Multiple sequence alignment - TraesCS7D01G333100

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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 TraesCS7D01G333100 chr7D 100.000 2728 0 0 1 2728 424105231 424102504 0.000000e+00 5038.0
1 TraesCS7D01G333100 chr7B 88.117 1986 174 32 1 1968 441516531 441514590 0.000000e+00 2303.0
2 TraesCS7D01G333100 chr7B 82.529 767 57 41 1965 2706 441514484 441513770 1.080000e-168 603.0
3 TraesCS7D01G333100 chr7A 89.990 1049 64 14 1698 2727 509210783 509211809 0.000000e+00 1317.0
4 TraesCS7D01G333100 chr7A 91.546 899 66 6 767 1661 509209729 509210621 0.000000e+00 1230.0
5 TraesCS7D01G333100 chr3D 78.279 709 115 22 3 691 587318571 587319260 1.170000e-113 420.0
6 TraesCS7D01G333100 chr6D 78.522 582 97 20 121 688 285673221 285672654 9.290000e-95 357.0
7 TraesCS7D01G333100 chr6D 75.328 381 72 11 3 364 302579750 302580127 2.170000e-36 163.0
8 TraesCS7D01G333100 chr5D 76.117 716 122 30 3 690 327645996 327645302 2.030000e-86 329.0
9 TraesCS7D01G333100 chr2B 76.331 507 80 26 3 492 478845718 478846201 4.540000e-58 235.0
10 TraesCS7D01G333100 chr3B 76.115 314 55 11 4 314 90167773 90167477 2.190000e-31 147.0
11 TraesCS7D01G333100 chr3B 81.395 172 26 5 3 172 508472850 508473017 4.740000e-28 135.0
12 TraesCS7D01G333100 chr6A 73.913 391 68 25 3 368 413109123 413108742 2.850000e-25 126.0
13 TraesCS7D01G333100 chr4D 77.987 159 24 7 1 150 494097362 494097518 3.740000e-14 89.8


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 TraesCS7D01G333100 chr7D 424102504 424105231 2727 True 5038.0 5038 100.000 1 2728 1 chr7D.!!$R1 2727
1 TraesCS7D01G333100 chr7B 441513770 441516531 2761 True 1453.0 2303 85.323 1 2706 2 chr7B.!!$R1 2705
2 TraesCS7D01G333100 chr7A 509209729 509211809 2080 False 1273.5 1317 90.768 767 2727 2 chr7A.!!$F1 1960
3 TraesCS7D01G333100 chr3D 587318571 587319260 689 False 420.0 420 78.279 3 691 1 chr3D.!!$F1 688
4 TraesCS7D01G333100 chr6D 285672654 285673221 567 True 357.0 357 78.522 121 688 1 chr6D.!!$R1 567
5 TraesCS7D01G333100 chr5D 327645302 327645996 694 True 329.0 329 76.117 3 690 1 chr5D.!!$R1 687

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
858 891 0.037697 AGCGACGTTTGGAGTGCATA 60.038 50.0 0.0 0.0 0.00 3.14 F
1329 1365 0.232559 CGATGAGCGACTACGACGAT 59.767 55.0 0.0 0.0 44.57 3.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1678 1823 1.139058 CCCGGTCACAAGATAAGAGGG 59.861 57.143 0.0 0.0 0.0 4.30 R
2145 2439 1.475280 TCGCTTGTTCCGCTATGTACT 59.525 47.619 0.0 0.0 0.0 2.73 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 2.159382 GTCCATCAACGTCAAATGGGT 58.841 47.619 18.41 0.00 40.34 4.51
104 105 6.596888 CCTGAAATTGAGAACATGCTCTTCTA 59.403 38.462 0.00 0.00 35.91 2.10
130 131 2.280797 GTGTCTGCAAGGACCGCA 60.281 61.111 3.85 0.00 37.88 5.69
150 151 3.983988 GCATGTATCATCGTCGTCTCATT 59.016 43.478 0.00 0.00 0.00 2.57
151 152 4.445718 GCATGTATCATCGTCGTCTCATTT 59.554 41.667 0.00 0.00 0.00 2.32
172 185 2.122167 GCAGTCCTCCTCGTCGGAT 61.122 63.158 0.00 0.00 42.12 4.18
178 191 1.644372 CTCCTCGTCGGATGACTCG 59.356 63.158 0.00 0.00 42.12 4.18
189 202 1.202580 GGATGACTCGGCATAGTGCTT 60.203 52.381 1.64 0.00 44.28 3.91
204 217 6.366332 GCATAGTGCTTGTATATGTACTCCAC 59.634 42.308 1.08 5.72 40.96 4.02
212 225 7.169982 GCTTGTATATGTACTCCACATCTGAAC 59.830 40.741 1.08 0.00 44.99 3.18
260 281 1.529226 TTACACAGGCATTTCACCGG 58.471 50.000 0.00 0.00 0.00 5.28
270 291 1.339610 CATTTCACCGGAAAGTTGCCA 59.660 47.619 9.46 0.00 45.58 4.92
316 338 1.120184 TGGTACCTGTGTGGCGGTAA 61.120 55.000 14.36 0.00 37.50 2.85
320 342 0.830444 ACCTGTGTGGCGGTAAGAGA 60.830 55.000 0.00 0.00 40.22 3.10
321 343 0.537188 CCTGTGTGGCGGTAAGAGAT 59.463 55.000 0.00 0.00 0.00 2.75
334 359 0.396435 AAGAGATGTGTGGAACGGCA 59.604 50.000 0.00 0.00 42.39 5.69
348 373 2.347490 GGCAACGGAGGAGAAGCA 59.653 61.111 0.00 0.00 0.00 3.91
382 407 2.238646 TGGTGTACCATTGGAGGTGATC 59.761 50.000 10.37 0.00 43.14 2.92
396 421 4.058817 GAGGTGATCGACTTGTTGAGTTT 58.941 43.478 0.00 0.00 39.19 2.66
526 555 1.929494 TGATGGATTTTGGGTAGGCCT 59.071 47.619 11.78 11.78 34.45 5.19
590 623 2.621070 AGCCCTCCTAGTTTGTCTTGA 58.379 47.619 0.00 0.00 0.00 3.02
657 690 3.454812 AGACCCGTGTTAGATGGCTAAAT 59.545 43.478 0.00 0.00 38.28 1.40
722 755 3.584848 AGATGCCCTAAGGTACCATCATC 59.415 47.826 15.94 15.06 35.84 2.92
730 763 6.270000 CCCTAAGGTACCATCATCAGTATTCA 59.730 42.308 15.94 0.00 0.00 2.57
731 764 7.202093 CCCTAAGGTACCATCATCAGTATTCAA 60.202 40.741 15.94 0.00 0.00 2.69
732 765 8.210946 CCTAAGGTACCATCATCAGTATTCAAA 58.789 37.037 15.94 0.00 0.00 2.69
766 799 2.272471 GGCTACCCCTGCCTTCAC 59.728 66.667 0.00 0.00 46.38 3.18
767 800 2.272471 GCTACCCCTGCCTTCACC 59.728 66.667 0.00 0.00 0.00 4.02
768 801 2.301738 GCTACCCCTGCCTTCACCT 61.302 63.158 0.00 0.00 0.00 4.00
769 802 1.604378 CTACCCCTGCCTTCACCTG 59.396 63.158 0.00 0.00 0.00 4.00
770 803 2.543067 CTACCCCTGCCTTCACCTGC 62.543 65.000 0.00 0.00 0.00 4.85
771 804 4.748144 CCCCTGCCTTCACCTGCC 62.748 72.222 0.00 0.00 0.00 4.85
772 805 3.655211 CCCTGCCTTCACCTGCCT 61.655 66.667 0.00 0.00 0.00 4.75
773 806 2.437897 CCTGCCTTCACCTGCCTT 59.562 61.111 0.00 0.00 0.00 4.35
774 807 1.676967 CCTGCCTTCACCTGCCTTC 60.677 63.158 0.00 0.00 0.00 3.46
775 808 1.073722 CTGCCTTCACCTGCCTTCA 59.926 57.895 0.00 0.00 0.00 3.02
858 891 0.037697 AGCGACGTTTGGAGTGCATA 60.038 50.000 0.00 0.00 0.00 3.14
859 892 1.006832 GCGACGTTTGGAGTGCATAT 58.993 50.000 0.00 0.00 0.00 1.78
860 893 1.267532 GCGACGTTTGGAGTGCATATG 60.268 52.381 0.00 0.00 0.00 1.78
864 897 1.331756 CGTTTGGAGTGCATATGGAGC 59.668 52.381 4.56 0.00 0.00 4.70
869 902 1.270732 GGAGTGCATATGGAGCCTCAG 60.271 57.143 14.20 0.00 33.66 3.35
870 903 1.690893 GAGTGCATATGGAGCCTCAGA 59.309 52.381 4.56 0.00 32.85 3.27
897 930 1.979855 CACATGGGGAACAAGTGTGA 58.020 50.000 0.00 0.00 42.29 3.58
925 958 1.281566 TACACGCGACATGCACACTG 61.282 55.000 15.93 0.00 46.97 3.66
938 972 1.171308 CACACTGCCATTCCCTCAAG 58.829 55.000 0.00 0.00 0.00 3.02
949 983 1.192146 TCCCTCAAGTCGACCCCTTG 61.192 60.000 13.01 10.75 40.51 3.61
964 998 1.736645 CTTGGTTGTCGCGTCCGAT 60.737 57.895 5.77 0.00 46.38 4.18
983 1018 5.298527 TCCGATGCTATATATAACTCCACGG 59.701 44.000 0.00 0.00 36.27 4.94
1000 1035 2.124320 GCCTTCCCGCCATTAGCA 60.124 61.111 0.00 0.00 44.04 3.49
1004 1039 0.679640 CTTCCCGCCATTAGCAACCA 60.680 55.000 0.00 0.00 44.04 3.67
1019 1054 2.035704 GCAACCACAATGATCAACACCA 59.964 45.455 0.00 0.00 0.00 4.17
1058 1094 3.628942 GTGCAACAGCTCATAATGGATCA 59.371 43.478 0.00 0.00 36.32 2.92
1118 1154 3.449227 CTGCTACGTCGGGAGCCA 61.449 66.667 16.09 6.28 37.94 4.75
1173 1209 4.007644 CTGCTGGAGGACACGCCA 62.008 66.667 0.00 0.00 44.80 5.69
1260 1296 4.593864 GAGCTCGGCATCGGGTCC 62.594 72.222 0.00 0.00 39.48 4.46
1329 1365 0.232559 CGATGAGCGACTACGACGAT 59.767 55.000 0.00 0.00 44.57 3.73
1360 1396 1.086634 GGAGATGCTGTCGGAGTTGC 61.087 60.000 0.00 0.00 0.00 4.17
1598 1639 0.247497 GCGTTGAAATATGCGCGTGA 60.247 50.000 13.61 0.00 40.46 4.35
1599 1640 1.788699 GCGTTGAAATATGCGCGTGAA 60.789 47.619 13.61 0.00 40.46 3.18
1600 1641 2.500888 CGTTGAAATATGCGCGTGAAA 58.499 42.857 13.61 0.00 0.00 2.69
1601 1642 2.905546 CGTTGAAATATGCGCGTGAAAA 59.094 40.909 13.61 0.00 0.00 2.29
1638 1679 8.559536 TGTGAGCTTAAACTTATGAAAGACAAG 58.440 33.333 0.00 0.00 36.50 3.16
1679 1824 9.990360 TGTTCTTATATTTTTGGAAAAAGGACC 57.010 29.630 3.83 0.00 40.78 4.46
1689 1845 5.860648 TGGAAAAAGGACCCTCTTATCTT 57.139 39.130 0.00 0.00 0.00 2.40
1778 1958 4.214310 TCAGAATTGGGCAGAAGTTTCAA 58.786 39.130 0.00 0.00 0.00 2.69
1849 2029 4.929808 CAGCTCCGATACAACTAAAACTGT 59.070 41.667 0.00 0.00 0.00 3.55
1851 2031 4.689345 GCTCCGATACAACTAAAACTGTGT 59.311 41.667 0.00 0.00 0.00 3.72
1857 2037 7.069569 CGATACAACTAAAACTGTGTGGAAAG 58.930 38.462 0.00 0.00 0.00 2.62
1859 2039 4.461081 ACAACTAAAACTGTGTGGAAAGCA 59.539 37.500 0.00 0.00 0.00 3.91
1879 2059 3.328505 CATTCACAAATGCCAACCCTTC 58.671 45.455 0.00 0.00 36.15 3.46
1880 2060 0.958091 TCACAAATGCCAACCCTTCG 59.042 50.000 0.00 0.00 0.00 3.79
1881 2061 0.038343 CACAAATGCCAACCCTTCGG 60.038 55.000 0.00 0.00 0.00 4.30
1904 2084 0.782384 AACGTTCGTCGCTTAGCTTG 59.218 50.000 1.76 0.00 44.19 4.01
1907 2087 0.714439 GTTCGTCGCTTAGCTTGTCC 59.286 55.000 1.76 0.00 0.00 4.02
2052 2343 5.509498 TGAGGGCTGCTAATTAAGAATGTT 58.491 37.500 0.00 0.00 0.00 2.71
2101 2392 5.021458 AGTTTGATTCCTGCATCTGGAAAT 58.979 37.500 9.72 0.23 42.90 2.17
2145 2439 5.970317 ATCTCATGTTTCACAGAATTGCA 57.030 34.783 0.00 0.00 0.00 4.08
2169 2463 3.318017 ACATAGCGGAACAAGCGATATC 58.682 45.455 0.00 0.00 40.04 1.63
2171 2465 0.753262 AGCGGAACAAGCGATATCCT 59.247 50.000 0.00 0.00 40.04 3.24
2251 2548 4.673441 AGAACGAGTAATCGAATCCACTG 58.327 43.478 20.67 0.00 36.85 3.66
2257 2562 5.220989 CGAGTAATCGAATCCACTGGTAGAA 60.221 44.000 6.77 0.00 34.64 2.10
2276 2581 2.275748 GGAAGGGGTAAGCAGGCC 59.724 66.667 0.00 0.00 0.00 5.19
2322 2635 7.097192 TCAAGTGTATGGTCAGTAATCAGTTC 58.903 38.462 0.00 0.00 0.00 3.01
2323 2636 6.859112 AGTGTATGGTCAGTAATCAGTTCT 57.141 37.500 0.00 0.00 0.00 3.01
2432 2745 2.887152 GAGATTTTTCACCACCTGTGCT 59.113 45.455 0.00 0.00 45.03 4.40
2463 2776 3.075884 TCGTGCCTACCCAAATAACAAC 58.924 45.455 0.00 0.00 0.00 3.32
2468 2781 3.672241 GCCTACCCAAATAACAACGCTTG 60.672 47.826 0.00 0.00 0.00 4.01
2495 2808 3.872696 TCAAACTGAGCACAACTCTGAA 58.127 40.909 6.58 0.00 46.41 3.02
2502 2815 4.198530 TGAGCACAACTCTGAACATTTCA 58.801 39.130 0.00 0.00 46.41 2.69
2531 2844 5.959618 AGTGTAAGATTTACCAAACAGGC 57.040 39.130 0.00 0.00 43.14 4.85
2571 2884 6.114187 AGAGACAATCTGTGTTGGAACATA 57.886 37.500 0.00 0.00 41.96 2.29
2572 2885 6.715280 AGAGACAATCTGTGTTGGAACATAT 58.285 36.000 0.00 0.00 41.96 1.78
2586 2912 1.185315 ACATATGGGTTGGCAACTGC 58.815 50.000 27.77 13.51 41.14 4.40
2637 2963 2.797156 CTGTCACAAGAACGAACCTCAG 59.203 50.000 0.00 0.00 0.00 3.35
2663 2989 6.889301 TCATGTGAGAGAAGCAAGAAATTT 57.111 33.333 0.00 0.00 0.00 1.82
2717 3043 5.458041 AAGCATTGACATTACTTGCAACT 57.542 34.783 0.00 0.00 35.79 3.16
2727 3053 6.296026 ACATTACTTGCAACTAGAACCAAGA 58.704 36.000 19.88 6.51 38.37 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
104 105 1.338973 CCTTGCAGACACAAAGCATGT 59.661 47.619 0.00 0.00 45.34 3.21
130 131 5.460091 CACAAATGAGACGACGATGATACAT 59.540 40.000 0.00 0.00 0.00 2.29
150 151 1.666011 GACGAGGAGGACTGCACAA 59.334 57.895 0.00 0.00 0.00 3.33
151 152 2.626780 CGACGAGGAGGACTGCACA 61.627 63.158 0.00 0.00 0.00 4.57
172 185 0.608130 ACAAGCACTATGCCGAGTCA 59.392 50.000 0.00 0.00 46.52 3.41
178 191 5.869888 GGAGTACATATACAAGCACTATGCC 59.130 44.000 0.00 0.00 37.70 4.40
204 217 6.271488 TCTTTTAAGCAATGGGTTCAGATG 57.729 37.500 0.00 0.00 35.99 2.90
212 225 3.831911 TGTCCCTTCTTTTAAGCAATGGG 59.168 43.478 0.00 0.00 34.98 4.00
243 259 0.179004 TTCCGGTGAAATGCCTGTGT 60.179 50.000 0.00 0.00 0.00 3.72
247 268 1.613437 CAACTTTCCGGTGAAATGCCT 59.387 47.619 0.00 0.00 39.65 4.75
270 291 2.050144 CCTACCATACTCACCATGCCT 58.950 52.381 0.00 0.00 0.00 4.75
316 338 0.396435 TTGCCGTTCCACACATCTCT 59.604 50.000 0.00 0.00 0.00 3.10
320 342 2.258013 CCGTTGCCGTTCCACACAT 61.258 57.895 0.00 0.00 0.00 3.21
321 343 2.897846 CCGTTGCCGTTCCACACA 60.898 61.111 0.00 0.00 0.00 3.72
334 359 2.262915 CGCTGCTTCTCCTCCGTT 59.737 61.111 0.00 0.00 0.00 4.44
382 407 0.934496 TGCCGAAACTCAACAAGTCG 59.066 50.000 0.00 0.00 37.17 4.18
428 453 2.106938 CTATCGCCGCTGCTCCAA 59.893 61.111 0.00 0.00 34.43 3.53
444 470 4.633565 CGCTCCTTCTATTTTTCTCTTGCT 59.366 41.667 0.00 0.00 0.00 3.91
501 530 4.020662 GCCTACCCAAAATCCATCAAAACA 60.021 41.667 0.00 0.00 0.00 2.83
526 555 3.859221 TCGAACTTCGACACCCCA 58.141 55.556 9.86 0.00 44.82 4.96
590 623 4.552767 CGAATGCAGTTTTTCTCGTGAACT 60.553 41.667 0.00 0.00 34.14 3.01
693 726 2.279173 ACCTTAGGGCATCTCCAAAGT 58.721 47.619 2.32 0.00 36.21 2.66
740 773 0.914417 CAGGGGTAGCCCTCCTTTGA 60.914 60.000 30.13 0.00 44.66 2.69
752 785 2.602676 GCAGGTGAAGGCAGGGGTA 61.603 63.158 0.00 0.00 0.00 3.69
766 799 1.610522 CTCACCACTTTTGAAGGCAGG 59.389 52.381 0.00 0.00 0.00 4.85
767 800 2.551459 CTCTCACCACTTTTGAAGGCAG 59.449 50.000 0.00 0.00 0.00 4.85
768 801 2.575532 CTCTCACCACTTTTGAAGGCA 58.424 47.619 0.00 0.00 0.00 4.75
769 802 1.882623 CCTCTCACCACTTTTGAAGGC 59.117 52.381 0.00 0.00 0.00 4.35
770 803 2.880890 CACCTCTCACCACTTTTGAAGG 59.119 50.000 0.00 0.00 32.19 3.46
771 804 2.291741 GCACCTCTCACCACTTTTGAAG 59.708 50.000 0.00 0.00 0.00 3.02
772 805 2.297701 GCACCTCTCACCACTTTTGAA 58.702 47.619 0.00 0.00 0.00 2.69
773 806 1.476833 GGCACCTCTCACCACTTTTGA 60.477 52.381 0.00 0.00 0.00 2.69
774 807 0.954452 GGCACCTCTCACCACTTTTG 59.046 55.000 0.00 0.00 0.00 2.44
775 808 3.421567 GGCACCTCTCACCACTTTT 57.578 52.632 0.00 0.00 0.00 2.27
858 891 1.134159 GCAACTGATCTGAGGCTCCAT 60.134 52.381 12.86 3.73 0.00 3.41
859 892 0.251354 GCAACTGATCTGAGGCTCCA 59.749 55.000 12.86 1.28 0.00 3.86
860 893 0.251354 TGCAACTGATCTGAGGCTCC 59.749 55.000 12.86 0.00 0.00 4.70
864 897 2.014857 CCATGTGCAACTGATCTGAGG 58.985 52.381 6.60 0.00 38.04 3.86
869 902 1.474077 GTTCCCCATGTGCAACTGATC 59.526 52.381 0.00 0.00 38.04 2.92
870 903 1.203038 TGTTCCCCATGTGCAACTGAT 60.203 47.619 0.00 0.00 38.04 2.90
897 930 3.546020 GCATGTCGCGTGTATTATTGCTT 60.546 43.478 5.77 0.00 0.00 3.91
925 958 0.744771 GGTCGACTTGAGGGAATGGC 60.745 60.000 16.46 0.00 0.00 4.40
949 983 2.877360 TAGCATCGGACGCGACAACC 62.877 60.000 15.93 9.70 0.00 3.77
954 988 4.573607 AGTTATATATAGCATCGGACGCGA 59.426 41.667 15.93 0.00 0.00 5.87
964 998 4.350245 AGGCCGTGGAGTTATATATAGCA 58.650 43.478 9.02 0.00 0.00 3.49
983 1018 1.752694 TTGCTAATGGCGGGAAGGC 60.753 57.895 0.00 0.00 45.43 4.35
999 1034 3.067883 TGTGGTGTTGATCATTGTGGTTG 59.932 43.478 0.00 0.00 0.00 3.77
1000 1035 3.295093 TGTGGTGTTGATCATTGTGGTT 58.705 40.909 0.00 0.00 0.00 3.67
1004 1039 7.523293 TTCTTTATGTGGTGTTGATCATTGT 57.477 32.000 0.00 0.00 0.00 2.71
1019 1054 6.326375 TGTTGCACGAAGTTTTTCTTTATGT 58.674 32.000 0.00 0.00 41.61 2.29
1058 1094 4.379243 CGACTCGCAAGCCCTGGT 62.379 66.667 0.00 0.00 37.18 4.00
1091 1127 1.666023 CGACGTAGCAGAACTCTTGCA 60.666 52.381 0.00 0.00 0.00 4.08
1095 1131 0.322277 TCCCGACGTAGCAGAACTCT 60.322 55.000 0.00 0.00 0.00 3.24
1224 1260 2.276116 GGCCTCGAGGGATCGCATA 61.276 63.158 32.06 0.00 37.23 3.14
1329 1365 1.383664 CATCTCCTCCAGCTCCCCA 60.384 63.158 0.00 0.00 0.00 4.96
1448 1484 4.155733 CGTACCAGCCGCCCATGA 62.156 66.667 0.00 0.00 0.00 3.07
1550 1586 4.778143 GGCACAGGGGGCTGTACG 62.778 72.222 0.00 0.00 35.56 3.67
1620 1661 8.559536 CAGCTCAACTTGTCTTTCATAAGTTTA 58.440 33.333 0.00 0.00 41.30 2.01
1638 1679 3.360249 AGAACAAATGCACAGCTCAAC 57.640 42.857 0.00 0.00 0.00 3.18
1676 1821 2.159085 CCGGTCACAAGATAAGAGGGTC 60.159 54.545 0.00 0.00 0.00 4.46
1677 1822 1.831736 CCGGTCACAAGATAAGAGGGT 59.168 52.381 0.00 0.00 0.00 4.34
1678 1823 1.139058 CCCGGTCACAAGATAAGAGGG 59.861 57.143 0.00 0.00 0.00 4.30
1679 1824 1.139058 CCCCGGTCACAAGATAAGAGG 59.861 57.143 0.00 0.00 0.00 3.69
1689 1845 1.710996 AAATGTCACCCCCGGTCACA 61.711 55.000 0.00 0.00 41.68 3.58
1778 1958 4.537135 TTTCTAGGCAGATCGACAGTTT 57.463 40.909 0.00 0.00 0.00 2.66
1786 1966 4.991056 TGCACGATATTTTCTAGGCAGATC 59.009 41.667 0.00 0.00 0.00 2.75
1859 2039 2.029110 CGAAGGGTTGGCATTTGTGAAT 60.029 45.455 0.00 0.00 0.00 2.57
1896 2076 4.201970 TGTTTTCCAAACGGACAAGCTAAG 60.202 41.667 0.00 0.00 30.04 2.18
1904 2084 5.980715 ACATGTATTTGTTTTCCAAACGGAC 59.019 36.000 0.00 0.00 45.43 4.79
1907 2087 9.626332 GTTTTACATGTATTTGTTTTCCAAACG 57.374 29.630 6.36 0.00 45.43 3.60
2052 2343 4.065088 GCCTATGAAATCGCAGTTCCATA 58.935 43.478 0.00 0.00 0.00 2.74
2136 2430 3.457234 TCCGCTATGTACTGCAATTCTG 58.543 45.455 0.00 0.00 0.00 3.02
2139 2433 3.605634 TGTTCCGCTATGTACTGCAATT 58.394 40.909 0.00 0.00 0.00 2.32
2145 2439 1.475280 TCGCTTGTTCCGCTATGTACT 59.525 47.619 0.00 0.00 0.00 2.73
2169 2463 5.139435 TCATGAGAGTCACACACTTTAGG 57.861 43.478 0.00 0.00 34.41 2.69
2171 2465 6.161855 ACTTCATGAGAGTCACACACTTTA 57.838 37.500 0.00 0.00 34.41 1.85
2219 2516 6.946165 TCGATTACTCGTTCTCATTACTCTC 58.054 40.000 2.20 0.00 45.25 3.20
2251 2548 1.489649 GCTTACCCCTTCCCTTCTACC 59.510 57.143 0.00 0.00 0.00 3.18
2257 2562 2.309504 GCCTGCTTACCCCTTCCCT 61.310 63.158 0.00 0.00 0.00 4.20
2276 2581 4.022589 TGAGTACAAGTTGGTTCTAGGTCG 60.023 45.833 7.96 0.00 0.00 4.79
2365 2678 3.809832 TCTAAGCTGCAATAATCTTCGCC 59.190 43.478 1.02 0.00 0.00 5.54
2396 2709 6.885918 TGAAAAATCTCTGATGTGGCAATAGA 59.114 34.615 0.00 0.00 0.00 1.98
2403 2716 4.082571 GGTGGTGAAAAATCTCTGATGTGG 60.083 45.833 0.00 0.00 0.00 4.17
2463 2776 3.002246 TGCTCAGTTTGAACTTACAAGCG 59.998 43.478 0.00 0.00 37.08 4.68
2468 2781 5.294552 AGAGTTGTGCTCAGTTTGAACTTAC 59.705 40.000 0.00 0.00 46.47 2.34
2502 2815 8.867097 TGTTTGGTAAATCTTACACTAGTCTCT 58.133 33.333 0.00 0.00 0.00 3.10
2510 2823 5.959618 AGCCTGTTTGGTAAATCTTACAC 57.040 39.130 0.00 0.00 38.35 2.90
2586 2912 4.758674 CCTATTGATTCATGCTGTACCTGG 59.241 45.833 0.00 0.00 0.00 4.45
2637 2963 5.679734 TTCTTGCTTCTCTCACATGAAAC 57.320 39.130 0.00 0.00 0.00 2.78
2663 2989 5.843969 TCCTTCTGGATGTTGCAGGTATATA 59.156 40.000 0.00 0.00 36.40 0.86
2697 3023 6.182039 TCTAGTTGCAAGTAATGTCAATGC 57.818 37.500 14.73 0.00 37.52 3.56


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

AutoCloner maintained by Alex Coulton.