Multiple sequence alignment - TraesCS4B01G091700

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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 TraesCS4B01G091700 chr4B 100.000 2666 0 0 1 2666 94824696 94822031 0.000000e+00 4924.0
1 TraesCS4B01G091700 chr4B 98.497 2329 33 2 298 2625 27257716 27260043 0.000000e+00 4106.0
2 TraesCS4B01G091700 chr7A 98.792 2318 26 2 295 2611 574109065 574106749 0.000000e+00 4124.0
3 TraesCS4B01G091700 chr7A 97.849 1860 38 2 767 2625 424300200 424302058 0.000000e+00 3212.0
4 TraesCS4B01G091700 chr7A 87.342 79 8 2 2590 2666 5254407 5254485 3.660000e-14 89.8
5 TraesCS4B01G091700 chr7A 87.179 78 9 1 2590 2666 709147976 709148053 1.310000e-13 87.9
6 TraesCS4B01G091700 chr7A 86.076 79 9 2 2590 2666 5267157 5267235 1.700000e-12 84.2
7 TraesCS4B01G091700 chr4A 98.585 2332 32 1 294 2625 630786663 630784333 0.000000e+00 4122.0
8 TraesCS4B01G091700 chr4A 94.142 717 33 2 1859 2567 168798448 168799163 0.000000e+00 1083.0
9 TraesCS4B01G091700 chr4A 86.441 826 64 13 1875 2666 176812103 176811292 0.000000e+00 861.0
10 TraesCS4B01G091700 chr4A 100.000 45 0 0 2622 2666 630784022 630783978 1.700000e-12 84.2
11 TraesCS4B01G091700 chr1B 98.498 2331 34 1 295 2625 361813509 361811180 0.000000e+00 4109.0
12 TraesCS4B01G091700 chr1A 98.294 2344 36 4 283 2625 509653860 509656200 0.000000e+00 4104.0
13 TraesCS4B01G091700 chr2B 98.113 2332 43 1 294 2625 126124909 126122579 0.000000e+00 4061.0
14 TraesCS4B01G091700 chr2B 98.027 2331 45 1 295 2625 615909333 615911662 0.000000e+00 4048.0
15 TraesCS4B01G091700 chr6A 97.381 2329 48 7 298 2625 229787061 229784745 0.000000e+00 3951.0
16 TraesCS4B01G091700 chr2D 92.764 1921 101 15 767 2666 567388801 567386898 0.000000e+00 2743.0
17 TraesCS4B01G091700 chr2D 89.164 1938 129 27 767 2666 22766591 22764697 0.000000e+00 2340.0
18 TraesCS4B01G091700 chr2A 86.541 795 81 14 1882 2666 295422214 295421436 0.000000e+00 852.0
19 TraesCS4B01G091700 chr5A 85.714 826 69 20 1875 2666 459489734 459488924 0.000000e+00 826.0
20 TraesCS4B01G091700 chr5A 85.230 826 73 21 1875 2666 442428476 442427666 0.000000e+00 804.0
21 TraesCS4B01G091700 chr5A 84.737 190 15 5 2478 2666 294191472 294191296 7.580000e-41 178.0
22 TraesCS4B01G091700 chr3A 95.556 495 21 1 295 788 154925684 154926178 0.000000e+00 791.0
23 TraesCS4B01G091700 chr6B 89.744 78 7 1 2590 2666 611665198 611665121 6.070000e-17 99.0


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 TraesCS4B01G091700 chr4B 94822031 94824696 2665 True 4924.0 4924 100.0000 1 2666 1 chr4B.!!$R1 2665
1 TraesCS4B01G091700 chr4B 27257716 27260043 2327 False 4106.0 4106 98.4970 298 2625 1 chr4B.!!$F1 2327
2 TraesCS4B01G091700 chr7A 574106749 574109065 2316 True 4124.0 4124 98.7920 295 2611 1 chr7A.!!$R1 2316
3 TraesCS4B01G091700 chr7A 424300200 424302058 1858 False 3212.0 3212 97.8490 767 2625 1 chr7A.!!$F3 1858
4 TraesCS4B01G091700 chr4A 630783978 630786663 2685 True 2103.1 4122 99.2925 294 2666 2 chr4A.!!$R2 2372
5 TraesCS4B01G091700 chr4A 168798448 168799163 715 False 1083.0 1083 94.1420 1859 2567 1 chr4A.!!$F1 708
6 TraesCS4B01G091700 chr4A 176811292 176812103 811 True 861.0 861 86.4410 1875 2666 1 chr4A.!!$R1 791
7 TraesCS4B01G091700 chr1B 361811180 361813509 2329 True 4109.0 4109 98.4980 295 2625 1 chr1B.!!$R1 2330
8 TraesCS4B01G091700 chr1A 509653860 509656200 2340 False 4104.0 4104 98.2940 283 2625 1 chr1A.!!$F1 2342
9 TraesCS4B01G091700 chr2B 126122579 126124909 2330 True 4061.0 4061 98.1130 294 2625 1 chr2B.!!$R1 2331
10 TraesCS4B01G091700 chr2B 615909333 615911662 2329 False 4048.0 4048 98.0270 295 2625 1 chr2B.!!$F1 2330
11 TraesCS4B01G091700 chr6A 229784745 229787061 2316 True 3951.0 3951 97.3810 298 2625 1 chr6A.!!$R1 2327
12 TraesCS4B01G091700 chr2D 567386898 567388801 1903 True 2743.0 2743 92.7640 767 2666 1 chr2D.!!$R2 1899
13 TraesCS4B01G091700 chr2D 22764697 22766591 1894 True 2340.0 2340 89.1640 767 2666 1 chr2D.!!$R1 1899
14 TraesCS4B01G091700 chr2A 295421436 295422214 778 True 852.0 852 86.5410 1882 2666 1 chr2A.!!$R1 784
15 TraesCS4B01G091700 chr5A 459488924 459489734 810 True 826.0 826 85.7140 1875 2666 1 chr5A.!!$R3 791
16 TraesCS4B01G091700 chr5A 442427666 442428476 810 True 804.0 804 85.2300 1875 2666 1 chr5A.!!$R2 791

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
98 99 0.319727 CATGATCTCTCTCGGCAGCC 60.320 60.0 0.0 0.0 0.00 4.85 F
113 114 0.537188 CAGCCCCTCGAACTGTACAT 59.463 55.0 0.0 0.0 0.00 2.29 F
210 211 0.605319 TTTGTGCAGGTCCACGATCC 60.605 55.0 0.0 0.0 38.55 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1289 1321 0.106918 CAGAGGCGGAGGAGACTACT 60.107 60.000 0.0 0.0 44.43 2.57 R
1344 1376 1.123861 TCTCAGTCACTGCCCAAGCT 61.124 55.000 0.0 0.0 40.80 3.74 R
2105 2196 1.202976 ACAGGGCAAGAGTTCTGCATT 60.203 47.619 0.0 0.0 0.00 3.56 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
17 18 4.792087 CCTACGGCCAGTTGTTGT 57.208 55.556 2.24 0.00 0.00 3.32
18 19 2.244000 CCTACGGCCAGTTGTTGTG 58.756 57.895 2.24 0.00 0.00 3.33
19 20 1.574428 CTACGGCCAGTTGTTGTGC 59.426 57.895 2.24 0.00 0.00 4.57
20 21 1.852067 CTACGGCCAGTTGTTGTGCC 61.852 60.000 2.24 0.00 38.82 5.01
21 22 3.977244 CGGCCAGTTGTTGTGCCC 61.977 66.667 2.24 0.00 38.92 5.36
22 23 3.977244 GGCCAGTTGTTGTGCCCG 61.977 66.667 0.00 0.00 37.24 6.13
23 24 2.904866 GCCAGTTGTTGTGCCCGA 60.905 61.111 0.00 0.00 0.00 5.14
24 25 2.268076 GCCAGTTGTTGTGCCCGAT 61.268 57.895 0.00 0.00 0.00 4.18
25 26 1.875963 CCAGTTGTTGTGCCCGATC 59.124 57.895 0.00 0.00 0.00 3.69
26 27 1.497278 CAGTTGTTGTGCCCGATCG 59.503 57.895 8.51 8.51 0.00 3.69
27 28 1.070786 AGTTGTTGTGCCCGATCGT 59.929 52.632 15.09 0.00 0.00 3.73
28 29 1.206578 GTTGTTGTGCCCGATCGTG 59.793 57.895 15.09 3.21 0.00 4.35
29 30 2.612567 TTGTTGTGCCCGATCGTGC 61.613 57.895 16.05 16.05 0.00 5.34
30 31 3.047280 GTTGTGCCCGATCGTGCA 61.047 61.111 21.50 21.50 34.54 4.57
31 32 2.741985 TTGTGCCCGATCGTGCAG 60.742 61.111 25.59 3.65 38.34 4.41
38 39 3.554692 CGATCGTGCAGCCGGTTC 61.555 66.667 7.03 0.00 0.00 3.62
39 40 2.125512 GATCGTGCAGCCGGTTCT 60.126 61.111 1.90 0.00 0.00 3.01
40 41 2.125512 ATCGTGCAGCCGGTTCTC 60.126 61.111 1.90 0.00 0.00 2.87
41 42 2.564553 GATCGTGCAGCCGGTTCTCT 62.565 60.000 1.90 0.00 0.00 3.10
42 43 2.564553 ATCGTGCAGCCGGTTCTCTC 62.565 60.000 1.90 0.00 0.00 3.20
43 44 2.435059 GTGCAGCCGGTTCTCTCC 60.435 66.667 1.90 0.00 0.00 3.71
44 45 2.604686 TGCAGCCGGTTCTCTCCT 60.605 61.111 1.90 0.00 0.00 3.69
45 46 1.304962 TGCAGCCGGTTCTCTCCTA 60.305 57.895 1.90 0.00 0.00 2.94
46 47 0.687757 TGCAGCCGGTTCTCTCCTAT 60.688 55.000 1.90 0.00 0.00 2.57
47 48 1.329256 GCAGCCGGTTCTCTCCTATA 58.671 55.000 1.90 0.00 0.00 1.31
48 49 1.271102 GCAGCCGGTTCTCTCCTATAG 59.729 57.143 1.90 0.00 0.00 1.31
49 50 2.588620 CAGCCGGTTCTCTCCTATAGT 58.411 52.381 1.90 0.00 0.00 2.12
50 51 2.294791 CAGCCGGTTCTCTCCTATAGTG 59.705 54.545 1.90 0.00 0.00 2.74
51 52 1.614413 GCCGGTTCTCTCCTATAGTGG 59.386 57.143 1.90 0.00 0.00 4.00
52 53 2.946785 CCGGTTCTCTCCTATAGTGGT 58.053 52.381 0.00 0.00 0.00 4.16
53 54 2.623889 CCGGTTCTCTCCTATAGTGGTG 59.376 54.545 0.00 0.00 0.00 4.17
54 55 2.034812 CGGTTCTCTCCTATAGTGGTGC 59.965 54.545 0.00 0.00 0.00 5.01
55 56 3.031736 GGTTCTCTCCTATAGTGGTGCA 58.968 50.000 0.00 0.00 0.00 4.57
56 57 3.181474 GGTTCTCTCCTATAGTGGTGCAC 60.181 52.174 8.80 8.80 34.10 4.57
57 58 2.298610 TCTCTCCTATAGTGGTGCACG 58.701 52.381 11.45 0.00 39.64 5.34
58 59 2.092592 TCTCTCCTATAGTGGTGCACGA 60.093 50.000 11.45 3.44 39.64 4.35
59 60 2.887783 CTCTCCTATAGTGGTGCACGAT 59.112 50.000 11.45 4.18 39.64 3.73
60 61 2.885266 TCTCCTATAGTGGTGCACGATC 59.115 50.000 11.45 3.60 39.64 3.69
61 62 1.607148 TCCTATAGTGGTGCACGATCG 59.393 52.381 14.88 14.88 39.64 3.69
62 63 1.409412 CTATAGTGGTGCACGATCGC 58.591 55.000 16.60 3.78 39.64 4.58
63 64 1.001268 CTATAGTGGTGCACGATCGCT 60.001 52.381 16.60 11.51 39.64 4.93
64 65 0.528466 ATAGTGGTGCACGATCGCTG 60.528 55.000 16.60 13.62 39.64 5.18
65 66 2.557059 TAGTGGTGCACGATCGCTGG 62.557 60.000 16.60 6.33 39.64 4.85
66 67 3.690280 TGGTGCACGATCGCTGGA 61.690 61.111 16.60 11.20 0.00 3.86
67 68 3.188786 GGTGCACGATCGCTGGAC 61.189 66.667 23.64 23.64 0.00 4.02
68 69 3.545481 GTGCACGATCGCTGGACG 61.545 66.667 16.60 0.00 45.62 4.79
69 70 4.050934 TGCACGATCGCTGGACGT 62.051 61.111 16.60 0.00 44.19 4.34
72 73 4.129737 ACGATCGCTGGACGTGGG 62.130 66.667 16.60 0.00 44.19 4.61
73 74 3.822192 CGATCGCTGGACGTGGGA 61.822 66.667 0.26 0.00 44.19 4.37
74 75 2.202756 GATCGCTGGACGTGGGAC 60.203 66.667 0.00 0.00 44.19 4.46
75 76 2.680352 ATCGCTGGACGTGGGACT 60.680 61.111 0.00 0.00 44.19 3.85
76 77 2.615262 GATCGCTGGACGTGGGACTC 62.615 65.000 0.00 0.00 44.19 3.36
77 78 4.436998 CGCTGGACGTGGGACTCC 62.437 72.222 0.00 0.00 36.87 3.85
78 79 3.311110 GCTGGACGTGGGACTCCA 61.311 66.667 0.00 0.00 41.58 3.86
88 89 2.557555 TGGGACTCCACATGATCTCT 57.442 50.000 0.00 0.00 38.32 3.10
89 90 2.392662 TGGGACTCCACATGATCTCTC 58.607 52.381 0.00 0.00 38.32 3.20
90 91 2.023598 TGGGACTCCACATGATCTCTCT 60.024 50.000 0.00 0.00 38.32 3.10
91 92 2.627699 GGGACTCCACATGATCTCTCTC 59.372 54.545 0.00 0.00 0.00 3.20
92 93 2.293122 GGACTCCACATGATCTCTCTCG 59.707 54.545 0.00 0.00 0.00 4.04
93 94 2.293122 GACTCCACATGATCTCTCTCGG 59.707 54.545 0.00 0.00 0.00 4.63
94 95 1.000385 CTCCACATGATCTCTCTCGGC 60.000 57.143 0.00 0.00 0.00 5.54
95 96 0.749049 CCACATGATCTCTCTCGGCA 59.251 55.000 0.00 0.00 0.00 5.69
96 97 1.269673 CCACATGATCTCTCTCGGCAG 60.270 57.143 0.00 0.00 0.00 4.85
97 98 0.388659 ACATGATCTCTCTCGGCAGC 59.611 55.000 0.00 0.00 0.00 5.25
98 99 0.319727 CATGATCTCTCTCGGCAGCC 60.320 60.000 0.00 0.00 0.00 4.85
99 100 1.470996 ATGATCTCTCTCGGCAGCCC 61.471 60.000 5.63 0.00 0.00 5.19
100 101 2.841988 ATCTCTCTCGGCAGCCCC 60.842 66.667 5.63 0.00 0.00 5.80
101 102 3.387609 ATCTCTCTCGGCAGCCCCT 62.388 63.158 5.63 0.00 0.00 4.79
102 103 3.535962 CTCTCTCGGCAGCCCCTC 61.536 72.222 5.63 0.00 0.00 4.30
106 107 4.821589 CTCGGCAGCCCCTCGAAC 62.822 72.222 5.63 0.00 32.35 3.95
109 110 4.021925 GGCAGCCCCTCGAACTGT 62.022 66.667 0.00 0.00 33.87 3.55
110 111 2.656069 GGCAGCCCCTCGAACTGTA 61.656 63.158 0.00 0.00 33.87 2.74
111 112 1.448013 GCAGCCCCTCGAACTGTAC 60.448 63.158 6.36 0.00 33.87 2.90
112 113 1.972198 CAGCCCCTCGAACTGTACA 59.028 57.895 0.00 0.00 0.00 2.90
113 114 0.537188 CAGCCCCTCGAACTGTACAT 59.463 55.000 0.00 0.00 0.00 2.29
114 115 1.754803 CAGCCCCTCGAACTGTACATA 59.245 52.381 0.00 0.00 0.00 2.29
115 116 2.167693 CAGCCCCTCGAACTGTACATAA 59.832 50.000 0.00 0.00 0.00 1.90
116 117 3.039011 AGCCCCTCGAACTGTACATAAT 58.961 45.455 0.00 0.00 0.00 1.28
117 118 3.069729 AGCCCCTCGAACTGTACATAATC 59.930 47.826 0.00 0.00 0.00 1.75
118 119 3.181469 GCCCCTCGAACTGTACATAATCA 60.181 47.826 0.00 0.00 0.00 2.57
119 120 4.682320 GCCCCTCGAACTGTACATAATCAA 60.682 45.833 0.00 0.00 0.00 2.57
120 121 5.424757 CCCCTCGAACTGTACATAATCAAA 58.575 41.667 0.00 0.00 0.00 2.69
121 122 5.523916 CCCCTCGAACTGTACATAATCAAAG 59.476 44.000 0.00 0.00 0.00 2.77
122 123 6.106673 CCCTCGAACTGTACATAATCAAAGT 58.893 40.000 0.00 0.00 0.00 2.66
123 124 6.036083 CCCTCGAACTGTACATAATCAAAGTG 59.964 42.308 0.00 0.00 0.00 3.16
124 125 6.590292 CCTCGAACTGTACATAATCAAAGTGT 59.410 38.462 0.00 0.00 0.00 3.55
125 126 7.346208 TCGAACTGTACATAATCAAAGTGTG 57.654 36.000 0.00 0.00 0.00 3.82
126 127 6.367695 TCGAACTGTACATAATCAAAGTGTGG 59.632 38.462 0.00 0.00 0.00 4.17
127 128 6.147164 CGAACTGTACATAATCAAAGTGTGGT 59.853 38.462 0.00 0.00 0.00 4.16
128 129 7.307751 CGAACTGTACATAATCAAAGTGTGGTT 60.308 37.037 0.00 0.00 34.03 3.67
129 130 7.202016 ACTGTACATAATCAAAGTGTGGTTG 57.798 36.000 0.00 0.00 31.22 3.77
130 131 6.995686 ACTGTACATAATCAAAGTGTGGTTGA 59.004 34.615 0.00 0.00 39.24 3.18
131 132 7.173218 ACTGTACATAATCAAAGTGTGGTTGAG 59.827 37.037 0.00 0.00 38.34 3.02
132 133 6.995686 TGTACATAATCAAAGTGTGGTTGAGT 59.004 34.615 0.00 0.00 38.34 3.41
133 134 6.959639 ACATAATCAAAGTGTGGTTGAGTT 57.040 33.333 0.00 0.00 38.34 3.01
134 135 7.346751 ACATAATCAAAGTGTGGTTGAGTTT 57.653 32.000 0.00 0.00 38.34 2.66
135 136 7.781056 ACATAATCAAAGTGTGGTTGAGTTTT 58.219 30.769 0.00 0.00 38.34 2.43
136 137 7.920682 ACATAATCAAAGTGTGGTTGAGTTTTC 59.079 33.333 0.00 0.00 38.34 2.29
137 138 4.712122 TCAAAGTGTGGTTGAGTTTTCC 57.288 40.909 0.00 0.00 31.45 3.13
138 139 3.445805 TCAAAGTGTGGTTGAGTTTTCCC 59.554 43.478 0.00 0.00 31.45 3.97
139 140 2.067365 AGTGTGGTTGAGTTTTCCCC 57.933 50.000 0.00 0.00 0.00 4.81
140 141 1.037493 GTGTGGTTGAGTTTTCCCCC 58.963 55.000 0.00 0.00 0.00 5.40
141 142 0.930726 TGTGGTTGAGTTTTCCCCCT 59.069 50.000 0.00 0.00 0.00 4.79
142 143 2.136863 TGTGGTTGAGTTTTCCCCCTA 58.863 47.619 0.00 0.00 0.00 3.53
143 144 2.514582 TGTGGTTGAGTTTTCCCCCTAA 59.485 45.455 0.00 0.00 0.00 2.69
144 145 3.141272 TGTGGTTGAGTTTTCCCCCTAAT 59.859 43.478 0.00 0.00 0.00 1.73
145 146 3.762288 GTGGTTGAGTTTTCCCCCTAATC 59.238 47.826 0.00 0.00 0.00 1.75
146 147 3.245479 TGGTTGAGTTTTCCCCCTAATCC 60.245 47.826 0.00 0.00 0.00 3.01
147 148 3.362706 GTTGAGTTTTCCCCCTAATCCC 58.637 50.000 0.00 0.00 0.00 3.85
148 149 2.942905 TGAGTTTTCCCCCTAATCCCT 58.057 47.619 0.00 0.00 0.00 4.20
149 150 2.850568 TGAGTTTTCCCCCTAATCCCTC 59.149 50.000 0.00 0.00 0.00 4.30
150 151 3.124066 GAGTTTTCCCCCTAATCCCTCT 58.876 50.000 0.00 0.00 0.00 3.69
151 152 2.853077 AGTTTTCCCCCTAATCCCTCTG 59.147 50.000 0.00 0.00 0.00 3.35
152 153 2.581246 GTTTTCCCCCTAATCCCTCTGT 59.419 50.000 0.00 0.00 0.00 3.41
153 154 2.680439 TTCCCCCTAATCCCTCTGTT 57.320 50.000 0.00 0.00 0.00 3.16
154 155 2.191981 TCCCCCTAATCCCTCTGTTC 57.808 55.000 0.00 0.00 0.00 3.18
155 156 1.368203 TCCCCCTAATCCCTCTGTTCA 59.632 52.381 0.00 0.00 0.00 3.18
156 157 2.205342 CCCCCTAATCCCTCTGTTCAA 58.795 52.381 0.00 0.00 0.00 2.69
157 158 2.092375 CCCCCTAATCCCTCTGTTCAAC 60.092 54.545 0.00 0.00 0.00 3.18
158 159 2.576191 CCCCTAATCCCTCTGTTCAACA 59.424 50.000 0.00 0.00 0.00 3.33
159 160 3.203040 CCCCTAATCCCTCTGTTCAACAT 59.797 47.826 0.00 0.00 0.00 2.71
160 161 4.202441 CCCTAATCCCTCTGTTCAACATG 58.798 47.826 0.00 0.00 0.00 3.21
161 162 4.202441 CCTAATCCCTCTGTTCAACATGG 58.798 47.826 0.00 0.00 0.00 3.66
162 163 3.814504 AATCCCTCTGTTCAACATGGT 57.185 42.857 0.00 0.00 0.00 3.55
163 164 4.927267 AATCCCTCTGTTCAACATGGTA 57.073 40.909 0.00 0.00 0.00 3.25
164 165 5.456921 AATCCCTCTGTTCAACATGGTAT 57.543 39.130 0.00 0.00 0.00 2.73
165 166 4.927267 TCCCTCTGTTCAACATGGTATT 57.073 40.909 0.00 0.00 0.00 1.89
166 167 5.255397 TCCCTCTGTTCAACATGGTATTT 57.745 39.130 0.00 0.00 0.00 1.40
167 168 5.009631 TCCCTCTGTTCAACATGGTATTTG 58.990 41.667 0.00 0.00 0.00 2.32
168 169 5.009631 CCCTCTGTTCAACATGGTATTTGA 58.990 41.667 0.00 0.00 0.00 2.69
169 170 5.653769 CCCTCTGTTCAACATGGTATTTGAT 59.346 40.000 0.00 0.00 31.87 2.57
170 171 6.828273 CCCTCTGTTCAACATGGTATTTGATA 59.172 38.462 0.00 0.00 31.87 2.15
171 172 7.201732 CCCTCTGTTCAACATGGTATTTGATAC 60.202 40.741 0.00 1.03 31.87 2.24
184 185 4.900635 ATTTGATACCCTCGATTTGCAC 57.099 40.909 0.00 0.00 0.00 4.57
185 186 3.342377 TTGATACCCTCGATTTGCACA 57.658 42.857 0.00 0.00 0.00 4.57
186 187 3.342377 TGATACCCTCGATTTGCACAA 57.658 42.857 0.00 0.00 0.00 3.33
187 188 3.680490 TGATACCCTCGATTTGCACAAA 58.320 40.909 0.00 0.00 34.46 2.83
188 189 3.438781 TGATACCCTCGATTTGCACAAAC 59.561 43.478 0.00 0.00 32.51 2.93
189 190 0.958822 ACCCTCGATTTGCACAAACC 59.041 50.000 0.00 0.00 32.51 3.27
190 191 1.247567 CCCTCGATTTGCACAAACCT 58.752 50.000 0.00 0.00 32.51 3.50
191 192 1.613437 CCCTCGATTTGCACAAACCTT 59.387 47.619 0.00 0.00 32.51 3.50
192 193 2.035832 CCCTCGATTTGCACAAACCTTT 59.964 45.455 0.00 0.00 32.51 3.11
193 194 3.492482 CCCTCGATTTGCACAAACCTTTT 60.492 43.478 0.00 0.00 32.51 2.27
194 195 3.490526 CCTCGATTTGCACAAACCTTTTG 59.509 43.478 0.00 0.00 32.51 2.44
195 196 4.111916 CTCGATTTGCACAAACCTTTTGT 58.888 39.130 0.00 0.00 32.51 2.83
202 203 2.539476 CACAAACCTTTTGTGCAGGTC 58.461 47.619 16.52 0.00 44.48 3.85
203 204 1.480545 ACAAACCTTTTGTGCAGGTCC 59.519 47.619 3.51 0.00 44.48 4.46
204 205 1.480137 CAAACCTTTTGTGCAGGTCCA 59.520 47.619 0.00 0.00 44.48 4.02
205 206 1.111277 AACCTTTTGTGCAGGTCCAC 58.889 50.000 0.00 0.00 44.48 4.02
206 207 1.101049 ACCTTTTGTGCAGGTCCACG 61.101 55.000 0.00 0.00 41.08 4.94
207 208 0.817634 CCTTTTGTGCAGGTCCACGA 60.818 55.000 0.00 0.00 38.55 4.35
208 209 1.238439 CTTTTGTGCAGGTCCACGAT 58.762 50.000 0.00 0.00 38.55 3.73
209 210 1.197721 CTTTTGTGCAGGTCCACGATC 59.802 52.381 0.00 0.00 38.55 3.69
210 211 0.605319 TTTGTGCAGGTCCACGATCC 60.605 55.000 0.00 0.00 38.55 3.36
211 212 2.125106 GTGCAGGTCCACGATCCC 60.125 66.667 0.00 0.00 0.00 3.85
212 213 3.770040 TGCAGGTCCACGATCCCG 61.770 66.667 0.00 0.00 42.50 5.14
214 215 3.461773 CAGGTCCACGATCCCGCT 61.462 66.667 0.00 0.00 39.95 5.52
215 216 2.683933 AGGTCCACGATCCCGCTT 60.684 61.111 0.00 0.00 39.95 4.68
216 217 2.202892 GGTCCACGATCCCGCTTC 60.203 66.667 0.00 0.00 39.95 3.86
217 218 2.202892 GTCCACGATCCCGCTTCC 60.203 66.667 0.00 0.00 39.95 3.46
218 219 3.833645 TCCACGATCCCGCTTCCG 61.834 66.667 0.00 0.00 39.95 4.30
222 223 4.951963 CGATCCCGCTTCCGCCTC 62.952 72.222 0.00 0.00 0.00 4.70
223 224 4.610714 GATCCCGCTTCCGCCTCC 62.611 72.222 0.00 0.00 0.00 4.30
228 229 4.161295 CGCTTCCGCCTCCATGGA 62.161 66.667 15.27 15.27 38.35 3.41
229 230 2.203126 GCTTCCGCCTCCATGGAG 60.203 66.667 31.69 31.69 41.63 3.86
230 231 2.203126 CTTCCGCCTCCATGGAGC 60.203 66.667 32.97 25.78 40.69 4.70
231 232 2.688666 TTCCGCCTCCATGGAGCT 60.689 61.111 32.97 0.00 40.69 4.09
232 233 2.937379 CTTCCGCCTCCATGGAGCTG 62.937 65.000 32.97 25.48 40.69 4.24
233 234 4.559063 CCGCCTCCATGGAGCTGG 62.559 72.222 32.97 29.49 40.69 4.85
234 235 3.473647 CGCCTCCATGGAGCTGGA 61.474 66.667 32.97 2.93 43.09 3.86
238 239 3.317109 TCCATGGAGCTGGAGCAG 58.683 61.111 11.44 0.00 45.16 4.24
239 240 2.192443 CCATGGAGCTGGAGCAGG 59.808 66.667 5.56 0.00 45.16 4.85
240 241 2.677289 CCATGGAGCTGGAGCAGGT 61.677 63.158 5.56 0.00 45.28 4.00
244 245 4.828925 GAGCTGGAGCAGGTCGCC 62.829 72.222 0.00 0.00 46.42 5.54
247 248 4.803426 CTGGAGCAGGTCGCCGAC 62.803 72.222 9.15 9.15 44.04 4.79
262 263 4.083862 GACGGCACCCCTCTCCAC 62.084 72.222 0.00 0.00 0.00 4.02
269 270 4.452733 CCCCTCTCCACGCCGTTC 62.453 72.222 0.00 0.00 0.00 3.95
270 271 4.452733 CCCTCTCCACGCCGTTCC 62.453 72.222 0.00 0.00 0.00 3.62
271 272 4.452733 CCTCTCCACGCCGTTCCC 62.453 72.222 0.00 0.00 0.00 3.97
272 273 4.796231 CTCTCCACGCCGTTCCCG 62.796 72.222 0.00 0.00 0.00 5.14
283 284 3.393106 GTTCCCGCCGTTCCCCTA 61.393 66.667 0.00 0.00 0.00 3.53
284 285 3.078836 TTCCCGCCGTTCCCCTAG 61.079 66.667 0.00 0.00 0.00 3.02
288 289 4.090588 CGCCGTTCCCCTAGCCAA 62.091 66.667 0.00 0.00 0.00 4.52
289 290 2.595655 GCCGTTCCCCTAGCCAAT 59.404 61.111 0.00 0.00 0.00 3.16
290 291 1.823899 GCCGTTCCCCTAGCCAATG 60.824 63.158 0.00 0.00 0.00 2.82
291 292 1.823899 CCGTTCCCCTAGCCAATGC 60.824 63.158 0.00 0.00 37.95 3.56
292 293 1.823899 CGTTCCCCTAGCCAATGCC 60.824 63.158 0.00 0.00 38.69 4.40
694 696 1.525535 GCAGATGGCGCTGATTCCT 60.526 57.895 7.64 0.00 38.14 3.36
1338 1370 5.097742 ACTATCATTGGATTGACACGGAA 57.902 39.130 0.00 0.00 34.89 4.30
1344 1376 1.243902 GGATTGACACGGAAAAGCCA 58.756 50.000 0.00 0.00 35.94 4.75
1385 1417 1.213094 CGTGAAAGAAGTCGCCGTGT 61.213 55.000 0.00 0.00 0.00 4.49
1452 1484 2.369860 TGAGGAGAAAGCAGAGCAAGAA 59.630 45.455 0.00 0.00 0.00 2.52
1607 1649 1.797025 AAGAAAGAAAGGGCTCGTCG 58.203 50.000 0.00 0.00 0.00 5.12
2105 2196 2.810400 GCAGTACTCTTGCCCTTTGACA 60.810 50.000 0.00 0.00 0.00 3.58
2338 2429 3.097614 AGACCTACGTAATTGGTGAGCT 58.902 45.455 9.53 0.00 36.45 4.09
2381 2472 1.153628 CCGGTGAGTTCGTCCCATC 60.154 63.158 0.00 0.00 0.00 3.51
2408 2499 7.451731 ACTATCCTATTGTCCATCCTGAAAA 57.548 36.000 0.00 0.00 0.00 2.29
2513 2604 2.236146 ACACTCGAATGCTTATCCACCA 59.764 45.455 0.00 0.00 0.00 4.17
2585 2676 0.676782 AGTGCAGTATGGCGGGAAAC 60.677 55.000 0.00 0.00 35.86 2.78
2588 2679 1.429148 GCAGTATGGCGGGAAACGAG 61.429 60.000 0.00 0.00 40.72 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.894756 GGCACAACAACTGGCCGTA 60.895 57.895 0.00 0.00 33.44 4.02
3 4 3.216292 GGCACAACAACTGGCCGT 61.216 61.111 0.00 0.00 33.44 5.68
6 7 2.200170 GATCGGGCACAACAACTGGC 62.200 60.000 0.00 0.00 0.00 4.85
7 8 1.875963 GATCGGGCACAACAACTGG 59.124 57.895 0.00 0.00 0.00 4.00
9 10 1.070786 ACGATCGGGCACAACAACT 59.929 52.632 20.98 0.00 0.00 3.16
11 12 2.612567 GCACGATCGGGCACAACAA 61.613 57.895 36.10 0.00 45.30 2.83
12 13 3.047280 GCACGATCGGGCACAACA 61.047 61.111 36.10 0.00 45.30 3.33
21 22 3.554692 GAACCGGCTGCACGATCG 61.555 66.667 14.88 14.88 35.47 3.69
22 23 2.125512 AGAACCGGCTGCACGATC 60.126 61.111 0.00 9.13 35.47 3.69
23 24 2.125512 GAGAACCGGCTGCACGAT 60.126 61.111 0.00 1.50 35.47 3.73
24 25 3.282745 GAGAGAACCGGCTGCACGA 62.283 63.158 0.00 0.00 35.47 4.35
25 26 2.811317 GAGAGAACCGGCTGCACG 60.811 66.667 0.00 2.58 0.00 5.34
26 27 1.605058 TAGGAGAGAACCGGCTGCAC 61.605 60.000 0.00 0.00 34.73 4.57
27 28 0.687757 ATAGGAGAGAACCGGCTGCA 60.688 55.000 0.00 0.00 34.73 4.41
28 29 1.271102 CTATAGGAGAGAACCGGCTGC 59.729 57.143 0.00 0.00 34.73 5.25
29 30 2.294791 CACTATAGGAGAGAACCGGCTG 59.705 54.545 0.00 0.00 34.73 4.85
30 31 2.588620 CACTATAGGAGAGAACCGGCT 58.411 52.381 0.00 0.00 34.73 5.52
31 32 1.614413 CCACTATAGGAGAGAACCGGC 59.386 57.143 0.00 0.00 34.73 6.13
32 33 2.623889 CACCACTATAGGAGAGAACCGG 59.376 54.545 0.00 0.00 34.73 5.28
33 34 2.034812 GCACCACTATAGGAGAGAACCG 59.965 54.545 4.43 0.00 34.73 4.44
34 35 3.031736 TGCACCACTATAGGAGAGAACC 58.968 50.000 4.43 0.00 0.00 3.62
35 36 3.489398 CGTGCACCACTATAGGAGAGAAC 60.489 52.174 12.15 0.00 31.34 3.01
36 37 2.688446 CGTGCACCACTATAGGAGAGAA 59.312 50.000 12.15 0.00 31.34 2.87
37 38 2.092592 TCGTGCACCACTATAGGAGAGA 60.093 50.000 12.15 0.00 31.34 3.10
38 39 2.298610 TCGTGCACCACTATAGGAGAG 58.701 52.381 12.15 0.00 31.34 3.20
39 40 2.430248 TCGTGCACCACTATAGGAGA 57.570 50.000 12.15 0.00 31.34 3.71
40 41 2.350868 CGATCGTGCACCACTATAGGAG 60.351 54.545 12.15 0.00 31.34 3.69
41 42 1.607148 CGATCGTGCACCACTATAGGA 59.393 52.381 12.15 0.00 31.34 2.94
42 43 1.930817 GCGATCGTGCACCACTATAGG 60.931 57.143 17.81 0.00 34.15 2.57
43 44 1.001268 AGCGATCGTGCACCACTATAG 60.001 52.381 17.81 0.00 37.31 1.31
44 45 1.029681 AGCGATCGTGCACCACTATA 58.970 50.000 17.81 0.00 37.31 1.31
45 46 0.528466 CAGCGATCGTGCACCACTAT 60.528 55.000 17.81 0.00 37.31 2.12
46 47 1.153842 CAGCGATCGTGCACCACTA 60.154 57.895 17.81 0.00 37.31 2.74
47 48 2.433145 CAGCGATCGTGCACCACT 60.433 61.111 17.81 0.00 37.31 4.00
48 49 3.490759 CCAGCGATCGTGCACCAC 61.491 66.667 17.81 1.82 37.31 4.16
49 50 3.690280 TCCAGCGATCGTGCACCA 61.690 61.111 17.81 0.00 37.31 4.17
50 51 3.188786 GTCCAGCGATCGTGCACC 61.189 66.667 17.81 0.00 37.31 5.01
51 52 3.545481 CGTCCAGCGATCGTGCAC 61.545 66.667 17.81 6.82 44.77 4.57
52 53 4.050934 ACGTCCAGCGATCGTGCA 62.051 61.111 17.81 0.00 44.77 4.57
53 54 3.545481 CACGTCCAGCGATCGTGC 61.545 66.667 17.81 0.00 45.66 5.34
55 56 4.129737 CCCACGTCCAGCGATCGT 62.130 66.667 17.81 0.26 44.77 3.73
56 57 3.822192 TCCCACGTCCAGCGATCG 61.822 66.667 11.69 11.69 44.77 3.69
57 58 2.202756 GTCCCACGTCCAGCGATC 60.203 66.667 0.00 0.00 44.77 3.69
58 59 2.680352 AGTCCCACGTCCAGCGAT 60.680 61.111 0.00 0.00 44.77 4.58
59 60 3.371063 GAGTCCCACGTCCAGCGA 61.371 66.667 0.00 0.00 44.77 4.93
61 62 3.311110 TGGAGTCCCACGTCCAGC 61.311 66.667 6.74 0.00 37.96 4.85
69 70 2.023598 AGAGAGATCATGTGGAGTCCCA 60.024 50.000 6.74 4.69 40.95 4.37
70 71 2.627699 GAGAGAGATCATGTGGAGTCCC 59.372 54.545 6.74 0.00 0.00 4.46
71 72 2.293122 CGAGAGAGATCATGTGGAGTCC 59.707 54.545 0.73 0.73 0.00 3.85
72 73 2.293122 CCGAGAGAGATCATGTGGAGTC 59.707 54.545 0.00 0.00 0.00 3.36
73 74 2.305928 CCGAGAGAGATCATGTGGAGT 58.694 52.381 0.00 0.00 0.00 3.85
74 75 1.000385 GCCGAGAGAGATCATGTGGAG 60.000 57.143 0.00 0.00 0.00 3.86
75 76 1.035923 GCCGAGAGAGATCATGTGGA 58.964 55.000 0.00 0.00 0.00 4.02
76 77 0.749049 TGCCGAGAGAGATCATGTGG 59.251 55.000 0.00 0.00 0.00 4.17
77 78 1.868930 GCTGCCGAGAGAGATCATGTG 60.869 57.143 0.00 0.00 0.00 3.21
78 79 0.388659 GCTGCCGAGAGAGATCATGT 59.611 55.000 0.00 0.00 0.00 3.21
79 80 0.319727 GGCTGCCGAGAGAGATCATG 60.320 60.000 1.35 0.00 0.00 3.07
80 81 1.470996 GGGCTGCCGAGAGAGATCAT 61.471 60.000 13.40 0.00 0.00 2.45
81 82 2.130426 GGGCTGCCGAGAGAGATCA 61.130 63.158 13.40 0.00 0.00 2.92
82 83 2.733945 GGGCTGCCGAGAGAGATC 59.266 66.667 13.40 0.00 0.00 2.75
83 84 2.841988 GGGGCTGCCGAGAGAGAT 60.842 66.667 13.40 0.00 0.00 2.75
84 85 4.067512 AGGGGCTGCCGAGAGAGA 62.068 66.667 13.40 0.00 0.00 3.10
85 86 3.535962 GAGGGGCTGCCGAGAGAG 61.536 72.222 13.40 0.00 0.00 3.20
89 90 4.821589 GTTCGAGGGGCTGCCGAG 62.822 72.222 13.40 3.83 33.66 4.63
92 93 2.656069 TACAGTTCGAGGGGCTGCC 61.656 63.158 11.05 11.05 33.87 4.85
93 94 1.448013 GTACAGTTCGAGGGGCTGC 60.448 63.158 0.00 0.00 33.87 5.25
94 95 0.537188 ATGTACAGTTCGAGGGGCTG 59.463 55.000 0.33 6.77 36.41 4.85
95 96 2.154567 TATGTACAGTTCGAGGGGCT 57.845 50.000 0.33 0.00 0.00 5.19
96 97 2.973694 TTATGTACAGTTCGAGGGGC 57.026 50.000 0.33 0.00 0.00 5.80
97 98 4.665833 TGATTATGTACAGTTCGAGGGG 57.334 45.455 0.33 0.00 0.00 4.79
98 99 6.036083 CACTTTGATTATGTACAGTTCGAGGG 59.964 42.308 0.33 0.00 0.00 4.30
99 100 6.590292 ACACTTTGATTATGTACAGTTCGAGG 59.410 38.462 0.33 1.57 0.00 4.63
100 101 7.411912 CCACACTTTGATTATGTACAGTTCGAG 60.412 40.741 0.33 3.60 0.00 4.04
101 102 6.367695 CCACACTTTGATTATGTACAGTTCGA 59.632 38.462 0.33 0.00 0.00 3.71
102 103 6.147164 ACCACACTTTGATTATGTACAGTTCG 59.853 38.462 0.33 0.00 0.00 3.95
103 104 7.435068 ACCACACTTTGATTATGTACAGTTC 57.565 36.000 0.33 0.00 0.00 3.01
104 105 7.500892 TCAACCACACTTTGATTATGTACAGTT 59.499 33.333 0.33 0.00 0.00 3.16
105 106 6.995686 TCAACCACACTTTGATTATGTACAGT 59.004 34.615 0.33 0.00 0.00 3.55
106 107 7.173218 ACTCAACCACACTTTGATTATGTACAG 59.827 37.037 0.33 0.00 32.57 2.74
107 108 6.995686 ACTCAACCACACTTTGATTATGTACA 59.004 34.615 0.00 0.00 32.57 2.90
108 109 7.435068 ACTCAACCACACTTTGATTATGTAC 57.565 36.000 0.00 0.00 32.57 2.90
109 110 8.458573 AAACTCAACCACACTTTGATTATGTA 57.541 30.769 0.00 0.00 32.57 2.29
110 111 6.959639 AACTCAACCACACTTTGATTATGT 57.040 33.333 0.00 0.00 32.57 2.29
111 112 7.382218 GGAAAACTCAACCACACTTTGATTATG 59.618 37.037 0.00 0.00 32.57 1.90
112 113 7.433680 GGAAAACTCAACCACACTTTGATTAT 58.566 34.615 0.00 0.00 32.57 1.28
113 114 6.183360 GGGAAAACTCAACCACACTTTGATTA 60.183 38.462 0.00 0.00 32.57 1.75
114 115 5.395214 GGGAAAACTCAACCACACTTTGATT 60.395 40.000 0.00 0.00 32.57 2.57
115 116 4.099419 GGGAAAACTCAACCACACTTTGAT 59.901 41.667 0.00 0.00 32.57 2.57
116 117 3.445805 GGGAAAACTCAACCACACTTTGA 59.554 43.478 0.00 0.00 0.00 2.69
117 118 3.430236 GGGGAAAACTCAACCACACTTTG 60.430 47.826 0.00 0.00 0.00 2.77
118 119 2.764010 GGGGAAAACTCAACCACACTTT 59.236 45.455 0.00 0.00 0.00 2.66
119 120 2.384828 GGGGAAAACTCAACCACACTT 58.615 47.619 0.00 0.00 0.00 3.16
120 121 1.411074 GGGGGAAAACTCAACCACACT 60.411 52.381 0.00 0.00 0.00 3.55
121 122 1.037493 GGGGGAAAACTCAACCACAC 58.963 55.000 0.00 0.00 0.00 3.82
122 123 0.930726 AGGGGGAAAACTCAACCACA 59.069 50.000 0.00 0.00 0.00 4.17
123 124 2.963599 TAGGGGGAAAACTCAACCAC 57.036 50.000 0.00 0.00 0.00 4.16
124 125 3.245479 GGATTAGGGGGAAAACTCAACCA 60.245 47.826 0.00 0.00 0.00 3.67
125 126 3.362706 GGATTAGGGGGAAAACTCAACC 58.637 50.000 0.00 0.00 0.00 3.77
126 127 3.011369 AGGGATTAGGGGGAAAACTCAAC 59.989 47.826 0.00 0.00 0.00 3.18
127 128 3.268595 GAGGGATTAGGGGGAAAACTCAA 59.731 47.826 0.00 0.00 0.00 3.02
128 129 2.850568 GAGGGATTAGGGGGAAAACTCA 59.149 50.000 0.00 0.00 0.00 3.41
129 130 3.117851 CAGAGGGATTAGGGGGAAAACTC 60.118 52.174 0.00 0.00 0.00 3.01
130 131 2.853077 CAGAGGGATTAGGGGGAAAACT 59.147 50.000 0.00 0.00 0.00 2.66
131 132 2.581246 ACAGAGGGATTAGGGGGAAAAC 59.419 50.000 0.00 0.00 0.00 2.43
132 133 2.942905 ACAGAGGGATTAGGGGGAAAA 58.057 47.619 0.00 0.00 0.00 2.29
133 134 2.680439 ACAGAGGGATTAGGGGGAAA 57.320 50.000 0.00 0.00 0.00 3.13
134 135 2.226039 TGAACAGAGGGATTAGGGGGAA 60.226 50.000 0.00 0.00 0.00 3.97
135 136 1.368203 TGAACAGAGGGATTAGGGGGA 59.632 52.381 0.00 0.00 0.00 4.81
136 137 1.893315 TGAACAGAGGGATTAGGGGG 58.107 55.000 0.00 0.00 0.00 5.40
137 138 2.576191 TGTTGAACAGAGGGATTAGGGG 59.424 50.000 0.00 0.00 0.00 4.79
138 139 4.202441 CATGTTGAACAGAGGGATTAGGG 58.798 47.826 3.74 0.00 0.00 3.53
139 140 4.202441 CCATGTTGAACAGAGGGATTAGG 58.798 47.826 3.74 0.00 0.00 2.69
140 141 4.848357 ACCATGTTGAACAGAGGGATTAG 58.152 43.478 19.48 0.00 33.17 1.73
141 142 4.927267 ACCATGTTGAACAGAGGGATTA 57.073 40.909 19.48 0.00 33.17 1.75
142 143 3.814504 ACCATGTTGAACAGAGGGATT 57.185 42.857 19.48 1.33 33.17 3.01
143 144 5.456921 AATACCATGTTGAACAGAGGGAT 57.543 39.130 19.48 15.25 33.66 3.85
144 145 4.927267 AATACCATGTTGAACAGAGGGA 57.073 40.909 19.48 13.85 33.17 4.20
145 146 5.009631 TCAAATACCATGTTGAACAGAGGG 58.990 41.667 19.48 15.21 33.17 4.30
146 147 6.764308 ATCAAATACCATGTTGAACAGAGG 57.236 37.500 15.42 15.42 37.31 3.69
161 162 5.295787 TGTGCAAATCGAGGGTATCAAATAC 59.704 40.000 0.00 0.00 35.00 1.89
162 163 5.432645 TGTGCAAATCGAGGGTATCAAATA 58.567 37.500 0.00 0.00 0.00 1.40
163 164 4.269183 TGTGCAAATCGAGGGTATCAAAT 58.731 39.130 0.00 0.00 0.00 2.32
164 165 3.680490 TGTGCAAATCGAGGGTATCAAA 58.320 40.909 0.00 0.00 0.00 2.69
165 166 3.342377 TGTGCAAATCGAGGGTATCAA 57.658 42.857 0.00 0.00 0.00 2.57
166 167 3.342377 TTGTGCAAATCGAGGGTATCA 57.658 42.857 0.00 0.00 0.00 2.15
167 168 3.181500 GGTTTGTGCAAATCGAGGGTATC 60.181 47.826 0.46 0.00 32.36 2.24
168 169 2.752903 GGTTTGTGCAAATCGAGGGTAT 59.247 45.455 0.46 0.00 32.36 2.73
169 170 2.156098 GGTTTGTGCAAATCGAGGGTA 58.844 47.619 0.46 0.00 32.36 3.69
170 171 0.958822 GGTTTGTGCAAATCGAGGGT 59.041 50.000 0.46 0.00 32.36 4.34
171 172 1.247567 AGGTTTGTGCAAATCGAGGG 58.752 50.000 0.46 0.00 36.56 4.30
172 173 3.369546 AAAGGTTTGTGCAAATCGAGG 57.630 42.857 0.46 0.00 36.56 4.63
173 174 4.026640 CACAAAAGGTTTGTGCAAATCGAG 60.027 41.667 17.99 0.00 42.52 4.04
174 175 3.862267 CACAAAAGGTTTGTGCAAATCGA 59.138 39.130 17.99 0.00 42.52 3.59
175 176 4.180844 CACAAAAGGTTTGTGCAAATCG 57.819 40.909 17.99 0.00 42.52 3.34
182 183 2.671130 ACCTGCACAAAAGGTTTGTG 57.329 45.000 23.25 23.25 46.14 3.33
188 189 0.817634 TCGTGGACCTGCACAAAAGG 60.818 55.000 0.00 0.00 40.93 3.11
189 190 1.197721 GATCGTGGACCTGCACAAAAG 59.802 52.381 0.00 0.00 0.00 2.27
190 191 1.234821 GATCGTGGACCTGCACAAAA 58.765 50.000 0.00 0.00 0.00 2.44
191 192 0.605319 GGATCGTGGACCTGCACAAA 60.605 55.000 0.00 0.00 0.00 2.83
192 193 1.003839 GGATCGTGGACCTGCACAA 60.004 57.895 0.00 0.00 0.00 3.33
193 194 2.662596 GGATCGTGGACCTGCACA 59.337 61.111 0.00 0.00 0.00 4.57
194 195 2.125106 GGGATCGTGGACCTGCAC 60.125 66.667 0.00 0.00 0.00 4.57
195 196 3.770040 CGGGATCGTGGACCTGCA 61.770 66.667 0.00 0.00 0.00 4.41
197 198 2.907897 GAAGCGGGATCGTGGACCTG 62.908 65.000 0.00 0.00 38.89 4.00
198 199 2.683933 AAGCGGGATCGTGGACCT 60.684 61.111 0.00 0.00 38.89 3.85
199 200 2.202892 GAAGCGGGATCGTGGACC 60.203 66.667 0.00 0.00 38.89 4.46
200 201 2.202892 GGAAGCGGGATCGTGGAC 60.203 66.667 0.00 0.00 38.89 4.02
201 202 3.833645 CGGAAGCGGGATCGTGGA 61.834 66.667 0.00 0.00 38.89 4.02
213 214 2.203126 GCTCCATGGAGGCGGAAG 60.203 66.667 36.92 16.12 42.19 3.46
214 215 2.688666 AGCTCCATGGAGGCGGAA 60.689 61.111 36.92 5.36 42.19 4.30
215 216 3.473647 CAGCTCCATGGAGGCGGA 61.474 66.667 36.92 6.13 42.19 5.54
216 217 4.559063 CCAGCTCCATGGAGGCGG 62.559 72.222 36.92 27.96 43.57 6.13
217 218 3.473647 TCCAGCTCCATGGAGGCG 61.474 66.667 36.92 23.74 44.56 5.52
222 223 2.192443 CCTGCTCCAGCTCCATGG 59.808 66.667 4.97 4.97 42.66 3.66
223 224 1.153208 GACCTGCTCCAGCTCCATG 60.153 63.158 0.00 0.00 42.66 3.66
224 225 2.729479 CGACCTGCTCCAGCTCCAT 61.729 63.158 0.00 0.00 42.66 3.41
225 226 3.385384 CGACCTGCTCCAGCTCCA 61.385 66.667 0.00 0.00 42.66 3.86
226 227 4.828925 GCGACCTGCTCCAGCTCC 62.829 72.222 0.00 0.00 42.66 4.70
227 228 4.828925 GGCGACCTGCTCCAGCTC 62.829 72.222 0.00 0.00 45.43 4.09
230 231 4.803426 GTCGGCGACCTGCTCCAG 62.803 72.222 28.72 0.00 45.43 3.86
245 246 4.083862 GTGGAGAGGGGTGCCGTC 62.084 72.222 0.00 0.00 38.54 4.79
252 253 4.452733 GAACGGCGTGGAGAGGGG 62.453 72.222 15.70 0.00 0.00 4.79
253 254 4.452733 GGAACGGCGTGGAGAGGG 62.453 72.222 15.70 0.00 0.00 4.30
254 255 4.452733 GGGAACGGCGTGGAGAGG 62.453 72.222 15.70 0.00 0.00 3.69
266 267 3.381333 CTAGGGGAACGGCGGGAAC 62.381 68.421 13.24 0.00 0.00 3.62
267 268 3.078836 CTAGGGGAACGGCGGGAA 61.079 66.667 13.24 0.00 0.00 3.97
271 272 3.400599 ATTGGCTAGGGGAACGGCG 62.401 63.158 4.80 4.80 0.00 6.46
272 273 1.823899 CATTGGCTAGGGGAACGGC 60.824 63.158 0.00 0.00 0.00 5.68
273 274 1.823899 GCATTGGCTAGGGGAACGG 60.824 63.158 0.00 0.00 36.96 4.44
274 275 1.823899 GGCATTGGCTAGGGGAACG 60.824 63.158 2.42 0.00 40.87 3.95
275 276 1.455773 GGGCATTGGCTAGGGGAAC 60.456 63.158 10.31 0.00 40.87 3.62
276 277 3.015383 GGGCATTGGCTAGGGGAA 58.985 61.111 10.31 0.00 40.87 3.97
277 278 3.488569 CGGGCATTGGCTAGGGGA 61.489 66.667 10.31 0.00 40.87 4.81
278 279 2.357593 AATCGGGCATTGGCTAGGGG 62.358 60.000 10.31 0.00 40.87 4.79
279 280 0.468029 AAATCGGGCATTGGCTAGGG 60.468 55.000 10.31 0.00 40.87 3.53
280 281 1.402787 AAAATCGGGCATTGGCTAGG 58.597 50.000 10.31 0.62 40.87 3.02
694 696 2.179547 CAGGTCGCTGTTGCACACA 61.180 57.895 0.00 0.00 39.64 3.72
1289 1321 0.106918 CAGAGGCGGAGGAGACTACT 60.107 60.000 0.00 0.00 44.43 2.57
1344 1376 1.123861 TCTCAGTCACTGCCCAAGCT 61.124 55.000 0.00 0.00 40.80 3.74
1385 1417 5.941058 TCTTCCGCAAATAAACTATTCCACA 59.059 36.000 0.00 0.00 0.00 4.17
1452 1484 8.475639 TCCGCATAGTATTCTTTTAACTCTCTT 58.524 33.333 0.00 0.00 0.00 2.85
1607 1649 2.087646 CTTCTTCTGTTGCCTTAGCCC 58.912 52.381 0.00 0.00 38.69 5.19
2105 2196 1.202976 ACAGGGCAAGAGTTCTGCATT 60.203 47.619 0.00 0.00 0.00 3.56
2338 2429 7.985184 GGTAGTGACACCATAATGAATGAGTTA 59.015 37.037 0.84 0.00 37.86 2.24
2381 2472 5.243954 TCAGGATGGACAATAGGATAGTTCG 59.756 44.000 0.00 0.00 36.16 3.95
2408 2499 3.031736 TCTTTTGAGGCTAGCTACCGAT 58.968 45.455 15.72 0.00 0.00 4.18
2513 2604 1.437397 TAAAACCCCCTTCAGACGGT 58.563 50.000 0.00 0.00 0.00 4.83
2585 2676 0.319900 CCATATCTTCCCGCCACTCG 60.320 60.000 0.00 0.00 38.08 4.18
2588 2679 0.535102 CCACCATATCTTCCCGCCAC 60.535 60.000 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.