Multiple sequence alignment - TraesCS3B01G052500

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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 TraesCS3B01G052500 chr3B 100.000 2596 0 0 1 2596 26596410 26593815 0.000000e+00 4795.0
1 TraesCS3B01G052500 chr3B 92.233 618 41 6 1005 1616 15048296 15048912 0.000000e+00 869.0
2 TraesCS3B01G052500 chr3B 91.758 546 39 3 980 1520 26781571 26782115 0.000000e+00 754.0
3 TraesCS3B01G052500 chr3B 85.981 321 21 11 697 1014 15046714 15047013 3.220000e-84 322.0
4 TraesCS3B01G052500 chr3B 94.634 205 4 1 461 658 15046507 15046711 6.980000e-81 311.0
5 TraesCS3B01G052500 chr3B 90.374 187 9 4 227 408 15046311 15046493 1.200000e-58 237.0
6 TraesCS3B01G052500 chr3B 85.621 153 12 7 550 697 26780888 26781035 4.470000e-33 152.0
7 TraesCS3B01G052500 chr3B 80.556 216 17 8 1611 1809 26785996 26786203 2.690000e-30 143.0
8 TraesCS3B01G052500 chr3D 87.459 925 92 16 704 1616 10389890 10388978 0.000000e+00 1044.0
9 TraesCS3B01G052500 chr3D 87.351 925 93 16 704 1616 10566602 10567514 0.000000e+00 1038.0
10 TraesCS3B01G052500 chr3D 83.008 359 23 15 349 706 10390242 10389921 9.090000e-75 291.0
11 TraesCS3B01G052500 chr3D 79.535 215 16 9 1618 1809 10388905 10388696 7.540000e-26 128.0
12 TraesCS3B01G052500 chr3D 94.937 79 4 0 628 706 10566493 10566571 9.750000e-25 124.0
13 TraesCS3B01G052500 chr3D 78.899 218 18 9 1615 1809 10567584 10567796 3.510000e-24 122.0
14 TraesCS3B01G052500 chr5A 86.989 807 72 15 1813 2596 486779823 486779027 0.000000e+00 878.0
15 TraesCS3B01G052500 chr3A 87.645 688 53 11 938 1616 17689168 17688504 0.000000e+00 771.0
16 TraesCS3B01G052500 chr3A 89.773 176 13 3 139 310 17690938 17690764 1.210000e-53 220.0
17 TraesCS3B01G052500 chr3A 79.386 228 28 11 353 561 17690297 17690070 2.690000e-30 143.0
18 TraesCS3B01G052500 chr7D 91.393 488 27 7 1813 2285 41294665 41295152 0.000000e+00 654.0
19 TraesCS3B01G052500 chr7D 89.362 329 20 9 2281 2595 41296824 41297151 1.450000e-107 399.0
20 TraesCS3B01G052500 chr7D 94.558 147 8 0 1 147 465906507 465906653 7.230000e-56 228.0
21 TraesCS3B01G052500 chr7D 100.000 28 0 0 135 162 378343699 378343726 5.000000e-03 52.8
22 TraesCS3B01G052500 chr1D 90.751 346 22 4 1813 2150 295961296 295960953 1.100000e-123 453.0
23 TraesCS3B01G052500 chr1D 87.260 416 27 12 2198 2596 295960954 295960548 3.940000e-123 451.0
24 TraesCS3B01G052500 chr1D 95.172 145 7 0 1 145 266511 266367 2.010000e-56 230.0
25 TraesCS3B01G052500 chr1D 94.483 145 8 0 1 145 395967069 395966925 9.350000e-55 224.0
26 TraesCS3B01G052500 chr5D 90.764 314 24 1 1813 2121 380188955 380188642 5.170000e-112 414.0
27 TraesCS3B01G052500 chr4B 87.109 256 24 5 1813 2061 642414514 642414767 5.470000e-72 281.0
28 TraesCS3B01G052500 chr1B 85.490 255 29 4 1813 2061 183485309 183485561 2.560000e-65 259.0
29 TraesCS3B01G052500 chr1B 96.479 142 5 0 1 142 615613488 615613629 4.320000e-58 235.0
30 TraesCS3B01G052500 chr1B 83.051 236 33 3 1813 2043 7318722 7318955 9.420000e-50 207.0
31 TraesCS3B01G052500 chr2B 91.228 171 13 2 1819 1988 664318890 664319059 5.590000e-57 231.0
32 TraesCS3B01G052500 chr2B 93.836 146 8 1 1 145 67917193 67917338 4.350000e-53 219.0
33 TraesCS3B01G052500 chrUn 95.775 142 6 0 1 142 76688735 76688876 2.010000e-56 230.0
34 TraesCS3B01G052500 chrUn 90.230 174 15 2 1819 1991 17189485 17189313 2.600000e-55 226.0
35 TraesCS3B01G052500 chr7B 95.775 142 6 0 1 142 608874882 608875023 2.010000e-56 230.0
36 TraesCS3B01G052500 chr6B 95.205 146 6 1 1 145 494463750 494463605 2.010000e-56 230.0
37 TraesCS3B01G052500 chr6B 83.404 235 32 3 1814 2043 127847146 127847378 7.280000e-51 211.0
38 TraesCS3B01G052500 chr6D 95.070 142 7 0 1 142 210729886 210730027 9.350000e-55 224.0


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 TraesCS3B01G052500 chr3B 26593815 26596410 2595 True 4795.000000 4795 100.000000 1 2596 1 chr3B.!!$R1 2595
1 TraesCS3B01G052500 chr3B 15046311 15048912 2601 False 434.750000 869 90.805500 227 1616 4 chr3B.!!$F1 1389
2 TraesCS3B01G052500 chr3B 26780888 26786203 5315 False 349.666667 754 85.978333 550 1809 3 chr3B.!!$F2 1259
3 TraesCS3B01G052500 chr3D 10388696 10390242 1546 True 487.666667 1044 83.334000 349 1809 3 chr3D.!!$R1 1460
4 TraesCS3B01G052500 chr3D 10566493 10567796 1303 False 428.000000 1038 87.062333 628 1809 3 chr3D.!!$F1 1181
5 TraesCS3B01G052500 chr5A 486779027 486779823 796 True 878.000000 878 86.989000 1813 2596 1 chr5A.!!$R1 783
6 TraesCS3B01G052500 chr3A 17688504 17690938 2434 True 378.000000 771 85.601333 139 1616 3 chr3A.!!$R1 1477
7 TraesCS3B01G052500 chr7D 41294665 41297151 2486 False 526.500000 654 90.377500 1813 2595 2 chr7D.!!$F3 782
8 TraesCS3B01G052500 chr1D 295960548 295961296 748 True 452.000000 453 89.005500 1813 2596 2 chr1D.!!$R3 783

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
23 24 0.036022 GGCCCAGACTATCAGCATCC 59.964 60.0 0.0 0.0 0.00 3.51 F
1078 3484 0.179100 CCGCATCGTCAAGGTGATCT 60.179 55.0 0.0 0.0 30.86 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1364 3784 0.395311 TGAGGTATTCGTCCGGCTCT 60.395 55.0 0.00 0.0 0.0 4.09 R
2315 10244 0.250467 CATCTTCCCCCATGGCTACG 60.250 60.0 6.09 0.0 0.0 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
19 20 1.710816 ACTAGGCCCAGACTATCAGC 58.289 55.000 4.75 0.00 0.00 4.26
20 21 1.062886 ACTAGGCCCAGACTATCAGCA 60.063 52.381 4.75 0.00 0.00 4.41
21 22 2.255406 CTAGGCCCAGACTATCAGCAT 58.745 52.381 0.00 0.00 0.00 3.79
22 23 1.055040 AGGCCCAGACTATCAGCATC 58.945 55.000 0.00 0.00 0.00 3.91
23 24 0.036022 GGCCCAGACTATCAGCATCC 59.964 60.000 0.00 0.00 0.00 3.51
24 25 0.036022 GCCCAGACTATCAGCATCCC 59.964 60.000 0.00 0.00 0.00 3.85
25 26 1.727062 CCCAGACTATCAGCATCCCT 58.273 55.000 0.00 0.00 0.00 4.20
26 27 2.053244 CCCAGACTATCAGCATCCCTT 58.947 52.381 0.00 0.00 0.00 3.95
27 28 2.038295 CCCAGACTATCAGCATCCCTTC 59.962 54.545 0.00 0.00 0.00 3.46
28 29 2.702478 CCAGACTATCAGCATCCCTTCA 59.298 50.000 0.00 0.00 0.00 3.02
29 30 3.327172 CCAGACTATCAGCATCCCTTCAT 59.673 47.826 0.00 0.00 0.00 2.57
30 31 4.563168 CCAGACTATCAGCATCCCTTCATC 60.563 50.000 0.00 0.00 0.00 2.92
31 32 4.040095 CAGACTATCAGCATCCCTTCATCA 59.960 45.833 0.00 0.00 0.00 3.07
32 33 4.040217 AGACTATCAGCATCCCTTCATCAC 59.960 45.833 0.00 0.00 0.00 3.06
33 34 3.972638 ACTATCAGCATCCCTTCATCACT 59.027 43.478 0.00 0.00 0.00 3.41
34 35 3.947612 ATCAGCATCCCTTCATCACTT 57.052 42.857 0.00 0.00 0.00 3.16
35 36 2.995283 TCAGCATCCCTTCATCACTTG 58.005 47.619 0.00 0.00 0.00 3.16
36 37 2.022195 CAGCATCCCTTCATCACTTGG 58.978 52.381 0.00 0.00 0.00 3.61
37 38 1.918262 AGCATCCCTTCATCACTTGGA 59.082 47.619 0.00 0.00 0.00 3.53
38 39 2.512896 AGCATCCCTTCATCACTTGGAT 59.487 45.455 0.00 0.00 36.26 3.41
39 40 3.718434 AGCATCCCTTCATCACTTGGATA 59.282 43.478 0.00 0.00 34.12 2.59
40 41 4.070716 GCATCCCTTCATCACTTGGATAG 58.929 47.826 0.00 0.00 34.12 2.08
41 42 4.649692 CATCCCTTCATCACTTGGATAGG 58.350 47.826 0.00 0.00 34.12 2.57
42 43 4.007581 TCCCTTCATCACTTGGATAGGA 57.992 45.455 0.00 0.00 34.78 2.94
43 44 3.969976 TCCCTTCATCACTTGGATAGGAG 59.030 47.826 0.00 0.00 34.78 3.69
44 45 3.713764 CCCTTCATCACTTGGATAGGAGT 59.286 47.826 0.00 0.00 34.78 3.85
45 46 4.901849 CCCTTCATCACTTGGATAGGAGTA 59.098 45.833 0.00 0.00 34.78 2.59
46 47 5.011533 CCCTTCATCACTTGGATAGGAGTAG 59.988 48.000 0.00 0.00 34.78 2.57
47 48 5.510520 CCTTCATCACTTGGATAGGAGTAGC 60.511 48.000 0.00 0.00 34.78 3.58
48 49 3.570125 TCATCACTTGGATAGGAGTAGCG 59.430 47.826 0.00 0.00 33.95 4.26
49 50 3.292492 TCACTTGGATAGGAGTAGCGA 57.708 47.619 0.00 0.00 0.00 4.93
50 51 2.950309 TCACTTGGATAGGAGTAGCGAC 59.050 50.000 0.00 0.00 0.00 5.19
51 52 2.688446 CACTTGGATAGGAGTAGCGACA 59.312 50.000 0.00 0.00 0.00 4.35
52 53 2.688958 ACTTGGATAGGAGTAGCGACAC 59.311 50.000 0.00 0.00 0.00 3.67
53 54 2.730934 TGGATAGGAGTAGCGACACT 57.269 50.000 0.00 0.00 0.00 3.55
54 55 3.014304 TGGATAGGAGTAGCGACACTT 57.986 47.619 0.00 0.00 0.00 3.16
55 56 3.362706 TGGATAGGAGTAGCGACACTTT 58.637 45.455 0.00 0.00 0.00 2.66
56 57 3.767673 TGGATAGGAGTAGCGACACTTTT 59.232 43.478 0.00 0.00 0.00 2.27
57 58 4.113354 GGATAGGAGTAGCGACACTTTTG 58.887 47.826 0.00 0.00 0.00 2.44
58 59 4.381718 GGATAGGAGTAGCGACACTTTTGT 60.382 45.833 0.00 0.00 39.32 2.83
59 60 3.470645 AGGAGTAGCGACACTTTTGTT 57.529 42.857 0.00 0.00 35.47 2.83
60 61 3.131396 AGGAGTAGCGACACTTTTGTTG 58.869 45.455 0.00 0.00 39.86 3.33
68 69 4.070581 CGACACTTTTGTTGCCTAGATG 57.929 45.455 0.00 0.00 35.47 2.90
69 70 3.120199 CGACACTTTTGTTGCCTAGATGG 60.120 47.826 0.00 0.00 35.47 3.51
70 71 3.821033 GACACTTTTGTTGCCTAGATGGT 59.179 43.478 0.00 0.00 35.47 3.55
71 72 3.569701 ACACTTTTGTTGCCTAGATGGTG 59.430 43.478 0.00 0.00 32.51 4.17
72 73 3.057315 CACTTTTGTTGCCTAGATGGTGG 60.057 47.826 0.00 0.00 38.35 4.61
78 79 3.393472 GCCTAGATGGTGGCTTCAG 57.607 57.895 0.00 0.00 45.26 3.02
79 80 0.817229 GCCTAGATGGTGGCTTCAGC 60.817 60.000 0.00 0.00 45.26 4.26
93 94 4.458951 GCTTCAGCCTTATCGTTGTATG 57.541 45.455 0.00 0.00 34.31 2.39
94 95 4.119862 GCTTCAGCCTTATCGTTGTATGA 58.880 43.478 0.00 0.00 34.31 2.15
95 96 4.025647 GCTTCAGCCTTATCGTTGTATGAC 60.026 45.833 0.00 0.00 34.31 3.06
96 97 5.339008 TTCAGCCTTATCGTTGTATGACT 57.661 39.130 0.00 0.00 0.00 3.41
97 98 5.339008 TCAGCCTTATCGTTGTATGACTT 57.661 39.130 0.00 0.00 0.00 3.01
98 99 5.730550 TCAGCCTTATCGTTGTATGACTTT 58.269 37.500 0.00 0.00 0.00 2.66
99 100 5.580691 TCAGCCTTATCGTTGTATGACTTTG 59.419 40.000 0.00 0.00 0.00 2.77
100 101 5.351465 CAGCCTTATCGTTGTATGACTTTGT 59.649 40.000 0.00 0.00 0.00 2.83
101 102 6.533723 CAGCCTTATCGTTGTATGACTTTGTA 59.466 38.462 0.00 0.00 0.00 2.41
102 103 7.224753 CAGCCTTATCGTTGTATGACTTTGTAT 59.775 37.037 0.00 0.00 0.00 2.29
103 104 7.224753 AGCCTTATCGTTGTATGACTTTGTATG 59.775 37.037 0.00 0.00 0.00 2.39
104 105 7.518370 GCCTTATCGTTGTATGACTTTGTATGG 60.518 40.741 0.00 0.00 0.00 2.74
105 106 7.494625 CCTTATCGTTGTATGACTTTGTATGGT 59.505 37.037 0.00 0.00 0.00 3.55
106 107 6.903883 ATCGTTGTATGACTTTGTATGGTC 57.096 37.500 0.00 0.00 0.00 4.02
107 108 6.032956 TCGTTGTATGACTTTGTATGGTCT 57.967 37.500 0.00 0.00 34.01 3.85
108 109 6.460781 TCGTTGTATGACTTTGTATGGTCTT 58.539 36.000 0.00 0.00 34.01 3.01
109 110 6.367695 TCGTTGTATGACTTTGTATGGTCTTG 59.632 38.462 0.00 0.00 34.01 3.02
110 111 6.147164 CGTTGTATGACTTTGTATGGTCTTGT 59.853 38.462 0.00 0.00 34.01 3.16
111 112 7.298122 GTTGTATGACTTTGTATGGTCTTGTG 58.702 38.462 0.00 0.00 34.01 3.33
112 113 6.530120 TGTATGACTTTGTATGGTCTTGTGT 58.470 36.000 0.00 0.00 34.01 3.72
113 114 5.947228 ATGACTTTGTATGGTCTTGTGTG 57.053 39.130 0.00 0.00 34.01 3.82
114 115 5.029807 TGACTTTGTATGGTCTTGTGTGA 57.970 39.130 0.00 0.00 34.01 3.58
115 116 5.432645 TGACTTTGTATGGTCTTGTGTGAA 58.567 37.500 0.00 0.00 34.01 3.18
116 117 6.061441 TGACTTTGTATGGTCTTGTGTGAAT 58.939 36.000 0.00 0.00 34.01 2.57
117 118 7.220740 TGACTTTGTATGGTCTTGTGTGAATA 58.779 34.615 0.00 0.00 34.01 1.75
118 119 7.717436 TGACTTTGTATGGTCTTGTGTGAATAA 59.283 33.333 0.00 0.00 34.01 1.40
119 120 8.635765 ACTTTGTATGGTCTTGTGTGAATAAT 57.364 30.769 0.00 0.00 0.00 1.28
120 121 9.077885 ACTTTGTATGGTCTTGTGTGAATAATT 57.922 29.630 0.00 0.00 0.00 1.40
134 135 9.311916 TGTGTGAATAATTAATAAAATGGCTGC 57.688 29.630 0.00 0.00 0.00 5.25
135 136 9.311916 GTGTGAATAATTAATAAAATGGCTGCA 57.688 29.630 0.50 0.00 0.00 4.41
175 176 1.413077 GCTCTTAAGGACAGGGCGTAT 59.587 52.381 1.85 0.00 0.00 3.06
176 177 2.626743 GCTCTTAAGGACAGGGCGTATA 59.373 50.000 1.85 0.00 0.00 1.47
177 178 3.258622 GCTCTTAAGGACAGGGCGTATAT 59.741 47.826 1.85 0.00 0.00 0.86
178 179 4.461781 GCTCTTAAGGACAGGGCGTATATA 59.538 45.833 1.85 0.00 0.00 0.86
179 180 5.127356 GCTCTTAAGGACAGGGCGTATATAT 59.873 44.000 1.85 0.00 0.00 0.86
180 181 6.525578 TCTTAAGGACAGGGCGTATATATG 57.474 41.667 1.85 0.00 0.00 1.78
184 187 0.909623 ACAGGGCGTATATATGGGGC 59.090 55.000 4.14 0.00 0.00 5.80
194 197 5.547465 CGTATATATGGGGCAGAAGTCAAA 58.453 41.667 0.00 0.00 0.00 2.69
205 208 3.659444 GCAGAAGTCAAAACAAACGATCG 59.341 43.478 14.88 14.88 0.00 3.69
208 211 5.169561 CAGAAGTCAAAACAAACGATCGTTG 59.830 40.000 32.30 25.71 38.47 4.10
219 223 3.227810 ACGATCGTTGTTTCCTACTCC 57.772 47.619 16.60 0.00 0.00 3.85
221 225 3.119566 ACGATCGTTGTTTCCTACTCCTC 60.120 47.826 16.60 0.00 0.00 3.71
271 275 4.532276 TGCGTGTTTGCTATTTGTAAGTG 58.468 39.130 0.00 0.00 35.36 3.16
307 311 2.154427 GACGGCAGTCGGTTTTCACG 62.154 60.000 0.00 0.00 44.45 4.35
311 730 1.603678 GGCAGTCGGTTTTCACGTAGA 60.604 52.381 0.00 0.00 0.00 2.59
332 751 2.556766 AGAAGAAGAAGAAGGGGAGGG 58.443 52.381 0.00 0.00 0.00 4.30
393 821 2.873472 CCAAGTTAACGTACAGTTGCCA 59.127 45.455 11.63 0.00 44.01 4.92
421 849 8.643752 CCATTAAATTGCACGTAAACTTAAAGG 58.356 33.333 0.00 0.00 0.00 3.11
456 884 5.312079 GGAATGGGAAAGAGATCGATGAAT 58.688 41.667 0.54 0.00 0.00 2.57
499 947 2.702592 ACTTGGTGTGGAAGACGAAA 57.297 45.000 0.00 0.00 25.30 3.46
540 995 3.006323 GTGCATCTACCACTAGCTAGCAT 59.994 47.826 20.91 8.79 0.00 3.79
667 1431 0.760945 AGATGGAGAAGGCCGGTAGG 60.761 60.000 1.90 0.00 41.62 3.18
670 1434 1.262640 TGGAGAAGGCCGGTAGGAAC 61.263 60.000 1.90 0.00 41.02 3.62
727 1545 0.674534 GAGGATCTACGGCCGTCATT 59.325 55.000 38.01 20.60 0.00 2.57
823 1641 0.942252 CGACCATCACCATCAGCATG 59.058 55.000 0.00 0.00 37.54 4.06
913 1734 2.042464 TGCTGACCCTAGCTAGGATTG 58.958 52.381 36.80 23.77 46.63 2.67
914 1735 2.043227 GCTGACCCTAGCTAGGATTGT 58.957 52.381 36.80 26.59 46.63 2.71
920 2000 2.158900 CCCTAGCTAGGATTGTGTGGTG 60.159 54.545 36.80 14.97 46.63 4.17
922 2002 0.987294 AGCTAGGATTGTGTGGTGCT 59.013 50.000 0.00 0.00 0.00 4.40
923 2003 1.065854 AGCTAGGATTGTGTGGTGCTC 60.066 52.381 0.00 0.00 0.00 4.26
925 2005 2.898705 CTAGGATTGTGTGGTGCTCTC 58.101 52.381 0.00 0.00 0.00 3.20
926 2006 1.059098 AGGATTGTGTGGTGCTCTCA 58.941 50.000 0.00 0.00 0.00 3.27
977 2091 2.432146 TCTTGTGTTGTGCTCTCACTCT 59.568 45.455 12.79 0.00 43.49 3.24
978 2092 2.229675 TGTGTTGTGCTCTCACTCTG 57.770 50.000 12.79 0.00 43.49 3.35
1078 3484 0.179100 CCGCATCGTCAAGGTGATCT 60.179 55.000 0.00 0.00 30.86 2.75
1320 3740 1.333931 GCGCCTAGGAAAATTAGCACC 59.666 52.381 14.75 0.00 0.00 5.01
1364 3784 1.832998 TGGCATGTGCAGATCTGTCTA 59.167 47.619 23.38 10.47 44.36 2.59
1385 3805 0.683504 AGCCGGACGAATACCTCACT 60.684 55.000 5.05 0.00 0.00 3.41
1402 3822 1.406539 CACTGGTATGAAAGGGCATGC 59.593 52.381 9.90 9.90 0.00 4.06
1423 3844 0.321298 GGCGAGTTTGGTGGCTCTTA 60.321 55.000 0.00 0.00 0.00 2.10
1454 3875 3.081804 AGCGCTTACTTTAGTTGGCAAT 58.918 40.909 2.64 0.00 0.00 3.56
1508 3929 4.475135 GCACCCTTCGAGCTCCCC 62.475 72.222 8.47 0.00 0.00 4.81
1532 7631 1.541233 GCTGGTGGTAGAATCATCGGG 60.541 57.143 0.00 0.00 0.00 5.14
1626 7804 2.702898 TCCGTGATGCATGTTTGTTG 57.297 45.000 2.46 0.00 0.00 3.33
1641 7848 1.484038 TGTTGGCCTTGTGCTTCTTT 58.516 45.000 3.32 0.00 40.92 2.52
1674 7881 8.168626 TGATTTCATCGTCAAATTTACTTCTCG 58.831 33.333 0.00 0.00 0.00 4.04
1681 7888 5.336990 CGTCAAATTTACTTCTCGCAAAGTG 59.663 40.000 11.20 0.00 39.74 3.16
1691 7903 2.009774 CTCGCAAAGTGACAATAGGGG 58.990 52.381 0.00 0.00 0.00 4.79
1741 7970 4.282496 ACAACCATCCAACTACAAACCAA 58.718 39.130 0.00 0.00 0.00 3.67
1743 7972 4.929819 ACCATCCAACTACAAACCAAAC 57.070 40.909 0.00 0.00 0.00 2.93
1749 7978 7.416890 CCATCCAACTACAAACCAAACTAAACA 60.417 37.037 0.00 0.00 0.00 2.83
1750 7979 7.648039 TCCAACTACAAACCAAACTAAACAT 57.352 32.000 0.00 0.00 0.00 2.71
1751 7980 8.749026 TCCAACTACAAACCAAACTAAACATA 57.251 30.769 0.00 0.00 0.00 2.29
1752 7981 9.186837 TCCAACTACAAACCAAACTAAACATAA 57.813 29.630 0.00 0.00 0.00 1.90
1805 8034 6.755542 ACAAAAAGGAAATACCCATCCAAA 57.244 33.333 0.00 0.00 38.23 3.28
1807 8036 7.754624 ACAAAAAGGAAATACCCATCCAAAAT 58.245 30.769 0.00 0.00 38.23 1.82
1809 8038 8.729756 CAAAAAGGAAATACCCATCCAAAATTC 58.270 33.333 0.00 0.00 38.23 2.17
1810 8039 6.560003 AAGGAAATACCCATCCAAAATTCC 57.440 37.500 0.00 0.00 38.23 3.01
1811 8040 5.853700 AGGAAATACCCATCCAAAATTCCT 58.146 37.500 0.00 0.00 40.31 3.36
1831 8060 3.304928 CCTTGCTCTGTTTGGATGTTGAC 60.305 47.826 0.00 0.00 0.00 3.18
1837 8066 5.336213 GCTCTGTTTGGATGTTGACATTCAT 60.336 40.000 5.96 0.00 41.21 2.57
1840 8069 4.588106 TGTTTGGATGTTGACATTCATGGT 59.412 37.500 5.96 0.00 41.21 3.55
1859 8088 2.767960 GGTCATGGAATTGAATTGGCCT 59.232 45.455 3.32 0.00 0.00 5.19
1900 8129 7.175467 TGTGACTTTGATATTGACATTGAGCTT 59.825 33.333 0.00 0.00 0.00 3.74
1906 8135 9.932207 TTTGATATTGACATTGAGCTTGAATTT 57.068 25.926 0.00 0.00 0.00 1.82
1952 8182 6.882610 TTGACACTTAGAATTTGCATGAGT 57.117 33.333 0.00 0.00 0.00 3.41
1963 8193 1.466856 TGCATGAGTGGCTCAATTCC 58.533 50.000 0.00 0.00 44.04 3.01
1988 8218 3.508793 AGCTTGTTTGGATGGTCATTCTG 59.491 43.478 0.00 0.00 0.00 3.02
2121 8365 5.470047 TTACCAACAAACTCTCTCTCTCC 57.530 43.478 0.00 0.00 0.00 3.71
2123 8373 2.027653 CCAACAAACTCTCTCTCTCCCC 60.028 54.545 0.00 0.00 0.00 4.81
2125 8375 1.435168 ACAAACTCTCTCTCTCCCCCT 59.565 52.381 0.00 0.00 0.00 4.79
2129 8379 1.230650 TCTCTCTCTCCCCCTCCCA 60.231 63.158 0.00 0.00 0.00 4.37
2142 8392 0.396974 CCTCCCACCCTCTCTCTCTG 60.397 65.000 0.00 0.00 0.00 3.35
2175 8425 2.423892 TCTCGTGTGCTCTTCTATGTCC 59.576 50.000 0.00 0.00 0.00 4.02
2266 8519 2.306219 GGTGAGGATTAGGGGATTAGGC 59.694 54.545 0.00 0.00 0.00 3.93
2291 10220 0.104620 TGTAGGATTAGGGAGGGGCC 60.105 60.000 0.00 0.00 0.00 5.80
2315 10244 0.176910 GCTGGTGGCTAGAGGAAGAC 59.823 60.000 0.00 0.00 38.06 3.01
2410 10339 1.673033 CGACCACAAGAACTAGGGCAG 60.673 57.143 0.00 0.00 0.00 4.85
2506 10442 2.754658 GACCGCCGGAGAGAAGGA 60.755 66.667 11.71 0.00 0.00 3.36
2519 10462 1.550976 GAGAAGGAAGAAGGCGGAGAA 59.449 52.381 0.00 0.00 0.00 2.87
2564 10507 4.409588 CGTCGCGCCTGTGTTTCG 62.410 66.667 0.00 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.709578 TGCTGATAGTCTGGGCCTAG 58.290 55.000 10.47 10.47 0.00 3.02
2 3 2.251818 GATGCTGATAGTCTGGGCCTA 58.748 52.381 4.53 0.00 0.00 3.93
3 4 1.055040 GATGCTGATAGTCTGGGCCT 58.945 55.000 4.53 0.00 0.00 5.19
4 5 0.036022 GGATGCTGATAGTCTGGGCC 59.964 60.000 0.00 0.00 0.00 5.80
5 6 0.036022 GGGATGCTGATAGTCTGGGC 59.964 60.000 0.00 0.00 0.00 5.36
6 7 1.727062 AGGGATGCTGATAGTCTGGG 58.273 55.000 0.00 0.00 0.00 4.45
7 8 2.702478 TGAAGGGATGCTGATAGTCTGG 59.298 50.000 0.00 0.00 0.00 3.86
8 9 4.040095 TGATGAAGGGATGCTGATAGTCTG 59.960 45.833 0.00 0.00 0.00 3.51
9 10 4.040217 GTGATGAAGGGATGCTGATAGTCT 59.960 45.833 0.00 0.00 0.00 3.24
10 11 4.040217 AGTGATGAAGGGATGCTGATAGTC 59.960 45.833 0.00 0.00 0.00 2.59
11 12 3.972638 AGTGATGAAGGGATGCTGATAGT 59.027 43.478 0.00 0.00 0.00 2.12
12 13 4.620589 AGTGATGAAGGGATGCTGATAG 57.379 45.455 0.00 0.00 0.00 2.08
13 14 4.445305 CCAAGTGATGAAGGGATGCTGATA 60.445 45.833 0.00 0.00 0.00 2.15
14 15 3.552875 CAAGTGATGAAGGGATGCTGAT 58.447 45.455 0.00 0.00 0.00 2.90
15 16 2.356432 CCAAGTGATGAAGGGATGCTGA 60.356 50.000 0.00 0.00 0.00 4.26
16 17 2.022195 CCAAGTGATGAAGGGATGCTG 58.978 52.381 0.00 0.00 0.00 4.41
17 18 1.918262 TCCAAGTGATGAAGGGATGCT 59.082 47.619 0.00 0.00 0.00 3.79
18 19 2.425143 TCCAAGTGATGAAGGGATGC 57.575 50.000 0.00 0.00 0.00 3.91
19 20 4.349048 TCCTATCCAAGTGATGAAGGGATG 59.651 45.833 0.00 0.00 38.72 3.51
20 21 4.570926 TCCTATCCAAGTGATGAAGGGAT 58.429 43.478 0.00 0.00 41.13 3.85
21 22 3.969976 CTCCTATCCAAGTGATGAAGGGA 59.030 47.826 0.00 0.00 34.76 4.20
22 23 3.713764 ACTCCTATCCAAGTGATGAAGGG 59.286 47.826 0.00 0.00 34.76 3.95
23 24 5.510520 GCTACTCCTATCCAAGTGATGAAGG 60.511 48.000 0.00 0.00 34.76 3.46
24 25 5.537188 GCTACTCCTATCCAAGTGATGAAG 58.463 45.833 0.00 0.00 34.76 3.02
25 26 4.038042 CGCTACTCCTATCCAAGTGATGAA 59.962 45.833 0.00 0.00 34.76 2.57
26 27 3.570125 CGCTACTCCTATCCAAGTGATGA 59.430 47.826 0.00 0.00 34.76 2.92
27 28 3.570125 TCGCTACTCCTATCCAAGTGATG 59.430 47.826 0.00 0.00 34.76 3.07
28 29 3.570550 GTCGCTACTCCTATCCAAGTGAT 59.429 47.826 0.00 0.00 37.49 3.06
29 30 2.950309 GTCGCTACTCCTATCCAAGTGA 59.050 50.000 0.00 0.00 0.00 3.41
30 31 2.688446 TGTCGCTACTCCTATCCAAGTG 59.312 50.000 0.00 0.00 0.00 3.16
31 32 2.688958 GTGTCGCTACTCCTATCCAAGT 59.311 50.000 0.00 0.00 0.00 3.16
32 33 2.952978 AGTGTCGCTACTCCTATCCAAG 59.047 50.000 0.00 0.00 0.00 3.61
33 34 3.014304 AGTGTCGCTACTCCTATCCAA 57.986 47.619 0.00 0.00 0.00 3.53
34 35 2.730934 AGTGTCGCTACTCCTATCCA 57.269 50.000 0.00 0.00 0.00 3.41
35 36 4.113354 CAAAAGTGTCGCTACTCCTATCC 58.887 47.826 0.00 0.00 0.00 2.59
36 37 4.745649 ACAAAAGTGTCGCTACTCCTATC 58.254 43.478 0.00 0.00 29.49 2.08
37 38 4.803098 ACAAAAGTGTCGCTACTCCTAT 57.197 40.909 0.00 0.00 29.49 2.57
38 39 4.304110 CAACAAAAGTGTCGCTACTCCTA 58.696 43.478 0.00 0.00 36.80 2.94
39 40 3.131396 CAACAAAAGTGTCGCTACTCCT 58.869 45.455 0.00 0.00 36.80 3.69
40 41 2.349532 GCAACAAAAGTGTCGCTACTCC 60.350 50.000 0.00 0.00 34.67 3.85
41 42 2.349532 GGCAACAAAAGTGTCGCTACTC 60.350 50.000 0.00 0.00 37.83 2.59
42 43 1.602377 GGCAACAAAAGTGTCGCTACT 59.398 47.619 0.00 0.00 37.83 2.57
43 44 1.602377 AGGCAACAAAAGTGTCGCTAC 59.398 47.619 0.00 0.00 37.83 3.58
44 45 1.961793 AGGCAACAAAAGTGTCGCTA 58.038 45.000 0.00 0.00 37.83 4.26
45 46 1.873591 CTAGGCAACAAAAGTGTCGCT 59.126 47.619 0.00 0.00 37.83 4.93
46 47 1.871039 TCTAGGCAACAAAAGTGTCGC 59.129 47.619 0.00 0.00 36.92 5.19
47 48 3.120199 CCATCTAGGCAACAAAAGTGTCG 60.120 47.826 0.00 0.00 36.80 4.35
48 49 3.821033 ACCATCTAGGCAACAAAAGTGTC 59.179 43.478 0.00 0.00 43.14 3.67
49 50 3.569701 CACCATCTAGGCAACAAAAGTGT 59.430 43.478 0.00 0.00 43.14 3.55
50 51 3.057315 CCACCATCTAGGCAACAAAAGTG 60.057 47.826 0.00 0.00 43.14 3.16
51 52 3.157087 CCACCATCTAGGCAACAAAAGT 58.843 45.455 0.00 0.00 43.14 2.66
52 53 3.855689 CCACCATCTAGGCAACAAAAG 57.144 47.619 0.00 0.00 43.14 2.27
61 62 3.393472 GCTGAAGCCACCATCTAGG 57.607 57.895 0.00 0.00 38.16 3.02
72 73 4.025647 GTCATACAACGATAAGGCTGAAGC 60.026 45.833 0.00 0.00 41.14 3.86
73 74 5.352284 AGTCATACAACGATAAGGCTGAAG 58.648 41.667 0.00 0.00 0.00 3.02
74 75 5.339008 AGTCATACAACGATAAGGCTGAA 57.661 39.130 0.00 0.00 0.00 3.02
75 76 5.339008 AAGTCATACAACGATAAGGCTGA 57.661 39.130 0.00 0.00 0.00 4.26
76 77 5.351465 ACAAAGTCATACAACGATAAGGCTG 59.649 40.000 0.00 0.00 0.00 4.85
77 78 5.488341 ACAAAGTCATACAACGATAAGGCT 58.512 37.500 0.00 0.00 0.00 4.58
78 79 5.796350 ACAAAGTCATACAACGATAAGGC 57.204 39.130 0.00 0.00 0.00 4.35
79 80 7.494625 ACCATACAAAGTCATACAACGATAAGG 59.505 37.037 0.00 0.00 0.00 2.69
80 81 8.420374 ACCATACAAAGTCATACAACGATAAG 57.580 34.615 0.00 0.00 0.00 1.73
81 82 8.255206 AGACCATACAAAGTCATACAACGATAA 58.745 33.333 0.00 0.00 35.38 1.75
82 83 7.778083 AGACCATACAAAGTCATACAACGATA 58.222 34.615 0.00 0.00 35.38 2.92
83 84 6.640518 AGACCATACAAAGTCATACAACGAT 58.359 36.000 0.00 0.00 35.38 3.73
84 85 6.032956 AGACCATACAAAGTCATACAACGA 57.967 37.500 0.00 0.00 35.38 3.85
85 86 6.147164 ACAAGACCATACAAAGTCATACAACG 59.853 38.462 0.00 0.00 35.38 4.10
86 87 7.041372 ACACAAGACCATACAAAGTCATACAAC 60.041 37.037 0.00 0.00 35.38 3.32
87 88 6.995686 ACACAAGACCATACAAAGTCATACAA 59.004 34.615 0.00 0.00 35.38 2.41
88 89 6.426633 CACACAAGACCATACAAAGTCATACA 59.573 38.462 0.00 0.00 35.38 2.29
89 90 6.649141 TCACACAAGACCATACAAAGTCATAC 59.351 38.462 0.00 0.00 35.38 2.39
90 91 6.764379 TCACACAAGACCATACAAAGTCATA 58.236 36.000 0.00 0.00 35.38 2.15
91 92 5.620206 TCACACAAGACCATACAAAGTCAT 58.380 37.500 0.00 0.00 35.38 3.06
92 93 5.029807 TCACACAAGACCATACAAAGTCA 57.970 39.130 0.00 0.00 35.38 3.41
93 94 6.560253 ATTCACACAAGACCATACAAAGTC 57.440 37.500 0.00 0.00 0.00 3.01
94 95 8.635765 ATTATTCACACAAGACCATACAAAGT 57.364 30.769 0.00 0.00 0.00 2.66
108 109 9.311916 GCAGCCATTTTATTAATTATTCACACA 57.688 29.630 0.00 0.00 0.00 3.72
109 110 9.311916 TGCAGCCATTTTATTAATTATTCACAC 57.688 29.630 0.00 0.00 0.00 3.82
112 113 8.991026 GCATGCAGCCATTTTATTAATTATTCA 58.009 29.630 14.21 0.00 37.23 2.57
113 114 8.991026 TGCATGCAGCCATTTTATTAATTATTC 58.009 29.630 18.46 0.00 44.83 1.75
114 115 8.905660 TGCATGCAGCCATTTTATTAATTATT 57.094 26.923 18.46 0.00 44.83 1.40
115 116 9.158233 GATGCATGCAGCCATTTTATTAATTAT 57.842 29.630 25.21 0.54 44.83 1.28
116 117 8.369424 AGATGCATGCAGCCATTTTATTAATTA 58.631 29.630 30.96 0.00 44.83 1.40
117 118 7.221450 AGATGCATGCAGCCATTTTATTAATT 58.779 30.769 30.96 5.99 44.83 1.40
118 119 6.765403 AGATGCATGCAGCCATTTTATTAAT 58.235 32.000 30.96 6.33 44.83 1.40
119 120 6.164417 AGATGCATGCAGCCATTTTATTAA 57.836 33.333 30.96 0.00 44.83 1.40
120 121 5.794726 AGATGCATGCAGCCATTTTATTA 57.205 34.783 30.96 0.00 44.83 0.98
121 122 4.682778 AGATGCATGCAGCCATTTTATT 57.317 36.364 30.96 8.32 44.83 1.40
122 123 4.344102 AGAAGATGCATGCAGCCATTTTAT 59.656 37.500 30.96 14.07 44.83 1.40
123 124 3.702548 AGAAGATGCATGCAGCCATTTTA 59.297 39.130 30.96 1.12 44.83 1.52
124 125 2.500098 AGAAGATGCATGCAGCCATTTT 59.500 40.909 30.96 19.16 44.83 1.82
125 126 2.108168 AGAAGATGCATGCAGCCATTT 58.892 42.857 30.96 19.53 44.83 2.32
126 127 1.776662 AGAAGATGCATGCAGCCATT 58.223 45.000 30.96 20.28 44.83 3.16
127 128 2.651382 TAGAAGATGCATGCAGCCAT 57.349 45.000 30.96 20.95 44.83 4.40
128 129 2.621526 CAATAGAAGATGCATGCAGCCA 59.378 45.455 30.96 15.07 44.83 4.75
129 130 2.882761 TCAATAGAAGATGCATGCAGCC 59.117 45.455 30.96 21.44 44.83 4.85
130 131 4.563337 TTCAATAGAAGATGCATGCAGC 57.437 40.909 27.98 27.98 45.96 5.25
165 166 0.909623 GCCCCATATATACGCCCTGT 59.090 55.000 0.00 0.00 0.00 4.00
175 176 5.186256 TGTTTTGACTTCTGCCCCATATA 57.814 39.130 0.00 0.00 0.00 0.86
176 177 4.046286 TGTTTTGACTTCTGCCCCATAT 57.954 40.909 0.00 0.00 0.00 1.78
177 178 3.517296 TGTTTTGACTTCTGCCCCATA 57.483 42.857 0.00 0.00 0.00 2.74
178 179 2.380064 TGTTTTGACTTCTGCCCCAT 57.620 45.000 0.00 0.00 0.00 4.00
179 180 2.151502 TTGTTTTGACTTCTGCCCCA 57.848 45.000 0.00 0.00 0.00 4.96
180 181 2.798145 CGTTTGTTTTGACTTCTGCCCC 60.798 50.000 0.00 0.00 0.00 5.80
184 187 4.833126 ACGATCGTTTGTTTTGACTTCTG 58.167 39.130 16.60 0.00 0.00 3.02
194 197 4.812626 AGTAGGAAACAACGATCGTTTGTT 59.187 37.500 29.89 28.53 36.72 2.83
205 208 5.805994 CGTTCATAGAGGAGTAGGAAACAAC 59.194 44.000 0.00 0.00 0.00 3.32
208 211 4.098196 AGCGTTCATAGAGGAGTAGGAAAC 59.902 45.833 0.00 0.00 0.00 2.78
219 223 2.346847 GTGTGAGCAAGCGTTCATAGAG 59.653 50.000 0.00 0.00 34.63 2.43
221 225 2.068519 TGTGTGAGCAAGCGTTCATAG 58.931 47.619 0.00 0.00 34.63 2.23
271 275 2.477863 CCGTCGAATGGAATTTCAAGCC 60.478 50.000 0.00 0.00 36.07 4.35
299 303 7.695869 TCTTCTTCTTCTTCTACGTGAAAAC 57.304 36.000 0.00 0.00 33.79 2.43
307 311 5.105106 CCTCCCCTTCTTCTTCTTCTTCTAC 60.105 48.000 0.00 0.00 0.00 2.59
311 730 2.916269 CCCTCCCCTTCTTCTTCTTCTT 59.084 50.000 0.00 0.00 0.00 2.52
393 821 5.715434 AGTTTACGTGCAATTTAATGGGT 57.285 34.783 0.00 0.00 0.00 4.51
421 849 0.972471 CCCATTCCCAGGAAACCAGC 60.972 60.000 2.65 0.00 37.69 4.85
456 884 0.398696 TTAACGAGGAGGCTTTGGCA 59.601 50.000 0.00 0.00 40.87 4.92
499 947 2.251642 GCACGGTGAGGCTTTTCGT 61.252 57.895 13.29 0.00 34.19 3.85
540 995 7.964604 ATATATATATACTGAGCGAGCGACA 57.035 36.000 4.54 0.00 0.00 4.35
913 1734 1.446907 CCAGATTGAGAGCACCACAC 58.553 55.000 0.00 0.00 0.00 3.82
914 1735 0.321919 GCCAGATTGAGAGCACCACA 60.322 55.000 0.00 0.00 0.00 4.17
920 2000 3.132925 GAGAGATTGCCAGATTGAGAGC 58.867 50.000 0.00 0.00 0.00 4.09
922 2002 6.015265 CAGATAGAGAGATTGCCAGATTGAGA 60.015 42.308 0.00 0.00 0.00 3.27
923 2003 6.015265 TCAGATAGAGAGATTGCCAGATTGAG 60.015 42.308 0.00 0.00 0.00 3.02
925 2005 6.099159 TCAGATAGAGAGATTGCCAGATTG 57.901 41.667 0.00 0.00 0.00 2.67
926 2006 6.742082 GCTTCAGATAGAGAGATTGCCAGATT 60.742 42.308 0.00 0.00 0.00 2.40
977 2091 3.319198 GAACCCGCCCCTGAGACA 61.319 66.667 0.00 0.00 0.00 3.41
978 2092 3.003763 AGAACCCGCCCCTGAGAC 61.004 66.667 0.00 0.00 0.00 3.36
1101 3507 0.457166 CGTACGAAACCGAGATGGCA 60.457 55.000 10.44 0.00 43.94 4.92
1164 3570 3.444805 GAGCGCTGTCGACCCTCT 61.445 66.667 18.48 4.26 38.10 3.69
1248 3665 0.677288 ATTGGAATGGCATGGCATCG 59.323 50.000 32.26 0.00 0.00 3.84
1364 3784 0.395311 TGAGGTATTCGTCCGGCTCT 60.395 55.000 0.00 0.00 0.00 4.09
1385 3805 0.751277 CCGCATGCCCTTTCATACCA 60.751 55.000 13.15 0.00 0.00 3.25
1423 3844 2.749044 TAAGCGCTCCGACGAGGT 60.749 61.111 12.06 0.00 41.99 3.85
1491 3912 4.475135 GGGGAGCTCGAAGGGTGC 62.475 72.222 7.83 0.00 35.39 5.01
1508 3929 1.883084 GATTCTACCACCAGCCGCG 60.883 63.158 0.00 0.00 0.00 6.46
1514 7613 1.874129 ACCCGATGATTCTACCACCA 58.126 50.000 0.00 0.00 0.00 4.17
1520 7619 1.411246 CCGTGGAACCCGATGATTCTA 59.589 52.381 0.00 0.00 0.00 2.10
1557 7656 2.315901 GTAAATGCCAAGTGCGTCAAC 58.684 47.619 0.00 0.00 45.60 3.18
1591 7690 6.309251 GCATCACGGATATAGAAGAGTTTAGC 59.691 42.308 0.00 0.00 0.00 3.09
1626 7804 2.159114 TCAACAAAAGAAGCACAAGGCC 60.159 45.455 0.00 0.00 46.50 5.19
1674 7881 2.790433 TCACCCCTATTGTCACTTTGC 58.210 47.619 0.00 0.00 0.00 3.68
1681 7888 5.241728 GCCAATCTTATTCACCCCTATTGTC 59.758 44.000 0.00 0.00 0.00 3.18
1691 7903 6.018343 GCTAGAAGACTGCCAATCTTATTCAC 60.018 42.308 0.00 0.00 36.53 3.18
1757 7986 8.558700 GTTGCAATCAATTTACAAATTTGGAGT 58.441 29.630 21.74 5.22 36.52 3.85
1805 8034 4.154942 ACATCCAAACAGAGCAAGGAATT 58.845 39.130 0.00 0.00 31.17 2.17
1807 8036 3.228188 ACATCCAAACAGAGCAAGGAA 57.772 42.857 0.00 0.00 31.17 3.36
1809 8038 2.886523 TCAACATCCAAACAGAGCAAGG 59.113 45.455 0.00 0.00 0.00 3.61
1810 8039 3.316029 TGTCAACATCCAAACAGAGCAAG 59.684 43.478 0.00 0.00 0.00 4.01
1811 8040 3.286353 TGTCAACATCCAAACAGAGCAA 58.714 40.909 0.00 0.00 0.00 3.91
1831 8060 6.481976 CCAATTCAATTCCATGACCATGAATG 59.518 38.462 11.28 5.18 41.20 2.67
1837 8066 2.500910 GGCCAATTCAATTCCATGACCA 59.499 45.455 0.00 0.00 0.00 4.02
1840 8069 3.710724 TGAGGCCAATTCAATTCCATGA 58.289 40.909 5.01 0.00 0.00 3.07
1859 8088 9.676861 ATCAAAGTCACAGAGATTTGATATTGA 57.323 29.630 9.58 0.00 45.67 2.57
1900 8129 5.064452 GTGCACATCCAAACAACAAAATTCA 59.936 36.000 13.17 0.00 0.00 2.57
1906 8135 2.757314 TCTGTGCACATCCAAACAACAA 59.243 40.909 22.00 0.00 0.00 2.83
1952 8182 1.167851 CAAGCTTCGGAATTGAGCCA 58.832 50.000 0.00 0.00 0.00 4.75
1963 8193 1.879380 TGACCATCCAAACAAGCTTCG 59.121 47.619 0.00 0.00 0.00 3.79
1988 8218 5.449177 GCCTATGACAAACCAGCAATTCTAC 60.449 44.000 0.00 0.00 0.00 2.59
2091 8327 5.046910 AGAGTTTGTTGGTAATTGATGCG 57.953 39.130 0.00 0.00 0.00 4.73
2121 8365 2.041405 GAGAGAGGGTGGGAGGGG 60.041 72.222 0.00 0.00 0.00 4.79
2123 8373 0.396974 CAGAGAGAGAGGGTGGGAGG 60.397 65.000 0.00 0.00 0.00 4.30
2125 8375 0.333312 GACAGAGAGAGAGGGTGGGA 59.667 60.000 0.00 0.00 0.00 4.37
2129 8379 0.407528 TGCAGACAGAGAGAGAGGGT 59.592 55.000 0.00 0.00 0.00 4.34
2142 8392 0.319900 ACACGAGACCATGTGCAGAC 60.320 55.000 0.00 0.00 39.71 3.51
2175 8425 8.428536 TCAGTATTGTTGTTTTGTTGTTTTTCG 58.571 29.630 0.00 0.00 0.00 3.46
2266 8519 4.385310 CCCCTCCCTAATCCTACACAAAAG 60.385 50.000 0.00 0.00 0.00 2.27
2291 10220 2.688666 TCTAGCCACCAGCCCCTG 60.689 66.667 0.00 0.00 45.47 4.45
2315 10244 0.250467 CATCTTCCCCCATGGCTACG 60.250 60.000 6.09 0.00 0.00 3.51
2372 10301 2.425592 CCGTCTGCTTGACCCACA 59.574 61.111 5.17 0.00 42.49 4.17
2506 10442 1.208293 GTCATCCTTCTCCGCCTTCTT 59.792 52.381 0.00 0.00 0.00 2.52
2564 10507 2.811799 GAGAGCGGGAGAGGAAGC 59.188 66.667 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.