Multiple sequence alignment - TraesCS1B01G032000

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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 TraesCS1B01G032000 chr1B 100.000 2621 0 0 1 2621 15577829 15580449 0.000000e+00 4841
1 TraesCS1B01G032000 chr1B 95.091 2078 89 9 77 2147 15526821 15528892 0.000000e+00 3260
2 TraesCS1B01G032000 chr1B 93.644 472 29 1 2150 2621 15528992 15529462 0.000000e+00 704
3 TraesCS1B01G032000 chr1B 78.398 986 185 21 639 1610 567726542 567725571 1.330000e-172 616
4 TraesCS1B01G032000 chr6D 80.260 922 169 13 681 1597 468168677 468167764 0.000000e+00 682
5 TraesCS1B01G032000 chrUn 82.443 786 129 8 812 1594 79679509 79678730 0.000000e+00 678
6 TraesCS1B01G032000 chrUn 79.718 922 171 14 681 1597 346081626 346080716 0.000000e+00 652
7 TraesCS1B01G032000 chrUn 78.953 917 177 16 691 1599 288956545 288955637 6.200000e-171 610
8 TraesCS1B01G032000 chr6B 79.649 968 177 19 639 1597 714340680 714339724 0.000000e+00 678
9 TraesCS1B01G032000 chr4A 78.476 971 189 20 639 1599 714901410 714902370 3.710000e-173 617
10 TraesCS1B01G032000 chr2B 78.392 958 187 18 639 1586 755628794 755629741 2.890000e-169 604
11 TraesCS1B01G032000 chr3B 81.579 190 29 5 2149 2334 581665997 581666184 4.520000e-33 152
12 TraesCS1B01G032000 chr3D 80.711 197 32 6 2149 2340 443632406 443632601 5.840000e-32 148
13 TraesCS1B01G032000 chr2A 78.218 202 31 8 2187 2375 619753672 619753471 1.650000e-22 117


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 TraesCS1B01G032000 chr1B 15577829 15580449 2620 False 4841 4841 100.0000 1 2621 1 chr1B.!!$F1 2620
1 TraesCS1B01G032000 chr1B 15526821 15529462 2641 False 1982 3260 94.3675 77 2621 2 chr1B.!!$F2 2544
2 TraesCS1B01G032000 chr1B 567725571 567726542 971 True 616 616 78.3980 639 1610 1 chr1B.!!$R1 971
3 TraesCS1B01G032000 chr6D 468167764 468168677 913 True 682 682 80.2600 681 1597 1 chr6D.!!$R1 916
4 TraesCS1B01G032000 chrUn 79678730 79679509 779 True 678 678 82.4430 812 1594 1 chrUn.!!$R1 782
5 TraesCS1B01G032000 chrUn 346080716 346081626 910 True 652 652 79.7180 681 1597 1 chrUn.!!$R3 916
6 TraesCS1B01G032000 chrUn 288955637 288956545 908 True 610 610 78.9530 691 1599 1 chrUn.!!$R2 908
7 TraesCS1B01G032000 chr6B 714339724 714340680 956 True 678 678 79.6490 639 1597 1 chr6B.!!$R1 958
8 TraesCS1B01G032000 chr4A 714901410 714902370 960 False 617 617 78.4760 639 1599 1 chr4A.!!$F1 960
9 TraesCS1B01G032000 chr2B 755628794 755629741 947 False 604 604 78.3920 639 1586 1 chr2B.!!$F1 947

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
906 910 0.853419 GCGGTAATGCGCTAGAGAAC 59.147 55.0 9.73 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1759 1768 0.10412 AAGGAAAAAGTTGCCACGCC 59.896 50.0 0.0 0.0 0.0 5.68 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
55 56 8.506168 TTTGTTGGACATTATCAAGATAGACC 57.494 34.615 0.00 0.00 0.00 3.85
56 57 7.437713 TGTTGGACATTATCAAGATAGACCT 57.562 36.000 0.00 0.00 0.00 3.85
57 58 7.500992 TGTTGGACATTATCAAGATAGACCTC 58.499 38.462 0.00 0.00 0.00 3.85
58 59 6.672266 TGGACATTATCAAGATAGACCTCC 57.328 41.667 0.00 0.00 0.00 4.30
59 60 6.385443 TGGACATTATCAAGATAGACCTCCT 58.615 40.000 0.00 0.00 0.00 3.69
60 61 6.846505 TGGACATTATCAAGATAGACCTCCTT 59.153 38.462 0.00 0.00 0.00 3.36
61 62 7.015682 TGGACATTATCAAGATAGACCTCCTTC 59.984 40.741 0.00 0.00 0.00 3.46
62 63 7.015682 GGACATTATCAAGATAGACCTCCTTCA 59.984 40.741 0.00 0.00 0.00 3.02
63 64 7.731054 ACATTATCAAGATAGACCTCCTTCAC 58.269 38.462 0.00 0.00 0.00 3.18
64 65 4.927978 ATCAAGATAGACCTCCTTCACG 57.072 45.455 0.00 0.00 0.00 4.35
65 66 3.964411 TCAAGATAGACCTCCTTCACGA 58.036 45.455 0.00 0.00 0.00 4.35
66 67 4.537751 TCAAGATAGACCTCCTTCACGAT 58.462 43.478 0.00 0.00 0.00 3.73
67 68 4.339530 TCAAGATAGACCTCCTTCACGATG 59.660 45.833 0.00 0.00 0.00 3.84
68 69 3.904717 AGATAGACCTCCTTCACGATGT 58.095 45.455 0.00 0.00 0.00 3.06
69 70 5.050126 AGATAGACCTCCTTCACGATGTA 57.950 43.478 0.00 0.00 0.00 2.29
70 71 5.636123 AGATAGACCTCCTTCACGATGTAT 58.364 41.667 0.00 0.00 0.00 2.29
71 72 5.708230 AGATAGACCTCCTTCACGATGTATC 59.292 44.000 0.00 0.00 0.00 2.24
72 73 3.632333 AGACCTCCTTCACGATGTATCA 58.368 45.455 0.00 0.00 0.00 2.15
73 74 4.023980 AGACCTCCTTCACGATGTATCAA 58.976 43.478 0.00 0.00 0.00 2.57
74 75 4.098654 AGACCTCCTTCACGATGTATCAAG 59.901 45.833 0.00 0.00 0.00 3.02
75 76 3.769844 ACCTCCTTCACGATGTATCAAGT 59.230 43.478 0.00 0.00 0.00 3.16
239 240 3.048600 ACCTTCAGCCTATGATAAGCCA 58.951 45.455 0.00 0.00 37.89 4.75
247 248 8.150827 TCAGCCTATGATAAGCCATTACTAAT 57.849 34.615 0.00 0.00 31.12 1.73
278 279 7.570324 GCTGTCGAATGAAGAAATATAGGCTTC 60.570 40.741 0.00 0.00 38.73 3.86
384 386 5.941948 ATTTGTTAGTTCATATAGCCCGC 57.058 39.130 0.00 0.00 0.00 6.13
541 543 8.251026 ACTTTTTCTTCCCAGTTTCTAGTTTTG 58.749 33.333 0.00 0.00 0.00 2.44
547 549 5.935945 TCCCAGTTTCTAGTTTTGTCATCA 58.064 37.500 0.00 0.00 0.00 3.07
586 588 7.081349 TGCTTTTATATCCACAACAGAAAACG 58.919 34.615 0.00 0.00 0.00 3.60
605 607 7.385752 AGAAAACGAATGTTCATTTACGACCTA 59.614 33.333 11.55 0.00 37.31 3.08
733 736 3.418047 CTTTACCGAAAGAATGGTGGGT 58.582 45.455 0.00 0.00 44.23 4.51
808 812 6.332735 AGCCAATCTTGAAGAGTAAAAACC 57.667 37.500 0.00 0.00 0.00 3.27
876 880 7.517614 TGATAATAAACTGGTTGCAGTGAAA 57.482 32.000 0.00 0.00 35.30 2.69
906 910 0.853419 GCGGTAATGCGCTAGAGAAC 59.147 55.000 9.73 0.00 0.00 3.01
1040 1044 3.238597 TCCCAAAAGGAAACCTTGATGG 58.761 45.455 19.74 19.74 43.92 3.51
1108 1115 4.031028 GCGTTTAAGTATTGCTGCATCAG 58.969 43.478 1.84 0.00 34.12 2.90
1138 1145 5.756195 TGGTCTTGCTTATATGCATTCAC 57.244 39.130 13.50 10.16 42.96 3.18
1179 1187 1.095228 ATGGTGATGTTAAGCCGGCG 61.095 55.000 23.20 0.00 0.00 6.46
1605 1614 1.202382 CGCCTTCTCCTACTAAACCGG 60.202 57.143 0.00 0.00 0.00 5.28
1616 1625 4.277921 CCTACTAAACCGGTCTCATAGGAC 59.722 50.000 21.90 0.00 31.37 3.85
1617 1626 3.705051 ACTAAACCGGTCTCATAGGACA 58.295 45.455 8.04 0.00 37.91 4.02
1646 1655 6.925610 TGCTAGTAACTTAATGCCAATCAG 57.074 37.500 0.00 0.00 0.00 2.90
1757 1766 2.436824 GGGCGTTCTCTCCCTTGC 60.437 66.667 0.00 0.00 39.46 4.01
1758 1767 2.815647 GGCGTTCTCTCCCTTGCG 60.816 66.667 0.00 0.00 0.00 4.85
1759 1768 2.815647 GCGTTCTCTCCCTTGCGG 60.816 66.667 0.00 0.00 0.00 5.69
1776 1786 1.300620 GGGCGTGGCAACTTTTTCC 60.301 57.895 0.00 0.00 37.61 3.13
1787 1797 6.811665 GTGGCAACTTTTTCCTTATTGTATCC 59.188 38.462 0.00 0.00 37.61 2.59
1836 1846 2.791004 GTGACAAAACGTACGTGCTACT 59.209 45.455 23.57 2.02 0.00 2.57
1849 1859 7.330208 ACGTACGTGCTACTTAATCAAATTCTT 59.670 33.333 22.14 0.00 0.00 2.52
1850 1860 7.839837 CGTACGTGCTACTTAATCAAATTCTTC 59.160 37.037 7.22 0.00 0.00 2.87
1876 1886 0.389296 TGTGGACACGTGCCTTATCG 60.389 55.000 23.38 0.00 0.00 2.92
1885 1895 1.202533 CGTGCCTTATCGGTCATTCCT 60.203 52.381 0.00 0.00 34.25 3.36
1893 1903 2.559698 TCGGTCATTCCTGCTTTTCA 57.440 45.000 0.00 0.00 0.00 2.69
1971 1981 1.065102 CATCTAGCAAGCAAAGCGCAT 59.935 47.619 11.47 0.00 46.13 4.73
2102 2113 4.614475 TGAATCTAGGTGAGATGGACACT 58.386 43.478 0.00 0.00 44.68 3.55
2176 2284 7.040823 GCCTATAATTTAGCATCTCATATGCCC 60.041 40.741 6.36 0.00 45.59 5.36
2215 2323 7.811117 TCCTTAAATTTGAGGAGTCGAAAAA 57.189 32.000 23.93 2.92 37.96 1.94
2253 2361 7.673926 AGCCAAATTCTTAAATTCAACTCCCTA 59.326 33.333 0.00 0.00 33.93 3.53
2312 2420 8.928733 ACAATTTGATTCAAACTACATTGCATC 58.071 29.630 13.80 0.00 36.13 3.91
2330 2438 9.961266 CATTGCATCACACAAATTTAAACATAG 57.039 29.630 0.00 0.00 0.00 2.23
2443 2551 4.260212 CGATGTTGTCGTCAAAGTCTTTGT 60.260 41.667 21.81 2.62 45.19 2.83
2444 2552 5.560966 ATGTTGTCGTCAAAGTCTTTGTT 57.439 34.783 21.81 0.00 41.36 2.83
2447 2555 4.593597 TGTCGTCAAAGTCTTTGTTGTC 57.406 40.909 21.81 14.22 41.36 3.18
2450 2558 3.680937 TCGTCAAAGTCTTTGTTGTCGTT 59.319 39.130 21.81 0.00 41.36 3.85
2457 2565 0.591170 CTTTGTTGTCGTTGCCGGAT 59.409 50.000 5.05 0.00 33.95 4.18
2487 2595 2.669364 GGTTCGCTAAGAAACAGACGA 58.331 47.619 0.00 0.00 45.67 4.20
2499 2607 1.079127 CAGACGATCACCACCCCAC 60.079 63.158 0.00 0.00 0.00 4.61
2500 2608 2.267961 GACGATCACCACCCCACC 59.732 66.667 0.00 0.00 0.00 4.61
2553 2661 3.329542 TTGGTCTCATCGGCAGCCC 62.330 63.158 5.63 0.00 0.00 5.19
2570 2678 1.073284 GCCCCCTTCTTGTACAACTCA 59.927 52.381 3.59 0.00 0.00 3.41
2609 2717 2.417719 GCGATAAGCTCCGGATGATTT 58.582 47.619 3.57 0.00 44.04 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 9.125026 GGTCTATCTTGATAATGTCCAACAAAT 57.875 33.333 0.00 0.00 0.00 2.32
30 31 8.328758 AGGTCTATCTTGATAATGTCCAACAAA 58.671 33.333 0.00 0.00 0.00 2.83
31 32 7.861629 AGGTCTATCTTGATAATGTCCAACAA 58.138 34.615 0.00 0.00 0.00 2.83
32 33 7.419057 GGAGGTCTATCTTGATAATGTCCAACA 60.419 40.741 0.00 0.00 0.00 3.33
33 34 6.931840 GGAGGTCTATCTTGATAATGTCCAAC 59.068 42.308 0.00 0.00 0.00 3.77
34 35 6.846505 AGGAGGTCTATCTTGATAATGTCCAA 59.153 38.462 0.00 0.00 0.00 3.53
35 36 6.385443 AGGAGGTCTATCTTGATAATGTCCA 58.615 40.000 0.00 0.00 0.00 4.02
36 37 6.926630 AGGAGGTCTATCTTGATAATGTCC 57.073 41.667 0.00 0.00 0.00 4.02
37 38 7.870445 GTGAAGGAGGTCTATCTTGATAATGTC 59.130 40.741 0.00 0.00 0.00 3.06
38 39 7.470702 CGTGAAGGAGGTCTATCTTGATAATGT 60.471 40.741 0.00 0.00 0.00 2.71
39 40 6.865726 CGTGAAGGAGGTCTATCTTGATAATG 59.134 42.308 0.00 0.00 0.00 1.90
40 41 6.778069 TCGTGAAGGAGGTCTATCTTGATAAT 59.222 38.462 0.00 0.00 0.00 1.28
41 42 6.127101 TCGTGAAGGAGGTCTATCTTGATAA 58.873 40.000 0.00 0.00 0.00 1.75
42 43 5.691896 TCGTGAAGGAGGTCTATCTTGATA 58.308 41.667 0.00 0.00 0.00 2.15
43 44 4.537751 TCGTGAAGGAGGTCTATCTTGAT 58.462 43.478 0.00 0.00 0.00 2.57
44 45 3.964411 TCGTGAAGGAGGTCTATCTTGA 58.036 45.455 0.00 0.00 0.00 3.02
45 46 4.098654 ACATCGTGAAGGAGGTCTATCTTG 59.901 45.833 0.00 0.00 0.00 3.02
46 47 4.282496 ACATCGTGAAGGAGGTCTATCTT 58.718 43.478 0.00 0.00 0.00 2.40
47 48 3.904717 ACATCGTGAAGGAGGTCTATCT 58.095 45.455 0.00 0.00 0.00 1.98
48 49 5.473846 TGATACATCGTGAAGGAGGTCTATC 59.526 44.000 0.00 0.00 32.55 2.08
49 50 5.386060 TGATACATCGTGAAGGAGGTCTAT 58.614 41.667 0.00 0.00 32.55 1.98
50 51 4.788679 TGATACATCGTGAAGGAGGTCTA 58.211 43.478 0.00 0.00 32.55 2.59
51 52 3.632333 TGATACATCGTGAAGGAGGTCT 58.368 45.455 0.00 0.00 32.55 3.85
52 53 4.142138 ACTTGATACATCGTGAAGGAGGTC 60.142 45.833 0.00 0.00 32.55 3.85
53 54 3.769844 ACTTGATACATCGTGAAGGAGGT 59.230 43.478 0.00 0.00 34.91 3.85
54 55 4.115516 CACTTGATACATCGTGAAGGAGG 58.884 47.826 0.00 0.00 0.00 4.30
55 56 3.553511 GCACTTGATACATCGTGAAGGAG 59.446 47.826 0.00 0.00 0.00 3.69
56 57 3.521560 GCACTTGATACATCGTGAAGGA 58.478 45.455 0.00 0.00 0.00 3.36
57 58 2.609459 GGCACTTGATACATCGTGAAGG 59.391 50.000 0.00 0.00 0.00 3.46
58 59 3.261580 TGGCACTTGATACATCGTGAAG 58.738 45.455 0.00 0.00 0.00 3.02
59 60 3.261580 CTGGCACTTGATACATCGTGAA 58.738 45.455 0.00 0.00 0.00 3.18
60 61 2.892374 CTGGCACTTGATACATCGTGA 58.108 47.619 0.00 0.00 0.00 4.35
61 62 1.328680 GCTGGCACTTGATACATCGTG 59.671 52.381 0.00 0.00 0.00 4.35
62 63 1.208052 AGCTGGCACTTGATACATCGT 59.792 47.619 0.00 0.00 0.00 3.73
63 64 1.596260 CAGCTGGCACTTGATACATCG 59.404 52.381 5.57 0.00 0.00 3.84
64 65 2.611292 GACAGCTGGCACTTGATACATC 59.389 50.000 16.81 0.00 0.00 3.06
65 66 2.026915 TGACAGCTGGCACTTGATACAT 60.027 45.455 21.20 0.00 0.00 2.29
66 67 1.347378 TGACAGCTGGCACTTGATACA 59.653 47.619 21.20 0.00 0.00 2.29
67 68 2.005451 CTGACAGCTGGCACTTGATAC 58.995 52.381 21.20 0.00 0.00 2.24
68 69 1.901833 TCTGACAGCTGGCACTTGATA 59.098 47.619 21.20 0.00 0.00 2.15
69 70 0.689055 TCTGACAGCTGGCACTTGAT 59.311 50.000 21.20 0.00 0.00 2.57
70 71 0.469494 TTCTGACAGCTGGCACTTGA 59.531 50.000 21.20 12.60 0.00 3.02
71 72 1.311859 TTTCTGACAGCTGGCACTTG 58.688 50.000 21.20 9.95 0.00 3.16
72 73 2.283145 ATTTCTGACAGCTGGCACTT 57.717 45.000 21.20 0.00 0.00 3.16
73 74 1.884579 CAATTTCTGACAGCTGGCACT 59.115 47.619 21.20 0.04 0.00 4.40
74 75 1.668047 GCAATTTCTGACAGCTGGCAC 60.668 52.381 21.20 9.54 0.00 5.01
75 76 0.599558 GCAATTTCTGACAGCTGGCA 59.400 50.000 23.77 23.77 0.00 4.92
150 151 6.367983 AGTATATGTTTCCATGACAGCCAAT 58.632 36.000 0.00 0.00 32.29 3.16
239 240 9.900710 CTTCATTCGACAGCTACTATTAGTAAT 57.099 33.333 5.13 0.17 29.00 1.89
254 255 7.500992 AGAAGCCTATATTTCTTCATTCGACA 58.499 34.615 11.40 0.00 38.83 4.35
255 256 7.954788 AGAAGCCTATATTTCTTCATTCGAC 57.045 36.000 11.40 0.00 38.83 4.20
366 368 4.213482 CCAAAGCGGGCTATATGAACTAAC 59.787 45.833 0.00 0.00 0.00 2.34
514 516 6.944234 ACTAGAAACTGGGAAGAAAAAGTG 57.056 37.500 0.00 0.00 0.00 3.16
517 519 8.129496 ACAAAACTAGAAACTGGGAAGAAAAA 57.871 30.769 0.00 0.00 0.00 1.94
518 520 7.394923 TGACAAAACTAGAAACTGGGAAGAAAA 59.605 33.333 0.00 0.00 0.00 2.29
527 529 8.562892 AGTGATTGATGACAAAACTAGAAACTG 58.437 33.333 0.00 0.00 39.54 3.16
541 543 4.634883 AGCAAGACATGAGTGATTGATGAC 59.365 41.667 0.00 0.00 31.64 3.06
547 549 8.844244 GGATATAAAAGCAAGACATGAGTGATT 58.156 33.333 0.00 0.00 0.00 2.57
586 588 7.591006 TGAGTTAGGTCGTAAATGAACATTC 57.409 36.000 0.45 0.00 0.00 2.67
605 607 6.127647 TGCACAGAGAACAATCTTTTTGAGTT 60.128 34.615 0.00 0.00 35.54 3.01
808 812 7.947282 TCACCAAAGTAACCTTTTCCAATTAG 58.053 34.615 0.00 0.00 38.87 1.73
876 880 2.415357 CGCATTACCGCTGATTGGTTTT 60.415 45.455 0.00 0.00 40.96 2.43
888 892 1.121240 CGTTCTCTAGCGCATTACCG 58.879 55.000 11.47 0.00 0.00 4.02
893 897 2.363788 TTGTTCGTTCTCTAGCGCAT 57.636 45.000 11.47 0.00 0.00 4.73
906 910 4.297510 TGACTTCATTGGCAAATTGTTCG 58.702 39.130 3.01 0.00 0.00 3.95
1040 1044 5.912955 GCCTTGTTGTTGTTGTGAAGTATAC 59.087 40.000 0.00 0.00 0.00 1.47
1108 1115 1.742761 TAAGCAAGACCATCTGCTGC 58.257 50.000 0.00 0.00 33.43 5.25
1138 1145 6.350110 CCATGTAGGATTTTGGTACTGGTTTG 60.350 42.308 0.00 0.00 41.22 2.93
1179 1187 8.948631 TGAAGTTGTCATCCAAGAGTATATTC 57.051 34.615 0.00 0.00 32.51 1.75
1467 1475 0.438445 TCGCTGCAATTTCTTCGTCG 59.562 50.000 0.00 0.00 0.00 5.12
1491 1499 8.394121 GCCAGACTATCAAGAAGTTCTAATTTG 58.606 37.037 5.65 0.66 0.00 2.32
1605 1614 7.045126 ACTAGCAACTTATGTCCTATGAGAC 57.955 40.000 0.00 0.00 37.28 3.36
1616 1625 8.208718 TGGCATTAAGTTACTAGCAACTTATG 57.791 34.615 23.01 21.39 45.61 1.90
1617 1626 8.801882 TTGGCATTAAGTTACTAGCAACTTAT 57.198 30.769 23.01 13.54 45.61 1.73
1646 1655 5.239525 AGTTTCCTGTCTTATTTGCTCACAC 59.760 40.000 0.00 0.00 0.00 3.82
1673 1682 4.029186 ATTGCCACGCACGCACTG 62.029 61.111 0.00 0.00 38.71 3.66
1680 1689 0.672889 AACATCAACATTGCCACGCA 59.327 45.000 0.00 0.00 36.47 5.24
1728 1737 1.002502 AACGCCCCTGCTTCTAACC 60.003 57.895 0.00 0.00 34.43 2.85
1757 1766 1.660264 GAAAAAGTTGCCACGCCCG 60.660 57.895 0.00 0.00 0.00 6.13
1758 1767 1.300620 GGAAAAAGTTGCCACGCCC 60.301 57.895 0.00 0.00 0.00 6.13
1759 1768 0.104120 AAGGAAAAAGTTGCCACGCC 59.896 50.000 0.00 0.00 0.00 5.68
1760 1769 2.785713 TAAGGAAAAAGTTGCCACGC 57.214 45.000 0.00 0.00 0.00 5.34
1761 1770 4.616953 ACAATAAGGAAAAAGTTGCCACG 58.383 39.130 0.00 0.00 0.00 4.94
1762 1771 6.811665 GGATACAATAAGGAAAAAGTTGCCAC 59.188 38.462 0.00 0.00 0.00 5.01
1763 1772 6.930731 GGATACAATAAGGAAAAAGTTGCCA 58.069 36.000 0.00 0.00 0.00 4.92
1787 1797 8.980481 AAACCATAAGGATACATTAGGAGTTG 57.020 34.615 0.00 0.00 38.69 3.16
1849 1859 2.080693 GCACGTGTCCACAATAATGGA 58.919 47.619 18.38 0.00 46.92 3.41
1850 1860 1.132262 GGCACGTGTCCACAATAATGG 59.868 52.381 18.38 0.00 41.57 3.16
1865 1875 1.202533 AGGAATGACCGATAAGGCACG 60.203 52.381 0.00 0.00 46.52 5.34
1866 1876 2.213499 CAGGAATGACCGATAAGGCAC 58.787 52.381 0.00 0.00 46.52 5.01
1867 1877 1.475034 GCAGGAATGACCGATAAGGCA 60.475 52.381 0.00 0.00 46.52 4.75
1876 1886 3.256558 GCAATGAAAAGCAGGAATGACC 58.743 45.455 0.00 0.00 39.35 4.02
1885 1895 6.930164 ACATACTTGATTTGCAATGAAAAGCA 59.070 30.769 0.00 0.00 39.32 3.91
1971 1981 5.560724 ACAAAGTAATGCCAGAAAGAGCTA 58.439 37.500 0.00 0.00 0.00 3.32
2013 2023 4.286291 CCTTGTAGTTTTCCACTCCCTAGT 59.714 45.833 0.00 0.00 36.88 2.57
2117 2128 8.484214 AGAGATCCTCTTAGTGTATTTGCATA 57.516 34.615 0.00 0.00 37.60 3.14
2148 2159 9.118300 GCATATGAGATGCTAAATTATAGGCTT 57.882 33.333 6.97 0.00 41.52 4.35
2176 2284 5.441709 TTTAAGGAGTTAAAGTTTGCGGG 57.558 39.130 0.00 0.00 33.93 6.13
2215 2323 4.079253 AGAATTTGGCTACGAACCACATT 58.921 39.130 7.05 7.05 39.65 2.71
2253 2361 6.989759 AGGTTTAAATTTGTGCGGATTTCTTT 59.010 30.769 0.00 0.00 0.00 2.52
2292 2400 6.016443 TGTGTGATGCAATGTAGTTTGAATCA 60.016 34.615 4.15 4.15 45.36 2.57
2408 2516 2.352960 GACAACATCGATTGGGAGAAGC 59.647 50.000 0.00 0.00 33.63 3.86
2468 2576 3.918591 TGATCGTCTGTTTCTTAGCGAAC 59.081 43.478 0.00 0.00 31.38 3.95
2472 2580 3.368236 GTGGTGATCGTCTGTTTCTTAGC 59.632 47.826 0.00 0.00 0.00 3.09
2487 2595 1.302949 CATTCGGTGGGGTGGTGAT 59.697 57.895 0.00 0.00 0.00 3.06
2529 2637 2.892425 CGATGAGACCAAGCCGCC 60.892 66.667 0.00 0.00 0.00 6.13
2530 2638 2.892425 CCGATGAGACCAAGCCGC 60.892 66.667 0.00 0.00 0.00 6.53
2539 2647 4.804420 AGGGGGCTGCCGATGAGA 62.804 66.667 13.40 0.00 0.00 3.27
2553 2661 2.814336 GGCTTGAGTTGTACAAGAAGGG 59.186 50.000 8.98 1.28 44.92 3.95
2570 2678 2.345244 CAGGAGTGCTGACGGCTT 59.655 61.111 5.59 0.00 42.39 4.35


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

AutoCloner maintained by Alex Coulton.