Multiple sequence alignment - TraesCS5D01G258600

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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 TraesCS5D01G258600 chr5D 100.000 2459 0 0 1 2459 365085303 365082845 0 4542
1 TraesCS5D01G258600 chr5A 92.599 1878 91 25 84 1924 466575181 466573315 0 2654
2 TraesCS5D01G258600 chr5A 97.043 541 14 1 1921 2459 466573235 466572695 0 909
3 TraesCS5D01G258600 chr5B 95.867 1113 42 2 810 1921 431063231 431062122 0 1797
4 TraesCS5D01G258600 chr5B 95.567 564 16 3 105 663 431064160 431063601 0 894
5 TraesCS5D01G258600 chr5B 90.056 533 38 8 1920 2449 431061998 431061478 0 676


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 TraesCS5D01G258600 chr5D 365082845 365085303 2458 True 4542.000000 4542 100.000 1 2459 1 chr5D.!!$R1 2458
1 TraesCS5D01G258600 chr5A 466572695 466575181 2486 True 1781.500000 2654 94.821 84 2459 2 chr5A.!!$R1 2375
2 TraesCS5D01G258600 chr5B 431061478 431064160 2682 True 1122.333333 1797 93.830 105 2449 3 chr5B.!!$R1 2344

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
172 173 0.107017 GCTCTGGGCCTAATTGCTCA 60.107 55.0 4.53 0.0 40.07 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1544 1860 0.475906 AGGCAATAGCAGGGACCATC 59.524 55.0 0.0 0.0 44.61 3.51 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
23 24 3.819368 TCAAGCACTTTCTGATGTTCCA 58.181 40.909 0.00 0.00 0.00 3.53
24 25 4.206375 TCAAGCACTTTCTGATGTTCCAA 58.794 39.130 0.00 0.00 0.00 3.53
25 26 4.828939 TCAAGCACTTTCTGATGTTCCAAT 59.171 37.500 0.00 0.00 0.00 3.16
26 27 5.048504 TCAAGCACTTTCTGATGTTCCAATC 60.049 40.000 0.00 0.00 0.00 2.67
27 28 4.401022 AGCACTTTCTGATGTTCCAATCA 58.599 39.130 0.00 0.00 35.31 2.57
28 29 4.828939 AGCACTTTCTGATGTTCCAATCAA 59.171 37.500 0.00 0.00 36.16 2.57
29 30 4.919754 GCACTTTCTGATGTTCCAATCAAC 59.080 41.667 0.00 0.00 36.16 3.18
30 31 5.464168 CACTTTCTGATGTTCCAATCAACC 58.536 41.667 0.00 0.00 36.16 3.77
31 32 5.242393 CACTTTCTGATGTTCCAATCAACCT 59.758 40.000 0.00 0.00 36.16 3.50
32 33 5.242393 ACTTTCTGATGTTCCAATCAACCTG 59.758 40.000 0.00 0.00 36.16 4.00
33 34 4.371624 TCTGATGTTCCAATCAACCTGT 57.628 40.909 0.00 0.00 36.16 4.00
34 35 5.497464 TCTGATGTTCCAATCAACCTGTA 57.503 39.130 0.00 0.00 36.16 2.74
35 36 5.875224 TCTGATGTTCCAATCAACCTGTAA 58.125 37.500 0.00 0.00 36.16 2.41
36 37 5.705441 TCTGATGTTCCAATCAACCTGTAAC 59.295 40.000 0.00 0.00 36.16 2.50
37 38 5.380900 TGATGTTCCAATCAACCTGTAACA 58.619 37.500 0.00 0.00 33.63 2.41
38 39 6.009589 TGATGTTCCAATCAACCTGTAACAT 58.990 36.000 0.00 0.00 38.43 2.71
39 40 6.493115 TGATGTTCCAATCAACCTGTAACATT 59.507 34.615 0.00 0.00 36.50 2.71
40 41 6.723298 TGTTCCAATCAACCTGTAACATTT 57.277 33.333 0.00 0.00 0.00 2.32
41 42 6.744112 TGTTCCAATCAACCTGTAACATTTC 58.256 36.000 0.00 0.00 0.00 2.17
42 43 6.322456 TGTTCCAATCAACCTGTAACATTTCA 59.678 34.615 0.00 0.00 0.00 2.69
43 44 6.325919 TCCAATCAACCTGTAACATTTCAC 57.674 37.500 0.00 0.00 0.00 3.18
44 45 5.242838 TCCAATCAACCTGTAACATTTCACC 59.757 40.000 0.00 0.00 0.00 4.02
45 46 5.010516 CCAATCAACCTGTAACATTTCACCA 59.989 40.000 0.00 0.00 0.00 4.17
46 47 6.295236 CCAATCAACCTGTAACATTTCACCAT 60.295 38.462 0.00 0.00 0.00 3.55
47 48 7.093988 CCAATCAACCTGTAACATTTCACCATA 60.094 37.037 0.00 0.00 0.00 2.74
48 49 8.469200 CAATCAACCTGTAACATTTCACCATAT 58.531 33.333 0.00 0.00 0.00 1.78
49 50 7.624360 TCAACCTGTAACATTTCACCATATC 57.376 36.000 0.00 0.00 0.00 1.63
50 51 6.601613 TCAACCTGTAACATTTCACCATATCC 59.398 38.462 0.00 0.00 0.00 2.59
51 52 6.073447 ACCTGTAACATTTCACCATATCCA 57.927 37.500 0.00 0.00 0.00 3.41
52 53 5.885912 ACCTGTAACATTTCACCATATCCAC 59.114 40.000 0.00 0.00 0.00 4.02
53 54 5.299279 CCTGTAACATTTCACCATATCCACC 59.701 44.000 0.00 0.00 0.00 4.61
54 55 5.821097 TGTAACATTTCACCATATCCACCA 58.179 37.500 0.00 0.00 0.00 4.17
55 56 5.650266 TGTAACATTTCACCATATCCACCAC 59.350 40.000 0.00 0.00 0.00 4.16
56 57 3.278574 ACATTTCACCATATCCACCACG 58.721 45.455 0.00 0.00 0.00 4.94
57 58 2.411628 TTTCACCATATCCACCACGG 57.588 50.000 0.00 0.00 0.00 4.94
65 66 3.298958 TCCACCACGGATGCTCTC 58.701 61.111 0.00 0.00 39.64 3.20
66 67 1.609210 TCCACCACGGATGCTCTCA 60.609 57.895 0.00 0.00 39.64 3.27
67 68 1.448540 CCACCACGGATGCTCTCAC 60.449 63.158 0.00 0.00 36.56 3.51
68 69 1.448540 CACCACGGATGCTCTCACC 60.449 63.158 0.00 0.00 0.00 4.02
73 74 3.481009 CGGATGCTCTCACCGTATC 57.519 57.895 0.00 0.00 41.47 2.24
74 75 0.955178 CGGATGCTCTCACCGTATCT 59.045 55.000 0.00 0.00 41.47 1.98
75 76 1.068885 CGGATGCTCTCACCGTATCTC 60.069 57.143 0.00 0.00 41.47 2.75
76 77 1.271102 GGATGCTCTCACCGTATCTCC 59.729 57.143 0.00 0.00 0.00 3.71
77 78 1.271102 GATGCTCTCACCGTATCTCCC 59.729 57.143 0.00 0.00 0.00 4.30
78 79 0.259065 TGCTCTCACCGTATCTCCCT 59.741 55.000 0.00 0.00 0.00 4.20
79 80 0.955905 GCTCTCACCGTATCTCCCTC 59.044 60.000 0.00 0.00 0.00 4.30
80 81 1.611519 CTCTCACCGTATCTCCCTCC 58.388 60.000 0.00 0.00 0.00 4.30
81 82 0.179026 TCTCACCGTATCTCCCTCCG 60.179 60.000 0.00 0.00 0.00 4.63
82 83 1.152819 TCACCGTATCTCCCTCCGG 60.153 63.158 0.00 0.00 45.72 5.14
107 108 2.857489 GCAACAGCAGAGTTCTTGCTTG 60.857 50.000 0.00 0.00 36.69 4.01
110 111 0.892814 AGCAGAGTTCTTGCTTGCCC 60.893 55.000 0.00 0.00 35.02 5.36
126 127 2.397751 CCCAGATGGCAACGATGAC 58.602 57.895 0.00 0.00 42.51 3.06
172 173 0.107017 GCTCTGGGCCTAATTGCTCA 60.107 55.000 4.53 0.00 40.07 4.26
318 322 0.321034 GATGACAGGCAGACACAGCA 60.321 55.000 0.00 0.00 0.00 4.41
327 331 2.740055 GACACAGCAGCGACAGGG 60.740 66.667 0.00 0.00 0.00 4.45
408 412 1.877576 GCTAACCAAACCCAGGCAGC 61.878 60.000 0.00 0.00 32.51 5.25
439 449 2.907892 CATCTAATCTCCCCAGGCCTA 58.092 52.381 3.98 0.00 0.00 3.93
523 533 0.991770 GTAACACTGCGTTGCAAGCG 60.992 55.000 0.00 8.25 39.76 4.68
713 740 2.985896 ACACACCATAGCCATACACAC 58.014 47.619 0.00 0.00 0.00 3.82
765 1081 5.513788 CCCTCAACTCCTTCTGAATTCTTGA 60.514 44.000 7.05 4.88 0.00 3.02
770 1086 6.385766 ACTCCTTCTGAATTCTTGATCCTT 57.614 37.500 7.05 0.00 0.00 3.36
777 1093 7.918536 TCTGAATTCTTGATCCTTTGAAGAG 57.081 36.000 7.05 0.00 0.00 2.85
784 1100 2.848694 TGATCCTTTGAAGAGGGCTGAT 59.151 45.455 0.00 0.00 37.41 2.90
788 1104 2.444421 CTTTGAAGAGGGCTGATTGCT 58.556 47.619 0.00 0.00 42.39 3.91
797 1113 0.473326 GGCTGATTGCTGGAGGATCT 59.527 55.000 0.00 0.00 42.39 2.75
949 1265 2.031120 CCTTGTTCTGCCTTGTTTCCA 58.969 47.619 0.00 0.00 0.00 3.53
1014 1330 1.565759 CCTGTCATGGAATCCTCCCAA 59.434 52.381 0.00 0.00 41.64 4.12
1086 1402 1.020462 TATACCTGACCTCCCCCACA 58.980 55.000 0.00 0.00 0.00 4.17
1275 1591 3.567164 TGCTTGAAGGCAAAGAAGAGAAG 59.433 43.478 0.00 0.00 39.43 2.85
1291 1607 5.004922 AGAGAAGGATCGTCAGACAAATC 57.995 43.478 0.41 3.09 0.00 2.17
1293 1609 5.128499 AGAGAAGGATCGTCAGACAAATCAT 59.872 40.000 12.70 5.19 0.00 2.45
1298 1614 4.034510 GGATCGTCAGACAAATCATGGTTC 59.965 45.833 12.70 0.00 0.00 3.62
1313 1629 2.596346 TGGTTCCAGCAATGAACATGT 58.404 42.857 12.94 0.00 43.05 3.21
1395 1711 0.977395 AGGTGAAGAAAGGGGACGAG 59.023 55.000 0.00 0.00 0.00 4.18
1418 1734 1.177256 AGCAGCAAAAGAGGCCACAG 61.177 55.000 5.01 0.00 0.00 3.66
1496 1812 9.692325 ACCTTGCTCATCTATTTCTTTCTTATT 57.308 29.630 0.00 0.00 0.00 1.40
1544 1860 2.517959 TGAGGAATTGAAGGCCTTGTG 58.482 47.619 26.25 0.00 30.70 3.33
1567 1883 1.673168 GTCCCTGCTATTGCCTTCTG 58.327 55.000 0.00 0.00 38.71 3.02
1568 1884 0.107017 TCCCTGCTATTGCCTTCTGC 60.107 55.000 0.00 0.00 38.71 4.26
1954 2400 7.715265 ATCAGTTAAGTTATATGAACAGCCG 57.285 36.000 2.66 0.00 0.00 5.52
2065 2511 7.559486 AGATCAATCTTACTACAACTGATGCA 58.441 34.615 0.00 0.00 31.97 3.96
2192 2640 5.235616 ACGAACCAACAATGTACTGTACAAG 59.764 40.000 23.03 19.61 42.76 3.16
2277 2725 3.995048 CAGCTATCACCTGATATGTGCAG 59.005 47.826 0.00 0.00 36.53 4.41
2346 2794 2.763933 CAGTAGCATATGGAGCACCTG 58.236 52.381 4.56 0.00 37.04 4.00
2380 2828 5.907197 ATGATGCGAAAGAAGGTATTACG 57.093 39.130 0.00 0.00 0.00 3.18
2396 2844 2.093306 TACGTCCCAACAGCAATCTG 57.907 50.000 0.00 0.00 45.71 2.90
2408 2856 3.118702 ACAGCAATCTGACTCCTGAGATG 60.119 47.826 0.22 0.00 42.95 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.559770 TGGAACATCAGAAAGTGCTTGATA 58.440 37.500 0.00 0.00 0.00 2.15
1 2 4.401022 TGGAACATCAGAAAGTGCTTGAT 58.599 39.130 0.00 0.00 0.00 2.57
2 3 3.819368 TGGAACATCAGAAAGTGCTTGA 58.181 40.909 0.00 0.00 0.00 3.02
3 4 4.572985 TTGGAACATCAGAAAGTGCTTG 57.427 40.909 0.00 0.00 39.30 4.01
4 5 4.828939 TGATTGGAACATCAGAAAGTGCTT 59.171 37.500 0.00 0.00 39.30 3.91
5 6 4.401022 TGATTGGAACATCAGAAAGTGCT 58.599 39.130 0.00 0.00 39.30 4.40
6 7 4.771590 TGATTGGAACATCAGAAAGTGC 57.228 40.909 0.00 0.00 39.30 4.40
7 8 5.242393 AGGTTGATTGGAACATCAGAAAGTG 59.758 40.000 0.00 0.00 39.30 3.16
8 9 5.242393 CAGGTTGATTGGAACATCAGAAAGT 59.758 40.000 0.00 0.00 39.30 2.66
9 10 5.242393 ACAGGTTGATTGGAACATCAGAAAG 59.758 40.000 0.00 0.00 39.30 2.62
10 11 5.139727 ACAGGTTGATTGGAACATCAGAAA 58.860 37.500 0.00 0.00 39.30 2.52
11 12 4.728772 ACAGGTTGATTGGAACATCAGAA 58.271 39.130 0.00 0.00 39.30 3.02
12 13 4.371624 ACAGGTTGATTGGAACATCAGA 57.628 40.909 0.00 0.00 39.30 3.27
13 14 5.473162 TGTTACAGGTTGATTGGAACATCAG 59.527 40.000 0.00 0.00 42.79 2.90
14 15 5.380900 TGTTACAGGTTGATTGGAACATCA 58.619 37.500 0.00 0.00 42.79 3.07
15 16 5.957842 TGTTACAGGTTGATTGGAACATC 57.042 39.130 0.00 0.00 42.79 3.06
18 19 6.640907 GTGAAATGTTACAGGTTGATTGGAAC 59.359 38.462 0.00 0.00 39.36 3.62
19 20 6.239176 GGTGAAATGTTACAGGTTGATTGGAA 60.239 38.462 0.00 0.00 0.00 3.53
20 21 5.242838 GGTGAAATGTTACAGGTTGATTGGA 59.757 40.000 0.00 0.00 0.00 3.53
21 22 5.010516 TGGTGAAATGTTACAGGTTGATTGG 59.989 40.000 0.00 0.00 0.00 3.16
22 23 6.083098 TGGTGAAATGTTACAGGTTGATTG 57.917 37.500 0.00 0.00 0.00 2.67
23 24 6.916360 ATGGTGAAATGTTACAGGTTGATT 57.084 33.333 0.00 0.00 0.00 2.57
24 25 7.285401 GGATATGGTGAAATGTTACAGGTTGAT 59.715 37.037 0.00 0.00 0.00 2.57
25 26 6.601613 GGATATGGTGAAATGTTACAGGTTGA 59.398 38.462 0.00 0.00 0.00 3.18
26 27 6.376864 TGGATATGGTGAAATGTTACAGGTTG 59.623 38.462 0.00 0.00 0.00 3.77
27 28 6.377146 GTGGATATGGTGAAATGTTACAGGTT 59.623 38.462 0.00 0.00 0.00 3.50
28 29 5.885912 GTGGATATGGTGAAATGTTACAGGT 59.114 40.000 0.00 0.00 0.00 4.00
29 30 5.299279 GGTGGATATGGTGAAATGTTACAGG 59.701 44.000 0.00 0.00 0.00 4.00
30 31 5.885352 TGGTGGATATGGTGAAATGTTACAG 59.115 40.000 0.00 0.00 0.00 2.74
31 32 5.650266 GTGGTGGATATGGTGAAATGTTACA 59.350 40.000 0.00 0.00 0.00 2.41
32 33 5.220777 CGTGGTGGATATGGTGAAATGTTAC 60.221 44.000 0.00 0.00 0.00 2.50
33 34 4.878971 CGTGGTGGATATGGTGAAATGTTA 59.121 41.667 0.00 0.00 0.00 2.41
34 35 3.694072 CGTGGTGGATATGGTGAAATGTT 59.306 43.478 0.00 0.00 0.00 2.71
35 36 3.278574 CGTGGTGGATATGGTGAAATGT 58.721 45.455 0.00 0.00 0.00 2.71
36 37 2.618241 CCGTGGTGGATATGGTGAAATG 59.382 50.000 0.00 0.00 42.00 2.32
37 38 2.507886 TCCGTGGTGGATATGGTGAAAT 59.492 45.455 0.00 0.00 43.74 2.17
38 39 1.909986 TCCGTGGTGGATATGGTGAAA 59.090 47.619 0.00 0.00 43.74 2.69
39 40 1.574263 TCCGTGGTGGATATGGTGAA 58.426 50.000 0.00 0.00 43.74 3.18
40 41 3.308626 TCCGTGGTGGATATGGTGA 57.691 52.632 0.00 0.00 43.74 4.02
49 50 1.448540 GTGAGAGCATCCGTGGTGG 60.449 63.158 0.00 0.00 35.91 4.61
50 51 1.448540 GGTGAGAGCATCCGTGGTG 60.449 63.158 0.00 0.00 35.91 4.17
51 52 2.982130 GGTGAGAGCATCCGTGGT 59.018 61.111 0.00 0.00 39.13 4.16
52 53 2.202797 CGGTGAGAGCATCCGTGG 60.203 66.667 0.00 0.00 39.51 4.94
56 57 1.271102 GGAGATACGGTGAGAGCATCC 59.729 57.143 0.00 0.00 33.66 3.51
57 58 1.271102 GGGAGATACGGTGAGAGCATC 59.729 57.143 0.00 0.00 0.00 3.91
58 59 1.133325 AGGGAGATACGGTGAGAGCAT 60.133 52.381 0.00 0.00 0.00 3.79
59 60 0.259065 AGGGAGATACGGTGAGAGCA 59.741 55.000 0.00 0.00 0.00 4.26
60 61 0.955905 GAGGGAGATACGGTGAGAGC 59.044 60.000 0.00 0.00 0.00 4.09
61 62 1.611519 GGAGGGAGATACGGTGAGAG 58.388 60.000 0.00 0.00 0.00 3.20
62 63 0.179026 CGGAGGGAGATACGGTGAGA 60.179 60.000 0.00 0.00 0.00 3.27
63 64 2.332277 CGGAGGGAGATACGGTGAG 58.668 63.158 0.00 0.00 0.00 3.51
64 65 4.573210 CGGAGGGAGATACGGTGA 57.427 61.111 0.00 0.00 0.00 4.02
91 92 0.892814 GGGCAAGCAAGAACTCTGCT 60.893 55.000 0.00 0.00 41.08 4.24
110 111 1.730501 ACTGTCATCGTTGCCATCTG 58.269 50.000 0.00 0.00 0.00 2.90
126 127 5.121105 TGGATTTCTCATGTGCTGATACTG 58.879 41.667 0.00 0.00 32.10 2.74
130 131 3.945921 CACTGGATTTCTCATGTGCTGAT 59.054 43.478 0.00 0.00 32.10 2.90
131 132 3.340928 CACTGGATTTCTCATGTGCTGA 58.659 45.455 0.00 0.00 0.00 4.26
172 173 2.100916 GTGCTACATGTAGACGGTGGAT 59.899 50.000 32.39 0.00 35.21 3.41
293 297 0.393402 GTCTGCCTGTCATCCATGCA 60.393 55.000 0.00 0.00 41.62 3.96
318 322 3.580319 AAAAGGCCCCCTGTCGCT 61.580 61.111 0.00 0.00 32.13 4.93
327 331 0.684153 TGGCATAGCTCAAAAGGCCC 60.684 55.000 7.39 0.00 40.64 5.80
408 412 1.142465 AGATTAGATGCACCTGCCTGG 59.858 52.381 0.00 0.00 41.18 4.45
523 533 2.095461 GAGGGAGGAGCAAACCATTTC 58.905 52.381 0.00 0.00 0.00 2.17
716 743 2.097825 CAAGAATTCTTCAGGGCTGGG 58.902 52.381 17.91 0.10 33.11 4.45
719 746 1.618074 GGGCAAGAATTCTTCAGGGCT 60.618 52.381 17.91 0.00 33.11 5.19
743 770 6.315891 GGATCAAGAATTCAGAAGGAGTTGAG 59.684 42.308 8.44 0.00 0.00 3.02
744 771 6.013032 AGGATCAAGAATTCAGAAGGAGTTGA 60.013 38.462 8.44 6.59 0.00 3.18
745 772 6.179040 AGGATCAAGAATTCAGAAGGAGTTG 58.821 40.000 8.44 1.04 0.00 3.16
746 773 6.385766 AGGATCAAGAATTCAGAAGGAGTT 57.614 37.500 8.44 0.00 0.00 3.01
752 1068 7.392673 CCTCTTCAAAGGATCAAGAATTCAGAA 59.607 37.037 8.44 0.00 38.87 3.02
765 1081 3.629087 CAATCAGCCCTCTTCAAAGGAT 58.371 45.455 0.00 0.00 38.87 3.24
784 1100 1.203441 AGCACCAGATCCTCCAGCAA 61.203 55.000 0.00 0.00 0.00 3.91
788 1104 1.198713 GAAGAGCACCAGATCCTCCA 58.801 55.000 0.00 0.00 0.00 3.86
797 1113 1.207089 CATAACCCGAGAAGAGCACCA 59.793 52.381 0.00 0.00 0.00 4.17
949 1265 4.018597 AGAGAGACAAGAATGGCCAAGAAT 60.019 41.667 10.96 0.00 33.81 2.40
1014 1330 4.189580 CCGCCATCCCCGGTGATT 62.190 66.667 0.00 0.00 40.84 2.57
1065 1381 2.021441 TGTGGGGGAGGTCAGGTATATT 60.021 50.000 0.00 0.00 0.00 1.28
1275 1591 3.535561 ACCATGATTTGTCTGACGATCC 58.464 45.455 16.45 6.08 0.00 3.36
1291 1607 3.056393 ACATGTTCATTGCTGGAACCATG 60.056 43.478 11.38 14.36 43.05 3.66
1293 1609 2.557924 GACATGTTCATTGCTGGAACCA 59.442 45.455 0.00 0.00 43.05 3.67
1298 1614 2.821378 TCCTTGACATGTTCATTGCTGG 59.179 45.455 0.00 0.00 32.84 4.85
1313 1629 3.071457 TGTCTCAGCTTGTTCATCCTTGA 59.929 43.478 0.00 0.00 0.00 3.02
1395 1711 1.069049 TGGCCTCTTTTGCTGCTTTTC 59.931 47.619 3.32 0.00 0.00 2.29
1418 1734 5.487153 TCTTGATGAGCTACGTCTTCTAC 57.513 43.478 0.00 0.00 35.71 2.59
1496 1812 7.440198 CCTCTGACATTGATTCTAGCTTGATA 58.560 38.462 0.00 0.00 0.00 2.15
1497 1813 6.289834 CCTCTGACATTGATTCTAGCTTGAT 58.710 40.000 0.00 0.00 0.00 2.57
1498 1814 5.668471 CCTCTGACATTGATTCTAGCTTGA 58.332 41.667 0.00 0.00 0.00 3.02
1511 1827 3.947612 ATTCCTCATGCCTCTGACATT 57.052 42.857 0.00 0.00 0.00 2.71
1544 1860 0.475906 AGGCAATAGCAGGGACCATC 59.524 55.000 0.00 0.00 44.61 3.51
1567 1883 3.740832 GGCTAACAAATGGACAAAACAGC 59.259 43.478 0.00 0.00 0.00 4.40
1568 1884 4.744631 GTGGCTAACAAATGGACAAAACAG 59.255 41.667 0.00 0.00 0.00 3.16
1612 1928 2.622942 TGAAAGGGTGACAGATTTGCAC 59.377 45.455 0.00 0.00 33.45 4.57
1646 1962 7.223260 TGAATGTCGATATTACGAATAGGGT 57.777 36.000 7.44 0.00 43.75 4.34
1655 1971 5.006649 TGCAGTGCTTGAATGTCGATATTAC 59.993 40.000 17.60 2.32 0.00 1.89
1950 2396 6.354130 TCCTATTAATTTTTGCTCTACGGCT 58.646 36.000 0.00 0.00 0.00 5.52
2065 2511 3.194116 CCTAGGTTTCATGTGCAAATGCT 59.806 43.478 12.37 6.02 42.66 3.79
2161 2609 4.712122 ACATTGTTGGTTCGTCTTGTTT 57.288 36.364 0.00 0.00 0.00 2.83
2192 2640 4.511826 AGCTGTTCTGTAAACTACACTTGC 59.488 41.667 0.00 0.00 34.46 4.01
2277 2725 4.167268 CTGTAGACGCAAAGAGTAGGAAC 58.833 47.826 0.00 0.00 0.00 3.62
2346 2794 1.520787 GCATCATTTGCCCAGCAGC 60.521 57.895 0.00 0.00 46.15 5.25
2365 2813 5.240121 TGTTGGGACGTAATACCTTCTTTC 58.760 41.667 0.00 0.00 28.88 2.62
2380 2828 2.079925 GAGTCAGATTGCTGTTGGGAC 58.920 52.381 0.00 0.00 42.84 4.46
2396 2844 7.678947 TTTTCATTCTTTCATCTCAGGAGTC 57.321 36.000 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.