Multiple sequence alignment - TraesCS5A01G499400

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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 TraesCS5A01G499400 chr5A 100.000 2207 0 0 1 2207 666111104 666108898 0.000000e+00 4076.0
1 TraesCS5A01G499400 chr5A 80.702 513 39 25 366 838 443290609 443290117 5.830000e-91 344.0
2 TraesCS5A01G499400 chr7A 96.253 1441 14 5 1 1401 108869838 108871278 0.000000e+00 2326.0
3 TraesCS5A01G499400 chr7A 97.297 37 1 0 1399 1435 108871347 108871383 1.830000e-06 63.9
4 TraesCS5A01G499400 chr1D 93.163 1097 35 22 332 1401 451052550 451053633 0.000000e+00 1574.0
5 TraesCS5A01G499400 chr1D 92.330 339 7 3 1 339 451051300 451051619 4.290000e-127 464.0
6 TraesCS5A01G499400 chr1D 83.659 410 41 17 916 1303 295962326 295961921 1.610000e-96 363.0
7 TraesCS5A01G499400 chr5D 95.476 862 19 4 1 861 557974441 557973599 0.000000e+00 1358.0
8 TraesCS5A01G499400 chr5D 91.667 348 15 12 958 1305 557955980 557955647 9.230000e-129 470.0
9 TraesCS5A01G499400 chr5D 83.613 476 43 19 383 838 342176308 342175848 4.380000e-112 414.0
10 TraesCS5A01G499400 chr5D 95.082 122 4 2 857 978 557964857 557964738 8.040000e-45 191.0
11 TraesCS5A01G499400 chr4D 86.556 781 55 23 1452 2207 485038393 485037638 0.000000e+00 815.0
12 TraesCS5A01G499400 chr4D 88.889 153 10 3 1452 1602 484939836 484939689 4.840000e-42 182.0
13 TraesCS5A01G499400 chr4B 88.201 517 39 5 1452 1967 618250003 618249508 4.060000e-167 597.0
14 TraesCS5A01G499400 chr5B 83.469 490 49 15 366 838 401668794 401668320 5.630000e-116 427.0
15 TraesCS5A01G499400 chr1A 84.419 430 43 14 898 1303 368820415 368819986 3.410000e-108 401.0
16 TraesCS5A01G499400 chr1B 84.500 400 46 9 916 1303 397442640 397442245 4.450000e-102 381.0
17 TraesCS5A01G499400 chr6A 80.272 294 47 9 1063 1355 97774898 97775181 6.170000e-51 211.0
18 TraesCS5A01G499400 chr6A 93.617 94 5 1 1 93 97773742 97773835 2.950000e-29 139.0
19 TraesCS5A01G499400 chr6B 90.698 86 8 0 913 998 279013713 279013798 4.980000e-22 115.0
20 TraesCS5A01G499400 chr7B 97.619 42 1 0 916 957 612845460 612845419 3.040000e-09 73.1


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 TraesCS5A01G499400 chr5A 666108898 666111104 2206 True 4076.00 4076 100.0000 1 2207 1 chr5A.!!$R2 2206
1 TraesCS5A01G499400 chr7A 108869838 108871383 1545 False 1194.95 2326 96.7750 1 1435 2 chr7A.!!$F1 1434
2 TraesCS5A01G499400 chr1D 451051300 451053633 2333 False 1019.00 1574 92.7465 1 1401 2 chr1D.!!$F1 1400
3 TraesCS5A01G499400 chr5D 557973599 557974441 842 True 1358.00 1358 95.4760 1 861 1 chr5D.!!$R4 860
4 TraesCS5A01G499400 chr4D 485037638 485038393 755 True 815.00 815 86.5560 1452 2207 1 chr4D.!!$R2 755

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
727 1668 0.540597 AGAAGGCACCCTTTCTTGGC 60.541 55.0 0.0 0.0 44.82 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2138 3213 0.173481 GACGGCTACAGACAGCATGA 59.827 55.0 0.0 0.0 43.67 3.07 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
152 153 1.091771 CAGGATGCATCGTGTGTCCC 61.092 60.000 31.72 13.71 37.76 4.46
668 1609 6.461110 AATCCTAAATCACAAGCTTCCATG 57.539 37.500 0.00 0.00 0.00 3.66
727 1668 0.540597 AGAAGGCACCCTTTCTTGGC 60.541 55.000 0.00 0.00 44.82 4.52
1395 2374 2.727916 GCCAATGAAAACGCGTTCCTAG 60.728 50.000 26.77 12.82 0.00 3.02
1431 2481 6.823689 ACCTTTTGTCGCATAGTTAATCTGAT 59.176 34.615 0.00 0.00 0.00 2.90
1435 2485 4.507756 TGTCGCATAGTTAATCTGATGTGC 59.492 41.667 0.00 0.00 31.37 4.57
1436 2486 4.507756 GTCGCATAGTTAATCTGATGTGCA 59.492 41.667 0.00 0.00 31.37 4.57
1437 2487 4.507756 TCGCATAGTTAATCTGATGTGCAC 59.492 41.667 10.75 10.75 31.37 4.57
1438 2488 4.606894 CGCATAGTTAATCTGATGTGCACG 60.607 45.833 13.13 0.00 0.00 5.34
1439 2489 4.271049 GCATAGTTAATCTGATGTGCACGT 59.729 41.667 12.38 12.38 0.00 4.49
1440 2490 5.220662 GCATAGTTAATCTGATGTGCACGTT 60.221 40.000 13.92 1.79 0.00 3.99
1441 2491 6.019075 GCATAGTTAATCTGATGTGCACGTTA 60.019 38.462 13.92 8.32 0.00 3.18
1442 2492 7.465379 GCATAGTTAATCTGATGTGCACGTTAA 60.465 37.037 13.92 4.56 0.00 2.01
1443 2493 6.985188 AGTTAATCTGATGTGCACGTTAAT 57.015 33.333 13.92 0.00 0.00 1.40
1444 2494 6.775088 AGTTAATCTGATGTGCACGTTAATG 58.225 36.000 13.92 4.32 0.00 1.90
1445 2495 6.371548 AGTTAATCTGATGTGCACGTTAATGT 59.628 34.615 13.92 0.00 0.00 2.71
1446 2496 5.627499 AATCTGATGTGCACGTTAATGTT 57.373 34.783 13.92 2.75 0.00 2.71
1447 2497 5.627499 ATCTGATGTGCACGTTAATGTTT 57.373 34.783 13.92 0.00 0.00 2.83
1448 2498 5.029650 TCTGATGTGCACGTTAATGTTTC 57.970 39.130 13.92 0.00 0.00 2.78
1449 2499 4.754618 TCTGATGTGCACGTTAATGTTTCT 59.245 37.500 13.92 0.00 0.00 2.52
1450 2500 5.029650 TGATGTGCACGTTAATGTTTCTC 57.970 39.130 13.92 0.00 0.00 2.87
1466 2516 3.759527 TTCTCGATTGTCGTAGGTCAG 57.240 47.619 0.00 0.00 41.35 3.51
1472 2522 2.202623 GTCGTAGGTCAGCGCCTG 60.203 66.667 2.29 1.50 39.60 4.85
1508 2558 6.176896 AGCGCAGAGTCAGATCTCTATATAA 58.823 40.000 11.47 0.00 42.10 0.98
1513 2563 8.792633 GCAGAGTCAGATCTCTATATAACAAGT 58.207 37.037 0.00 0.00 42.10 3.16
1534 2584 2.540515 ACTAACGAGGACAATGATGCG 58.459 47.619 0.00 0.00 0.00 4.73
1539 2589 1.797713 CGAGGACAATGATGCGTACGT 60.798 52.381 17.90 0.00 0.00 3.57
1570 2620 1.466192 GCACCGGCCAAATTAACGTAC 60.466 52.381 0.00 0.00 0.00 3.67
1606 2656 8.495361 TTTTAAGAAAGCATACATAGCGGTAA 57.505 30.769 0.00 0.00 37.01 2.85
1608 2658 5.277857 AGAAAGCATACATAGCGGTAACT 57.722 39.130 0.00 0.00 37.01 2.24
1609 2659 5.290386 AGAAAGCATACATAGCGGTAACTC 58.710 41.667 0.00 0.00 37.01 3.01
1612 2662 3.005897 AGCATACATAGCGGTAACTCAGG 59.994 47.826 0.00 0.00 37.01 3.86
1631 2681 1.818674 GGGTATGTTCTGGCACCTTTG 59.181 52.381 0.00 0.00 0.00 2.77
1643 2693 1.886655 GCACCTTTGTCAACCCCTAGG 60.887 57.143 0.06 0.06 40.04 3.02
1645 2695 0.323451 CCTTTGTCAACCCCTAGGCC 60.323 60.000 2.05 0.00 36.11 5.19
1646 2696 0.404040 CTTTGTCAACCCCTAGGCCA 59.596 55.000 5.01 0.00 36.11 5.36
1647 2697 0.111639 TTTGTCAACCCCTAGGCCAC 59.888 55.000 5.01 0.00 36.11 5.01
1648 2698 0.770557 TTGTCAACCCCTAGGCCACT 60.771 55.000 5.01 0.00 36.11 4.00
1649 2699 0.770557 TGTCAACCCCTAGGCCACTT 60.771 55.000 5.01 0.00 36.11 3.16
1650 2700 1.282382 GTCAACCCCTAGGCCACTTA 58.718 55.000 5.01 0.00 36.11 2.24
1662 2712 3.956744 AGGCCACTTATTCTTCACTTCC 58.043 45.455 5.01 0.00 0.00 3.46
1665 2715 3.942115 GCCACTTATTCTTCACTTCCCTC 59.058 47.826 0.00 0.00 0.00 4.30
1725 2777 5.498393 CATCCCATGAATCTCCCATAAGAG 58.502 45.833 0.00 0.00 35.04 2.85
1727 2779 4.594920 TCCCATGAATCTCCCATAAGAGTC 59.405 45.833 0.00 0.00 40.04 3.36
1746 2798 3.200605 AGTCCATGCATCCTACATGAACA 59.799 43.478 0.00 0.00 46.33 3.18
1747 2799 4.139786 GTCCATGCATCCTACATGAACAT 58.860 43.478 0.00 0.00 46.33 2.71
1750 2802 5.300034 TCCATGCATCCTACATGAACATTTC 59.700 40.000 0.00 0.00 46.33 2.17
1843 2896 1.007842 TGTCCTCTATGTAGCCCCACA 59.992 52.381 0.00 0.00 0.00 4.17
1847 2900 2.158900 CCTCTATGTAGCCCCACAACAG 60.159 54.545 0.00 0.00 30.84 3.16
1852 2905 0.323629 GTAGCCCCACAACAGTGCTA 59.676 55.000 0.00 0.00 33.63 3.49
1853 2906 0.323629 TAGCCCCACAACAGTGCTAC 59.676 55.000 0.00 0.00 33.63 3.58
1854 2907 1.228124 GCCCCACAACAGTGCTACA 60.228 57.895 0.00 0.00 31.87 2.74
1855 2908 0.609131 GCCCCACAACAGTGCTACAT 60.609 55.000 0.00 0.00 31.87 2.29
1856 2909 1.909700 CCCCACAACAGTGCTACATT 58.090 50.000 0.00 0.00 31.87 2.71
1857 2910 1.812571 CCCCACAACAGTGCTACATTC 59.187 52.381 0.00 0.00 31.87 2.67
1858 2911 2.503331 CCCACAACAGTGCTACATTCA 58.497 47.619 0.00 0.00 31.87 2.57
1859 2912 2.485426 CCCACAACAGTGCTACATTCAG 59.515 50.000 0.00 0.00 31.87 3.02
1860 2913 3.141398 CCACAACAGTGCTACATTCAGT 58.859 45.455 0.00 0.00 31.87 3.41
1861 2914 4.314961 CCACAACAGTGCTACATTCAGTA 58.685 43.478 0.00 0.00 31.87 2.74
1862 2915 4.152402 CCACAACAGTGCTACATTCAGTAC 59.848 45.833 0.00 0.00 31.87 2.73
1863 2916 3.987868 ACAACAGTGCTACATTCAGTACG 59.012 43.478 0.00 0.00 36.39 3.67
1875 2928 7.861372 GCTACATTCAGTACGACTGTATAATGT 59.139 37.037 22.05 22.05 45.23 2.71
1886 2939 5.516696 CGACTGTATAATGTGAGTCAACCTG 59.483 44.000 0.00 0.00 35.55 4.00
1899 2952 7.093068 TGTGAGTCAACCTGCTATCCTATTTTA 60.093 37.037 0.00 0.00 0.00 1.52
1944 2997 4.387026 AATTCCTGGTCTTCCATCAACA 57.613 40.909 0.00 0.00 43.43 3.33
1954 3007 8.055279 TGGTCTTCCATCAACAATTTAATCTC 57.945 34.615 0.00 0.00 39.03 2.75
1957 3010 7.699812 GTCTTCCATCAACAATTTAATCTCAGC 59.300 37.037 0.00 0.00 0.00 4.26
1960 3013 5.967674 CCATCAACAATTTAATCTCAGCGAC 59.032 40.000 0.00 0.00 0.00 5.19
1983 3036 6.129874 ACTAGGTGACTGTATGCTGATCTAA 58.870 40.000 0.00 0.00 43.88 2.10
1985 3038 4.045104 GGTGACTGTATGCTGATCTAACG 58.955 47.826 0.00 0.00 0.00 3.18
1990 3043 3.969899 TGTATGCTGATCTAACGAGCTG 58.030 45.455 0.00 0.00 33.66 4.24
1993 3068 3.808466 TGCTGATCTAACGAGCTGATT 57.192 42.857 0.00 0.00 33.66 2.57
2005 3080 6.500684 AACGAGCTGATTGAACAATAATGT 57.499 33.333 0.00 0.00 43.14 2.71
2012 3087 5.722263 TGATTGAACAATAATGTGGCCTTG 58.278 37.500 3.32 0.68 40.46 3.61
2013 3088 5.245751 TGATTGAACAATAATGTGGCCTTGT 59.754 36.000 3.32 1.44 40.46 3.16
2027 3102 1.517242 CCTTGTGAGTGTTGAGAGGC 58.483 55.000 0.00 0.00 0.00 4.70
2045 3120 1.453745 CCAACGCCATACCCTGCAT 60.454 57.895 0.00 0.00 0.00 3.96
2053 3128 1.065199 CCATACCCTGCATGAGTGTGT 60.065 52.381 0.00 0.00 0.00 3.72
2055 3130 0.324614 TACCCTGCATGAGTGTGTGG 59.675 55.000 0.00 0.00 0.00 4.17
2066 3141 0.901124 AGTGTGTGGATCTCTGCCTC 59.099 55.000 0.00 0.00 0.00 4.70
2071 3146 1.277273 TGTGGATCTCTGCCTCAAGTG 59.723 52.381 0.00 0.00 0.00 3.16
2080 3155 4.135306 CTCTGCCTCAAGTGCATCATTAT 58.865 43.478 0.00 0.00 38.22 1.28
2085 3160 6.741109 TGCCTCAAGTGCATCATTATAATTG 58.259 36.000 0.00 0.00 32.85 2.32
2104 3179 1.826720 TGAATAAGAACCGGTAGGCGT 59.173 47.619 8.00 1.18 42.76 5.68
2108 3183 0.393820 AAGAACCGGTAGGCGTCAAA 59.606 50.000 8.00 0.00 42.76 2.69
2121 3196 2.353208 GGCGTCAAAGATCACACTCTCT 60.353 50.000 0.00 0.00 0.00 3.10
2131 3206 1.073964 CACACTCTCTTCATGCCGTG 58.926 55.000 0.00 0.00 0.00 4.94
2135 3210 1.066573 ACTCTCTTCATGCCGTGGAAG 60.067 52.381 0.00 0.00 41.42 3.46
2138 3213 2.237143 TCTCTTCATGCCGTGGAAGAAT 59.763 45.455 5.70 0.00 46.28 2.40
2144 3219 0.035152 TGCCGTGGAAGAATCATGCT 60.035 50.000 0.00 0.00 0.00 3.79
2155 3230 1.863454 GAATCATGCTGTCTGTAGCCG 59.137 52.381 0.00 0.00 43.02 5.52
2167 3242 1.068741 CTGTAGCCGTCCCATCCTAAC 59.931 57.143 0.00 0.00 0.00 2.34
2173 3248 0.180406 CGTCCCATCCTAACCAAGGG 59.820 60.000 0.00 0.00 46.55 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
152 153 3.244215 ACCAGTATGAGATAACGGCCATG 60.244 47.826 2.24 0.00 39.69 3.66
334 336 7.846644 TCCATCATTAACAATGCCATTTTTC 57.153 32.000 0.00 0.00 38.77 2.29
668 1609 3.244387 GCTCTATCTGTTCTTGGGATCCC 60.244 52.174 25.22 25.22 0.00 3.85
687 1628 9.638239 CCTTCTGATGTCTATAAATCTAAGCTC 57.362 37.037 0.00 0.00 0.00 4.09
727 1668 8.600625 TCGATCATTGGTTCTAAGAAATTAACG 58.399 33.333 0.00 0.00 0.00 3.18
1289 2242 3.746949 GATCTGCTGCACCGAGGGG 62.747 68.421 0.00 0.00 40.11 4.79
1321 2300 2.093553 CCTCCTCTGCTCCTTTCTCTTG 60.094 54.545 0.00 0.00 0.00 3.02
1395 2374 0.942252 ACAAAAGGTTCGCTTCGGAC 59.058 50.000 0.00 0.00 34.15 4.79
1431 2481 3.124560 TCGAGAAACATTAACGTGCACA 58.875 40.909 18.64 0.00 0.00 4.57
1435 2485 5.007039 CGACAATCGAGAAACATTAACGTG 58.993 41.667 0.00 0.00 43.74 4.49
1436 2486 4.682860 ACGACAATCGAGAAACATTAACGT 59.317 37.500 5.04 0.00 43.74 3.99
1437 2487 5.186404 ACGACAATCGAGAAACATTAACG 57.814 39.130 5.04 0.00 43.74 3.18
1438 2488 6.309737 ACCTACGACAATCGAGAAACATTAAC 59.690 38.462 5.04 0.00 43.74 2.01
1439 2489 6.392354 ACCTACGACAATCGAGAAACATTAA 58.608 36.000 5.04 0.00 43.74 1.40
1440 2490 5.957798 ACCTACGACAATCGAGAAACATTA 58.042 37.500 5.04 0.00 43.74 1.90
1441 2491 4.817517 ACCTACGACAATCGAGAAACATT 58.182 39.130 5.04 0.00 43.74 2.71
1442 2492 4.082408 TGACCTACGACAATCGAGAAACAT 60.082 41.667 5.04 0.00 43.74 2.71
1443 2493 3.253921 TGACCTACGACAATCGAGAAACA 59.746 43.478 5.04 0.00 43.74 2.83
1444 2494 3.829948 TGACCTACGACAATCGAGAAAC 58.170 45.455 5.04 0.00 43.74 2.78
1445 2495 3.672511 GCTGACCTACGACAATCGAGAAA 60.673 47.826 5.04 0.00 43.74 2.52
1446 2496 2.159421 GCTGACCTACGACAATCGAGAA 60.159 50.000 5.04 0.00 43.74 2.87
1447 2497 1.400846 GCTGACCTACGACAATCGAGA 59.599 52.381 5.04 0.00 43.74 4.04
1448 2498 1.828832 GCTGACCTACGACAATCGAG 58.171 55.000 5.04 0.00 43.74 4.04
1449 2499 0.098200 CGCTGACCTACGACAATCGA 59.902 55.000 5.04 0.00 43.74 3.59
1450 2500 1.472276 GCGCTGACCTACGACAATCG 61.472 60.000 0.00 0.00 46.93 3.34
1481 2531 0.455410 AGATCTGACTCTGCGCTCAC 59.545 55.000 9.73 0.00 0.00 3.51
1508 2558 5.717078 TCATTGTCCTCGTTAGTACTTGT 57.283 39.130 0.00 0.00 0.00 3.16
1513 2563 3.129813 ACGCATCATTGTCCTCGTTAGTA 59.870 43.478 0.00 0.00 0.00 1.82
1514 2564 2.094182 ACGCATCATTGTCCTCGTTAGT 60.094 45.455 0.00 0.00 0.00 2.24
1515 2565 2.540515 ACGCATCATTGTCCTCGTTAG 58.459 47.619 0.00 0.00 0.00 2.34
1534 2584 2.194271 GGTGCATTCAGCTCTACGTAC 58.806 52.381 0.00 0.00 45.94 3.67
1539 2589 1.153369 GCCGGTGCATTCAGCTCTA 60.153 57.895 1.90 0.00 45.94 2.43
1606 2656 1.279271 GTGCCAGAACATACCCTGAGT 59.721 52.381 0.00 0.00 32.37 3.41
1608 2658 0.618458 GGTGCCAGAACATACCCTGA 59.382 55.000 0.00 0.00 32.37 3.86
1609 2659 0.620556 AGGTGCCAGAACATACCCTG 59.379 55.000 0.00 0.00 33.67 4.45
1612 2662 2.488153 GACAAAGGTGCCAGAACATACC 59.512 50.000 0.00 0.00 0.00 2.73
1631 2681 1.282382 TAAGTGGCCTAGGGGTTGAC 58.718 55.000 11.72 0.00 34.45 3.18
1643 2693 3.942115 GAGGGAAGTGAAGAATAAGTGGC 59.058 47.826 0.00 0.00 0.00 5.01
1645 2695 4.518249 GGGAGGGAAGTGAAGAATAAGTG 58.482 47.826 0.00 0.00 0.00 3.16
1646 2696 3.197983 CGGGAGGGAAGTGAAGAATAAGT 59.802 47.826 0.00 0.00 0.00 2.24
1647 2697 3.798202 CGGGAGGGAAGTGAAGAATAAG 58.202 50.000 0.00 0.00 0.00 1.73
1648 2698 3.906720 CGGGAGGGAAGTGAAGAATAA 57.093 47.619 0.00 0.00 0.00 1.40
1746 2798 5.816682 ACTCTTATTTCACCCGGAAGAAAT 58.183 37.500 26.40 26.40 44.24 2.17
1747 2799 5.237236 ACTCTTATTTCACCCGGAAGAAA 57.763 39.130 19.12 19.12 36.72 2.52
1750 2802 5.959618 AAAACTCTTATTTCACCCGGAAG 57.040 39.130 0.73 0.00 36.72 3.46
1794 2847 9.490379 CTGTATTGAGGAACTTTTAACTACAGT 57.510 33.333 0.00 0.00 41.55 3.55
1795 2848 8.936864 CCTGTATTGAGGAACTTTTAACTACAG 58.063 37.037 0.00 0.00 41.55 2.74
1796 2849 8.434392 ACCTGTATTGAGGAACTTTTAACTACA 58.566 33.333 0.00 0.00 41.55 2.74
1797 2850 8.843885 ACCTGTATTGAGGAACTTTTAACTAC 57.156 34.615 0.00 0.00 41.55 2.73
1814 2867 5.070580 GGCTACATAGAGGACAACCTGTATT 59.929 44.000 0.00 0.00 46.31 1.89
1843 2896 4.022242 AGTCGTACTGAATGTAGCACTGTT 60.022 41.667 0.00 0.00 0.00 3.16
1858 2911 6.997239 TGACTCACATTATACAGTCGTACT 57.003 37.500 0.00 0.00 38.52 2.73
1859 2912 6.471519 GGTTGACTCACATTATACAGTCGTAC 59.528 42.308 0.00 0.00 38.52 3.67
1860 2913 6.376299 AGGTTGACTCACATTATACAGTCGTA 59.624 38.462 0.00 0.00 38.52 3.43
1861 2914 5.185249 AGGTTGACTCACATTATACAGTCGT 59.815 40.000 0.00 0.00 38.52 4.34
1862 2915 5.516696 CAGGTTGACTCACATTATACAGTCG 59.483 44.000 0.00 0.00 38.52 4.18
1863 2916 5.292101 GCAGGTTGACTCACATTATACAGTC 59.708 44.000 0.00 0.00 36.57 3.51
1875 2928 5.957771 AAATAGGATAGCAGGTTGACTCA 57.042 39.130 0.00 0.00 0.00 3.41
1944 2997 6.043411 GTCACCTAGTCGCTGAGATTAAATT 58.957 40.000 0.00 0.00 0.00 1.82
1954 3007 2.796383 GCATACAGTCACCTAGTCGCTG 60.796 54.545 0.00 0.00 0.00 5.18
1957 3010 2.683362 TCAGCATACAGTCACCTAGTCG 59.317 50.000 0.00 0.00 0.00 4.18
1960 3013 6.442952 GTTAGATCAGCATACAGTCACCTAG 58.557 44.000 0.00 0.00 0.00 3.02
1967 3020 3.634448 AGCTCGTTAGATCAGCATACAGT 59.366 43.478 4.95 0.00 35.46 3.55
1983 3036 5.163723 CCACATTATTGTTCAATCAGCTCGT 60.164 40.000 1.11 0.00 32.34 4.18
1985 3038 5.039333 GCCACATTATTGTTCAATCAGCTC 58.961 41.667 1.11 0.00 32.34 4.09
1990 3043 5.577945 CACAAGGCCACATTATTGTTCAATC 59.422 40.000 5.01 0.00 33.76 2.67
1993 3068 4.148079 TCACAAGGCCACATTATTGTTCA 58.852 39.130 5.01 0.00 33.76 3.18
2005 3080 0.836606 TCTCAACACTCACAAGGCCA 59.163 50.000 5.01 0.00 0.00 5.36
2012 3087 1.230324 GTTGGCCTCTCAACACTCAC 58.770 55.000 3.32 0.00 44.51 3.51
2013 3088 0.249868 CGTTGGCCTCTCAACACTCA 60.250 55.000 3.32 0.00 45.16 3.41
2027 3102 1.453745 ATGCAGGGTATGGCGTTGG 60.454 57.895 0.00 0.00 0.00 3.77
2045 3120 0.610174 GGCAGAGATCCACACACTCA 59.390 55.000 0.00 0.00 33.69 3.41
2053 3128 0.251354 GCACTTGAGGCAGAGATCCA 59.749 55.000 0.00 0.00 0.00 3.41
2055 3130 2.211806 GATGCACTTGAGGCAGAGATC 58.788 52.381 0.00 0.00 45.68 2.75
2071 3146 9.559958 CCGGTTCTTATTCAATTATAATGATGC 57.440 33.333 0.00 0.00 0.00 3.91
2080 3155 5.051816 CGCCTACCGGTTCTTATTCAATTA 58.948 41.667 15.04 0.00 0.00 1.40
2085 3160 2.159198 TGACGCCTACCGGTTCTTATTC 60.159 50.000 15.04 3.48 42.52 1.75
2095 3170 1.278238 GTGATCTTTGACGCCTACCG 58.722 55.000 0.00 0.00 44.21 4.02
2104 3179 4.934001 GCATGAAGAGAGTGTGATCTTTGA 59.066 41.667 0.00 0.00 35.93 2.69
2108 3183 2.159128 CGGCATGAAGAGAGTGTGATCT 60.159 50.000 0.00 0.00 0.00 2.75
2121 3196 2.488204 TGATTCTTCCACGGCATGAA 57.512 45.000 0.00 0.00 0.00 2.57
2131 3206 3.559242 GCTACAGACAGCATGATTCTTCC 59.441 47.826 0.00 0.00 41.40 3.46
2135 3210 1.863454 CGGCTACAGACAGCATGATTC 59.137 52.381 0.00 0.00 43.67 2.52
2138 3213 0.173481 GACGGCTACAGACAGCATGA 59.827 55.000 0.00 0.00 43.67 3.07
2144 3219 1.327690 GGATGGGACGGCTACAGACA 61.328 60.000 0.00 0.00 0.00 3.41
2173 3248 1.679032 CCTTTCGGTTGATGGGTCCTC 60.679 57.143 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.