGCCAAACCCA 60.179 50.000 0.00 0.00 0.00 4.51
2140 3107 4.686091 TCTGAAACAAGACGTCAATAGCAG 59.314 41.667 19.50 16.23 0.00 4.24
2196 3163 3.806949 AGCCCTTCACCAACAAATCTA 57.193 42.857 0.00 0.00 0.00 1.98
2200 3170 5.543790 AGCCCTTCACCAACAAATCTATTTT 59.456 36.000 0.00 0.00 0.00 1.82
2235 3205 9.810545 GATAGTCCTCTATTGCATAAATCTACC 57.189 37.037 0.00 0.00 37.05 3.18
2245 3215 6.417191 TGCATAAATCTACCGAAACAAGAC 57.583 37.500 0.00 0.00 0.00 3.01
2256 3226 1.002792 GAAACAAGACCCTTGTCGCAC 60.003 52.381 12.10 2.59 46.51 5.34
2338 3308 4.817063 CAAGCGGCGGACATTGCG 62.817 66.667 9.78 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 0.036765 TTTCAACGTAGCTCCGCCAT 60.037 50.000 0.00 0.00 0.00 4.40
42 43 5.567915 GCCTTGTTTTATTTCAACGTAGCTC 59.432 40.000 0.00 0.00 0.00 4.09
114 115 0.257328 TTTCTATCCGCATGGCCCAA 59.743 50.000 0.00 0.00 34.14 4.12
116 117 1.168714 GATTTCTATCCGCATGGCCC 58.831 55.000 0.00 0.00 34.14 5.80
141 142 3.004419 GGTGAGCCAAACTGAAGGTTAAC 59.996 47.826 0.00 0.00 37.12 2.01
186 187 0.908910 TGCATACCCACCACCAGTAG 59.091 55.000 0.00 0.00 0.00 2.57
320 353 5.118990 TCTTCAATTCTTGGATAGCCTTCG 58.881 41.667 0.00 0.00 34.31 3.79
383 420 5.323900 CAATCTTGTGTTGCATTACTACCG 58.676 41.667 0.00 0.00 0.00 4.02
396 433 5.183904 GGTTTTAGATCCAGCAATCTTGTGT 59.816 40.000 2.17 0.00 37.24 3.72
397 434 5.416952 AGGTTTTAGATCCAGCAATCTTGTG 59.583 40.000 2.17 0.00 37.24 3.33
426 463 2.483876 CTTCAAAGGCGAGTCTGTTCA 58.516 47.619 0.00 0.00 0.00 3.18
450 487 1.134788 CGGTAAAACCTCATCCTCGCT 60.135 52.381 0.00 0.00 35.66 4.93
453 490 3.604875 TGTCGGTAAAACCTCATCCTC 57.395 47.619 0.00 0.00 35.66 3.71
461 498 4.628766 GTCCTCAACTATGTCGGTAAAACC 59.371 45.833 0.00 0.00 34.05 3.27
465 502 5.670792 ATTGTCCTCAACTATGTCGGTAA 57.329 39.130 0.00 0.00 36.33 2.85
466 503 5.301045 CCTATTGTCCTCAACTATGTCGGTA 59.699 44.000 0.00 0.00 36.33 4.02
487 524 1.109920 GCTCCATCTGGCTCGTCCTA 61.110 60.000 0.00 0.00 35.26 2.94
609 651 5.192927 TCCATCTAAAGATCGGTTTGCATT 58.807 37.500 0.00 0.00 31.21 3.56
692 738 4.450082 AAATAGCGGGCCTAAACTTTTG 57.550 40.909 0.84 0.00 0.00 2.44
714 760 7.953005 TGGTCTGCATTTATTTCTATCCAAA 57.047 32.000 0.00 0.00 0.00 3.28
732 778 2.880167 GCCCCCTTCTACTTTTGGTCTG 60.880 54.545 0.00 0.00 0.00 3.51
733 779 1.354705 GCCCCCTTCTACTTTTGGTCT 59.645 52.381 0.00 0.00 0.00 3.85
859 911 8.248253 CCACTTTTCCAGTTTTGTTACTTACTT 58.752 33.333 0.00 0.00 30.92 2.24
893 945 2.531206 GTAGTCCACAGCTCACGATTC 58.469 52.381 0.00 0.00 0.00 2.52
912 964 1.004918 CGAGAGAAAACCCTGGCGT 60.005 57.895 0.00 0.00 0.00 5.68
924 989 2.709170 GGAGAAGATCCGCGAGAGA 58.291 57.895 8.23 0.00 38.67 3.10
1443 2373 7.606073 TGACGAAAGAAATCTTCACCATAATCA 59.394 33.333 0.00 0.00 34.61 2.57
1466 2398 5.297029 AGCTTGTCTAAAAGTTCAGGTTGAC 59.703 40.000 0.00 0.00 0.00 3.18
1556 2495 2.608623 AGCATTGCCCAAACTACCTTT 58.391 42.857 4.70 0.00 0.00 3.11
1559 2498 2.163613 GTGTAGCATTGCCCAAACTACC 59.836 50.000 4.70 8.40 35.18 3.18
1560 2499 2.159572 CGTGTAGCATTGCCCAAACTAC 60.160 50.000 4.70 13.41 35.92 2.73
1561 2500 2.080693 CGTGTAGCATTGCCCAAACTA 58.919 47.619 4.70 0.00 0.00 2.24
1562 2501 0.881118 CGTGTAGCATTGCCCAAACT 59.119 50.000 4.70 0.00 0.00 2.66
1563 2502 0.596082 ACGTGTAGCATTGCCCAAAC 59.404 50.000 4.70 0.00 0.00 2.93
1564 2503 0.878416 GACGTGTAGCATTGCCCAAA 59.122 50.000 4.70 0.00 0.00 3.28
1567 2506 2.461110 CGGACGTGTAGCATTGCCC 61.461 63.158 4.70 0.00 0.00 5.36
1568 2507 1.693083 GACGGACGTGTAGCATTGCC 61.693 60.000 4.70 0.00 0.00 4.52
1569 2508 1.708027 GACGGACGTGTAGCATTGC 59.292 57.895 0.53 0.00 0.00 3.56
1570 2509 0.455464 TCGACGGACGTGTAGCATTG 60.455 55.000 0.53 0.00 43.13 2.82
1571 2510 0.241749 TTCGACGGACGTGTAGCATT 59.758 50.000 0.53 0.00 43.13 3.56
1572 2511 0.454600 ATTCGACGGACGTGTAGCAT 59.545 50.000 0.53 0.00 43.13 3.79
1573 2512 0.455464 CATTCGACGGACGTGTAGCA 60.455 55.000 0.53 0.00 43.13 3.49
1574 2513 0.179181 TCATTCGACGGACGTGTAGC 60.179 55.000 0.53 0.00 43.13 3.58
1575 2514 2.470196 ATCATTCGACGGACGTGTAG 57.530 50.000 0.53 0.00 43.13 2.74
1576 2515 4.354071 TTTATCATTCGACGGACGTGTA 57.646 40.909 0.53 0.00 43.13 2.90
1577 2516 2.925578 TTATCATTCGACGGACGTGT 57.074 45.000 0.53 0.00 43.13 4.49
1578 2517 3.794564 TGATTTATCATTCGACGGACGTG 59.205 43.478 0.53 0.00 43.13 4.49
1579 2518 4.036567 TGATTTATCATTCGACGGACGT 57.963 40.909 0.00 0.00 43.13 4.34
1580 2519 5.576337 ATTGATTTATCATTCGACGGACG 57.424 39.130 0.00 0.00 38.87 4.79
1581 2520 9.878599 ATTTAATTGATTTATCATTCGACGGAC 57.121 29.630 0.00 0.00 36.56 4.79
1582 2521 9.877137 CATTTAATTGATTTATCATTCGACGGA 57.123 29.630 0.00 0.00 36.56 4.69
1583 2522 9.117145 CCATTTAATTGATTTATCATTCGACGG 57.883 33.333 0.00 0.00 36.56 4.79
1584 2523 9.117145 CCCATTTAATTGATTTATCATTCGACG 57.883 33.333 0.00 0.00 36.56 5.12
1585 2524 8.915654 GCCCATTTAATTGATTTATCATTCGAC 58.084 33.333 0.00 0.00 36.56 4.20
1586 2525 8.859090 AGCCCATTTAATTGATTTATCATTCGA 58.141 29.630 0.00 0.00 36.56 3.71
1590 2529 9.605951 AGGTAGCCCATTTAATTGATTTATCAT 57.394 29.630 0.00 0.00 36.56 2.45
1591 2530 9.432982 AAGGTAGCCCATTTAATTGATTTATCA 57.567 29.630 0.00 0.00 34.44 2.15
1592 2531 9.696917 CAAGGTAGCCCATTTAATTGATTTATC 57.303 33.333 0.00 0.00 0.00 1.75
1593 2532 8.650490 CCAAGGTAGCCCATTTAATTGATTTAT 58.350 33.333 0.00 0.00 0.00 1.40
1594 2533 7.418483 GCCAAGGTAGCCCATTTAATTGATTTA 60.418 37.037 0.00 0.00 0.00 1.40
1595 2534 6.632445 GCCAAGGTAGCCCATTTAATTGATTT 60.632 38.462 0.00 0.00 0.00 2.17
1596 2535 5.163311 GCCAAGGTAGCCCATTTAATTGATT 60.163 40.000 0.00 0.00 0.00 2.57
1597 2536 4.344968 GCCAAGGTAGCCCATTTAATTGAT 59.655 41.667 0.00 0.00 0.00 2.57
1598 2537 3.704061 GCCAAGGTAGCCCATTTAATTGA 59.296 43.478 0.00 0.00 0.00 2.57
1601 2540 3.396685 TGCCAAGGTAGCCCATTTAAT 57.603 42.857 0.00 0.00 0.00 1.40
1605 2544 0.614697 GGTTGCCAAGGTAGCCCATT 60.615 55.000 0.00 0.00 0.00 3.16
1626 2565 2.095212 CGACTGTTTCGGAGACATCTGA 60.095 50.000 1.49 0.00 44.60 3.27
1627 2566 2.254459 CGACTGTTTCGGAGACATCTG 58.746 52.381 1.49 0.00 44.60 2.90
1753 2720 0.534203 GTGTGGCCTTTCTCGGTCAA 60.534 55.000 3.32 0.00 40.98 3.18
1785 2752 4.415332 GACGGAGCGGCGACTTCA 62.415 66.667 12.98 0.00 0.00 3.02
1808 2775 1.506493 CGAGATACTCAAGCCATGGC 58.494 55.000 30.12 30.12 42.33 4.40
1822 2789 2.507944 GTGCTCCATGGCCGAGAT 59.492 61.111 6.96 0.00 0.00 2.75
1869 2836 1.327690 TACTCACGGGGCTAAGGCTG 61.328 60.000 0.00 0.00 38.73 4.85
1890 2857 2.275318 GTGCTAAAGTAGAGCTGCCAG 58.725 52.381 0.00 0.00 40.76 4.85
1893 2860 2.386661 TGGTGCTAAAGTAGAGCTGC 57.613 50.000 0.00 0.00 40.76 5.25
1999 2966 0.970937 TGGCGTTAGAGAGTGAGGGG 60.971 60.000 0.00 0.00 0.00 4.79
2140 3107 5.301805 TGGAGGTCTTGTTCCAAAAGATTTC 59.698 40.000 0.00 0.00 40.41 2.17
2200 3170 6.384015 TGCAATAGAGGACTATCTTCAGGAAA 59.616 38.462 0.00 0.00 38.24 3.13
2203 3173 5.798125 TGCAATAGAGGACTATCTTCAGG 57.202 43.478 0.00 0.00 38.24 3.86
2209 3179 9.810545 GGTAGATTTATGCAATAGAGGACTATC 57.189 37.037 0.00 0.00 38.24 2.08
2216 3186 8.365399 TGTTTCGGTAGATTTATGCAATAGAG 57.635 34.615 0.00 0.00 0.00 2.43
2235 3205 0.234884 GCGACAAGGGTCTTGTTTCG 59.765 55.000 13.56 13.67 42.05 3.46
2285 3255 0.039978 ATCCTAATCGAGCGCTCACG 60.040 55.000 34.69 23.72 44.07 4.35
2338 3308 2.663630 CTTCGCTGGCTGATGCATGC 62.664 60.000 11.82 11.82 41.91 4.06


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

AutoCloner maintained by Alex Coulton.