Multiple sequence alignment - TraesCS6B01G017200

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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 TraesCS6B01G017200 chr6B 100.000 2486 0 0 1 2486 11112295 11109810 0.000000e+00 4591.0
1 TraesCS6B01G017200 chr6B 96.093 1331 27 4 272 1579 9477777 9479105 0.000000e+00 2146.0
2 TraesCS6B01G017200 chr6B 96.145 882 18 7 1621 2486 9479110 9479991 0.000000e+00 1426.0
3 TraesCS6B01G017200 chr6B 98.387 62 1 0 272 333 11118551 11118490 2.610000e-20 110.0
4 TraesCS6B01G017200 chr6B 98.387 62 1 0 272 333 11141085 11141024 2.610000e-20 110.0
5 TraesCS6B01G017200 chr7D 87.226 548 68 2 960 1506 629599173 629598627 7.550000e-175 623.0
6 TraesCS6B01G017200 chr7D 88.542 384 34 7 1897 2270 262115226 262115609 8.100000e-125 457.0
7 TraesCS6B01G017200 chr7D 83.219 292 27 8 1 273 52051967 52052255 5.310000e-62 248.0
8 TraesCS6B01G017200 chr7D 85.106 94 11 1 868 958 629599290 629599197 2.630000e-15 93.5
9 TraesCS6B01G017200 chr7A 80.309 777 107 17 618 1361 725613964 725613201 1.680000e-151 545.0
10 TraesCS6B01G017200 chr7A 87.760 384 36 8 1897 2270 76262945 76263327 2.940000e-119 438.0
11 TraesCS6B01G017200 chr7A 88.028 142 15 2 1354 1493 725612518 725612377 1.530000e-37 167.0
12 TraesCS6B01G017200 chr3B 81.324 680 90 12 802 1456 505287806 505287139 3.670000e-143 518.0
13 TraesCS6B01G017200 chr3B 100.000 271 0 0 1 271 818400907 818400637 3.690000e-138 501.0
14 TraesCS6B01G017200 chr3A 81.232 682 87 16 802 1456 509548869 509548202 1.710000e-141 512.0
15 TraesCS6B01G017200 chr3D 80.882 680 93 12 802 1456 388450605 388449938 3.690000e-138 501.0
16 TraesCS6B01G017200 chr3D 89.803 304 28 3 1970 2270 573440664 573440361 1.080000e-103 387.0
17 TraesCS6B01G017200 chr2B 100.000 271 0 0 1 271 784298541 784298271 3.690000e-138 501.0
18 TraesCS6B01G017200 chr2B 99.631 271 1 0 1 271 784301857 784302127 1.720000e-136 496.0
19 TraesCS6B01G017200 chr6A 98.897 272 3 0 1 272 614190874 614191145 1.030000e-133 486.0
20 TraesCS6B01G017200 chr6D 88.542 384 34 7 1897 2270 278678136 278678519 8.100000e-125 457.0
21 TraesCS6B01G017200 chr6D 84.589 292 23 8 1 273 3429255 3428967 1.130000e-68 270.0
22 TraesCS6B01G017200 chr5D 88.451 381 34 7 1900 2270 542432343 542431963 3.770000e-123 451.0
23 TraesCS6B01G017200 chr1D 88.451 381 34 7 1900 2270 4773246 4772866 3.770000e-123 451.0
24 TraesCS6B01G017200 chr4A 87.240 384 39 7 1897 2270 686512206 686512589 1.770000e-116 429.0
25 TraesCS6B01G017200 chrUn 87.139 381 39 7 1900 2270 79674446 79674066 8.220000e-115 424.0
26 TraesCS6B01G017200 chr5B 86.877 381 40 4 1900 2270 605150239 605149859 3.820000e-113 418.0
27 TraesCS6B01G017200 chr1B 83.333 252 34 6 1896 2139 485697036 485696785 2.490000e-55 226.0


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 TraesCS6B01G017200 chr6B 11109810 11112295 2485 True 4591.00 4591 100.0000 1 2486 1 chr6B.!!$R1 2485
1 TraesCS6B01G017200 chr6B 9477777 9479991 2214 False 1786.00 2146 96.1190 272 2486 2 chr6B.!!$F1 2214
2 TraesCS6B01G017200 chr7D 629598627 629599290 663 True 358.25 623 86.1660 868 1506 2 chr7D.!!$R1 638
3 TraesCS6B01G017200 chr7A 725612377 725613964 1587 True 356.00 545 84.1685 618 1493 2 chr7A.!!$R1 875
4 TraesCS6B01G017200 chr3B 505287139 505287806 667 True 518.00 518 81.3240 802 1456 1 chr3B.!!$R1 654
5 TraesCS6B01G017200 chr3A 509548202 509548869 667 True 512.00 512 81.2320 802 1456 1 chr3A.!!$R1 654
6 TraesCS6B01G017200 chr3D 388449938 388450605 667 True 501.00 501 80.8820 802 1456 1 chr3D.!!$R1 654

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
134 135 0.034337 TTCCGGTGTGTGTAGGCTTC 59.966 55.0 0.0 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1579 2301 0.810031 GGACAGCGAATACATGCCGT 60.81 55.0 0.0 0.0 0.0 5.68 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
18 19 1.456287 ATCTAAGGGCGGATTGGGC 59.544 57.895 0.00 0.00 0.00 5.36
19 20 2.397413 ATCTAAGGGCGGATTGGGCG 62.397 60.000 0.00 0.00 0.00 6.13
20 21 3.084646 TAAGGGCGGATTGGGCGA 61.085 61.111 0.00 0.00 0.00 5.54
21 22 3.394635 TAAGGGCGGATTGGGCGAC 62.395 63.158 0.00 0.00 0.00 5.19
49 50 3.680786 CCGTCTCACTCACGCCCA 61.681 66.667 0.00 0.00 35.87 5.36
50 51 2.126307 CGTCTCACTCACGCCCAG 60.126 66.667 0.00 0.00 0.00 4.45
51 52 2.433318 GTCTCACTCACGCCCAGC 60.433 66.667 0.00 0.00 0.00 4.85
52 53 2.917227 TCTCACTCACGCCCAGCA 60.917 61.111 0.00 0.00 0.00 4.41
53 54 2.433838 CTCACTCACGCCCAGCAG 60.434 66.667 0.00 0.00 0.00 4.24
54 55 4.687215 TCACTCACGCCCAGCAGC 62.687 66.667 0.00 0.00 0.00 5.25
57 58 3.774528 CTCACGCCCAGCAGCCTA 61.775 66.667 0.00 0.00 0.00 3.93
58 59 3.083349 TCACGCCCAGCAGCCTAT 61.083 61.111 0.00 0.00 0.00 2.57
59 60 2.124570 CACGCCCAGCAGCCTATT 60.125 61.111 0.00 0.00 0.00 1.73
60 61 1.750399 CACGCCCAGCAGCCTATTT 60.750 57.895 0.00 0.00 0.00 1.40
61 62 1.452108 ACGCCCAGCAGCCTATTTC 60.452 57.895 0.00 0.00 0.00 2.17
62 63 1.153086 CGCCCAGCAGCCTATTTCT 60.153 57.895 0.00 0.00 0.00 2.52
63 64 0.749454 CGCCCAGCAGCCTATTTCTT 60.749 55.000 0.00 0.00 0.00 2.52
64 65 0.743097 GCCCAGCAGCCTATTTCTTG 59.257 55.000 0.00 0.00 0.00 3.02
65 66 0.743097 CCCAGCAGCCTATTTCTTGC 59.257 55.000 0.00 0.00 0.00 4.01
66 67 0.379669 CCAGCAGCCTATTTCTTGCG 59.620 55.000 0.00 0.00 0.00 4.85
67 68 0.379669 CAGCAGCCTATTTCTTGCGG 59.620 55.000 0.00 0.00 0.00 5.69
68 69 0.749454 AGCAGCCTATTTCTTGCGGG 60.749 55.000 0.00 0.00 0.00 6.13
69 70 1.728490 GCAGCCTATTTCTTGCGGGG 61.728 60.000 0.00 0.00 0.00 5.73
70 71 0.107214 CAGCCTATTTCTTGCGGGGA 60.107 55.000 0.00 0.00 0.00 4.81
71 72 0.107165 AGCCTATTTCTTGCGGGGAC 60.107 55.000 0.00 0.00 0.00 4.46
72 73 0.107165 GCCTATTTCTTGCGGGGACT 60.107 55.000 0.00 0.00 0.00 3.85
73 74 1.954927 CCTATTTCTTGCGGGGACTC 58.045 55.000 0.00 0.00 0.00 3.36
74 75 1.571919 CTATTTCTTGCGGGGACTCG 58.428 55.000 0.00 0.00 0.00 4.18
75 76 1.136305 CTATTTCTTGCGGGGACTCGA 59.864 52.381 0.00 0.00 0.00 4.04
76 77 0.541863 ATTTCTTGCGGGGACTCGAT 59.458 50.000 0.00 0.00 0.00 3.59
77 78 0.323629 TTTCTTGCGGGGACTCGATT 59.676 50.000 0.00 0.00 0.00 3.34
78 79 0.323629 TTCTTGCGGGGACTCGATTT 59.676 50.000 0.00 0.00 0.00 2.17
79 80 0.391130 TCTTGCGGGGACTCGATTTG 60.391 55.000 0.00 0.00 0.00 2.32
80 81 1.369091 CTTGCGGGGACTCGATTTGG 61.369 60.000 0.00 0.00 0.00 3.28
81 82 2.513897 GCGGGGACTCGATTTGGG 60.514 66.667 0.00 0.00 0.00 4.12
82 83 2.189521 CGGGGACTCGATTTGGGG 59.810 66.667 0.00 0.00 0.00 4.96
83 84 2.363975 CGGGGACTCGATTTGGGGA 61.364 63.158 0.00 0.00 0.00 4.81
84 85 1.527370 GGGGACTCGATTTGGGGAG 59.473 63.158 0.00 0.00 36.36 4.30
85 86 0.981277 GGGGACTCGATTTGGGGAGA 60.981 60.000 0.00 0.00 34.40 3.71
86 87 0.909623 GGGACTCGATTTGGGGAGAA 59.090 55.000 0.00 0.00 34.40 2.87
87 88 1.280998 GGGACTCGATTTGGGGAGAAA 59.719 52.381 0.00 0.00 34.40 2.52
88 89 2.633488 GGACTCGATTTGGGGAGAAAG 58.367 52.381 0.00 0.00 34.40 2.62
89 90 2.236395 GGACTCGATTTGGGGAGAAAGA 59.764 50.000 0.00 0.00 34.40 2.52
90 91 3.263261 GACTCGATTTGGGGAGAAAGAC 58.737 50.000 0.00 0.00 34.40 3.01
91 92 2.271800 CTCGATTTGGGGAGAAAGACG 58.728 52.381 0.00 0.00 31.90 4.18
92 93 1.066430 TCGATTTGGGGAGAAAGACGG 60.066 52.381 0.00 0.00 0.00 4.79
93 94 1.095600 GATTTGGGGAGAAAGACGGC 58.904 55.000 0.00 0.00 0.00 5.68
94 95 0.698818 ATTTGGGGAGAAAGACGGCT 59.301 50.000 0.00 0.00 0.00 5.52
95 96 1.354101 TTTGGGGAGAAAGACGGCTA 58.646 50.000 0.00 0.00 0.00 3.93
96 97 0.902531 TTGGGGAGAAAGACGGCTAG 59.097 55.000 0.00 0.00 0.00 3.42
97 98 0.976073 TGGGGAGAAAGACGGCTAGG 60.976 60.000 0.00 0.00 0.00 3.02
98 99 0.976590 GGGGAGAAAGACGGCTAGGT 60.977 60.000 0.00 0.00 0.00 3.08
99 100 0.903236 GGGAGAAAGACGGCTAGGTT 59.097 55.000 0.00 0.00 0.00 3.50
100 101 1.278413 GGGAGAAAGACGGCTAGGTTT 59.722 52.381 0.00 0.00 0.00 3.27
101 102 2.619147 GGAGAAAGACGGCTAGGTTTC 58.381 52.381 0.00 0.00 0.00 2.78
102 103 2.619147 GAGAAAGACGGCTAGGTTTCC 58.381 52.381 0.00 0.00 31.18 3.13
103 104 2.234168 GAGAAAGACGGCTAGGTTTCCT 59.766 50.000 0.00 0.00 37.71 3.36
104 105 2.028020 AGAAAGACGGCTAGGTTTCCTG 60.028 50.000 0.00 0.00 34.61 3.86
105 106 0.036294 AAGACGGCTAGGTTTCCTGC 60.036 55.000 0.00 0.99 34.61 4.85
106 107 1.810030 GACGGCTAGGTTTCCTGCG 60.810 63.158 0.00 0.00 34.61 5.18
107 108 2.264794 CGGCTAGGTTTCCTGCGT 59.735 61.111 0.00 0.00 34.61 5.24
108 109 2.100631 CGGCTAGGTTTCCTGCGTG 61.101 63.158 0.00 0.00 34.61 5.34
109 110 1.745489 GGCTAGGTTTCCTGCGTGG 60.745 63.158 0.00 0.00 34.61 4.94
110 111 1.003718 GCTAGGTTTCCTGCGTGGT 60.004 57.895 0.00 0.00 34.61 4.16
111 112 0.605589 GCTAGGTTTCCTGCGTGGTT 60.606 55.000 0.00 0.00 34.61 3.67
112 113 1.156736 CTAGGTTTCCTGCGTGGTTG 58.843 55.000 0.00 0.00 34.61 3.77
113 114 0.470766 TAGGTTTCCTGCGTGGTTGT 59.529 50.000 0.00 0.00 34.61 3.32
114 115 1.101049 AGGTTTCCTGCGTGGTTGTG 61.101 55.000 0.00 0.00 37.07 3.33
115 116 1.381165 GGTTTCCTGCGTGGTTGTGT 61.381 55.000 0.00 0.00 37.07 3.72
116 117 0.454196 GTTTCCTGCGTGGTTGTGTT 59.546 50.000 0.00 0.00 37.07 3.32
117 118 0.736053 TTTCCTGCGTGGTTGTGTTC 59.264 50.000 0.00 0.00 37.07 3.18
118 119 1.098712 TTCCTGCGTGGTTGTGTTCC 61.099 55.000 0.00 0.00 37.07 3.62
119 120 2.631428 CTGCGTGGTTGTGTTCCG 59.369 61.111 0.00 0.00 0.00 4.30
120 121 2.892334 CTGCGTGGTTGTGTTCCGG 61.892 63.158 0.00 0.00 0.00 5.14
121 122 2.898343 GCGTGGTTGTGTTCCGGT 60.898 61.111 0.00 0.00 0.00 5.28
122 123 3.018973 CGTGGTTGTGTTCCGGTG 58.981 61.111 0.00 0.00 0.00 4.94
123 124 1.816259 CGTGGTTGTGTTCCGGTGT 60.816 57.895 0.00 0.00 0.00 4.16
124 125 1.725066 GTGGTTGTGTTCCGGTGTG 59.275 57.895 0.00 0.00 0.00 3.82
125 126 1.027792 GTGGTTGTGTTCCGGTGTGT 61.028 55.000 0.00 0.00 0.00 3.72
126 127 1.027255 TGGTTGTGTTCCGGTGTGTG 61.027 55.000 0.00 0.00 0.00 3.82
127 128 1.027792 GGTTGTGTTCCGGTGTGTGT 61.028 55.000 0.00 0.00 0.00 3.72
128 129 1.654317 GTTGTGTTCCGGTGTGTGTA 58.346 50.000 0.00 0.00 0.00 2.90
129 130 1.595794 GTTGTGTTCCGGTGTGTGTAG 59.404 52.381 0.00 0.00 0.00 2.74
130 131 0.105224 TGTGTTCCGGTGTGTGTAGG 59.895 55.000 0.00 0.00 0.00 3.18
131 132 1.070105 TGTTCCGGTGTGTGTAGGC 59.930 57.895 0.00 0.00 0.00 3.93
132 133 1.370064 GTTCCGGTGTGTGTAGGCT 59.630 57.895 0.00 0.00 0.00 4.58
133 134 0.250166 GTTCCGGTGTGTGTAGGCTT 60.250 55.000 0.00 0.00 0.00 4.35
134 135 0.034337 TTCCGGTGTGTGTAGGCTTC 59.966 55.000 0.00 0.00 0.00 3.86
135 136 1.375523 CCGGTGTGTGTAGGCTTCC 60.376 63.158 0.00 0.00 0.00 3.46
136 137 1.671742 CGGTGTGTGTAGGCTTCCT 59.328 57.895 0.00 0.00 37.71 3.36
137 138 0.389948 CGGTGTGTGTAGGCTTCCTC 60.390 60.000 0.00 0.00 34.61 3.71
138 139 0.977395 GGTGTGTGTAGGCTTCCTCT 59.023 55.000 0.00 0.00 34.61 3.69
139 140 1.338200 GGTGTGTGTAGGCTTCCTCTG 60.338 57.143 0.00 0.00 34.61 3.35
140 141 0.976641 TGTGTGTAGGCTTCCTCTGG 59.023 55.000 0.00 0.00 34.61 3.86
141 142 0.391793 GTGTGTAGGCTTCCTCTGGC 60.392 60.000 0.00 0.00 34.61 4.85
142 143 0.545309 TGTGTAGGCTTCCTCTGGCT 60.545 55.000 0.00 0.00 42.95 4.75
143 144 0.615850 GTGTAGGCTTCCTCTGGCTT 59.384 55.000 0.00 0.00 40.79 4.35
144 145 0.615331 TGTAGGCTTCCTCTGGCTTG 59.385 55.000 0.00 0.00 40.79 4.01
145 146 0.107459 GTAGGCTTCCTCTGGCTTGG 60.107 60.000 0.00 0.00 40.79 3.61
146 147 1.915078 TAGGCTTCCTCTGGCTTGGC 61.915 60.000 0.00 0.00 40.79 4.52
147 148 2.354343 GCTTCCTCTGGCTTGGCT 59.646 61.111 0.00 0.00 0.00 4.75
148 149 2.045131 GCTTCCTCTGGCTTGGCTG 61.045 63.158 0.00 0.00 0.00 4.85
149 150 1.378250 CTTCCTCTGGCTTGGCTGG 60.378 63.158 1.75 0.00 0.00 4.85
150 151 2.833604 CTTCCTCTGGCTTGGCTGGG 62.834 65.000 1.75 0.00 0.00 4.45
161 162 3.922640 GGCTGGGCCGTGCAAAAA 61.923 61.111 20.22 0.00 39.62 1.94
176 177 3.597550 AAAAATTCAAACGGGCCGG 57.402 47.368 31.78 13.02 0.00 6.13
177 178 0.753867 AAAAATTCAAACGGGCCGGT 59.246 45.000 31.78 24.00 0.00 5.28
178 179 1.618487 AAAATTCAAACGGGCCGGTA 58.382 45.000 31.78 9.64 0.00 4.02
179 180 1.842052 AAATTCAAACGGGCCGGTAT 58.158 45.000 31.78 11.98 0.00 2.73
180 181 2.713863 AATTCAAACGGGCCGGTATA 57.286 45.000 31.78 13.00 0.00 1.47
181 182 2.713863 ATTCAAACGGGCCGGTATAA 57.286 45.000 31.78 21.41 0.00 0.98
182 183 2.713863 TTCAAACGGGCCGGTATAAT 57.286 45.000 31.78 5.20 0.00 1.28
183 184 2.713863 TCAAACGGGCCGGTATAATT 57.286 45.000 31.78 11.46 0.00 1.40
184 185 3.002038 TCAAACGGGCCGGTATAATTT 57.998 42.857 31.78 17.18 0.00 1.82
185 186 2.683867 TCAAACGGGCCGGTATAATTTG 59.316 45.455 31.78 26.85 0.00 2.32
186 187 1.026584 AACGGGCCGGTATAATTTGC 58.973 50.000 31.78 0.00 0.00 3.68
187 188 0.181824 ACGGGCCGGTATAATTTGCT 59.818 50.000 31.78 0.20 0.00 3.91
188 189 0.872388 CGGGCCGGTATAATTTGCTC 59.128 55.000 20.56 0.00 0.00 4.26
189 190 0.872388 GGGCCGGTATAATTTGCTCG 59.128 55.000 1.90 0.00 0.00 5.03
190 191 0.872388 GGCCGGTATAATTTGCTCGG 59.128 55.000 1.90 0.00 40.33 4.63
191 192 1.589803 GCCGGTATAATTTGCTCGGT 58.410 50.000 1.90 0.00 39.64 4.69
192 193 2.548493 GGCCGGTATAATTTGCTCGGTA 60.548 50.000 1.90 0.00 39.64 4.02
193 194 2.735134 GCCGGTATAATTTGCTCGGTAG 59.265 50.000 1.90 0.00 39.64 3.18
194 195 3.323243 CCGGTATAATTTGCTCGGTAGG 58.677 50.000 0.00 0.00 33.63 3.18
195 196 2.735134 CGGTATAATTTGCTCGGTAGGC 59.265 50.000 0.00 0.00 0.00 3.93
196 197 3.072211 GGTATAATTTGCTCGGTAGGCC 58.928 50.000 0.00 0.00 0.00 5.19
197 198 2.271944 ATAATTTGCTCGGTAGGCCC 57.728 50.000 0.00 0.00 0.00 5.80
198 199 0.913205 TAATTTGCTCGGTAGGCCCA 59.087 50.000 0.00 0.00 0.00 5.36
199 200 0.258774 AATTTGCTCGGTAGGCCCAT 59.741 50.000 0.00 0.00 0.00 4.00
200 201 0.258774 ATTTGCTCGGTAGGCCCATT 59.741 50.000 0.00 0.00 0.00 3.16
201 202 0.039035 TTTGCTCGGTAGGCCCATTT 59.961 50.000 0.00 0.00 0.00 2.32
202 203 0.913205 TTGCTCGGTAGGCCCATTTA 59.087 50.000 0.00 0.00 0.00 1.40
203 204 0.179468 TGCTCGGTAGGCCCATTTAC 59.821 55.000 0.00 0.00 0.00 2.01
204 205 0.534427 GCTCGGTAGGCCCATTTACC 60.534 60.000 8.56 8.56 36.74 2.85
206 207 4.892002 GGTAGGCCCATTTACCGG 57.108 61.111 0.00 0.00 30.85 5.28
208 209 1.149854 GTAGGCCCATTTACCGGGG 59.850 63.158 6.32 0.00 44.67 5.73
209 210 2.079911 TAGGCCCATTTACCGGGGG 61.080 63.158 6.32 7.50 44.67 5.40
223 224 3.890674 GGGGGCATCGATAATCGC 58.109 61.111 0.00 0.00 40.21 4.58
224 225 2.100631 GGGGGCATCGATAATCGCG 61.101 63.158 0.00 0.00 40.21 5.87
225 226 2.100631 GGGGCATCGATAATCGCGG 61.101 63.158 6.13 0.00 40.21 6.46
226 227 1.374252 GGGCATCGATAATCGCGGT 60.374 57.895 6.13 0.00 40.21 5.68
227 228 0.108992 GGGCATCGATAATCGCGGTA 60.109 55.000 6.13 0.00 40.21 4.02
228 229 1.670674 GGGCATCGATAATCGCGGTAA 60.671 52.381 6.13 0.00 40.21 2.85
229 230 1.389106 GGCATCGATAATCGCGGTAAC 59.611 52.381 6.13 0.00 40.21 2.50
230 231 1.389106 GCATCGATAATCGCGGTAACC 59.611 52.381 6.13 0.00 40.21 2.85
249 250 3.775661 CCGCTCGGTAAATGGAAATTT 57.224 42.857 0.00 0.00 0.00 1.82
250 251 3.691498 CCGCTCGGTAAATGGAAATTTC 58.309 45.455 9.83 9.83 0.00 2.17
251 252 3.350912 CGCTCGGTAAATGGAAATTTCG 58.649 45.455 11.95 0.00 0.00 3.46
252 253 3.105937 GCTCGGTAAATGGAAATTTCGC 58.894 45.455 11.95 6.00 0.00 4.70
253 254 3.181500 GCTCGGTAAATGGAAATTTCGCT 60.181 43.478 11.95 0.00 0.00 4.93
254 255 4.588278 CTCGGTAAATGGAAATTTCGCTC 58.412 43.478 11.95 0.00 0.00 5.03
255 256 3.062909 TCGGTAAATGGAAATTTCGCTCG 59.937 43.478 11.95 8.63 0.00 5.03
256 257 3.691498 GGTAAATGGAAATTTCGCTCGG 58.309 45.455 11.95 0.00 0.00 4.63
257 258 3.128068 GGTAAATGGAAATTTCGCTCGGT 59.872 43.478 11.95 0.00 0.00 4.69
258 259 3.934457 AAATGGAAATTTCGCTCGGTT 57.066 38.095 11.95 0.00 0.00 4.44
259 260 5.163733 GGTAAATGGAAATTTCGCTCGGTTA 60.164 40.000 11.95 2.64 0.00 2.85
260 261 4.351131 AATGGAAATTTCGCTCGGTTAC 57.649 40.909 11.95 0.00 0.00 2.50
261 262 2.078392 TGGAAATTTCGCTCGGTTACC 58.922 47.619 11.95 0.00 0.00 2.85
262 263 2.078392 GGAAATTTCGCTCGGTTACCA 58.922 47.619 11.95 0.00 0.00 3.25
263 264 2.485038 GGAAATTTCGCTCGGTTACCAA 59.515 45.455 11.95 0.00 0.00 3.67
264 265 3.058085 GGAAATTTCGCTCGGTTACCAAA 60.058 43.478 11.95 0.00 0.00 3.28
265 266 4.380128 GGAAATTTCGCTCGGTTACCAAAT 60.380 41.667 11.95 0.00 0.00 2.32
266 267 4.351131 AATTTCGCTCGGTTACCAAATC 57.649 40.909 1.13 0.00 0.00 2.17
267 268 1.729284 TTCGCTCGGTTACCAAATCC 58.271 50.000 1.13 0.00 0.00 3.01
268 269 0.899720 TCGCTCGGTTACCAAATCCT 59.100 50.000 1.13 0.00 0.00 3.24
269 270 1.276989 TCGCTCGGTTACCAAATCCTT 59.723 47.619 1.13 0.00 0.00 3.36
270 271 1.396996 CGCTCGGTTACCAAATCCTTG 59.603 52.381 1.13 0.00 0.00 3.61
300 301 0.182299 CTTCCCCTGCTCCCTTGATC 59.818 60.000 0.00 0.00 0.00 2.92
319 320 2.513026 CTTGACCAGCTCCCTCCGTG 62.513 65.000 0.00 0.00 0.00 4.94
322 323 4.020617 CCAGCTCCCTCCGTGCAA 62.021 66.667 0.00 0.00 33.25 4.08
349 350 3.834813 TGATCTGGGGCTAGCTGTATAAG 59.165 47.826 15.72 4.57 0.00 1.73
409 410 3.449528 TCAATCATCTCCTCTGCTTCG 57.550 47.619 0.00 0.00 0.00 3.79
442 443 3.270877 GTTGCTCTCAATAATGGGTCGT 58.729 45.455 0.00 0.00 34.29 4.34
457 458 0.968393 GTCGTCTCCTCTCCAGCCTT 60.968 60.000 0.00 0.00 0.00 4.35
600 601 1.661743 GCGTTCGTAAACAATGCAGCA 60.662 47.619 0.00 0.00 36.04 4.41
690 691 2.441164 TCCCTCTCTCGGCTGCTC 60.441 66.667 0.00 0.00 0.00 4.26
770 771 6.098124 TGAGAAATCCCATGTGTTTTTCAGTT 59.902 34.615 0.00 0.00 0.00 3.16
771 772 6.515832 AGAAATCCCATGTGTTTTTCAGTTC 58.484 36.000 0.00 0.00 0.00 3.01
772 773 5.867903 AATCCCATGTGTTTTTCAGTTCA 57.132 34.783 0.00 0.00 0.00 3.18
809 813 2.186160 CACTTGCACTTGCCCGACA 61.186 57.895 0.00 0.00 41.18 4.35
1507 2229 4.338879 AGTTGGTTACGTTCTAGCCTCTA 58.661 43.478 0.00 0.00 0.00 2.43
1529 2251 2.094906 TGTGGTCTGTGTACGCAGATAC 60.095 50.000 34.76 32.07 45.81 2.24
1543 2265 3.813724 CGCAGATACTGGTACTAGTAGCA 59.186 47.826 28.99 28.07 40.92 3.49
1594 2316 2.526304 ATGTACGGCATGTATTCGCT 57.474 45.000 0.00 0.00 36.26 4.93
1595 2317 1.566404 TGTACGGCATGTATTCGCTG 58.434 50.000 0.00 0.00 40.48 5.18
1596 2318 4.932789 ACGGCATGTATTCGCTGT 57.067 50.000 0.00 0.00 42.87 4.40
1597 2319 1.521423 GTACGGCATGTATTCGCTGTC 59.479 52.381 0.00 0.00 44.35 3.51
1598 2320 0.810031 ACGGCATGTATTCGCTGTCC 60.810 55.000 0.00 0.00 44.35 4.02
1599 2321 1.821241 CGGCATGTATTCGCTGTCCG 61.821 60.000 0.00 0.00 38.61 4.79
1600 2322 1.276844 GCATGTATTCGCTGTCCGC 59.723 57.895 0.00 0.00 36.73 5.54
1601 2323 1.934463 CATGTATTCGCTGTCCGCC 59.066 57.895 0.00 0.00 36.73 6.13
1602 2324 1.591594 ATGTATTCGCTGTCCGCCG 60.592 57.895 0.00 0.00 36.73 6.46
1603 2325 2.202703 GTATTCGCTGTCCGCCGT 60.203 61.111 0.00 0.00 36.73 5.68
1611 2333 1.394227 CGCTGTCCGCCGTTTATTTAA 59.606 47.619 0.00 0.00 34.21 1.52
1618 2340 5.088068 GTCCGCCGTTTATTTAAATTTCGT 58.912 37.500 5.91 0.00 0.00 3.85
1619 2341 5.002747 GTCCGCCGTTTATTTAAATTTCGTG 59.997 40.000 5.91 5.23 0.00 4.35
1620 2342 4.852650 CCGCCGTTTATTTAAATTTCGTGT 59.147 37.500 5.91 0.00 0.00 4.49
1621 2343 5.342791 CCGCCGTTTATTTAAATTTCGTGTT 59.657 36.000 5.91 0.00 0.00 3.32
1622 2344 6.522510 CCGCCGTTTATTTAAATTTCGTGTTA 59.477 34.615 5.91 0.00 0.00 2.41
1623 2345 7.367526 CGCCGTTTATTTAAATTTCGTGTTAC 58.632 34.615 5.91 0.00 0.00 2.50
1624 2346 7.059260 CGCCGTTTATTTAAATTTCGTGTTACA 59.941 33.333 5.91 0.00 0.00 2.41
1625 2347 8.852380 GCCGTTTATTTAAATTTCGTGTTACAT 58.148 29.630 5.91 0.00 0.00 2.29
1641 2363 7.013464 TCGTGTTACATTTTCTGGTTTTGGTAT 59.987 33.333 0.00 0.00 0.00 2.73
1701 2423 7.056844 TCGGTTTTCCCTTATTTCAAATTGT 57.943 32.000 0.00 0.00 36.42 2.71
1725 2451 0.753867 TCTTGTTCCACAGCGTACCA 59.246 50.000 0.00 0.00 0.00 3.25
1763 2489 7.372451 TGTTATGTCTTTTTACTGGATTCCG 57.628 36.000 0.00 0.00 0.00 4.30
1835 2561 8.798748 AGTATCTTAATATTCCGTTCTTGTCG 57.201 34.615 0.00 0.00 0.00 4.35
1845 2571 1.464687 CGTTCTTGTCGACGTCGGTAT 60.465 52.381 35.05 0.00 40.29 2.73
1851 2577 2.182284 CGACGTCGGTATGCCCAA 59.818 61.111 29.70 0.00 35.37 4.12
2132 2865 2.149578 CCAATTTGCCGCAATTTTCCA 58.850 42.857 6.64 0.00 0.00 3.53
2371 3107 5.476599 TGAAACAGTGGCATAGCTAACATTT 59.523 36.000 0.00 0.00 0.00 2.32
2386 3122 7.386851 AGCTAACATTTGTAGAGCTTGAAGTA 58.613 34.615 12.07 0.00 41.75 2.24
2479 3215 6.041865 CAGGAGTCCAGATCTATCTCAATTGT 59.958 42.308 12.86 0.00 34.22 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.456287 GCCCAATCCGCCCTTAGAT 59.544 57.895 0.00 0.00 0.00 1.98
1 2 2.915869 GCCCAATCCGCCCTTAGA 59.084 61.111 0.00 0.00 0.00 2.10
3 4 3.084646 TCGCCCAATCCGCCCTTA 61.085 61.111 0.00 0.00 0.00 2.69
4 5 4.796495 GTCGCCCAATCCGCCCTT 62.796 66.667 0.00 0.00 0.00 3.95
32 33 3.633094 CTGGGCGTGAGTGAGACGG 62.633 68.421 0.00 0.00 37.30 4.79
33 34 2.126307 CTGGGCGTGAGTGAGACG 60.126 66.667 0.00 0.00 39.87 4.18
34 35 2.433318 GCTGGGCGTGAGTGAGAC 60.433 66.667 0.00 0.00 0.00 3.36
35 36 2.917227 TGCTGGGCGTGAGTGAGA 60.917 61.111 0.00 0.00 0.00 3.27
36 37 2.433838 CTGCTGGGCGTGAGTGAG 60.434 66.667 0.00 0.00 0.00 3.51
37 38 4.687215 GCTGCTGGGCGTGAGTGA 62.687 66.667 0.00 0.00 0.00 3.41
40 41 2.599645 AATAGGCTGCTGGGCGTGAG 62.600 60.000 0.00 0.00 45.89 3.51
41 42 2.196997 AAATAGGCTGCTGGGCGTGA 62.197 55.000 0.00 0.00 45.89 4.35
42 43 1.718757 GAAATAGGCTGCTGGGCGTG 61.719 60.000 0.00 0.00 45.89 5.34
43 44 1.452108 GAAATAGGCTGCTGGGCGT 60.452 57.895 0.00 0.00 45.89 5.68
44 45 0.749454 AAGAAATAGGCTGCTGGGCG 60.749 55.000 0.00 0.00 45.89 6.13
45 46 0.743097 CAAGAAATAGGCTGCTGGGC 59.257 55.000 0.00 0.00 41.20 5.36
46 47 0.743097 GCAAGAAATAGGCTGCTGGG 59.257 55.000 0.00 0.00 0.00 4.45
47 48 0.379669 CGCAAGAAATAGGCTGCTGG 59.620 55.000 0.00 0.00 43.02 4.85
48 49 0.379669 CCGCAAGAAATAGGCTGCTG 59.620 55.000 0.00 0.00 43.02 4.41
49 50 0.749454 CCCGCAAGAAATAGGCTGCT 60.749 55.000 0.00 0.00 43.02 4.24
50 51 1.728490 CCCCGCAAGAAATAGGCTGC 61.728 60.000 0.00 0.00 43.02 5.25
51 52 0.107214 TCCCCGCAAGAAATAGGCTG 60.107 55.000 0.00 0.00 43.02 4.85
52 53 0.107165 GTCCCCGCAAGAAATAGGCT 60.107 55.000 0.00 0.00 43.02 4.58
53 54 0.107165 AGTCCCCGCAAGAAATAGGC 60.107 55.000 0.00 0.00 43.02 3.93
54 55 1.806623 CGAGTCCCCGCAAGAAATAGG 60.807 57.143 0.00 0.00 43.02 2.57
55 56 1.136305 TCGAGTCCCCGCAAGAAATAG 59.864 52.381 0.00 0.00 43.02 1.73
56 57 1.187974 TCGAGTCCCCGCAAGAAATA 58.812 50.000 0.00 0.00 43.02 1.40
57 58 0.541863 ATCGAGTCCCCGCAAGAAAT 59.458 50.000 0.00 0.00 43.02 2.17
58 59 0.323629 AATCGAGTCCCCGCAAGAAA 59.676 50.000 0.00 0.00 43.02 2.52
59 60 0.323629 AAATCGAGTCCCCGCAAGAA 59.676 50.000 0.00 0.00 43.02 2.52
60 61 0.391130 CAAATCGAGTCCCCGCAAGA 60.391 55.000 0.00 0.00 43.02 3.02
61 62 1.369091 CCAAATCGAGTCCCCGCAAG 61.369 60.000 0.00 0.00 0.00 4.01
62 63 1.376683 CCAAATCGAGTCCCCGCAA 60.377 57.895 0.00 0.00 0.00 4.85
63 64 2.267642 CCAAATCGAGTCCCCGCA 59.732 61.111 0.00 0.00 0.00 5.69
64 65 2.513897 CCCAAATCGAGTCCCCGC 60.514 66.667 0.00 0.00 0.00 6.13
65 66 2.189521 CCCCAAATCGAGTCCCCG 59.810 66.667 0.00 0.00 0.00 5.73
66 67 0.981277 TCTCCCCAAATCGAGTCCCC 60.981 60.000 0.00 0.00 0.00 4.81
67 68 0.909623 TTCTCCCCAAATCGAGTCCC 59.090 55.000 0.00 0.00 0.00 4.46
68 69 2.236395 TCTTTCTCCCCAAATCGAGTCC 59.764 50.000 0.00 0.00 0.00 3.85
69 70 3.263261 GTCTTTCTCCCCAAATCGAGTC 58.737 50.000 0.00 0.00 0.00 3.36
70 71 2.353803 CGTCTTTCTCCCCAAATCGAGT 60.354 50.000 0.00 0.00 0.00 4.18
71 72 2.271800 CGTCTTTCTCCCCAAATCGAG 58.728 52.381 0.00 0.00 0.00 4.04
72 73 1.066430 CCGTCTTTCTCCCCAAATCGA 60.066 52.381 0.00 0.00 0.00 3.59
73 74 1.369625 CCGTCTTTCTCCCCAAATCG 58.630 55.000 0.00 0.00 0.00 3.34
74 75 1.095600 GCCGTCTTTCTCCCCAAATC 58.904 55.000 0.00 0.00 0.00 2.17
75 76 0.698818 AGCCGTCTTTCTCCCCAAAT 59.301 50.000 0.00 0.00 0.00 2.32
76 77 1.278127 CTAGCCGTCTTTCTCCCCAAA 59.722 52.381 0.00 0.00 0.00 3.28
77 78 0.902531 CTAGCCGTCTTTCTCCCCAA 59.097 55.000 0.00 0.00 0.00 4.12
78 79 0.976073 CCTAGCCGTCTTTCTCCCCA 60.976 60.000 0.00 0.00 0.00 4.96
79 80 0.976590 ACCTAGCCGTCTTTCTCCCC 60.977 60.000 0.00 0.00 0.00 4.81
80 81 0.903236 AACCTAGCCGTCTTTCTCCC 59.097 55.000 0.00 0.00 0.00 4.30
81 82 2.619147 GAAACCTAGCCGTCTTTCTCC 58.381 52.381 0.00 0.00 0.00 3.71
82 83 2.234168 AGGAAACCTAGCCGTCTTTCTC 59.766 50.000 0.00 0.00 28.47 2.87
83 84 2.028020 CAGGAAACCTAGCCGTCTTTCT 60.028 50.000 0.00 0.00 29.64 2.52
84 85 2.347731 CAGGAAACCTAGCCGTCTTTC 58.652 52.381 0.00 0.00 29.64 2.62
85 86 1.610886 GCAGGAAACCTAGCCGTCTTT 60.611 52.381 0.00 0.00 29.64 2.52
86 87 0.036294 GCAGGAAACCTAGCCGTCTT 60.036 55.000 0.00 0.00 29.64 3.01
87 88 1.597461 GCAGGAAACCTAGCCGTCT 59.403 57.895 0.00 0.00 29.64 4.18
88 89 1.810030 CGCAGGAAACCTAGCCGTC 60.810 63.158 0.00 0.00 29.64 4.79
89 90 2.264794 CGCAGGAAACCTAGCCGT 59.735 61.111 0.00 0.00 29.64 5.68
90 91 2.100631 CACGCAGGAAACCTAGCCG 61.101 63.158 0.00 0.00 29.64 5.52
91 92 1.745489 CCACGCAGGAAACCTAGCC 60.745 63.158 0.00 0.00 41.22 3.93
92 93 0.605589 AACCACGCAGGAAACCTAGC 60.606 55.000 0.93 0.00 41.22 3.42
93 94 1.156736 CAACCACGCAGGAAACCTAG 58.843 55.000 0.93 0.00 41.22 3.02
94 95 0.470766 ACAACCACGCAGGAAACCTA 59.529 50.000 0.93 0.00 41.22 3.08
95 96 1.101049 CACAACCACGCAGGAAACCT 61.101 55.000 0.93 0.00 41.22 3.50
96 97 1.358759 CACAACCACGCAGGAAACC 59.641 57.895 0.93 0.00 41.22 3.27
97 98 0.454196 AACACAACCACGCAGGAAAC 59.546 50.000 0.93 0.00 41.22 2.78
98 99 0.736053 GAACACAACCACGCAGGAAA 59.264 50.000 0.93 0.00 41.22 3.13
99 100 1.098712 GGAACACAACCACGCAGGAA 61.099 55.000 0.93 0.00 41.22 3.36
100 101 1.525077 GGAACACAACCACGCAGGA 60.525 57.895 0.93 0.00 41.22 3.86
101 102 2.892334 CGGAACACAACCACGCAGG 61.892 63.158 0.00 0.00 45.67 4.85
102 103 2.631428 CGGAACACAACCACGCAG 59.369 61.111 0.00 0.00 0.00 5.18
103 104 2.897846 CCGGAACACAACCACGCA 60.898 61.111 0.00 0.00 0.00 5.24
104 105 2.898343 ACCGGAACACAACCACGC 60.898 61.111 9.46 0.00 0.00 5.34
105 106 1.816259 ACACCGGAACACAACCACG 60.816 57.895 9.46 0.00 0.00 4.94
106 107 1.027792 ACACACCGGAACACAACCAC 61.028 55.000 9.46 0.00 0.00 4.16
107 108 1.027255 CACACACCGGAACACAACCA 61.027 55.000 9.46 0.00 0.00 3.67
108 109 1.027792 ACACACACCGGAACACAACC 61.028 55.000 9.46 0.00 0.00 3.77
109 110 1.595794 CTACACACACCGGAACACAAC 59.404 52.381 9.46 0.00 0.00 3.32
110 111 1.473610 CCTACACACACCGGAACACAA 60.474 52.381 9.46 0.00 0.00 3.33
111 112 0.105224 CCTACACACACCGGAACACA 59.895 55.000 9.46 0.00 0.00 3.72
112 113 1.226030 GCCTACACACACCGGAACAC 61.226 60.000 9.46 0.00 0.00 3.32
113 114 1.070105 GCCTACACACACCGGAACA 59.930 57.895 9.46 0.00 0.00 3.18
114 115 0.250166 AAGCCTACACACACCGGAAC 60.250 55.000 9.46 0.00 0.00 3.62
115 116 0.034337 GAAGCCTACACACACCGGAA 59.966 55.000 9.46 0.00 0.00 4.30
116 117 1.669440 GAAGCCTACACACACCGGA 59.331 57.895 9.46 0.00 0.00 5.14
117 118 1.375523 GGAAGCCTACACACACCGG 60.376 63.158 0.00 0.00 0.00 5.28
118 119 0.389948 GAGGAAGCCTACACACACCG 60.390 60.000 0.00 0.00 31.76 4.94
119 120 0.977395 AGAGGAAGCCTACACACACC 59.023 55.000 0.00 0.00 31.76 4.16
120 121 1.338200 CCAGAGGAAGCCTACACACAC 60.338 57.143 0.00 0.00 31.76 3.82
121 122 0.976641 CCAGAGGAAGCCTACACACA 59.023 55.000 0.00 0.00 31.76 3.72
122 123 0.391793 GCCAGAGGAAGCCTACACAC 60.392 60.000 0.00 0.00 31.76 3.82
123 124 0.545309 AGCCAGAGGAAGCCTACACA 60.545 55.000 0.00 0.00 31.76 3.72
124 125 0.615850 AAGCCAGAGGAAGCCTACAC 59.384 55.000 0.00 0.00 31.76 2.90
125 126 0.615331 CAAGCCAGAGGAAGCCTACA 59.385 55.000 0.00 0.00 31.76 2.74
126 127 0.107459 CCAAGCCAGAGGAAGCCTAC 60.107 60.000 0.00 0.00 31.76 3.18
127 128 1.915078 GCCAAGCCAGAGGAAGCCTA 61.915 60.000 0.00 0.00 31.76 3.93
128 129 3.085223 CCAAGCCAGAGGAAGCCT 58.915 61.111 0.00 0.00 36.03 4.58
129 130 2.753446 GCCAAGCCAGAGGAAGCC 60.753 66.667 0.00 0.00 0.00 4.35
130 131 2.045131 CAGCCAAGCCAGAGGAAGC 61.045 63.158 0.00 0.00 0.00 3.86
131 132 1.378250 CCAGCCAAGCCAGAGGAAG 60.378 63.158 0.00 0.00 0.00 3.46
132 133 2.759114 CCAGCCAAGCCAGAGGAA 59.241 61.111 0.00 0.00 0.00 3.36
133 134 3.333219 CCCAGCCAAGCCAGAGGA 61.333 66.667 0.00 0.00 0.00 3.71
144 145 3.922640 TTTTTGCACGGCCCAGCC 61.923 61.111 11.20 0.00 46.75 4.85
158 159 0.753867 ACCGGCCCGTTTGAATTTTT 59.246 45.000 0.00 0.00 0.00 1.94
159 160 1.618487 TACCGGCCCGTTTGAATTTT 58.382 45.000 0.00 0.00 0.00 1.82
160 161 1.842052 ATACCGGCCCGTTTGAATTT 58.158 45.000 0.00 0.00 0.00 1.82
161 162 2.713863 TATACCGGCCCGTTTGAATT 57.286 45.000 0.00 0.00 0.00 2.17
162 163 2.713863 TTATACCGGCCCGTTTGAAT 57.286 45.000 0.00 0.00 0.00 2.57
163 164 2.713863 ATTATACCGGCCCGTTTGAA 57.286 45.000 0.00 0.00 0.00 2.69
164 165 2.683867 CAAATTATACCGGCCCGTTTGA 59.316 45.455 0.00 0.00 0.00 2.69
165 166 2.796735 GCAAATTATACCGGCCCGTTTG 60.797 50.000 0.00 6.33 0.00 2.93
166 167 1.406180 GCAAATTATACCGGCCCGTTT 59.594 47.619 0.00 0.00 0.00 3.60
167 168 1.026584 GCAAATTATACCGGCCCGTT 58.973 50.000 0.00 0.00 0.00 4.44
168 169 0.181824 AGCAAATTATACCGGCCCGT 59.818 50.000 0.00 1.41 0.00 5.28
169 170 0.872388 GAGCAAATTATACCGGCCCG 59.128 55.000 0.00 0.00 0.00 6.13
170 171 0.872388 CGAGCAAATTATACCGGCCC 59.128 55.000 0.00 0.00 0.00 5.80
171 172 0.872388 CCGAGCAAATTATACCGGCC 59.128 55.000 0.00 0.00 0.00 6.13
172 173 1.589803 ACCGAGCAAATTATACCGGC 58.410 50.000 0.00 0.00 40.48 6.13
173 174 3.323243 CCTACCGAGCAAATTATACCGG 58.677 50.000 0.00 0.00 42.30 5.28
174 175 2.735134 GCCTACCGAGCAAATTATACCG 59.265 50.000 0.00 0.00 0.00 4.02
175 176 3.072211 GGCCTACCGAGCAAATTATACC 58.928 50.000 0.00 0.00 0.00 2.73
176 177 3.072211 GGGCCTACCGAGCAAATTATAC 58.928 50.000 0.84 0.00 36.48 1.47
177 178 2.706723 TGGGCCTACCGAGCAAATTATA 59.293 45.455 4.53 0.00 44.64 0.98
178 179 1.493022 TGGGCCTACCGAGCAAATTAT 59.507 47.619 4.53 0.00 44.64 1.28
179 180 0.913205 TGGGCCTACCGAGCAAATTA 59.087 50.000 4.53 0.00 44.64 1.40
180 181 0.258774 ATGGGCCTACCGAGCAAATT 59.741 50.000 4.53 0.00 44.64 1.82
181 182 0.258774 AATGGGCCTACCGAGCAAAT 59.741 50.000 4.53 0.00 44.64 2.32
182 183 0.039035 AAATGGGCCTACCGAGCAAA 59.961 50.000 4.53 0.00 44.64 3.68
183 184 0.913205 TAAATGGGCCTACCGAGCAA 59.087 50.000 4.53 0.00 44.64 3.91
184 185 0.179468 GTAAATGGGCCTACCGAGCA 59.821 55.000 4.53 0.00 44.64 4.26
185 186 0.534427 GGTAAATGGGCCTACCGAGC 60.534 60.000 4.53 0.00 44.64 5.03
186 187 3.700198 GGTAAATGGGCCTACCGAG 57.300 57.895 4.53 0.00 44.64 4.63
189 190 1.149854 CCCGGTAAATGGGCCTACC 59.850 63.158 4.53 7.79 40.47 3.18
190 191 1.149854 CCCCGGTAAATGGGCCTAC 59.850 63.158 4.53 0.00 45.95 3.18
191 192 2.079911 CCCCCGGTAAATGGGCCTA 61.080 63.158 4.53 0.00 45.95 3.93
192 193 3.425925 CCCCCGGTAAATGGGCCT 61.426 66.667 4.53 0.00 45.95 5.19
206 207 2.100631 CGCGATTATCGATGCCCCC 61.101 63.158 19.40 0.00 43.74 5.40
207 208 2.100631 CCGCGATTATCGATGCCCC 61.101 63.158 19.40 0.00 43.74 5.80
208 209 0.108992 TACCGCGATTATCGATGCCC 60.109 55.000 19.40 0.00 43.74 5.36
209 210 1.389106 GTTACCGCGATTATCGATGCC 59.611 52.381 19.40 0.00 43.74 4.40
210 211 1.389106 GGTTACCGCGATTATCGATGC 59.611 52.381 19.40 1.31 43.74 3.91
211 212 1.647213 CGGTTACCGCGATTATCGATG 59.353 52.381 19.40 10.23 42.51 3.84
212 213 1.973138 CGGTTACCGCGATTATCGAT 58.027 50.000 19.40 2.16 42.51 3.59
213 214 3.460114 CGGTTACCGCGATTATCGA 57.540 52.632 19.40 0.00 42.51 3.59
229 230 3.691498 GAAATTTCCATTTACCGAGCGG 58.309 45.455 6.95 7.48 35.52 5.52
230 231 3.350912 CGAAATTTCCATTTACCGAGCG 58.649 45.455 12.54 0.00 32.35 5.03
231 232 3.105937 GCGAAATTTCCATTTACCGAGC 58.894 45.455 12.54 2.51 32.35 5.03
232 233 4.588278 GAGCGAAATTTCCATTTACCGAG 58.412 43.478 12.54 0.00 32.35 4.63
233 234 3.062909 CGAGCGAAATTTCCATTTACCGA 59.937 43.478 12.54 0.00 32.35 4.69
234 235 3.350912 CGAGCGAAATTTCCATTTACCG 58.649 45.455 12.54 0.18 32.35 4.02
235 236 3.128068 ACCGAGCGAAATTTCCATTTACC 59.872 43.478 12.54 0.00 32.35 2.85
236 237 4.351131 ACCGAGCGAAATTTCCATTTAC 57.649 40.909 12.54 0.00 32.35 2.01
237 238 5.163733 GGTAACCGAGCGAAATTTCCATTTA 60.164 40.000 12.54 0.21 32.35 1.40
238 239 3.934457 AACCGAGCGAAATTTCCATTT 57.066 38.095 12.54 0.00 35.12 2.32
239 240 3.128068 GGTAACCGAGCGAAATTTCCATT 59.872 43.478 12.54 0.00 0.00 3.16
240 241 2.681344 GGTAACCGAGCGAAATTTCCAT 59.319 45.455 12.54 1.09 0.00 3.41
241 242 2.078392 GGTAACCGAGCGAAATTTCCA 58.922 47.619 12.54 0.00 0.00 3.53
242 243 2.078392 TGGTAACCGAGCGAAATTTCC 58.922 47.619 12.54 5.69 0.00 3.13
243 244 3.817148 TTGGTAACCGAGCGAAATTTC 57.183 42.857 8.20 8.20 0.00 2.17
244 245 4.380128 GGATTTGGTAACCGAGCGAAATTT 60.380 41.667 0.00 0.00 32.64 1.82
245 246 3.128068 GGATTTGGTAACCGAGCGAAATT 59.872 43.478 0.00 0.00 32.64 1.82
246 247 2.681344 GGATTTGGTAACCGAGCGAAAT 59.319 45.455 0.00 0.00 32.64 2.17
247 248 2.078392 GGATTTGGTAACCGAGCGAAA 58.922 47.619 0.00 0.00 32.64 3.46
248 249 1.276989 AGGATTTGGTAACCGAGCGAA 59.723 47.619 0.00 0.00 33.43 4.70
249 250 0.899720 AGGATTTGGTAACCGAGCGA 59.100 50.000 0.00 0.00 0.00 4.93
250 251 1.396996 CAAGGATTTGGTAACCGAGCG 59.603 52.381 0.00 0.00 0.00 5.03
261 262 1.055040 TGGGGCAAACCAAGGATTTG 58.945 50.000 0.00 1.87 42.91 2.32
262 263 1.055849 GTGGGGCAAACCAAGGATTT 58.944 50.000 0.00 0.00 43.34 2.17
263 264 0.190815 AGTGGGGCAAACCAAGGATT 59.809 50.000 0.00 0.00 43.34 3.01
264 265 0.190815 AAGTGGGGCAAACCAAGGAT 59.809 50.000 0.00 0.00 43.34 3.24
265 266 0.469144 GAAGTGGGGCAAACCAAGGA 60.469 55.000 0.00 0.00 43.34 3.36
266 267 1.471829 GGAAGTGGGGCAAACCAAGG 61.472 60.000 0.00 0.00 43.34 3.61
267 268 1.471829 GGGAAGTGGGGCAAACCAAG 61.472 60.000 0.00 0.00 43.34 3.61
268 269 1.458588 GGGAAGTGGGGCAAACCAA 60.459 57.895 0.00 0.00 43.34 3.67
269 270 2.200092 GGGAAGTGGGGCAAACCA 59.800 61.111 0.00 0.00 42.91 3.67
270 271 2.603473 GGGGAAGTGGGGCAAACC 60.603 66.667 0.00 0.00 39.11 3.27
300 301 2.286523 ACGGAGGGAGCTGGTCAAG 61.287 63.158 9.30 0.00 0.00 3.02
319 320 1.772836 AGCCCCAGATCAATTCTTGC 58.227 50.000 0.00 0.00 29.93 4.01
322 323 2.106166 CAGCTAGCCCCAGATCAATTCT 59.894 50.000 12.13 0.00 33.90 2.40
349 350 2.918712 AGCTAGGCACACATGGATAC 57.081 50.000 0.00 0.00 0.00 2.24
409 410 1.736681 GAGAGCAACAATGAGGAGCAC 59.263 52.381 0.00 0.00 0.00 4.40
442 443 1.566211 CAAGAAGGCTGGAGAGGAGA 58.434 55.000 0.00 0.00 0.00 3.71
457 458 3.370527 GGCATACCAGTAGAAAGCCAAGA 60.371 47.826 0.00 0.00 40.29 3.02
600 601 1.272704 GGAGTCAAAATGGAAGCCCCT 60.273 52.381 0.00 0.00 35.38 4.79
613 614 2.341101 GCTCGGGAGTCGGAGTCAA 61.341 63.158 14.42 0.00 40.93 3.18
690 691 1.148157 GATGACCGACGATGTGCAGG 61.148 60.000 0.00 0.00 0.00 4.85
770 771 1.275666 CCCTCCACTGTGGTGTATGA 58.724 55.000 25.15 5.14 41.53 2.15
771 772 0.253044 CCCCTCCACTGTGGTGTATG 59.747 60.000 25.15 13.24 41.53 2.39
772 773 1.562672 GCCCCTCCACTGTGGTGTAT 61.563 60.000 25.15 0.00 41.53 2.29
1507 2229 0.966179 TCTGCGTACACAGACCACAT 59.034 50.000 9.52 0.00 41.72 3.21
1529 2251 6.219473 CCATTTCTCATGCTACTAGTACCAG 58.781 44.000 0.00 0.00 0.00 4.00
1579 2301 0.810031 GGACAGCGAATACATGCCGT 60.810 55.000 0.00 0.00 0.00 5.68
1580 2302 1.821241 CGGACAGCGAATACATGCCG 61.821 60.000 0.00 0.00 0.00 5.69
1581 2303 1.934463 CGGACAGCGAATACATGCC 59.066 57.895 0.00 0.00 0.00 4.40
1582 2304 1.276844 GCGGACAGCGAATACATGC 59.723 57.895 0.00 0.00 35.41 4.06
1593 2315 5.226360 CGAAATTTAAATAAACGGCGGACAG 59.774 40.000 13.24 0.00 0.00 3.51
1594 2316 5.087397 CGAAATTTAAATAAACGGCGGACA 58.913 37.500 13.24 0.00 0.00 4.02
1595 2317 5.002747 CACGAAATTTAAATAAACGGCGGAC 59.997 40.000 13.24 0.00 0.00 4.79
1596 2318 5.087397 CACGAAATTTAAATAAACGGCGGA 58.913 37.500 13.24 0.00 0.00 5.54
1597 2319 4.852650 ACACGAAATTTAAATAAACGGCGG 59.147 37.500 13.24 12.77 0.00 6.13
1598 2320 5.978593 ACACGAAATTTAAATAAACGGCG 57.021 34.783 4.80 4.80 0.00 6.46
1599 2321 8.213546 TGTAACACGAAATTTAAATAAACGGC 57.786 30.769 18.48 9.02 0.00 5.68
1611 2333 8.599774 CAAAACCAGAAAATGTAACACGAAATT 58.400 29.630 0.00 0.00 0.00 1.82
1618 2340 7.070074 ACCATACCAAAACCAGAAAATGTAACA 59.930 33.333 0.00 0.00 0.00 2.41
1619 2341 7.438564 ACCATACCAAAACCAGAAAATGTAAC 58.561 34.615 0.00 0.00 0.00 2.50
1620 2342 7.604657 ACCATACCAAAACCAGAAAATGTAA 57.395 32.000 0.00 0.00 0.00 2.41
1621 2343 7.604657 AACCATACCAAAACCAGAAAATGTA 57.395 32.000 0.00 0.00 0.00 2.29
1622 2344 6.493189 AACCATACCAAAACCAGAAAATGT 57.507 33.333 0.00 0.00 0.00 2.71
1623 2345 6.765512 ACAAACCATACCAAAACCAGAAAATG 59.234 34.615 0.00 0.00 0.00 2.32
1624 2346 6.894682 ACAAACCATACCAAAACCAGAAAAT 58.105 32.000 0.00 0.00 0.00 1.82
1625 2347 6.155393 AGACAAACCATACCAAAACCAGAAAA 59.845 34.615 0.00 0.00 0.00 2.29
1626 2348 5.659079 AGACAAACCATACCAAAACCAGAAA 59.341 36.000 0.00 0.00 0.00 2.52
1627 2349 5.205056 AGACAAACCATACCAAAACCAGAA 58.795 37.500 0.00 0.00 0.00 3.02
1641 2363 4.688413 GCACTGAAAAACAAAGACAAACCA 59.312 37.500 0.00 0.00 0.00 3.67
1725 2451 4.471386 AGACATAACAACCCAGTATCTGCT 59.529 41.667 0.00 0.00 0.00 4.24
1835 2561 3.790177 GTTGGGCATACCGACGTC 58.210 61.111 5.18 5.18 43.64 4.34
1845 2571 4.069232 CTCTCGCTCGGTTGGGCA 62.069 66.667 0.00 0.00 0.00 5.36
1851 2577 2.282251 TGTGGACTCTCGCTCGGT 60.282 61.111 0.00 0.00 0.00 4.69
2014 2747 9.606631 AAATGTGAAGTCTAGATCATCCTTTAC 57.393 33.333 0.00 2.11 0.00 2.01
2016 2749 8.324306 TGAAATGTGAAGTCTAGATCATCCTTT 58.676 33.333 0.00 0.00 0.00 3.11
2023 2756 8.715191 ATCAAGTGAAATGTGAAGTCTAGATC 57.285 34.615 0.00 0.00 0.00 2.75
2132 2865 6.497624 AAGCATCTTTCATCTCTATCTGGT 57.502 37.500 0.00 0.00 0.00 4.00
2238 2971 2.773487 TCGTCCATTCGGTCATGTTTT 58.227 42.857 0.00 0.00 0.00 2.43
2361 3097 6.234177 ACTTCAAGCTCTACAAATGTTAGCT 58.766 36.000 14.02 14.02 43.48 3.32
2371 3107 9.803315 CATACTAACATTACTTCAAGCTCTACA 57.197 33.333 0.00 0.00 0.00 2.74
2386 3122 8.847196 TCTTCAGCTACGTATCATACTAACATT 58.153 33.333 0.00 0.00 0.00 2.71


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

AutoCloner maintained by Alex Coulton.