Multiple sequence alignment - TraesCS3D01G162200

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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 TraesCS3D01G162200 chr3D 100.000 2765 0 0 1 2765 132905692 132908456 0.000000e+00 5107.0
1 TraesCS3D01G162200 chr3D 93.841 617 36 2 2149 2765 609293854 609294468 0.000000e+00 928.0
2 TraesCS3D01G162200 chr3D 91.054 313 24 2 310 618 608920921 608921233 1.180000e-113 420.0
3 TraesCS3D01G162200 chr3D 88.532 218 23 2 635 850 608921286 608921503 2.110000e-66 263.0
4 TraesCS3D01G162200 chr3D 87.124 233 10 6 1936 2166 609293615 609293829 2.130000e-61 246.0
5 TraesCS3D01G162200 chr3D 89.744 156 14 2 17 172 608921679 608921526 6.040000e-47 198.0
6 TraesCS3D01G162200 chr3D 94.898 98 5 0 172 269 608920824 608920921 1.330000e-33 154.0
7 TraesCS3D01G162200 chr3A 87.500 1096 67 37 848 1904 146562094 146563158 0.000000e+00 1201.0
8 TraesCS3D01G162200 chr3A 82.379 454 50 14 1899 2322 171182649 171182196 4.350000e-98 368.0
9 TraesCS3D01G162200 chr3A 93.143 175 10 1 1 173 32653961 32653787 3.530000e-64 255.0
10 TraesCS3D01G162200 chr3A 91.429 175 10 2 1 173 32733824 32733653 4.600000e-58 235.0
11 TraesCS3D01G162200 chrUn 90.216 879 62 7 1909 2765 16951136 16950260 0.000000e+00 1125.0
12 TraesCS3D01G162200 chrUn 90.216 879 62 7 1909 2765 266455382 266454506 0.000000e+00 1125.0
13 TraesCS3D01G162200 chrUn 90.216 879 62 7 1909 2765 282234155 282235031 0.000000e+00 1125.0
14 TraesCS3D01G162200 chrUn 85.938 448 37 9 1900 2322 101303248 101303694 3.250000e-124 455.0
15 TraesCS3D01G162200 chrUn 100.000 32 0 0 1920 1951 155118205 155118236 2.970000e-05 60.2
16 TraesCS3D01G162200 chr2B 89.397 896 50 12 1894 2765 697445126 697446000 0.000000e+00 1086.0
17 TraesCS3D01G162200 chr2B 89.286 868 86 6 1904 2765 260095638 260096504 0.000000e+00 1081.0
18 TraesCS3D01G162200 chr2B 84.971 173 21 4 1 173 790889997 790889830 1.320000e-38 171.0
19 TraesCS3D01G162200 chr2B 84.375 64 10 0 500 563 757473933 757473870 2.300000e-06 63.9
20 TraesCS3D01G162200 chr6A 90.179 784 50 9 2005 2765 73836329 73835550 0.000000e+00 996.0
21 TraesCS3D01G162200 chr6B 86.887 877 59 22 1913 2765 132148587 132147743 0.000000e+00 931.0
22 TraesCS3D01G162200 chr6B 80.481 374 43 13 412 755 9434490 9434863 2.730000e-65 259.0
23 TraesCS3D01G162200 chr6B 80.481 374 43 13 412 755 9445546 9445919 2.730000e-65 259.0
24 TraesCS3D01G162200 chr5A 90.496 705 30 7 177 850 569155492 569156190 0.000000e+00 896.0
25 TraesCS3D01G162200 chr5A 93.570 451 21 4 170 618 578942948 578942504 0.000000e+00 665.0
26 TraesCS3D01G162200 chr5A 94.979 239 11 1 613 850 578942481 578942243 9.350000e-100 374.0
27 TraesCS3D01G162200 chr5A 87.179 234 29 1 616 848 693080753 693080520 5.870000e-67 265.0
28 TraesCS3D01G162200 chr5A 93.714 175 9 1 1 173 569156386 569156212 7.600000e-66 261.0
29 TraesCS3D01G162200 chr5A 91.477 176 12 1 1 173 578942046 578942221 3.560000e-59 239.0
30 TraesCS3D01G162200 chr5A 84.519 239 36 1 613 850 299633190 299633428 4.600000e-58 235.0
31 TraesCS3D01G162200 chr3B 90.143 558 43 8 1353 1904 189388044 189388595 0.000000e+00 715.0
32 TraesCS3D01G162200 chr3B 92.308 351 16 3 893 1239 189387621 189387964 3.200000e-134 488.0
33 TraesCS3D01G162200 chr3B 78.742 461 63 23 420 850 101638941 101638486 2.710000e-70 276.0
34 TraesCS3D01G162200 chr6D 93.478 414 24 2 208 618 97032206 97032619 1.820000e-171 612.0
35 TraesCS3D01G162200 chr6D 95.397 239 10 1 613 850 97032642 97032880 2.010000e-101 379.0
36 TraesCS3D01G162200 chr6D 94.798 173 9 0 1 173 97033074 97032902 1.260000e-68 270.0
37 TraesCS3D01G162200 chr6D 96.629 89 3 0 2674 2762 424726159 424726071 6.170000e-32 148.0
38 TraesCS3D01G162200 chr7A 85.321 327 20 6 2019 2322 692723128 692722807 2.070000e-81 313.0
39 TraesCS3D01G162200 chr7A 84.571 175 20 5 1 173 410718630 410718799 1.700000e-37 167.0
40 TraesCS3D01G162200 chr1A 85.477 241 32 2 613 850 543385073 543384833 5.910000e-62 248.0
41 TraesCS3D01G162200 chr1B 86.996 223 24 4 629 850 631120509 631120291 2.130000e-61 246.0
42 TraesCS3D01G162200 chr5B 83.429 175 22 5 1 173 635798103 635797934 3.690000e-34 156.0
43 TraesCS3D01G162200 chr2D 84.286 70 9 1 2578 2645 35555440 35555371 1.780000e-07 67.6


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 TraesCS3D01G162200 chr3D 132905692 132908456 2764 False 5107.0 5107 100.000000 1 2765 1 chr3D.!!$F1 2764
1 TraesCS3D01G162200 chr3D 609293615 609294468 853 False 587.0 928 90.482500 1936 2765 2 chr3D.!!$F3 829
2 TraesCS3D01G162200 chr3D 608920824 608921503 679 False 279.0 420 91.494667 172 850 3 chr3D.!!$F2 678
3 TraesCS3D01G162200 chr3A 146562094 146563158 1064 False 1201.0 1201 87.500000 848 1904 1 chr3A.!!$F1 1056
4 TraesCS3D01G162200 chrUn 16950260 16951136 876 True 1125.0 1125 90.216000 1909 2765 1 chrUn.!!$R1 856
5 TraesCS3D01G162200 chrUn 266454506 266455382 876 True 1125.0 1125 90.216000 1909 2765 1 chrUn.!!$R2 856
6 TraesCS3D01G162200 chrUn 282234155 282235031 876 False 1125.0 1125 90.216000 1909 2765 1 chrUn.!!$F3 856
7 TraesCS3D01G162200 chr2B 697445126 697446000 874 False 1086.0 1086 89.397000 1894 2765 1 chr2B.!!$F2 871
8 TraesCS3D01G162200 chr2B 260095638 260096504 866 False 1081.0 1081 89.286000 1904 2765 1 chr2B.!!$F1 861
9 TraesCS3D01G162200 chr6A 73835550 73836329 779 True 996.0 996 90.179000 2005 2765 1 chr6A.!!$R1 760
10 TraesCS3D01G162200 chr6B 132147743 132148587 844 True 931.0 931 86.887000 1913 2765 1 chr6B.!!$R1 852
11 TraesCS3D01G162200 chr5A 569155492 569156190 698 False 896.0 896 90.496000 177 850 1 chr5A.!!$F2 673
12 TraesCS3D01G162200 chr5A 578942243 578942948 705 True 519.5 665 94.274500 170 850 2 chr5A.!!$R3 680
13 TraesCS3D01G162200 chr3B 189387621 189388595 974 False 601.5 715 91.225500 893 1904 2 chr3B.!!$F1 1011
14 TraesCS3D01G162200 chr6D 97032206 97032880 674 False 495.5 612 94.437500 208 850 2 chr6D.!!$F1 642

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
40 41 0.041312 CAGCCAACACTAACACACGC 60.041 55.0 0.0 0.0 0.0 5.34 F
52 53 0.109964 ACACACGCACACAACAACAC 60.110 50.0 0.0 0.0 0.0 3.32 F
57 58 0.179212 CGCACACAACAACACGTCAA 60.179 50.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1271 1353 0.109689 GACGCGCTAGCCATAGTAGG 60.110 60.0 5.73 0.00 41.18 3.18 R
1274 1356 0.249073 CTTGACGCGCTAGCCATAGT 60.249 55.0 5.73 3.89 41.18 2.12 R
2041 2195 0.323999 TAAGGCTAGCGGGACACAGA 60.324 55.0 9.00 0.00 0.00 3.41 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
24 25 2.141517 CATAGCTAGGATGCACACAGC 58.858 52.381 0.00 0.00 45.96 4.40
30 31 4.950744 GATGCACACAGCCAACAC 57.049 55.556 0.00 0.00 44.83 3.32
31 32 2.334307 GATGCACACAGCCAACACT 58.666 52.632 0.00 0.00 44.83 3.55
32 33 1.522668 GATGCACACAGCCAACACTA 58.477 50.000 0.00 0.00 44.83 2.74
33 34 1.879380 GATGCACACAGCCAACACTAA 59.121 47.619 0.00 0.00 44.83 2.24
34 35 1.021202 TGCACACAGCCAACACTAAC 58.979 50.000 0.00 0.00 44.83 2.34
35 36 1.021202 GCACACAGCCAACACTAACA 58.979 50.000 0.00 0.00 37.23 2.41
36 37 1.268539 GCACACAGCCAACACTAACAC 60.269 52.381 0.00 0.00 37.23 3.32
37 38 2.013400 CACACAGCCAACACTAACACA 58.987 47.619 0.00 0.00 0.00 3.72
38 39 2.014128 ACACAGCCAACACTAACACAC 58.986 47.619 0.00 0.00 0.00 3.82
39 40 1.003972 CACAGCCAACACTAACACACG 60.004 52.381 0.00 0.00 0.00 4.49
40 41 0.041312 CAGCCAACACTAACACACGC 60.041 55.000 0.00 0.00 0.00 5.34
41 42 0.462937 AGCCAACACTAACACACGCA 60.463 50.000 0.00 0.00 0.00 5.24
42 43 0.316689 GCCAACACTAACACACGCAC 60.317 55.000 0.00 0.00 0.00 5.34
43 44 1.010580 CCAACACTAACACACGCACA 58.989 50.000 0.00 0.00 0.00 4.57
44 45 1.267832 CCAACACTAACACACGCACAC 60.268 52.381 0.00 0.00 0.00 3.82
45 46 1.395262 CAACACTAACACACGCACACA 59.605 47.619 0.00 0.00 0.00 3.72
46 47 1.728068 ACACTAACACACGCACACAA 58.272 45.000 0.00 0.00 0.00 3.33
47 48 1.395608 ACACTAACACACGCACACAAC 59.604 47.619 0.00 0.00 0.00 3.32
48 49 1.395262 CACTAACACACGCACACAACA 59.605 47.619 0.00 0.00 0.00 3.33
49 50 2.077627 ACTAACACACGCACACAACAA 58.922 42.857 0.00 0.00 0.00 2.83
50 51 2.159626 ACTAACACACGCACACAACAAC 60.160 45.455 0.00 0.00 0.00 3.32
51 52 0.593618 AACACACGCACACAACAACA 59.406 45.000 0.00 0.00 0.00 3.33
52 53 0.109964 ACACACGCACACAACAACAC 60.110 50.000 0.00 0.00 0.00 3.32
53 54 1.125274 CACACGCACACAACAACACG 61.125 55.000 0.00 0.00 0.00 4.49
54 55 1.133664 CACGCACACAACAACACGT 59.866 52.632 0.00 0.00 0.00 4.49
55 56 0.855670 CACGCACACAACAACACGTC 60.856 55.000 0.00 0.00 0.00 4.34
56 57 1.292571 ACGCACACAACAACACGTCA 61.293 50.000 0.00 0.00 0.00 4.35
57 58 0.179212 CGCACACAACAACACGTCAA 60.179 50.000 0.00 0.00 0.00 3.18
58 59 1.255767 GCACACAACAACACGTCAAC 58.744 50.000 0.00 0.00 0.00 3.18
59 60 1.400371 GCACACAACAACACGTCAACA 60.400 47.619 0.00 0.00 0.00 3.33
60 61 2.918549 GCACACAACAACACGTCAACAA 60.919 45.455 0.00 0.00 0.00 2.83
61 62 3.300857 CACACAACAACACGTCAACAAA 58.699 40.909 0.00 0.00 0.00 2.83
62 63 3.917380 CACACAACAACACGTCAACAAAT 59.083 39.130 0.00 0.00 0.00 2.32
63 64 5.089411 CACACAACAACACGTCAACAAATA 58.911 37.500 0.00 0.00 0.00 1.40
64 65 5.226978 CACACAACAACACGTCAACAAATAG 59.773 40.000 0.00 0.00 0.00 1.73
65 66 4.204168 CACAACAACACGTCAACAAATAGC 59.796 41.667 0.00 0.00 0.00 2.97
66 67 4.142578 ACAACAACACGTCAACAAATAGCA 60.143 37.500 0.00 0.00 0.00 3.49
67 68 4.624336 ACAACACGTCAACAAATAGCAA 57.376 36.364 0.00 0.00 0.00 3.91
68 69 4.987832 ACAACACGTCAACAAATAGCAAA 58.012 34.783 0.00 0.00 0.00 3.68
69 70 5.034152 ACAACACGTCAACAAATAGCAAAG 58.966 37.500 0.00 0.00 0.00 2.77
70 71 4.893424 ACACGTCAACAAATAGCAAAGT 57.107 36.364 0.00 0.00 0.00 2.66
71 72 4.844267 ACACGTCAACAAATAGCAAAGTC 58.156 39.130 0.00 0.00 0.00 3.01
72 73 4.334203 ACACGTCAACAAATAGCAAAGTCA 59.666 37.500 0.00 0.00 0.00 3.41
73 74 5.008613 ACACGTCAACAAATAGCAAAGTCAT 59.991 36.000 0.00 0.00 0.00 3.06
74 75 6.203915 ACACGTCAACAAATAGCAAAGTCATA 59.796 34.615 0.00 0.00 0.00 2.15
75 76 7.094805 ACACGTCAACAAATAGCAAAGTCATAT 60.095 33.333 0.00 0.00 0.00 1.78
76 77 8.387354 CACGTCAACAAATAGCAAAGTCATATA 58.613 33.333 0.00 0.00 0.00 0.86
77 78 8.941977 ACGTCAACAAATAGCAAAGTCATATAA 58.058 29.630 0.00 0.00 0.00 0.98
78 79 9.425893 CGTCAACAAATAGCAAAGTCATATAAG 57.574 33.333 0.00 0.00 0.00 1.73
81 82 9.722056 CAACAAATAGCAAAGTCATATAAGACC 57.278 33.333 4.52 0.00 39.34 3.85
82 83 9.461312 AACAAATAGCAAAGTCATATAAGACCA 57.539 29.630 4.52 0.00 39.34 4.02
83 84 9.461312 ACAAATAGCAAAGTCATATAAGACCAA 57.539 29.630 4.52 0.00 39.34 3.67
86 87 6.442513 AGCAAAGTCATATAAGACCAAAGC 57.557 37.500 4.52 4.82 39.34 3.51
87 88 5.358160 AGCAAAGTCATATAAGACCAAAGCC 59.642 40.000 4.52 0.00 39.34 4.35
88 89 5.730568 GCAAAGTCATATAAGACCAAAGCCG 60.731 44.000 4.52 0.00 39.34 5.52
89 90 4.755266 AGTCATATAAGACCAAAGCCGT 57.245 40.909 4.52 0.00 39.34 5.68
90 91 4.442706 AGTCATATAAGACCAAAGCCGTG 58.557 43.478 4.52 0.00 39.34 4.94
91 92 3.002348 GTCATATAAGACCAAAGCCGTGC 59.998 47.826 0.00 0.00 32.36 5.34
92 93 1.647346 TATAAGACCAAAGCCGTGCG 58.353 50.000 0.00 0.00 0.00 5.34
93 94 0.321298 ATAAGACCAAAGCCGTGCGT 60.321 50.000 0.00 0.00 0.00 5.24
94 95 0.317799 TAAGACCAAAGCCGTGCGTA 59.682 50.000 0.00 0.00 0.00 4.42
95 96 0.949105 AAGACCAAAGCCGTGCGTAG 60.949 55.000 0.00 0.00 0.00 3.51
96 97 1.373748 GACCAAAGCCGTGCGTAGA 60.374 57.895 0.00 0.00 0.00 2.59
97 98 1.623973 GACCAAAGCCGTGCGTAGAC 61.624 60.000 0.00 0.00 0.00 2.59
98 99 2.726691 CCAAAGCCGTGCGTAGACG 61.727 63.158 0.00 0.00 43.27 4.18
99 100 1.731613 CAAAGCCGTGCGTAGACGA 60.732 57.895 6.19 0.00 42.10 4.20
100 101 1.076533 CAAAGCCGTGCGTAGACGAT 61.077 55.000 6.19 0.00 42.10 3.73
101 102 1.076533 AAAGCCGTGCGTAGACGATG 61.077 55.000 6.19 0.00 42.10 3.84
102 103 1.929806 AAGCCGTGCGTAGACGATGA 61.930 55.000 6.19 0.00 42.10 2.92
103 104 1.515519 GCCGTGCGTAGACGATGAA 60.516 57.895 6.19 0.00 42.10 2.57
104 105 1.074319 GCCGTGCGTAGACGATGAAA 61.074 55.000 6.19 0.00 42.10 2.69
105 106 1.342555 CCGTGCGTAGACGATGAAAA 58.657 50.000 6.19 0.00 42.10 2.29
106 107 1.722464 CCGTGCGTAGACGATGAAAAA 59.278 47.619 6.19 0.00 42.10 1.94
131 132 9.729281 AAAAATCAGAGCAACCAAATTCATAAT 57.271 25.926 0.00 0.00 0.00 1.28
134 135 7.572523 TCAGAGCAACCAAATTCATAATAGG 57.427 36.000 0.00 0.00 0.00 2.57
135 136 6.039717 TCAGAGCAACCAAATTCATAATAGGC 59.960 38.462 0.00 0.00 0.00 3.93
136 137 5.893255 AGAGCAACCAAATTCATAATAGGCA 59.107 36.000 0.00 0.00 0.00 4.75
137 138 6.380846 AGAGCAACCAAATTCATAATAGGCAA 59.619 34.615 0.00 0.00 0.00 4.52
138 139 6.945218 AGCAACCAAATTCATAATAGGCAAA 58.055 32.000 0.00 0.00 0.00 3.68
139 140 6.818142 AGCAACCAAATTCATAATAGGCAAAC 59.182 34.615 0.00 0.00 0.00 2.93
140 141 6.818142 GCAACCAAATTCATAATAGGCAAACT 59.182 34.615 0.00 0.00 0.00 2.66
141 142 7.978975 GCAACCAAATTCATAATAGGCAAACTA 59.021 33.333 0.00 0.00 35.80 2.24
142 143 9.301153 CAACCAAATTCATAATAGGCAAACTAC 57.699 33.333 0.00 0.00 33.70 2.73
143 144 8.588290 ACCAAATTCATAATAGGCAAACTACA 57.412 30.769 0.00 0.00 33.70 2.74
144 145 9.030452 ACCAAATTCATAATAGGCAAACTACAA 57.970 29.630 0.00 0.00 33.70 2.41
145 146 9.301153 CCAAATTCATAATAGGCAAACTACAAC 57.699 33.333 0.00 0.00 33.70 3.32
146 147 9.853555 CAAATTCATAATAGGCAAACTACAACA 57.146 29.630 0.00 0.00 33.70 3.33
150 151 8.800370 TCATAATAGGCAAACTACAACAATGA 57.200 30.769 0.00 0.00 33.70 2.57
151 152 8.673711 TCATAATAGGCAAACTACAACAATGAC 58.326 33.333 0.00 0.00 33.70 3.06
152 153 5.897377 ATAGGCAAACTACAACAATGACC 57.103 39.130 0.00 0.00 33.70 4.02
153 154 3.561143 AGGCAAACTACAACAATGACCA 58.439 40.909 0.00 0.00 0.00 4.02
154 155 4.151883 AGGCAAACTACAACAATGACCAT 58.848 39.130 0.00 0.00 0.00 3.55
155 156 5.321102 AGGCAAACTACAACAATGACCATA 58.679 37.500 0.00 0.00 0.00 2.74
156 157 5.951747 AGGCAAACTACAACAATGACCATAT 59.048 36.000 0.00 0.00 0.00 1.78
157 158 6.095440 AGGCAAACTACAACAATGACCATATC 59.905 38.462 0.00 0.00 0.00 1.63
158 159 6.265577 GCAAACTACAACAATGACCATATCC 58.734 40.000 0.00 0.00 0.00 2.59
159 160 6.486248 CAAACTACAACAATGACCATATCCG 58.514 40.000 0.00 0.00 0.00 4.18
160 161 4.127171 ACTACAACAATGACCATATCCGC 58.873 43.478 0.00 0.00 0.00 5.54
161 162 2.997980 ACAACAATGACCATATCCGCA 58.002 42.857 0.00 0.00 0.00 5.69
162 163 3.351740 ACAACAATGACCATATCCGCAA 58.648 40.909 0.00 0.00 0.00 4.85
163 164 3.128589 ACAACAATGACCATATCCGCAAC 59.871 43.478 0.00 0.00 0.00 4.17
164 165 2.997980 ACAATGACCATATCCGCAACA 58.002 42.857 0.00 0.00 0.00 3.33
165 166 3.351740 ACAATGACCATATCCGCAACAA 58.648 40.909 0.00 0.00 0.00 2.83
166 167 3.953612 ACAATGACCATATCCGCAACAAT 59.046 39.130 0.00 0.00 0.00 2.71
167 168 4.402155 ACAATGACCATATCCGCAACAATT 59.598 37.500 0.00 0.00 0.00 2.32
168 169 5.592282 ACAATGACCATATCCGCAACAATTA 59.408 36.000 0.00 0.00 0.00 1.40
174 175 4.378356 CCATATCCGCAACAATTATGTCCG 60.378 45.833 0.00 0.00 39.40 4.79
283 284 3.067106 GCCAGATTCGACTTTCAAGACA 58.933 45.455 0.00 0.00 0.00 3.41
370 374 0.826715 ATCGTCAGTGTGGCTGCTAT 59.173 50.000 0.00 0.00 44.66 2.97
379 385 3.054434 AGTGTGGCTGCTATGTTTATCCA 60.054 43.478 0.00 0.00 0.00 3.41
430 436 0.744874 GATTGGTCATCTCGTCCCGA 59.255 55.000 0.00 0.00 0.00 5.14
435 441 1.677633 TCATCTCGTCCCGACAGCA 60.678 57.895 0.00 0.00 0.00 4.41
484 490 4.039703 CGATACATCTTCGCGAGGTTTTA 58.960 43.478 18.33 7.80 37.83 1.52
518 524 1.068417 TGGTTGACTTCGACGGTGG 59.932 57.895 0.00 0.00 0.00 4.61
549 555 1.825090 AGAATGATGACTTGGCGCAA 58.175 45.000 10.83 0.00 0.00 4.85
565 571 1.259840 GCAAAGGGATGGTGGTGCAT 61.260 55.000 0.00 0.00 32.29 3.96
731 775 1.536766 CTTGTTGAAGGCATTGCTCGA 59.463 47.619 8.82 0.00 0.00 4.04
799 843 6.230472 CCATAAGTGGTTGAATCCGATGATA 58.770 40.000 0.00 0.00 40.83 2.15
824 868 1.499049 GACTGAGCGTCGTTTCCTTT 58.501 50.000 0.00 0.00 32.04 3.11
889 933 5.943416 TCACTGTCATGGGGTTAATTAAGTG 59.057 40.000 0.00 0.00 34.13 3.16
890 934 4.705023 ACTGTCATGGGGTTAATTAAGTGC 59.295 41.667 0.00 0.00 0.00 4.40
891 935 4.929479 TGTCATGGGGTTAATTAAGTGCT 58.071 39.130 0.00 0.00 0.00 4.40
927 979 2.433239 ACGGGTACAACAAGGCTATAGG 59.567 50.000 1.04 0.00 0.00 2.57
928 980 2.805657 CGGGTACAACAAGGCTATAGGC 60.806 54.545 18.26 18.26 41.43 3.93
948 1000 3.368948 GGCTATAGCTGCCTAATGGAGTC 60.369 52.174 23.53 0.00 46.38 3.36
1203 1285 1.797933 CGTCGTCTGCTCGTTCCAG 60.798 63.158 0.00 0.00 0.00 3.86
1261 1343 3.261897 CCTCGCATATATTGGGTTCTCCT 59.738 47.826 0.00 0.00 39.25 3.69
1262 1344 4.499183 CTCGCATATATTGGGTTCTCCTC 58.501 47.826 0.00 0.00 39.25 3.71
1263 1345 3.056821 TCGCATATATTGGGTTCTCCTCG 60.057 47.826 0.00 0.00 39.25 4.63
1264 1346 3.600388 GCATATATTGGGTTCTCCTCGG 58.400 50.000 0.00 0.00 36.20 4.63
1265 1347 3.600388 CATATATTGGGTTCTCCTCGGC 58.400 50.000 0.00 0.00 36.20 5.54
1266 1348 1.807814 ATATTGGGTTCTCCTCGGCT 58.192 50.000 0.00 0.00 36.20 5.52
1267 1349 1.120530 TATTGGGTTCTCCTCGGCTC 58.879 55.000 0.00 0.00 36.20 4.70
1268 1350 0.909610 ATTGGGTTCTCCTCGGCTCA 60.910 55.000 0.00 0.00 36.20 4.26
1269 1351 0.909610 TTGGGTTCTCCTCGGCTCAT 60.910 55.000 0.00 0.00 36.20 2.90
1270 1352 1.144936 GGGTTCTCCTCGGCTCATG 59.855 63.158 0.00 0.00 0.00 3.07
1271 1353 1.522580 GGTTCTCCTCGGCTCATGC 60.523 63.158 0.00 0.00 38.76 4.06
1288 1370 4.870305 CCTACTATGGCTAGCGCG 57.130 61.111 9.00 0.00 36.88 6.86
1328 1417 2.901975 TCCGGGTTGGAGATCTCAG 58.098 57.895 23.85 7.62 43.74 3.35
1436 1545 2.915659 TCGGCGGTGGTCTTCACT 60.916 61.111 7.21 0.00 45.38 3.41
1490 1599 0.533032 GCTTGTCCTACTTCTCGCCT 59.467 55.000 0.00 0.00 0.00 5.52
1549 1675 4.141321 ACTGTACCATGATGATTGATGGCT 60.141 41.667 0.00 0.00 42.67 4.75
1555 1681 3.851458 TGATGATTGATGGCTAGCTGT 57.149 42.857 15.72 3.13 0.00 4.40
1602 1733 0.462581 ATGCGAATCGTGTGCAGGAT 60.463 50.000 4.07 1.99 42.65 3.24
1719 1850 0.042581 TAGGGAGGCAGTGGATGACA 59.957 55.000 0.00 0.00 40.68 3.58
1749 1880 2.030823 GCCAACAAAGAGCAACAAAAGC 59.969 45.455 0.00 0.00 0.00 3.51
1806 1937 4.083643 CCGATCGGATGATTTCAGATTTGG 60.084 45.833 30.62 0.00 39.08 3.28
1825 1960 2.103094 TGGGCATCTCCGTTCAATAGAG 59.897 50.000 0.00 0.00 34.94 2.43
1905 2040 8.980481 AAGTCTAGTTCAGAAAAGAAAATGGA 57.020 30.769 0.00 0.00 34.17 3.41
1961 2096 4.379143 CGGTCGCGTGTGAGTCGA 62.379 66.667 5.77 0.00 0.00 4.20
1998 2133 2.802667 CGCTGGATCCTTTCACGCG 61.803 63.158 14.23 3.53 37.90 6.01
2081 2236 3.343788 CTCCACGCGGGTGTCTCTC 62.344 68.421 28.09 0.00 42.80 3.20
2129 2284 2.229792 TCTTTTTGCTTCATGGCGACT 58.770 42.857 0.00 0.00 34.52 4.18
2174 2371 3.461773 CGACGGAGGAGCCACCAT 61.462 66.667 3.90 0.00 42.04 3.55
2264 2461 1.679977 CACCCATGCTGGAACCAGG 60.680 63.158 20.38 8.45 40.96 4.45
2455 2655 8.098220 TCTTTTCATCGTTCATGAGAAATTGA 57.902 30.769 7.63 7.01 42.76 2.57
2508 2708 4.946784 ACGAGTTTTGCTACATTCATCC 57.053 40.909 0.00 0.00 0.00 3.51
2578 2778 1.069978 CTCAAATGCACCCCGGTTTTT 59.930 47.619 0.00 0.00 0.00 1.94
2626 2826 4.094294 GCTACAATAGGCATCGTTGTTTGA 59.906 41.667 7.26 0.00 37.30 2.69
2646 2847 3.322541 TGATGGAACCAGTTAACTGTCGA 59.677 43.478 29.05 19.93 42.27 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.141517 GCTGTGTGCATCCTAGCTATG 58.858 52.381 0.00 0.00 42.31 2.23
8 9 0.677731 TTGGCTGTGTGCATCCTAGC 60.678 55.000 0.00 0.00 45.15 3.42
9 10 1.089920 GTTGGCTGTGTGCATCCTAG 58.910 55.000 0.00 0.00 45.15 3.02
10 11 0.399833 TGTTGGCTGTGTGCATCCTA 59.600 50.000 0.00 0.00 45.15 2.94
11 12 1.151221 TGTTGGCTGTGTGCATCCT 59.849 52.632 0.00 0.00 45.15 3.24
13 14 1.522668 TAGTGTTGGCTGTGTGCATC 58.477 50.000 0.00 0.00 45.15 3.91
14 15 1.608590 GTTAGTGTTGGCTGTGTGCAT 59.391 47.619 0.00 0.00 45.15 3.96
15 16 1.021202 GTTAGTGTTGGCTGTGTGCA 58.979 50.000 0.00 0.00 45.15 4.57
16 17 1.021202 TGTTAGTGTTGGCTGTGTGC 58.979 50.000 0.00 0.00 41.94 4.57
17 18 2.013400 TGTGTTAGTGTTGGCTGTGTG 58.987 47.619 0.00 0.00 0.00 3.82
18 19 2.014128 GTGTGTTAGTGTTGGCTGTGT 58.986 47.619 0.00 0.00 0.00 3.72
19 20 1.003972 CGTGTGTTAGTGTTGGCTGTG 60.004 52.381 0.00 0.00 0.00 3.66
20 21 1.295792 CGTGTGTTAGTGTTGGCTGT 58.704 50.000 0.00 0.00 0.00 4.40
21 22 0.041312 GCGTGTGTTAGTGTTGGCTG 60.041 55.000 0.00 0.00 0.00 4.85
22 23 0.462937 TGCGTGTGTTAGTGTTGGCT 60.463 50.000 0.00 0.00 0.00 4.75
23 24 0.316689 GTGCGTGTGTTAGTGTTGGC 60.317 55.000 0.00 0.00 0.00 4.52
24 25 1.010580 TGTGCGTGTGTTAGTGTTGG 58.989 50.000 0.00 0.00 0.00 3.77
25 26 1.395262 TGTGTGCGTGTGTTAGTGTTG 59.605 47.619 0.00 0.00 0.00 3.33
26 27 1.728068 TGTGTGCGTGTGTTAGTGTT 58.272 45.000 0.00 0.00 0.00 3.32
27 28 1.395608 GTTGTGTGCGTGTGTTAGTGT 59.604 47.619 0.00 0.00 0.00 3.55
28 29 1.395262 TGTTGTGTGCGTGTGTTAGTG 59.605 47.619 0.00 0.00 0.00 2.74
29 30 1.728068 TGTTGTGTGCGTGTGTTAGT 58.272 45.000 0.00 0.00 0.00 2.24
30 31 2.159639 TGTTGTTGTGTGCGTGTGTTAG 60.160 45.455 0.00 0.00 0.00 2.34
31 32 1.804748 TGTTGTTGTGTGCGTGTGTTA 59.195 42.857 0.00 0.00 0.00 2.41
32 33 0.593618 TGTTGTTGTGTGCGTGTGTT 59.406 45.000 0.00 0.00 0.00 3.32
33 34 0.109964 GTGTTGTTGTGTGCGTGTGT 60.110 50.000 0.00 0.00 0.00 3.72
34 35 1.125274 CGTGTTGTTGTGTGCGTGTG 61.125 55.000 0.00 0.00 0.00 3.82
35 36 1.133664 CGTGTTGTTGTGTGCGTGT 59.866 52.632 0.00 0.00 0.00 4.49
36 37 0.855670 GACGTGTTGTTGTGTGCGTG 60.856 55.000 0.00 0.00 32.56 5.34
37 38 1.292571 TGACGTGTTGTTGTGTGCGT 61.293 50.000 0.00 0.00 35.20 5.24
38 39 0.179212 TTGACGTGTTGTTGTGTGCG 60.179 50.000 0.00 0.00 0.00 5.34
39 40 1.255767 GTTGACGTGTTGTTGTGTGC 58.744 50.000 0.00 0.00 0.00 4.57
40 41 2.603224 TGTTGACGTGTTGTTGTGTG 57.397 45.000 0.00 0.00 0.00 3.82
41 42 3.627732 TTTGTTGACGTGTTGTTGTGT 57.372 38.095 0.00 0.00 0.00 3.72
42 43 4.204168 GCTATTTGTTGACGTGTTGTTGTG 59.796 41.667 0.00 0.00 0.00 3.33
43 44 4.142578 TGCTATTTGTTGACGTGTTGTTGT 60.143 37.500 0.00 0.00 0.00 3.32
44 45 4.346970 TGCTATTTGTTGACGTGTTGTTG 58.653 39.130 0.00 0.00 0.00 3.33
45 46 4.624336 TGCTATTTGTTGACGTGTTGTT 57.376 36.364 0.00 0.00 0.00 2.83
46 47 4.624336 TTGCTATTTGTTGACGTGTTGT 57.376 36.364 0.00 0.00 0.00 3.32
47 48 5.034152 ACTTTGCTATTTGTTGACGTGTTG 58.966 37.500 0.00 0.00 0.00 3.33
48 49 5.163703 TGACTTTGCTATTTGTTGACGTGTT 60.164 36.000 0.00 0.00 0.00 3.32
49 50 4.334203 TGACTTTGCTATTTGTTGACGTGT 59.666 37.500 0.00 0.00 0.00 4.49
50 51 4.843147 TGACTTTGCTATTTGTTGACGTG 58.157 39.130 0.00 0.00 0.00 4.49
51 52 5.689383 ATGACTTTGCTATTTGTTGACGT 57.311 34.783 0.00 0.00 0.00 4.34
52 53 9.425893 CTTATATGACTTTGCTATTTGTTGACG 57.574 33.333 0.00 0.00 0.00 4.35
55 56 9.722056 GGTCTTATATGACTTTGCTATTTGTTG 57.278 33.333 15.98 0.00 37.16 3.33
56 57 9.461312 TGGTCTTATATGACTTTGCTATTTGTT 57.539 29.630 15.98 0.00 37.16 2.83
57 58 9.461312 TTGGTCTTATATGACTTTGCTATTTGT 57.539 29.630 15.98 0.00 37.16 2.83
60 61 8.624776 GCTTTGGTCTTATATGACTTTGCTATT 58.375 33.333 15.98 0.00 37.16 1.73
61 62 7.229506 GGCTTTGGTCTTATATGACTTTGCTAT 59.770 37.037 15.98 0.00 37.16 2.97
62 63 6.542370 GGCTTTGGTCTTATATGACTTTGCTA 59.458 38.462 15.98 0.00 37.16 3.49
63 64 5.358160 GGCTTTGGTCTTATATGACTTTGCT 59.642 40.000 15.98 0.00 37.16 3.91
64 65 5.582550 GGCTTTGGTCTTATATGACTTTGC 58.417 41.667 15.98 14.17 37.16 3.68
65 66 5.354234 ACGGCTTTGGTCTTATATGACTTTG 59.646 40.000 15.98 7.54 37.16 2.77
66 67 5.354234 CACGGCTTTGGTCTTATATGACTTT 59.646 40.000 15.98 0.00 37.16 2.66
67 68 4.876107 CACGGCTTTGGTCTTATATGACTT 59.124 41.667 15.98 0.00 37.16 3.01
68 69 4.442706 CACGGCTTTGGTCTTATATGACT 58.557 43.478 15.98 0.00 37.16 3.41
69 70 3.002348 GCACGGCTTTGGTCTTATATGAC 59.998 47.826 9.70 9.70 36.31 3.06
70 71 3.202906 GCACGGCTTTGGTCTTATATGA 58.797 45.455 0.00 0.00 0.00 2.15
71 72 2.032894 CGCACGGCTTTGGTCTTATATG 60.033 50.000 0.00 0.00 0.00 1.78
72 73 2.210116 CGCACGGCTTTGGTCTTATAT 58.790 47.619 0.00 0.00 0.00 0.86
73 74 1.066716 ACGCACGGCTTTGGTCTTATA 60.067 47.619 0.00 0.00 0.00 0.98
74 75 0.321298 ACGCACGGCTTTGGTCTTAT 60.321 50.000 0.00 0.00 0.00 1.73
75 76 0.317799 TACGCACGGCTTTGGTCTTA 59.682 50.000 0.00 0.00 0.00 2.10
76 77 0.949105 CTACGCACGGCTTTGGTCTT 60.949 55.000 0.00 0.00 0.00 3.01
77 78 1.374252 CTACGCACGGCTTTGGTCT 60.374 57.895 0.00 0.00 0.00 3.85
78 79 1.373748 TCTACGCACGGCTTTGGTC 60.374 57.895 0.00 0.00 0.00 4.02
79 80 1.666872 GTCTACGCACGGCTTTGGT 60.667 57.895 0.00 0.00 0.00 3.67
80 81 2.726691 CGTCTACGCACGGCTTTGG 61.727 63.158 0.00 0.00 36.07 3.28
81 82 1.076533 ATCGTCTACGCACGGCTTTG 61.077 55.000 0.00 0.00 40.35 2.77
82 83 1.076533 CATCGTCTACGCACGGCTTT 61.077 55.000 0.00 0.00 40.35 3.51
83 84 1.516386 CATCGTCTACGCACGGCTT 60.516 57.895 0.00 0.00 40.35 4.35
84 85 1.929806 TTCATCGTCTACGCACGGCT 61.930 55.000 0.00 0.00 40.35 5.52
85 86 1.074319 TTTCATCGTCTACGCACGGC 61.074 55.000 0.00 0.00 40.35 5.68
86 87 1.342555 TTTTCATCGTCTACGCACGG 58.657 50.000 0.00 0.00 40.35 4.94
105 106 9.729281 ATTATGAATTTGGTTGCTCTGATTTTT 57.271 25.926 0.00 0.00 0.00 1.94
108 109 8.636213 CCTATTATGAATTTGGTTGCTCTGATT 58.364 33.333 0.00 0.00 0.00 2.57
109 110 7.255730 GCCTATTATGAATTTGGTTGCTCTGAT 60.256 37.037 0.00 0.00 0.00 2.90
110 111 6.039717 GCCTATTATGAATTTGGTTGCTCTGA 59.960 38.462 0.00 0.00 0.00 3.27
111 112 6.183360 TGCCTATTATGAATTTGGTTGCTCTG 60.183 38.462 0.00 0.00 0.00 3.35
112 113 5.893255 TGCCTATTATGAATTTGGTTGCTCT 59.107 36.000 0.00 0.00 0.00 4.09
113 114 6.147864 TGCCTATTATGAATTTGGTTGCTC 57.852 37.500 0.00 0.00 0.00 4.26
114 115 6.543430 TTGCCTATTATGAATTTGGTTGCT 57.457 33.333 0.00 0.00 0.00 3.91
115 116 6.818142 AGTTTGCCTATTATGAATTTGGTTGC 59.182 34.615 0.00 0.00 0.00 4.17
116 117 9.301153 GTAGTTTGCCTATTATGAATTTGGTTG 57.699 33.333 0.00 0.00 0.00 3.77
117 118 9.030452 TGTAGTTTGCCTATTATGAATTTGGTT 57.970 29.630 0.00 0.00 0.00 3.67
118 119 8.588290 TGTAGTTTGCCTATTATGAATTTGGT 57.412 30.769 0.00 0.00 0.00 3.67
119 120 9.301153 GTTGTAGTTTGCCTATTATGAATTTGG 57.699 33.333 0.00 0.00 0.00 3.28
120 121 9.853555 TGTTGTAGTTTGCCTATTATGAATTTG 57.146 29.630 0.00 0.00 0.00 2.32
124 125 9.237187 TCATTGTTGTAGTTTGCCTATTATGAA 57.763 29.630 0.00 0.00 0.00 2.57
125 126 8.673711 GTCATTGTTGTAGTTTGCCTATTATGA 58.326 33.333 0.00 0.00 0.00 2.15
126 127 7.915397 GGTCATTGTTGTAGTTTGCCTATTATG 59.085 37.037 0.00 0.00 0.00 1.90
127 128 7.613801 TGGTCATTGTTGTAGTTTGCCTATTAT 59.386 33.333 0.00 0.00 0.00 1.28
128 129 6.943146 TGGTCATTGTTGTAGTTTGCCTATTA 59.057 34.615 0.00 0.00 0.00 0.98
129 130 5.772672 TGGTCATTGTTGTAGTTTGCCTATT 59.227 36.000 0.00 0.00 0.00 1.73
130 131 5.321102 TGGTCATTGTTGTAGTTTGCCTAT 58.679 37.500 0.00 0.00 0.00 2.57
131 132 4.720046 TGGTCATTGTTGTAGTTTGCCTA 58.280 39.130 0.00 0.00 0.00 3.93
132 133 3.561143 TGGTCATTGTTGTAGTTTGCCT 58.439 40.909 0.00 0.00 0.00 4.75
133 134 4.519540 ATGGTCATTGTTGTAGTTTGCC 57.480 40.909 0.00 0.00 0.00 4.52
134 135 6.265577 GGATATGGTCATTGTTGTAGTTTGC 58.734 40.000 0.00 0.00 0.00 3.68
135 136 6.486248 CGGATATGGTCATTGTTGTAGTTTG 58.514 40.000 0.00 0.00 0.00 2.93
136 137 5.065988 GCGGATATGGTCATTGTTGTAGTTT 59.934 40.000 0.00 0.00 0.00 2.66
137 138 4.574828 GCGGATATGGTCATTGTTGTAGTT 59.425 41.667 0.00 0.00 0.00 2.24
138 139 4.127171 GCGGATATGGTCATTGTTGTAGT 58.873 43.478 0.00 0.00 0.00 2.73
139 140 4.126437 TGCGGATATGGTCATTGTTGTAG 58.874 43.478 0.00 0.00 0.00 2.74
140 141 4.143986 TGCGGATATGGTCATTGTTGTA 57.856 40.909 0.00 0.00 0.00 2.41
141 142 2.997980 TGCGGATATGGTCATTGTTGT 58.002 42.857 0.00 0.00 0.00 3.32
142 143 3.128415 TGTTGCGGATATGGTCATTGTTG 59.872 43.478 0.00 0.00 0.00 3.33
143 144 3.351740 TGTTGCGGATATGGTCATTGTT 58.648 40.909 0.00 0.00 0.00 2.83
144 145 2.997980 TGTTGCGGATATGGTCATTGT 58.002 42.857 0.00 0.00 0.00 2.71
145 146 4.572985 ATTGTTGCGGATATGGTCATTG 57.427 40.909 0.00 0.00 0.00 2.82
146 147 6.265196 ACATAATTGTTGCGGATATGGTCATT 59.735 34.615 0.55 0.00 29.55 2.57
147 148 5.769662 ACATAATTGTTGCGGATATGGTCAT 59.230 36.000 0.55 0.00 29.55 3.06
148 149 5.129634 ACATAATTGTTGCGGATATGGTCA 58.870 37.500 0.55 0.00 29.55 4.02
149 150 5.334879 GGACATAATTGTTGCGGATATGGTC 60.335 44.000 0.55 0.00 35.79 4.02
150 151 4.518970 GGACATAATTGTTGCGGATATGGT 59.481 41.667 0.55 0.00 35.79 3.55
151 152 4.378356 CGGACATAATTGTTGCGGATATGG 60.378 45.833 0.55 0.00 35.79 2.74
152 153 4.378356 CCGGACATAATTGTTGCGGATATG 60.378 45.833 0.00 0.00 35.79 1.78
153 154 3.751175 CCGGACATAATTGTTGCGGATAT 59.249 43.478 0.00 0.00 35.79 1.63
154 155 3.135225 CCGGACATAATTGTTGCGGATA 58.865 45.455 0.00 0.00 35.79 2.59
155 156 1.946768 CCGGACATAATTGTTGCGGAT 59.053 47.619 0.00 0.00 35.79 4.18
156 157 1.066071 TCCGGACATAATTGTTGCGGA 60.066 47.619 0.00 12.36 35.79 5.54
157 158 1.374560 TCCGGACATAATTGTTGCGG 58.625 50.000 0.00 8.74 35.79 5.69
158 159 2.611751 TCATCCGGACATAATTGTTGCG 59.388 45.455 6.12 0.00 35.79 4.85
159 160 3.952535 GTCATCCGGACATAATTGTTGC 58.047 45.455 6.12 0.00 46.19 4.17
174 175 2.109126 GGCGCTTGTCCTGTCATCC 61.109 63.158 7.64 0.00 0.00 3.51
259 260 0.984230 TGAAAGTCGAATCTGGCCCT 59.016 50.000 0.00 0.00 0.00 5.19
283 284 4.457496 CCGGCAGCACTGATCGGT 62.457 66.667 18.50 0.00 40.96 4.69
370 374 3.016031 ACAGCGATGCATTGGATAAACA 58.984 40.909 15.85 0.00 0.00 2.83
430 436 2.559668 CAATCCACATCAAGGTTGCTGT 59.440 45.455 0.00 0.00 37.97 4.40
435 441 1.176527 CCGCAATCCACATCAAGGTT 58.823 50.000 0.00 0.00 0.00 3.50
484 490 4.023193 GTCAACCACCGAAATTGAAGTGAT 60.023 41.667 4.11 0.00 34.28 3.06
518 524 6.690194 AGTCATCATTCTTAGTTTGCATCC 57.310 37.500 0.00 0.00 0.00 3.51
549 555 1.077501 CGATGCACCACCATCCCTT 60.078 57.895 0.00 0.00 38.68 3.95
731 775 5.297776 CCTGAAAAATCAGTCCGAGCATATT 59.702 40.000 5.23 0.00 36.06 1.28
763 807 3.126831 CCACTTATGGTCAGAATCGAGC 58.873 50.000 0.00 0.00 41.64 5.03
794 838 1.006805 GCTCAGTCGCCGCTATCAT 60.007 57.895 0.00 0.00 0.00 2.45
824 868 3.069016 TCTTCAACAGTAACGCCTTCAGA 59.931 43.478 0.00 0.00 0.00 3.27
836 880 6.317088 CAATAATGCACGATTCTTCAACAGT 58.683 36.000 0.00 0.00 0.00 3.55
889 933 2.039327 CGTAGGAGCACGATAAGAGC 57.961 55.000 0.00 0.00 44.69 4.09
927 979 3.674682 CGACTCCATTAGGCAGCTATAGC 60.675 52.174 17.33 17.33 36.58 2.97
928 980 3.508012 ACGACTCCATTAGGCAGCTATAG 59.492 47.826 0.00 0.00 29.38 1.31
929 981 3.497332 ACGACTCCATTAGGCAGCTATA 58.503 45.455 0.00 0.00 29.38 1.31
930 982 2.320781 ACGACTCCATTAGGCAGCTAT 58.679 47.619 0.00 0.00 29.38 2.97
931 983 1.776662 ACGACTCCATTAGGCAGCTA 58.223 50.000 0.00 0.00 29.38 3.32
932 984 0.905357 AACGACTCCATTAGGCAGCT 59.095 50.000 0.00 0.00 29.38 4.24
933 985 2.474816 CTAACGACTCCATTAGGCAGC 58.525 52.381 0.00 0.00 29.38 5.25
948 1000 1.359459 GCCTTGGACGCTTCCTAACG 61.359 60.000 11.01 0.00 43.31 3.18
967 1023 1.602668 CGTGTGCTTGATTTGGTTGGG 60.603 52.381 0.00 0.00 0.00 4.12
1105 1187 4.705519 CTTTTGGCTGGCCGCGTG 62.706 66.667 4.92 0.00 40.44 5.34
1246 1328 2.897969 GAGCCGAGGAGAACCCAATATA 59.102 50.000 0.00 0.00 37.41 0.86
1271 1353 0.109689 GACGCGCTAGCCATAGTAGG 60.110 60.000 5.73 0.00 41.18 3.18
1272 1354 0.591659 TGACGCGCTAGCCATAGTAG 59.408 55.000 5.73 0.00 41.18 2.57
1273 1355 1.001706 CTTGACGCGCTAGCCATAGTA 60.002 52.381 5.73 0.00 41.18 1.82
1274 1356 0.249073 CTTGACGCGCTAGCCATAGT 60.249 55.000 5.73 3.89 41.18 2.12
1275 1357 1.552348 GCTTGACGCGCTAGCCATAG 61.552 60.000 19.76 0.36 39.09 2.23
1276 1358 1.591594 GCTTGACGCGCTAGCCATA 60.592 57.895 19.76 0.00 39.09 2.74
1340 1429 1.278637 CAACGCGGGAACAGACAAC 59.721 57.895 12.47 0.00 0.00 3.32
1473 1582 1.544691 GACAGGCGAGAAGTAGGACAA 59.455 52.381 0.00 0.00 0.00 3.18
1602 1733 0.608035 GCCCGTCCAATTGAACCTCA 60.608 55.000 7.12 0.00 0.00 3.86
1719 1850 0.396974 TCTTTGTTGGCCAAGCAGGT 60.397 50.000 21.21 0.00 40.61 4.00
1725 1856 1.189752 TGTTGCTCTTTGTTGGCCAA 58.810 45.000 16.05 16.05 0.00 4.52
1767 1898 4.259690 CCGATCGGACGACATTTTAACTTC 60.260 45.833 30.62 0.00 37.50 3.01
1806 1937 2.139118 GCTCTATTGAACGGAGATGCC 58.861 52.381 0.00 0.00 0.00 4.40
1825 1960 5.861222 AAATGGATTTTCATTTGTTCCGC 57.139 34.783 2.52 0.00 43.31 5.54
1855 1990 4.026356 AGAAAGAATCACTCACCCAAGG 57.974 45.455 0.00 0.00 0.00 3.61
1862 1997 8.424918 ACTAGACTTCAAAGAAAGAATCACTCA 58.575 33.333 0.00 0.00 0.00 3.41
1954 2089 3.914605 AATGCACGCGCTCGACTCA 62.915 57.895 5.73 0.00 39.64 3.41
1961 2096 2.520039 CGATCTGAATGCACGCGCT 61.520 57.895 5.73 0.00 39.64 5.92
2041 2195 0.323999 TAAGGCTAGCGGGACACAGA 60.324 55.000 9.00 0.00 0.00 3.41
2081 2236 2.352388 GGATCGAGAGACGGAGATAGG 58.648 57.143 0.00 0.00 46.97 2.57
2139 2294 2.880879 CACATCACCGAGGTCGCG 60.881 66.667 0.00 0.00 38.18 5.87
2264 2461 2.904866 TTCCAGCAACCACGGTGC 60.905 61.111 1.68 0.00 32.99 5.01
2286 2483 7.120579 ACTCATCGGTTGTAGCAAAAATTGATA 59.879 33.333 0.00 0.00 0.00 2.15
2455 2655 7.346751 TGTAGCAAAAAGAAAAAGACCTCAT 57.653 32.000 0.00 0.00 0.00 2.90
2491 2691 8.483307 AAAATCATGGATGAATGTAGCAAAAC 57.517 30.769 0.00 0.00 40.69 2.43
2508 2708 2.888594 CTGGCTCCAGCAAAAATCATG 58.111 47.619 2.59 0.00 44.36 3.07
2578 2778 2.346766 ATGATGCCGGATGTAGCAAA 57.653 45.000 5.05 0.00 43.36 3.68
2609 2809 3.884895 TCCATCAAACAACGATGCCTAT 58.115 40.909 0.00 0.00 39.17 2.57


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

AutoCloner maintained by Alex Coulton.