Multiple sequence alignment - TraesCS7A01G080000

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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 TraesCS7A01G080000 chr7A 100.000 2291 0 0 1 2291 45869734 45867444 0.000000e+00 4231.0
1 TraesCS7A01G080000 chr7A 98.155 813 15 0 1479 2291 45983549 45982737 0.000000e+00 1419.0
2 TraesCS7A01G080000 chr7A 97.606 543 12 1 936 1478 75606478 75607019 0.000000e+00 929.0
3 TraesCS7A01G080000 chr7A 97.258 547 14 1 936 1482 43039548 43039003 0.000000e+00 926.0
4 TraesCS7A01G080000 chr7A 97.584 538 13 0 936 1473 75610387 75610924 0.000000e+00 922.0
5 TraesCS7A01G080000 chr7A 97.238 543 14 1 936 1478 75599304 75599845 0.000000e+00 918.0
6 TraesCS7A01G080000 chr7A 97.238 543 14 1 936 1478 75603873 75604414 0.000000e+00 918.0
7 TraesCS7A01G080000 chr7A 89.666 329 11 11 1982 2291 44770221 44770545 4.590000e-107 398.0
8 TraesCS7A01G080000 chr7A 98.421 190 3 0 1 190 45877347 45877158 3.650000e-88 335.0
9 TraesCS7A01G080000 chr7A 89.542 153 15 1 1540 1691 44770063 44770215 2.320000e-45 193.0
10 TraesCS7A01G080000 chr7A 95.522 67 3 0 1479 1545 44769910 44769976 8.650000e-20 108.0
11 TraesCS7A01G080000 chr7A 97.826 46 1 0 1903 1948 635683692 635683737 1.890000e-11 80.5
12 TraesCS7A01G080000 chr6D 98.267 750 13 0 190 939 384791619 384792368 0.000000e+00 1314.0
13 TraesCS7A01G080000 chr6D 97.354 189 4 1 1 189 419864134 419864321 1.020000e-83 320.0
14 TraesCS7A01G080000 chr6D 97.872 47 1 0 1903 1949 454655680 454655726 5.250000e-12 82.4
15 TraesCS7A01G080000 chr6D 95.556 45 2 0 1906 1950 10434406 10434362 3.160000e-09 73.1
16 TraesCS7A01G080000 chr2D 98.267 750 13 0 190 939 516690002 516690751 0.000000e+00 1314.0
17 TraesCS7A01G080000 chr2D 98.133 750 14 0 190 939 63655010 63654261 0.000000e+00 1308.0
18 TraesCS7A01G080000 chr2D 98.133 750 14 0 190 939 339578493 339577744 0.000000e+00 1308.0
19 TraesCS7A01G080000 chr2D 92.202 218 11 5 1 216 497252034 497252247 1.030000e-78 303.0
20 TraesCS7A01G080000 chr7D 98.133 750 14 0 190 939 259414693 259415442 0.000000e+00 1308.0
21 TraesCS7A01G080000 chr7D 98.133 750 14 0 190 939 345668287 345669036 0.000000e+00 1308.0
22 TraesCS7A01G080000 chr7D 84.655 391 38 10 1501 1890 43667247 43666878 1.000000e-98 370.0
23 TraesCS7A01G080000 chr7D 95.897 195 6 2 1 195 280734880 280735072 4.750000e-82 315.0
24 TraesCS7A01G080000 chr7D 95.000 200 6 3 1 197 314266112 314265914 6.150000e-81 311.0
25 TraesCS7A01G080000 chr5D 98.133 750 14 0 190 939 174034495 174033746 0.000000e+00 1308.0
26 TraesCS7A01G080000 chr5D 98.133 750 13 1 190 939 537267019 537266271 0.000000e+00 1306.0
27 TraesCS7A01G080000 chr5D 97.778 45 1 0 1905 1949 373170071 373170115 6.790000e-11 78.7
28 TraesCS7A01G080000 chr1D 98.133 750 14 0 190 939 387984077 387983328 0.000000e+00 1308.0
29 TraesCS7A01G080000 chr1D 97.368 190 4 1 1 190 210126664 210126476 2.840000e-84 322.0
30 TraesCS7A01G080000 chr1D 94.975 199 9 1 1 199 249446032 249445835 6.150000e-81 311.0
31 TraesCS7A01G080000 chr1D 93.750 48 3 0 1903 1950 326287727 326287774 3.160000e-09 73.1
32 TraesCS7A01G080000 chr1D 95.556 45 2 0 1904 1948 488481852 488481896 3.160000e-09 73.1
33 TraesCS7A01G080000 chr1D 95.455 44 2 0 1904 1947 483051465 483051508 1.140000e-08 71.3
34 TraesCS7A01G080000 chrUn 97.422 543 13 1 936 1478 1183184 1182643 0.000000e+00 924.0
35 TraesCS7A01G080000 chrUn 97.422 543 13 1 936 1478 329519355 329518814 0.000000e+00 924.0
36 TraesCS7A01G080000 chrUn 97.422 543 13 1 936 1478 329529915 329530456 0.000000e+00 924.0
37 TraesCS7A01G080000 chrUn 97.238 543 14 1 936 1478 338575146 338575687 0.000000e+00 918.0
38 TraesCS7A01G080000 chrUn 92.857 42 1 1 1905 1946 240120273 240120312 2.460000e-05 60.2
39 TraesCS7A01G080000 chr4D 97.895 190 3 1 1 190 225056575 225056763 6.100000e-86 327.0
40 TraesCS7A01G080000 chr4D 97.354 189 4 1 1 189 225064442 225064629 1.020000e-83 320.0
41 TraesCS7A01G080000 chr4D 97.778 45 0 1 1905 1949 47511185 47511142 2.440000e-10 76.8
42 TraesCS7A01G080000 chr4D 97.619 42 1 0 1908 1949 483471913 483471872 3.160000e-09 73.1
43 TraesCS7A01G080000 chr5A 100.000 45 0 0 1903 1947 678624492 678624536 1.460000e-12 84.2
44 TraesCS7A01G080000 chr5A 97.872 47 1 0 1903 1949 709529638 709529592 5.250000e-12 82.4
45 TraesCS7A01G080000 chr3B 96.078 51 2 0 1903 1953 597475715 597475665 1.460000e-12 84.2
46 TraesCS7A01G080000 chr5B 97.872 47 1 0 1903 1949 668274586 668274632 5.250000e-12 82.4
47 TraesCS7A01G080000 chr5B 92.453 53 2 2 1899 1949 440281766 440281818 8.780000e-10 75.0
48 TraesCS7A01G080000 chr3A 97.872 47 1 0 1903 1949 446317992 446317946 5.250000e-12 82.4
49 TraesCS7A01G080000 chr3A 97.778 45 1 0 1900 1944 22814969 22815013 6.790000e-11 78.7
50 TraesCS7A01G080000 chr3A 97.826 46 0 1 1904 1949 677842651 677842695 6.790000e-11 78.7
51 TraesCS7A01G080000 chr6A 96.000 50 1 1 1901 1950 549436160 549436208 1.890000e-11 80.5
52 TraesCS7A01G080000 chr6A 95.745 47 2 0 1903 1949 572312667 572312713 2.440000e-10 76.8
53 TraesCS7A01G080000 chr1A 97.778 45 1 0 1905 1949 35140802 35140846 6.790000e-11 78.7
54 TraesCS7A01G080000 chr1A 97.778 45 1 0 1905 1949 94503095 94503051 6.790000e-11 78.7
55 TraesCS7A01G080000 chr1A 92.157 51 2 2 1901 1950 412460385 412460434 1.140000e-08 71.3


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 TraesCS7A01G080000 chr7A 45867444 45869734 2290 True 4231 4231 100.000000 1 2291 1 chr7A.!!$R2 2290
1 TraesCS7A01G080000 chr7A 45982737 45983549 812 True 1419 1419 98.155000 1479 2291 1 chr7A.!!$R4 812
2 TraesCS7A01G080000 chr7A 43039003 43039548 545 True 926 926 97.258000 936 1482 1 chr7A.!!$R1 546
3 TraesCS7A01G080000 chr7A 75603873 75610924 7051 False 923 929 97.476000 936 1478 3 chr7A.!!$F4 542
4 TraesCS7A01G080000 chr7A 75599304 75599845 541 False 918 918 97.238000 936 1478 1 chr7A.!!$F1 542
5 TraesCS7A01G080000 chr7A 44769910 44770545 635 False 233 398 91.576667 1479 2291 3 chr7A.!!$F3 812
6 TraesCS7A01G080000 chr6D 384791619 384792368 749 False 1314 1314 98.267000 190 939 1 chr6D.!!$F1 749
7 TraesCS7A01G080000 chr2D 516690002 516690751 749 False 1314 1314 98.267000 190 939 1 chr2D.!!$F2 749
8 TraesCS7A01G080000 chr2D 63654261 63655010 749 True 1308 1308 98.133000 190 939 1 chr2D.!!$R1 749
9 TraesCS7A01G080000 chr2D 339577744 339578493 749 True 1308 1308 98.133000 190 939 1 chr2D.!!$R2 749
10 TraesCS7A01G080000 chr7D 259414693 259415442 749 False 1308 1308 98.133000 190 939 1 chr7D.!!$F1 749
11 TraesCS7A01G080000 chr7D 345668287 345669036 749 False 1308 1308 98.133000 190 939 1 chr7D.!!$F3 749
12 TraesCS7A01G080000 chr5D 174033746 174034495 749 True 1308 1308 98.133000 190 939 1 chr5D.!!$R1 749
13 TraesCS7A01G080000 chr5D 537266271 537267019 748 True 1306 1306 98.133000 190 939 1 chr5D.!!$R2 749
14 TraesCS7A01G080000 chr1D 387983328 387984077 749 True 1308 1308 98.133000 190 939 1 chr1D.!!$R3 749
15 TraesCS7A01G080000 chrUn 1182643 1183184 541 True 924 924 97.422000 936 1478 1 chrUn.!!$R1 542
16 TraesCS7A01G080000 chrUn 329518814 329519355 541 True 924 924 97.422000 936 1478 1 chrUn.!!$R2 542
17 TraesCS7A01G080000 chrUn 329529915 329530456 541 False 924 924 97.422000 936 1478 1 chrUn.!!$F2 542
18 TraesCS7A01G080000 chrUn 338575146 338575687 541 False 918 918 97.238000 936 1478 1 chrUn.!!$F3 542

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
181 182 0.107017 GCAATGCCAGAAGCTAGGGA 60.107 55.0 0.0 0.0 44.23 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1465 5374 0.325296 CTCTACAGGCCTGTACCCCA 60.325 60.0 36.63 21.61 44.42 4.96 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 6.349243 AGCATTTTCCAGAAATGATGAACA 57.651 33.333 13.88 0.00 39.36 3.18
24 25 6.942976 AGCATTTTCCAGAAATGATGAACAT 58.057 32.000 13.88 0.00 39.36 2.71
41 42 8.566260 TGATGAACATTTTTAAAAGCCATTTGG 58.434 29.630 0.14 0.00 38.53 3.28
42 43 8.688747 ATGAACATTTTTAAAAGCCATTTGGA 57.311 26.923 0.00 0.00 37.39 3.53
43 44 8.688747 TGAACATTTTTAAAAGCCATTTGGAT 57.311 26.923 0.00 0.00 37.39 3.41
54 55 6.625532 AAGCCATTTGGATTTACTGGAAAT 57.374 33.333 0.00 0.00 41.76 2.17
55 56 7.732222 AAGCCATTTGGATTTACTGGAAATA 57.268 32.000 0.00 0.00 41.76 1.40
56 57 7.919385 AGCCATTTGGATTTACTGGAAATAT 57.081 32.000 0.00 0.00 37.90 1.28
57 58 8.322905 AGCCATTTGGATTTACTGGAAATATT 57.677 30.769 0.00 0.00 37.90 1.28
58 59 8.771286 AGCCATTTGGATTTACTGGAAATATTT 58.229 29.630 0.00 0.00 37.90 1.40
59 60 9.394767 GCCATTTGGATTTACTGGAAATATTTT 57.605 29.630 1.43 0.00 37.90 1.82
62 63 9.904198 ATTTGGATTTACTGGAAATATTTTGGG 57.096 29.630 1.43 0.00 37.90 4.12
63 64 8.442660 TTGGATTTACTGGAAATATTTTGGGT 57.557 30.769 1.43 4.52 37.90 4.51
64 65 8.442660 TGGATTTACTGGAAATATTTTGGGTT 57.557 30.769 1.43 0.00 37.90 4.11
65 66 8.317679 TGGATTTACTGGAAATATTTTGGGTTG 58.682 33.333 1.43 0.00 37.90 3.77
66 67 8.536175 GGATTTACTGGAAATATTTTGGGTTGA 58.464 33.333 1.43 0.00 37.90 3.18
67 68 9.936759 GATTTACTGGAAATATTTTGGGTTGAA 57.063 29.630 1.43 2.29 37.90 2.69
68 69 9.719355 ATTTACTGGAAATATTTTGGGTTGAAC 57.281 29.630 1.43 0.00 35.91 3.18
69 70 6.109156 ACTGGAAATATTTTGGGTTGAACC 57.891 37.500 5.62 5.62 37.60 3.62
70 71 5.843969 ACTGGAAATATTTTGGGTTGAACCT 59.156 36.000 14.87 0.00 38.64 3.50
71 72 7.013834 ACTGGAAATATTTTGGGTTGAACCTA 58.986 34.615 14.87 5.07 38.64 3.08
72 73 7.178451 ACTGGAAATATTTTGGGTTGAACCTAG 59.822 37.037 14.87 0.00 38.64 3.02
73 74 7.013834 TGGAAATATTTTGGGTTGAACCTAGT 58.986 34.615 14.87 1.26 38.64 2.57
74 75 7.039363 TGGAAATATTTTGGGTTGAACCTAGTG 60.039 37.037 14.87 0.00 38.64 2.74
75 76 7.177744 GGAAATATTTTGGGTTGAACCTAGTGA 59.822 37.037 14.87 0.00 38.64 3.41
76 77 8.485578 AAATATTTTGGGTTGAACCTAGTGAA 57.514 30.769 14.87 5.17 38.64 3.18
77 78 8.664669 AATATTTTGGGTTGAACCTAGTGAAT 57.335 30.769 14.87 11.58 38.64 2.57
78 79 6.994421 ATTTTGGGTTGAACCTAGTGAATT 57.006 33.333 14.87 0.00 38.64 2.17
79 80 6.399639 TTTTGGGTTGAACCTAGTGAATTC 57.600 37.500 14.87 0.00 38.64 2.17
80 81 4.028993 TGGGTTGAACCTAGTGAATTCC 57.971 45.455 14.87 0.00 38.64 3.01
81 82 3.655777 TGGGTTGAACCTAGTGAATTCCT 59.344 43.478 14.87 2.47 38.64 3.36
82 83 4.105697 TGGGTTGAACCTAGTGAATTCCTT 59.894 41.667 14.87 0.00 38.64 3.36
83 84 5.077564 GGGTTGAACCTAGTGAATTCCTTT 58.922 41.667 14.87 0.00 38.64 3.11
84 85 6.183361 TGGGTTGAACCTAGTGAATTCCTTTA 60.183 38.462 14.87 0.00 38.64 1.85
85 86 6.717997 GGGTTGAACCTAGTGAATTCCTTTAA 59.282 38.462 14.87 0.00 38.64 1.52
86 87 7.396339 GGGTTGAACCTAGTGAATTCCTTTAAT 59.604 37.037 14.87 0.00 38.64 1.40
87 88 8.244113 GGTTGAACCTAGTGAATTCCTTTAATG 58.756 37.037 7.20 0.00 34.73 1.90
88 89 7.391148 TGAACCTAGTGAATTCCTTTAATGC 57.609 36.000 2.27 0.00 0.00 3.56
89 90 7.175104 TGAACCTAGTGAATTCCTTTAATGCT 58.825 34.615 2.27 0.00 0.00 3.79
90 91 8.325787 TGAACCTAGTGAATTCCTTTAATGCTA 58.674 33.333 2.27 0.00 0.00 3.49
91 92 8.738645 AACCTAGTGAATTCCTTTAATGCTAG 57.261 34.615 2.27 0.00 31.67 3.42
92 93 7.283329 ACCTAGTGAATTCCTTTAATGCTAGG 58.717 38.462 2.27 11.02 43.01 3.02
93 94 6.712547 CCTAGTGAATTCCTTTAATGCTAGGG 59.287 42.308 2.27 0.00 39.17 3.53
94 95 6.079712 AGTGAATTCCTTTAATGCTAGGGT 57.920 37.500 2.27 0.00 32.20 4.34
95 96 6.494059 AGTGAATTCCTTTAATGCTAGGGTT 58.506 36.000 2.27 0.00 32.20 4.11
96 97 6.954102 AGTGAATTCCTTTAATGCTAGGGTTT 59.046 34.615 2.27 0.00 32.20 3.27
97 98 8.113462 AGTGAATTCCTTTAATGCTAGGGTTTA 58.887 33.333 2.27 0.00 32.20 2.01
98 99 8.406297 GTGAATTCCTTTAATGCTAGGGTTTAG 58.594 37.037 2.27 0.00 32.20 1.85
99 100 7.559897 TGAATTCCTTTAATGCTAGGGTTTAGG 59.440 37.037 2.27 0.00 32.20 2.69
100 101 4.788679 TCCTTTAATGCTAGGGTTTAGGC 58.211 43.478 0.00 0.00 32.20 3.93
101 102 4.228666 TCCTTTAATGCTAGGGTTTAGGCA 59.771 41.667 0.00 0.00 39.06 4.75
102 103 4.953579 CCTTTAATGCTAGGGTTTAGGCAA 59.046 41.667 0.00 0.00 38.21 4.52
103 104 5.598417 CCTTTAATGCTAGGGTTTAGGCAAT 59.402 40.000 0.00 0.00 38.21 3.56
104 105 6.239036 CCTTTAATGCTAGGGTTTAGGCAATC 60.239 42.308 0.00 0.00 38.21 2.67
105 106 2.729028 TGCTAGGGTTTAGGCAATCC 57.271 50.000 0.00 0.00 0.00 3.01
106 107 1.214424 TGCTAGGGTTTAGGCAATCCC 59.786 52.381 7.38 7.38 42.13 3.85
107 108 1.478837 GCTAGGGTTTAGGCAATCCCC 60.479 57.143 10.38 3.91 42.61 4.81
108 109 1.850345 CTAGGGTTTAGGCAATCCCCA 59.150 52.381 10.38 0.46 42.61 4.96
109 110 1.318934 AGGGTTTAGGCAATCCCCAT 58.681 50.000 10.38 0.00 42.61 4.00
110 111 1.651235 AGGGTTTAGGCAATCCCCATT 59.349 47.619 10.38 0.00 42.61 3.16
111 112 2.045745 AGGGTTTAGGCAATCCCCATTT 59.954 45.455 10.38 0.00 42.61 2.32
112 113 2.434336 GGGTTTAGGCAATCCCCATTTC 59.566 50.000 0.00 0.00 37.61 2.17
113 114 3.103742 GGTTTAGGCAATCCCCATTTCA 58.896 45.455 0.00 0.00 0.00 2.69
114 115 3.517500 GGTTTAGGCAATCCCCATTTCAA 59.482 43.478 0.00 0.00 0.00 2.69
115 116 4.383010 GGTTTAGGCAATCCCCATTTCAAG 60.383 45.833 0.00 0.00 0.00 3.02
116 117 2.629017 AGGCAATCCCCATTTCAAGT 57.371 45.000 0.00 0.00 0.00 3.16
117 118 2.906568 AGGCAATCCCCATTTCAAGTT 58.093 42.857 0.00 0.00 0.00 2.66
118 119 3.250617 AGGCAATCCCCATTTCAAGTTT 58.749 40.909 0.00 0.00 0.00 2.66
119 120 3.261643 AGGCAATCCCCATTTCAAGTTTC 59.738 43.478 0.00 0.00 0.00 2.78
120 121 3.261643 GGCAATCCCCATTTCAAGTTTCT 59.738 43.478 0.00 0.00 0.00 2.52
121 122 4.263025 GGCAATCCCCATTTCAAGTTTCTT 60.263 41.667 0.00 0.00 0.00 2.52
122 123 5.308014 GCAATCCCCATTTCAAGTTTCTTT 58.692 37.500 0.00 0.00 0.00 2.52
123 124 5.409520 GCAATCCCCATTTCAAGTTTCTTTC 59.590 40.000 0.00 0.00 0.00 2.62
124 125 6.523840 CAATCCCCATTTCAAGTTTCTTTCA 58.476 36.000 0.00 0.00 0.00 2.69
125 126 6.745794 ATCCCCATTTCAAGTTTCTTTCAA 57.254 33.333 0.00 0.00 0.00 2.69
126 127 6.552445 TCCCCATTTCAAGTTTCTTTCAAA 57.448 33.333 0.00 0.00 0.00 2.69
127 128 6.581712 TCCCCATTTCAAGTTTCTTTCAAAG 58.418 36.000 0.00 0.00 0.00 2.77
128 129 6.156083 TCCCCATTTCAAGTTTCTTTCAAAGT 59.844 34.615 0.00 0.00 0.00 2.66
129 130 6.823182 CCCCATTTCAAGTTTCTTTCAAAGTT 59.177 34.615 0.00 0.00 0.00 2.66
130 131 7.336679 CCCCATTTCAAGTTTCTTTCAAAGTTT 59.663 33.333 0.00 0.00 0.00 2.66
131 132 9.377312 CCCATTTCAAGTTTCTTTCAAAGTTTA 57.623 29.630 0.00 0.00 0.00 2.01
141 142 9.636965 GTTTCTTTCAAAGTTTAAACATGATGC 57.363 29.630 20.06 7.38 30.59 3.91
142 143 8.939201 TTCTTTCAAAGTTTAAACATGATGCA 57.061 26.923 20.06 6.94 30.59 3.96
143 144 8.351495 TCTTTCAAAGTTTAAACATGATGCAC 57.649 30.769 20.06 0.00 30.59 4.57
144 145 7.978414 TCTTTCAAAGTTTAAACATGATGCACA 59.022 29.630 20.06 6.32 30.59 4.57
145 146 7.462109 TTCAAAGTTTAAACATGATGCACAC 57.538 32.000 20.06 0.00 30.59 3.82
146 147 6.567959 TCAAAGTTTAAACATGATGCACACA 58.432 32.000 20.06 0.00 0.00 3.72
147 148 7.208777 TCAAAGTTTAAACATGATGCACACAT 58.791 30.769 20.06 0.00 39.98 3.21
148 149 7.169476 TCAAAGTTTAAACATGATGCACACATG 59.831 33.333 24.68 24.68 46.96 3.21
156 157 5.160699 CATGATGCACACATGTAGTTACC 57.839 43.478 20.65 0.00 39.84 2.85
157 158 3.605634 TGATGCACACATGTAGTTACCC 58.394 45.455 0.00 0.00 36.35 3.69
158 159 3.263170 TGATGCACACATGTAGTTACCCT 59.737 43.478 0.00 0.00 36.35 4.34
159 160 4.468153 TGATGCACACATGTAGTTACCCTA 59.532 41.667 0.00 0.00 36.35 3.53
160 161 4.465632 TGCACACATGTAGTTACCCTAG 57.534 45.455 0.00 0.00 0.00 3.02
161 162 3.835978 TGCACACATGTAGTTACCCTAGT 59.164 43.478 0.00 0.00 0.00 2.57
162 163 4.181578 GCACACATGTAGTTACCCTAGTG 58.818 47.826 0.00 0.00 0.00 2.74
163 164 4.181578 CACACATGTAGTTACCCTAGTGC 58.818 47.826 0.00 0.00 0.00 4.40
164 165 3.835978 ACACATGTAGTTACCCTAGTGCA 59.164 43.478 0.00 0.00 0.00 4.57
165 166 4.285003 ACACATGTAGTTACCCTAGTGCAA 59.715 41.667 0.00 0.00 0.00 4.08
166 167 5.045869 ACACATGTAGTTACCCTAGTGCAAT 60.046 40.000 0.00 0.00 0.00 3.56
167 168 5.294306 CACATGTAGTTACCCTAGTGCAATG 59.706 44.000 0.00 0.00 0.00 2.82
168 169 3.869065 TGTAGTTACCCTAGTGCAATGC 58.131 45.455 0.00 0.00 0.00 3.56
169 170 2.420058 AGTTACCCTAGTGCAATGCC 57.580 50.000 1.53 0.00 0.00 4.40
170 171 1.633432 AGTTACCCTAGTGCAATGCCA 59.367 47.619 1.53 0.00 0.00 4.92
171 172 2.017049 GTTACCCTAGTGCAATGCCAG 58.983 52.381 1.53 0.00 0.00 4.85
172 173 1.578897 TACCCTAGTGCAATGCCAGA 58.421 50.000 1.53 0.00 0.00 3.86
173 174 0.698238 ACCCTAGTGCAATGCCAGAA 59.302 50.000 1.53 0.00 0.00 3.02
174 175 1.340405 ACCCTAGTGCAATGCCAGAAG 60.340 52.381 1.53 0.00 0.00 2.85
175 176 0.737219 CCTAGTGCAATGCCAGAAGC 59.263 55.000 1.53 0.00 44.14 3.86
176 177 1.681166 CCTAGTGCAATGCCAGAAGCT 60.681 52.381 1.53 0.00 44.23 3.74
177 178 2.420547 CCTAGTGCAATGCCAGAAGCTA 60.421 50.000 1.53 0.00 44.23 3.32
178 179 1.747709 AGTGCAATGCCAGAAGCTAG 58.252 50.000 1.53 0.00 44.23 3.42
179 180 0.737219 GTGCAATGCCAGAAGCTAGG 59.263 55.000 1.53 0.00 44.23 3.02
180 181 0.394762 TGCAATGCCAGAAGCTAGGG 60.395 55.000 1.53 0.00 44.23 3.53
181 182 0.107017 GCAATGCCAGAAGCTAGGGA 60.107 55.000 0.00 0.00 44.23 4.20
182 183 1.478288 GCAATGCCAGAAGCTAGGGAT 60.478 52.381 0.00 2.10 44.23 3.85
183 184 2.228059 CAATGCCAGAAGCTAGGGATG 58.772 52.381 7.40 0.52 44.23 3.51
184 185 1.516110 ATGCCAGAAGCTAGGGATGT 58.484 50.000 6.07 0.00 44.23 3.06
185 186 0.543277 TGCCAGAAGCTAGGGATGTG 59.457 55.000 2.62 0.00 44.23 3.21
186 187 0.833287 GCCAGAAGCTAGGGATGTGA 59.167 55.000 2.62 0.00 38.99 3.58
187 188 1.474143 GCCAGAAGCTAGGGATGTGAC 60.474 57.143 2.62 0.00 38.99 3.67
188 189 1.833630 CCAGAAGCTAGGGATGTGACA 59.166 52.381 0.00 0.00 0.00 3.58
304 305 1.737793 CATCCGCTAGTTTGGGTGTTC 59.262 52.381 3.66 0.00 31.48 3.18
428 429 1.859302 AGAGTGAGGGCGAGAAAGAT 58.141 50.000 0.00 0.00 0.00 2.40
504 505 4.447138 AGAGATAGGAGTCGAGTGGATT 57.553 45.455 0.00 0.00 0.00 3.01
586 587 8.194104 GTCACATACAAACAGATATCAGAGAGT 58.806 37.037 5.32 0.83 0.00 3.24
676 677 4.076394 GCTAGAGAGACATACGAGGGAAT 58.924 47.826 0.00 0.00 0.00 3.01
929 930 6.567687 TTTGTGTTTGTGTGAGAGAAAGAA 57.432 33.333 0.00 0.00 0.00 2.52
952 953 8.739972 AGAAATTCCACATTAATGGTAGTGAAC 58.260 33.333 19.37 5.76 40.95 3.18
1007 1008 6.564099 TCATTCCAAATGATAATATGGGGCT 58.436 36.000 0.00 0.00 33.66 5.19
1012 1013 5.047092 CCAAATGATAATATGGGGCTGGTTC 60.047 44.000 0.00 0.00 0.00 3.62
1028 1029 6.276091 GGCTGGTTCATATCTTGAAATTTCC 58.724 40.000 15.48 0.00 45.71 3.13
1144 2447 8.531146 TCTCCAAATTGAAATTATTGAAGTCCC 58.469 33.333 0.00 0.00 0.00 4.46
1279 5188 3.371965 AGAAATGCTCAAAGGATGGCAT 58.628 40.909 0.00 0.00 43.40 4.40
1308 5217 5.012664 TGGCTAACAGAGTAAAAGATGGACA 59.987 40.000 0.00 0.00 0.00 4.02
1380 5289 5.960113 AGAAATCTGTACTGCTGTAGTGAG 58.040 41.667 8.75 4.78 40.65 3.51
1439 5348 5.076873 TCTTATACATGGGGCCTAAATTGC 58.923 41.667 0.84 0.00 0.00 3.56
1465 5374 1.609783 CTCCGGGGCCTCAATTTCT 59.390 57.895 1.96 0.00 0.00 2.52
1563 5568 4.980805 GTGTCCTTGGCGCCGTCA 62.981 66.667 23.90 12.96 0.00 4.35
1967 7959 1.112113 TTTGCGCCTTGGTTGGTTTA 58.888 45.000 4.18 0.00 0.00 2.01
2035 8027 3.786576 CGTACTAGTTTGTGAGCTCGATG 59.213 47.826 9.64 0.00 0.00 3.84
2080 8073 0.526739 GTTGTTTGTGGTTGTCGGCC 60.527 55.000 0.00 0.00 0.00 6.13
2225 8233 2.826738 GAGAGGGCTCGTCTCGCT 60.827 66.667 8.48 0.00 36.04 4.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.349243 TGTTCATCATTTCTGGAAAATGCT 57.651 33.333 5.78 0.00 37.50 3.79
1 2 7.605410 AATGTTCATCATTTCTGGAAAATGC 57.395 32.000 5.78 0.00 43.33 3.56
15 16 8.566260 CCAAATGGCTTTTAAAAATGTTCATCA 58.434 29.630 1.66 0.00 0.00 3.07
16 17 8.782144 TCCAAATGGCTTTTAAAAATGTTCATC 58.218 29.630 1.66 0.00 34.44 2.92
17 18 8.688747 TCCAAATGGCTTTTAAAAATGTTCAT 57.311 26.923 1.66 0.04 34.44 2.57
18 19 8.688747 ATCCAAATGGCTTTTAAAAATGTTCA 57.311 26.923 1.66 0.00 34.44 3.18
19 20 9.964303 AAATCCAAATGGCTTTTAAAAATGTTC 57.036 25.926 1.66 0.00 30.03 3.18
24 25 9.061435 CCAGTAAATCCAAATGGCTTTTAAAAA 57.939 29.630 6.59 0.00 35.42 1.94
25 26 8.432805 TCCAGTAAATCCAAATGGCTTTTAAAA 58.567 29.630 6.59 0.00 35.42 1.52
26 27 7.967908 TCCAGTAAATCCAAATGGCTTTTAAA 58.032 30.769 6.59 0.00 35.42 1.52
27 28 7.546250 TCCAGTAAATCCAAATGGCTTTTAA 57.454 32.000 6.59 0.00 35.42 1.52
28 29 7.546250 TTCCAGTAAATCCAAATGGCTTTTA 57.454 32.000 6.59 5.31 35.42 1.52
29 30 6.432403 TTCCAGTAAATCCAAATGGCTTTT 57.568 33.333 6.59 6.13 35.42 2.27
30 31 6.432403 TTTCCAGTAAATCCAAATGGCTTT 57.568 33.333 6.52 6.52 37.33 3.51
31 32 6.625532 ATTTCCAGTAAATCCAAATGGCTT 57.374 33.333 0.00 0.00 32.00 4.35
32 33 7.919385 ATATTTCCAGTAAATCCAAATGGCT 57.081 32.000 0.00 0.00 38.71 4.75
33 34 8.962884 AAATATTTCCAGTAAATCCAAATGGC 57.037 30.769 0.00 0.00 38.71 4.40
36 37 9.904198 CCCAAAATATTTCCAGTAAATCCAAAT 57.096 29.630 0.10 0.00 38.71 2.32
37 38 8.885346 ACCCAAAATATTTCCAGTAAATCCAAA 58.115 29.630 0.10 0.00 38.71 3.28
38 39 8.442660 ACCCAAAATATTTCCAGTAAATCCAA 57.557 30.769 0.10 0.00 38.71 3.53
39 40 8.317679 CAACCCAAAATATTTCCAGTAAATCCA 58.682 33.333 0.10 0.00 38.71 3.41
40 41 8.536175 TCAACCCAAAATATTTCCAGTAAATCC 58.464 33.333 0.10 0.00 38.71 3.01
41 42 9.936759 TTCAACCCAAAATATTTCCAGTAAATC 57.063 29.630 0.10 0.00 38.71 2.17
42 43 9.719355 GTTCAACCCAAAATATTTCCAGTAAAT 57.281 29.630 0.10 0.00 40.87 1.40
43 44 8.151596 GGTTCAACCCAAAATATTTCCAGTAAA 58.848 33.333 0.10 0.00 30.04 2.01
44 45 7.511028 AGGTTCAACCCAAAATATTTCCAGTAA 59.489 33.333 1.75 0.00 39.75 2.24
45 46 7.013834 AGGTTCAACCCAAAATATTTCCAGTA 58.986 34.615 1.75 0.00 39.75 2.74
46 47 5.843969 AGGTTCAACCCAAAATATTTCCAGT 59.156 36.000 1.75 0.00 39.75 4.00
47 48 6.358974 AGGTTCAACCCAAAATATTTCCAG 57.641 37.500 1.75 0.00 39.75 3.86
48 49 7.013834 ACTAGGTTCAACCCAAAATATTTCCA 58.986 34.615 1.75 0.00 39.75 3.53
49 50 7.177744 TCACTAGGTTCAACCCAAAATATTTCC 59.822 37.037 1.75 0.00 39.75 3.13
50 51 8.117813 TCACTAGGTTCAACCCAAAATATTTC 57.882 34.615 1.75 0.00 39.75 2.17
51 52 8.485578 TTCACTAGGTTCAACCCAAAATATTT 57.514 30.769 1.75 0.00 39.75 1.40
52 53 8.664669 ATTCACTAGGTTCAACCCAAAATATT 57.335 30.769 1.75 0.00 39.75 1.28
53 54 8.664669 AATTCACTAGGTTCAACCCAAAATAT 57.335 30.769 1.75 0.00 39.75 1.28
54 55 7.177744 GGAATTCACTAGGTTCAACCCAAAATA 59.822 37.037 1.75 0.00 39.75 1.40
55 56 6.014584 GGAATTCACTAGGTTCAACCCAAAAT 60.015 38.462 1.75 0.00 39.75 1.82
56 57 5.303333 GGAATTCACTAGGTTCAACCCAAAA 59.697 40.000 1.75 0.00 39.75 2.44
57 58 4.830600 GGAATTCACTAGGTTCAACCCAAA 59.169 41.667 1.75 0.00 39.75 3.28
58 59 4.105697 AGGAATTCACTAGGTTCAACCCAA 59.894 41.667 1.75 0.00 39.75 4.12
59 60 3.655777 AGGAATTCACTAGGTTCAACCCA 59.344 43.478 1.75 0.00 39.75 4.51
60 61 4.302559 AGGAATTCACTAGGTTCAACCC 57.697 45.455 1.75 0.00 39.75 4.11
61 62 7.754851 TTAAAGGAATTCACTAGGTTCAACC 57.245 36.000 7.93 0.00 38.99 3.77
62 63 7.755373 GCATTAAAGGAATTCACTAGGTTCAAC 59.245 37.037 7.93 0.00 0.00 3.18
63 64 7.669722 AGCATTAAAGGAATTCACTAGGTTCAA 59.330 33.333 7.93 0.00 0.00 2.69
64 65 7.175104 AGCATTAAAGGAATTCACTAGGTTCA 58.825 34.615 7.93 0.00 0.00 3.18
65 66 7.631717 AGCATTAAAGGAATTCACTAGGTTC 57.368 36.000 7.93 0.00 0.00 3.62
66 67 7.775561 CCTAGCATTAAAGGAATTCACTAGGTT 59.224 37.037 7.93 0.00 37.80 3.50
67 68 7.283329 CCTAGCATTAAAGGAATTCACTAGGT 58.717 38.462 7.93 0.00 37.80 3.08
68 69 6.712547 CCCTAGCATTAAAGGAATTCACTAGG 59.287 42.308 7.93 12.00 39.82 3.02
69 70 7.283329 ACCCTAGCATTAAAGGAATTCACTAG 58.717 38.462 7.93 4.87 34.58 2.57
70 71 7.208064 ACCCTAGCATTAAAGGAATTCACTA 57.792 36.000 7.93 0.00 34.58 2.74
71 72 6.079712 ACCCTAGCATTAAAGGAATTCACT 57.920 37.500 7.93 0.00 34.58 3.41
72 73 6.775594 AACCCTAGCATTAAAGGAATTCAC 57.224 37.500 7.93 0.00 34.58 3.18
73 74 7.559897 CCTAAACCCTAGCATTAAAGGAATTCA 59.440 37.037 7.93 0.00 34.58 2.57
74 75 7.470147 GCCTAAACCCTAGCATTAAAGGAATTC 60.470 40.741 0.00 0.00 34.58 2.17
75 76 6.323996 GCCTAAACCCTAGCATTAAAGGAATT 59.676 38.462 0.00 0.00 34.58 2.17
76 77 5.833667 GCCTAAACCCTAGCATTAAAGGAAT 59.166 40.000 0.00 0.00 34.58 3.01
77 78 5.198207 GCCTAAACCCTAGCATTAAAGGAA 58.802 41.667 0.00 0.00 34.58 3.36
78 79 4.228666 TGCCTAAACCCTAGCATTAAAGGA 59.771 41.667 0.00 0.00 34.58 3.36
79 80 4.532834 TGCCTAAACCCTAGCATTAAAGG 58.467 43.478 0.00 0.00 0.00 3.11
80 81 6.239036 GGATTGCCTAAACCCTAGCATTAAAG 60.239 42.308 0.00 0.00 34.72 1.85
81 82 5.596772 GGATTGCCTAAACCCTAGCATTAAA 59.403 40.000 0.00 0.00 34.72 1.52
82 83 5.137551 GGATTGCCTAAACCCTAGCATTAA 58.862 41.667 0.00 0.00 34.72 1.40
83 84 4.447180 GGGATTGCCTAAACCCTAGCATTA 60.447 45.833 0.00 0.00 43.62 1.90
84 85 3.566351 GGATTGCCTAAACCCTAGCATT 58.434 45.455 0.00 0.00 34.72 3.56
85 86 2.158460 GGGATTGCCTAAACCCTAGCAT 60.158 50.000 0.00 0.00 43.62 3.79
86 87 1.214424 GGGATTGCCTAAACCCTAGCA 59.786 52.381 0.00 0.00 43.62 3.49
87 88 1.478837 GGGGATTGCCTAAACCCTAGC 60.479 57.143 0.00 0.00 45.63 3.42
88 89 1.850345 TGGGGATTGCCTAAACCCTAG 59.150 52.381 0.00 0.00 45.63 3.02
89 90 1.988539 TGGGGATTGCCTAAACCCTA 58.011 50.000 0.00 0.00 45.63 3.53
90 91 1.318934 ATGGGGATTGCCTAAACCCT 58.681 50.000 0.00 0.00 45.63 4.34
91 92 2.174685 AATGGGGATTGCCTAAACCC 57.825 50.000 0.00 0.00 45.62 4.11
92 93 3.103742 TGAAATGGGGATTGCCTAAACC 58.896 45.455 0.00 0.00 0.00 3.27
93 94 4.222810 ACTTGAAATGGGGATTGCCTAAAC 59.777 41.667 0.00 0.00 0.00 2.01
94 95 4.424842 ACTTGAAATGGGGATTGCCTAAA 58.575 39.130 0.00 0.00 0.00 1.85
95 96 4.059773 ACTTGAAATGGGGATTGCCTAA 57.940 40.909 0.00 0.00 0.00 2.69
96 97 3.756082 ACTTGAAATGGGGATTGCCTA 57.244 42.857 0.00 0.00 0.00 3.93
97 98 2.629017 ACTTGAAATGGGGATTGCCT 57.371 45.000 0.00 0.00 0.00 4.75
98 99 3.261643 AGAAACTTGAAATGGGGATTGCC 59.738 43.478 0.00 0.00 0.00 4.52
99 100 4.541973 AGAAACTTGAAATGGGGATTGC 57.458 40.909 0.00 0.00 0.00 3.56
100 101 6.523840 TGAAAGAAACTTGAAATGGGGATTG 58.476 36.000 0.00 0.00 0.00 2.67
101 102 6.745794 TGAAAGAAACTTGAAATGGGGATT 57.254 33.333 0.00 0.00 0.00 3.01
102 103 6.745794 TTGAAAGAAACTTGAAATGGGGAT 57.254 33.333 0.00 0.00 0.00 3.85
103 104 6.156083 ACTTTGAAAGAAACTTGAAATGGGGA 59.844 34.615 12.53 0.00 0.00 4.81
104 105 6.348498 ACTTTGAAAGAAACTTGAAATGGGG 58.652 36.000 12.53 0.00 0.00 4.96
105 106 7.848223 AACTTTGAAAGAAACTTGAAATGGG 57.152 32.000 12.53 0.00 0.00 4.00
115 116 9.636965 GCATCATGTTTAAACTTTGAAAGAAAC 57.363 29.630 18.72 11.92 0.00 2.78
116 117 9.376075 TGCATCATGTTTAAACTTTGAAAGAAA 57.624 25.926 18.72 0.00 0.00 2.52
117 118 8.816144 GTGCATCATGTTTAAACTTTGAAAGAA 58.184 29.630 18.72 10.52 0.00 2.52
118 119 7.978414 TGTGCATCATGTTTAAACTTTGAAAGA 59.022 29.630 18.72 6.75 0.00 2.52
119 120 8.057742 GTGTGCATCATGTTTAAACTTTGAAAG 58.942 33.333 18.72 16.54 0.00 2.62
120 121 7.547019 TGTGTGCATCATGTTTAAACTTTGAAA 59.453 29.630 18.72 9.39 0.00 2.69
121 122 7.038048 TGTGTGCATCATGTTTAAACTTTGAA 58.962 30.769 18.72 1.78 0.00 2.69
122 123 6.567959 TGTGTGCATCATGTTTAAACTTTGA 58.432 32.000 18.72 19.33 0.00 2.69
123 124 6.825284 TGTGTGCATCATGTTTAAACTTTG 57.175 33.333 18.72 15.35 0.00 2.77
124 125 7.410800 CATGTGTGCATCATGTTTAAACTTT 57.589 32.000 18.72 4.43 38.17 2.66
134 135 4.035558 GGGTAACTACATGTGTGCATCATG 59.964 45.833 23.70 23.70 45.41 3.07
135 136 4.080356 AGGGTAACTACATGTGTGCATCAT 60.080 41.667 9.11 0.00 31.99 2.45
136 137 3.263170 AGGGTAACTACATGTGTGCATCA 59.737 43.478 9.11 0.00 31.99 3.07
137 138 3.873910 AGGGTAACTACATGTGTGCATC 58.126 45.455 9.11 0.00 31.99 3.91
138 139 4.469945 ACTAGGGTAACTACATGTGTGCAT 59.530 41.667 9.11 0.00 35.32 3.96
139 140 3.835978 ACTAGGGTAACTACATGTGTGCA 59.164 43.478 9.11 0.00 0.00 4.57
140 141 4.181578 CACTAGGGTAACTACATGTGTGC 58.818 47.826 9.11 0.00 0.00 4.57
141 142 4.181578 GCACTAGGGTAACTACATGTGTG 58.818 47.826 9.11 4.97 0.00 3.82
142 143 3.835978 TGCACTAGGGTAACTACATGTGT 59.164 43.478 9.11 1.62 0.00 3.72
143 144 4.465632 TGCACTAGGGTAACTACATGTG 57.534 45.455 9.11 0.93 0.00 3.21
144 145 5.428253 CATTGCACTAGGGTAACTACATGT 58.572 41.667 2.69 2.69 0.00 3.21
145 146 4.273480 GCATTGCACTAGGGTAACTACATG 59.727 45.833 3.15 0.00 0.00 3.21
146 147 4.451900 GCATTGCACTAGGGTAACTACAT 58.548 43.478 3.15 0.00 0.00 2.29
147 148 3.370103 GGCATTGCACTAGGGTAACTACA 60.370 47.826 11.39 0.00 0.00 2.74
148 149 3.203716 GGCATTGCACTAGGGTAACTAC 58.796 50.000 11.39 0.00 0.00 2.73
149 150 2.841266 TGGCATTGCACTAGGGTAACTA 59.159 45.455 11.39 0.00 0.00 2.24
150 151 1.633432 TGGCATTGCACTAGGGTAACT 59.367 47.619 11.39 0.00 0.00 2.24
151 152 2.017049 CTGGCATTGCACTAGGGTAAC 58.983 52.381 11.39 0.00 0.00 2.50
152 153 1.912731 TCTGGCATTGCACTAGGGTAA 59.087 47.619 11.39 0.00 0.00 2.85
153 154 1.578897 TCTGGCATTGCACTAGGGTA 58.421 50.000 11.39 0.00 0.00 3.69
154 155 0.698238 TTCTGGCATTGCACTAGGGT 59.302 50.000 11.39 0.00 0.00 4.34
155 156 1.386533 CTTCTGGCATTGCACTAGGG 58.613 55.000 11.39 0.00 0.00 3.53
156 157 0.737219 GCTTCTGGCATTGCACTAGG 59.263 55.000 11.39 0.00 41.35 3.02
157 158 1.747709 AGCTTCTGGCATTGCACTAG 58.252 50.000 11.39 5.79 44.79 2.57
158 159 2.420547 CCTAGCTTCTGGCATTGCACTA 60.421 50.000 11.39 1.61 44.79 2.74
159 160 1.681166 CCTAGCTTCTGGCATTGCACT 60.681 52.381 11.39 0.50 44.79 4.40
160 161 0.737219 CCTAGCTTCTGGCATTGCAC 59.263 55.000 11.39 0.57 44.79 4.57
161 162 0.394762 CCCTAGCTTCTGGCATTGCA 60.395 55.000 11.39 0.00 44.79 4.08
162 163 0.107017 TCCCTAGCTTCTGGCATTGC 60.107 55.000 0.00 0.00 44.79 3.56
163 164 2.228059 CATCCCTAGCTTCTGGCATTG 58.772 52.381 0.00 0.00 44.79 2.82
164 165 1.849039 ACATCCCTAGCTTCTGGCATT 59.151 47.619 0.00 0.00 44.79 3.56
165 166 1.142465 CACATCCCTAGCTTCTGGCAT 59.858 52.381 0.00 0.00 44.79 4.40
166 167 0.543277 CACATCCCTAGCTTCTGGCA 59.457 55.000 0.00 0.00 44.79 4.92
167 168 0.833287 TCACATCCCTAGCTTCTGGC 59.167 55.000 0.00 0.00 42.19 4.85
168 169 1.833630 TGTCACATCCCTAGCTTCTGG 59.166 52.381 0.00 0.00 0.00 3.86
169 170 3.055530 ACTTGTCACATCCCTAGCTTCTG 60.056 47.826 0.00 0.00 0.00 3.02
170 171 3.055530 CACTTGTCACATCCCTAGCTTCT 60.056 47.826 0.00 0.00 0.00 2.85
171 172 3.265791 CACTTGTCACATCCCTAGCTTC 58.734 50.000 0.00 0.00 0.00 3.86
172 173 2.639839 ACACTTGTCACATCCCTAGCTT 59.360 45.455 0.00 0.00 0.00 3.74
173 174 2.027745 CACACTTGTCACATCCCTAGCT 60.028 50.000 0.00 0.00 0.00 3.32
174 175 2.350522 CACACTTGTCACATCCCTAGC 58.649 52.381 0.00 0.00 0.00 3.42
175 176 2.355108 CCCACACTTGTCACATCCCTAG 60.355 54.545 0.00 0.00 0.00 3.02
176 177 1.628340 CCCACACTTGTCACATCCCTA 59.372 52.381 0.00 0.00 0.00 3.53
177 178 0.401738 CCCACACTTGTCACATCCCT 59.598 55.000 0.00 0.00 0.00 4.20
178 179 0.110486 ACCCACACTTGTCACATCCC 59.890 55.000 0.00 0.00 0.00 3.85
179 180 1.202758 TCACCCACACTTGTCACATCC 60.203 52.381 0.00 0.00 0.00 3.51
180 181 2.254546 TCACCCACACTTGTCACATC 57.745 50.000 0.00 0.00 0.00 3.06
181 182 2.957402 ATCACCCACACTTGTCACAT 57.043 45.000 0.00 0.00 0.00 3.21
182 183 2.038426 CCTATCACCCACACTTGTCACA 59.962 50.000 0.00 0.00 0.00 3.58
183 184 2.301870 TCCTATCACCCACACTTGTCAC 59.698 50.000 0.00 0.00 0.00 3.67
184 185 2.615391 TCCTATCACCCACACTTGTCA 58.385 47.619 0.00 0.00 0.00 3.58
185 186 3.600388 CTTCCTATCACCCACACTTGTC 58.400 50.000 0.00 0.00 0.00 3.18
186 187 2.290323 GCTTCCTATCACCCACACTTGT 60.290 50.000 0.00 0.00 0.00 3.16
187 188 2.290260 TGCTTCCTATCACCCACACTTG 60.290 50.000 0.00 0.00 0.00 3.16
188 189 1.985159 TGCTTCCTATCACCCACACTT 59.015 47.619 0.00 0.00 0.00 3.16
220 221 6.318900 AGTTTCTCCGTCAACATTTCTTTCTT 59.681 34.615 0.00 0.00 0.00 2.52
304 305 2.102357 CACCCGACGGTCATCTCG 59.898 66.667 13.94 0.00 42.04 4.04
327 328 8.541899 TCACACACATATATAACTTCACCCTA 57.458 34.615 0.00 0.00 0.00 3.53
428 429 8.548025 TCTATTTATCTGTTTCTCCATCAACCA 58.452 33.333 0.00 0.00 0.00 3.67
464 465 7.704578 ATCTCTAACACACACTAGCTAGAAA 57.295 36.000 27.45 2.53 0.00 2.52
466 467 6.993308 CCTATCTCTAACACACACTAGCTAGA 59.007 42.308 27.45 1.81 0.00 2.43
504 505 2.910319 ACACACATAACCCAGCCTTCTA 59.090 45.455 0.00 0.00 0.00 2.10
586 587 4.141367 ACTCCGTCTCTCTGGATCTCATTA 60.141 45.833 0.00 0.00 32.83 1.90
929 930 9.920946 ATAGTTCACTACCATTAATGTGGAATT 57.079 29.630 14.25 8.97 42.02 2.17
1012 1013 7.707104 AGCCGTTTAGGAAATTTCAAGATATG 58.293 34.615 19.49 6.25 45.00 1.78
1028 1029 4.514401 AGGGAAACAATCTAGCCGTTTAG 58.486 43.478 4.59 0.00 33.18 1.85
1144 2447 5.590104 TGTGTCATTGTTGAACGTAGATG 57.410 39.130 0.00 0.00 32.48 2.90
1279 5188 5.373222 TCTTTTACTCTGTTAGCCAAAGCA 58.627 37.500 0.00 0.00 43.56 3.91
1465 5374 0.325296 CTCTACAGGCCTGTACCCCA 60.325 60.000 36.63 21.61 44.42 4.96
1475 5384 1.330234 GGGTAGGCTACTCTACAGGC 58.670 60.000 23.01 4.85 40.88 4.85
1563 5568 2.304831 GCCTCCCTTCTGCTCCCTT 61.305 63.158 0.00 0.00 0.00 3.95
1911 7358 5.988561 TGTGGTAAGCAATTCAAACCAATTC 59.011 36.000 0.00 0.00 41.65 2.17
1967 7959 1.202604 TCCTCTTTTCTTCAACGCCGT 60.203 47.619 0.00 0.00 0.00 5.68
2035 8027 2.546494 CCGGCGCCTCAATCAATCC 61.546 63.158 26.68 0.00 0.00 3.01
2225 8233 1.340088 TCACTTACCTTACCACGCCA 58.660 50.000 0.00 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.