Multiple sequence alignment - TraesCS7A01G085200

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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 TraesCS7A01G085200 chr7A 100.000 2635 0 0 1 2635 49821103 49823737 0.000000e+00 4867
1 TraesCS7A01G085200 chr5A 97.518 2377 49 6 264 2635 562122996 562120625 0.000000e+00 4054
2 TraesCS7A01G085200 chr5A 96.871 2333 55 3 321 2635 687969715 687972047 0.000000e+00 3888
3 TraesCS7A01G085200 chr5A 90.074 2428 148 33 264 2633 310018143 310020535 0.000000e+00 3062
4 TraesCS7A01G085200 chr6A 97.275 2312 55 3 325 2635 553572477 553570173 0.000000e+00 3914
5 TraesCS7A01G085200 chr6A 95.486 2193 86 7 321 2505 577152213 577154400 0.000000e+00 3489
6 TraesCS7A01G085200 chr6A 93.436 259 13 2 1 256 587392099 587392356 5.320000e-102 381
7 TraesCS7A01G085200 chr1A 96.307 2383 73 4 264 2635 16224985 16227363 0.000000e+00 3899
8 TraesCS7A01G085200 chr1A 96.922 1917 58 1 719 2634 16218850 16220766 0.000000e+00 3212
9 TraesCS7A01G085200 chr1A 93.436 259 14 1 1 256 212153778 212153520 5.320000e-102 381
10 TraesCS7A01G085200 chr3B 94.735 2260 78 15 264 2505 823895753 823893517 0.000000e+00 3476
11 TraesCS7A01G085200 chr2A 97.487 1870 46 1 767 2635 5148332 5150201 0.000000e+00 3192
12 TraesCS7A01G085200 chr2A 94.595 259 10 2 1 256 714801458 714801201 5.280000e-107 398
13 TraesCS7A01G085200 chr4A 97.059 1870 53 2 767 2635 499660 497792 0.000000e+00 3147
14 TraesCS7A01G085200 chr4A 97.059 1870 54 1 767 2635 238128279 238126410 0.000000e+00 3147
15 TraesCS7A01G085200 chr4A 93.050 259 12 3 1 256 551493026 551492771 8.910000e-100 374
16 TraesCS7A01G085200 chr7B 92.403 1448 76 13 264 1691 268650997 268652430 0.000000e+00 2034
17 TraesCS7A01G085200 chr2D 95.367 259 9 1 1 256 646016266 646016008 2.440000e-110 409
18 TraesCS7A01G085200 chr7D 94.961 258 11 1 1 256 129955328 129955071 1.140000e-108 403
19 TraesCS7A01G085200 chr5D 94.595 259 11 1 1 256 25528284 25528542 5.280000e-107 398
20 TraesCS7A01G085200 chr4D 94.141 256 15 0 1 256 295218354 295218099 8.840000e-105 390
21 TraesCS7A01G085200 chr4B 93.436 259 14 1 1 256 144287878 144288136 5.320000e-102 381


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 TraesCS7A01G085200 chr7A 49821103 49823737 2634 False 4867 4867 100.000 1 2635 1 chr7A.!!$F1 2634
1 TraesCS7A01G085200 chr5A 562120625 562122996 2371 True 4054 4054 97.518 264 2635 1 chr5A.!!$R1 2371
2 TraesCS7A01G085200 chr5A 687969715 687972047 2332 False 3888 3888 96.871 321 2635 1 chr5A.!!$F2 2314
3 TraesCS7A01G085200 chr5A 310018143 310020535 2392 False 3062 3062 90.074 264 2633 1 chr5A.!!$F1 2369
4 TraesCS7A01G085200 chr6A 553570173 553572477 2304 True 3914 3914 97.275 325 2635 1 chr6A.!!$R1 2310
5 TraesCS7A01G085200 chr6A 577152213 577154400 2187 False 3489 3489 95.486 321 2505 1 chr6A.!!$F1 2184
6 TraesCS7A01G085200 chr1A 16224985 16227363 2378 False 3899 3899 96.307 264 2635 1 chr1A.!!$F2 2371
7 TraesCS7A01G085200 chr1A 16218850 16220766 1916 False 3212 3212 96.922 719 2634 1 chr1A.!!$F1 1915
8 TraesCS7A01G085200 chr3B 823893517 823895753 2236 True 3476 3476 94.735 264 2505 1 chr3B.!!$R1 2241
9 TraesCS7A01G085200 chr2A 5148332 5150201 1869 False 3192 3192 97.487 767 2635 1 chr2A.!!$F1 1868
10 TraesCS7A01G085200 chr4A 497792 499660 1868 True 3147 3147 97.059 767 2635 1 chr4A.!!$R1 1868
11 TraesCS7A01G085200 chr4A 238126410 238128279 1869 True 3147 3147 97.059 767 2635 1 chr4A.!!$R2 1868
12 TraesCS7A01G085200 chr7B 268650997 268652430 1433 False 2034 2034 92.403 264 1691 1 chr7B.!!$F1 1427

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
243 244 0.036105 CTCTGCTGTACCACCATGCA 60.036 55.0 0.0 0.0 0.0 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2085 2151 4.081752 AGACCAAACAAAACAGCAACATGA 60.082 37.5 0.0 0.0 0.0 3.07 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 3.725754 AAGCTGTCGTTGGTGGAAT 57.274 47.368 0.00 0.00 0.00 3.01
19 20 1.981256 AAGCTGTCGTTGGTGGAATT 58.019 45.000 0.00 0.00 0.00 2.17
20 21 1.523758 AGCTGTCGTTGGTGGAATTC 58.476 50.000 0.00 0.00 0.00 2.17
21 22 1.072331 AGCTGTCGTTGGTGGAATTCT 59.928 47.619 5.23 0.00 0.00 2.40
22 23 1.197721 GCTGTCGTTGGTGGAATTCTG 59.802 52.381 5.23 0.00 0.00 3.02
23 24 2.766313 CTGTCGTTGGTGGAATTCTGA 58.234 47.619 5.23 0.00 0.00 3.27
24 25 3.138304 CTGTCGTTGGTGGAATTCTGAA 58.862 45.455 5.23 0.00 0.00 3.02
25 26 3.750371 TGTCGTTGGTGGAATTCTGAAT 58.250 40.909 5.23 0.00 0.00 2.57
26 27 4.900684 TGTCGTTGGTGGAATTCTGAATA 58.099 39.130 5.23 0.00 0.00 1.75
27 28 5.496556 TGTCGTTGGTGGAATTCTGAATAT 58.503 37.500 5.23 0.00 0.00 1.28
28 29 6.645306 TGTCGTTGGTGGAATTCTGAATATA 58.355 36.000 5.23 0.00 0.00 0.86
29 30 7.279615 TGTCGTTGGTGGAATTCTGAATATAT 58.720 34.615 5.23 0.00 0.00 0.86
30 31 8.425703 TGTCGTTGGTGGAATTCTGAATATATA 58.574 33.333 5.23 0.00 0.00 0.86
31 32 8.709646 GTCGTTGGTGGAATTCTGAATATATAC 58.290 37.037 5.23 1.68 0.00 1.47
32 33 8.647796 TCGTTGGTGGAATTCTGAATATATACT 58.352 33.333 5.23 0.00 0.00 2.12
33 34 8.712363 CGTTGGTGGAATTCTGAATATATACTG 58.288 37.037 5.23 0.00 0.00 2.74
34 35 9.778741 GTTGGTGGAATTCTGAATATATACTGA 57.221 33.333 5.23 0.00 0.00 3.41
78 79 7.768807 ACTCTGTTCTAAAGAGATGTGTACT 57.231 36.000 7.42 0.00 43.27 2.73
79 80 7.598278 ACTCTGTTCTAAAGAGATGTGTACTG 58.402 38.462 7.42 0.00 43.27 2.74
80 81 7.448777 ACTCTGTTCTAAAGAGATGTGTACTGA 59.551 37.037 7.42 0.00 43.27 3.41
81 82 8.178313 TCTGTTCTAAAGAGATGTGTACTGAA 57.822 34.615 0.00 0.00 0.00 3.02
82 83 8.082852 TCTGTTCTAAAGAGATGTGTACTGAAC 58.917 37.037 0.00 0.00 0.00 3.18
83 84 7.952671 TGTTCTAAAGAGATGTGTACTGAACT 58.047 34.615 0.00 0.00 33.51 3.01
84 85 7.867909 TGTTCTAAAGAGATGTGTACTGAACTG 59.132 37.037 0.00 0.00 33.51 3.16
85 86 7.761038 TCTAAAGAGATGTGTACTGAACTGA 57.239 36.000 0.00 0.00 0.00 3.41
86 87 8.178313 TCTAAAGAGATGTGTACTGAACTGAA 57.822 34.615 0.00 0.00 0.00 3.02
87 88 8.300286 TCTAAAGAGATGTGTACTGAACTGAAG 58.700 37.037 0.00 0.00 0.00 3.02
88 89 6.656632 AAGAGATGTGTACTGAACTGAAGA 57.343 37.500 0.00 0.00 0.00 2.87
89 90 6.849085 AGAGATGTGTACTGAACTGAAGAT 57.151 37.500 0.00 0.00 0.00 2.40
90 91 7.238486 AGAGATGTGTACTGAACTGAAGATT 57.762 36.000 0.00 0.00 0.00 2.40
91 92 7.095910 AGAGATGTGTACTGAACTGAAGATTG 58.904 38.462 0.00 0.00 0.00 2.67
92 93 6.763355 AGATGTGTACTGAACTGAAGATTGT 58.237 36.000 0.00 0.00 0.00 2.71
93 94 7.896811 AGATGTGTACTGAACTGAAGATTGTA 58.103 34.615 0.00 0.00 0.00 2.41
94 95 8.031864 AGATGTGTACTGAACTGAAGATTGTAG 58.968 37.037 0.00 0.00 0.00 2.74
95 96 6.455647 TGTGTACTGAACTGAAGATTGTAGG 58.544 40.000 0.00 0.00 0.00 3.18
96 97 5.348997 GTGTACTGAACTGAAGATTGTAGGC 59.651 44.000 0.00 0.00 0.00 3.93
97 98 4.623932 ACTGAACTGAAGATTGTAGGCA 57.376 40.909 0.00 0.00 0.00 4.75
98 99 5.171339 ACTGAACTGAAGATTGTAGGCAT 57.829 39.130 0.00 0.00 0.00 4.40
99 100 5.564550 ACTGAACTGAAGATTGTAGGCATT 58.435 37.500 0.00 0.00 0.00 3.56
100 101 5.413833 ACTGAACTGAAGATTGTAGGCATTG 59.586 40.000 0.00 0.00 0.00 2.82
101 102 5.559770 TGAACTGAAGATTGTAGGCATTGA 58.440 37.500 0.00 0.00 0.00 2.57
102 103 6.182627 TGAACTGAAGATTGTAGGCATTGAT 58.817 36.000 0.00 0.00 0.00 2.57
103 104 6.094464 TGAACTGAAGATTGTAGGCATTGATG 59.906 38.462 0.00 0.00 0.00 3.07
104 105 5.503927 ACTGAAGATTGTAGGCATTGATGT 58.496 37.500 0.00 0.00 0.00 3.06
105 106 6.653020 ACTGAAGATTGTAGGCATTGATGTA 58.347 36.000 0.00 0.00 0.00 2.29
106 107 7.285566 ACTGAAGATTGTAGGCATTGATGTAT 58.714 34.615 0.00 0.00 0.00 2.29
107 108 8.432013 ACTGAAGATTGTAGGCATTGATGTATA 58.568 33.333 0.00 0.00 0.00 1.47
108 109 8.607441 TGAAGATTGTAGGCATTGATGTATAC 57.393 34.615 0.00 0.00 0.00 1.47
109 110 8.432013 TGAAGATTGTAGGCATTGATGTATACT 58.568 33.333 4.17 0.00 0.00 2.12
110 111 9.277783 GAAGATTGTAGGCATTGATGTATACTT 57.722 33.333 4.17 0.00 0.00 2.24
111 112 9.632638 AAGATTGTAGGCATTGATGTATACTTT 57.367 29.630 4.17 0.00 0.00 2.66
112 113 9.060347 AGATTGTAGGCATTGATGTATACTTTG 57.940 33.333 4.17 0.00 0.00 2.77
113 114 8.752005 ATTGTAGGCATTGATGTATACTTTGT 57.248 30.769 4.17 0.00 0.00 2.83
114 115 7.786178 TGTAGGCATTGATGTATACTTTGTC 57.214 36.000 4.17 0.00 0.00 3.18
115 116 7.564793 TGTAGGCATTGATGTATACTTTGTCT 58.435 34.615 4.17 3.29 0.00 3.41
116 117 8.046708 TGTAGGCATTGATGTATACTTTGTCTT 58.953 33.333 4.17 0.00 0.00 3.01
117 118 7.944729 AGGCATTGATGTATACTTTGTCTTT 57.055 32.000 4.17 0.00 0.00 2.52
118 119 7.765307 AGGCATTGATGTATACTTTGTCTTTG 58.235 34.615 4.17 2.09 0.00 2.77
119 120 6.473455 GGCATTGATGTATACTTTGTCTTTGC 59.527 38.462 4.17 9.55 0.00 3.68
120 121 6.473455 GCATTGATGTATACTTTGTCTTTGCC 59.527 38.462 4.17 0.00 0.00 4.52
121 122 7.629222 GCATTGATGTATACTTTGTCTTTGCCT 60.629 37.037 4.17 0.00 0.00 4.75
122 123 7.759489 TTGATGTATACTTTGTCTTTGCCTT 57.241 32.000 4.17 0.00 0.00 4.35
123 124 7.759489 TGATGTATACTTTGTCTTTGCCTTT 57.241 32.000 4.17 0.00 0.00 3.11
124 125 7.592938 TGATGTATACTTTGTCTTTGCCTTTG 58.407 34.615 4.17 0.00 0.00 2.77
125 126 6.952773 TGTATACTTTGTCTTTGCCTTTGT 57.047 33.333 4.17 0.00 0.00 2.83
126 127 6.734137 TGTATACTTTGTCTTTGCCTTTGTG 58.266 36.000 4.17 0.00 0.00 3.33
127 128 2.892374 ACTTTGTCTTTGCCTTTGTGC 58.108 42.857 0.00 0.00 0.00 4.57
128 129 2.497273 ACTTTGTCTTTGCCTTTGTGCT 59.503 40.909 0.00 0.00 0.00 4.40
129 130 2.869233 TTGTCTTTGCCTTTGTGCTC 57.131 45.000 0.00 0.00 0.00 4.26
130 131 2.057137 TGTCTTTGCCTTTGTGCTCT 57.943 45.000 0.00 0.00 0.00 4.09
131 132 1.677576 TGTCTTTGCCTTTGTGCTCTG 59.322 47.619 0.00 0.00 0.00 3.35
132 133 0.670162 TCTTTGCCTTTGTGCTCTGC 59.330 50.000 0.00 0.00 0.00 4.26
133 134 0.672342 CTTTGCCTTTGTGCTCTGCT 59.328 50.000 0.00 0.00 0.00 4.24
134 135 0.670162 TTTGCCTTTGTGCTCTGCTC 59.330 50.000 0.00 0.00 0.00 4.26
135 136 1.509644 TTGCCTTTGTGCTCTGCTCG 61.510 55.000 0.00 0.00 0.00 5.03
136 137 1.669115 GCCTTTGTGCTCTGCTCGA 60.669 57.895 0.00 0.00 0.00 4.04
137 138 1.230635 GCCTTTGTGCTCTGCTCGAA 61.231 55.000 0.00 0.00 0.00 3.71
138 139 0.514691 CCTTTGTGCTCTGCTCGAAC 59.485 55.000 0.00 0.00 0.00 3.95
139 140 0.514691 CTTTGTGCTCTGCTCGAACC 59.485 55.000 0.00 0.00 0.00 3.62
140 141 0.106708 TTTGTGCTCTGCTCGAACCT 59.893 50.000 0.00 0.00 0.00 3.50
141 142 0.601046 TTGTGCTCTGCTCGAACCTG 60.601 55.000 0.00 0.00 0.00 4.00
142 143 1.739562 GTGCTCTGCTCGAACCTGG 60.740 63.158 0.00 0.00 0.00 4.45
143 144 2.817396 GCTCTGCTCGAACCTGGC 60.817 66.667 0.00 0.00 0.00 4.85
144 145 2.125350 CTCTGCTCGAACCTGGCC 60.125 66.667 0.00 0.00 0.00 5.36
145 146 2.922503 TCTGCTCGAACCTGGCCA 60.923 61.111 4.71 4.71 0.00 5.36
146 147 2.032528 CTGCTCGAACCTGGCCAA 59.967 61.111 7.01 0.00 0.00 4.52
147 148 1.377725 CTGCTCGAACCTGGCCAAT 60.378 57.895 7.01 0.00 0.00 3.16
148 149 0.962356 CTGCTCGAACCTGGCCAATT 60.962 55.000 7.01 3.82 0.00 2.32
149 150 0.539438 TGCTCGAACCTGGCCAATTT 60.539 50.000 7.01 1.76 0.00 1.82
150 151 0.109132 GCTCGAACCTGGCCAATTTG 60.109 55.000 7.01 8.63 0.00 2.32
151 152 0.527565 CTCGAACCTGGCCAATTTGG 59.472 55.000 7.01 11.27 41.55 3.28
152 153 0.178975 TCGAACCTGGCCAATTTGGT 60.179 50.000 16.62 7.92 40.46 3.67
153 154 0.678950 CGAACCTGGCCAATTTGGTT 59.321 50.000 23.34 23.34 44.43 3.67
154 155 1.605202 CGAACCTGGCCAATTTGGTTG 60.605 52.381 26.98 16.72 42.15 3.77
155 156 1.691434 GAACCTGGCCAATTTGGTTGA 59.309 47.619 26.98 0.84 42.15 3.18
156 157 1.799933 ACCTGGCCAATTTGGTTGAA 58.200 45.000 16.62 0.22 40.46 2.69
157 158 2.337849 ACCTGGCCAATTTGGTTGAAT 58.662 42.857 16.62 0.00 40.46 2.57
158 159 2.710471 ACCTGGCCAATTTGGTTGAATT 59.290 40.909 16.62 0.00 40.46 2.17
159 160 3.075884 CCTGGCCAATTTGGTTGAATTG 58.924 45.455 16.62 3.91 43.39 2.32
160 161 3.496515 CCTGGCCAATTTGGTTGAATTGT 60.497 43.478 16.62 0.00 42.63 2.71
161 162 3.737850 TGGCCAATTTGGTTGAATTGTC 58.262 40.909 16.62 0.00 42.63 3.18
162 163 3.390639 TGGCCAATTTGGTTGAATTGTCT 59.609 39.130 16.62 0.00 42.63 3.41
163 164 3.996363 GGCCAATTTGGTTGAATTGTCTC 59.004 43.478 16.62 0.00 42.63 3.36
164 165 4.262592 GGCCAATTTGGTTGAATTGTCTCT 60.263 41.667 16.62 0.00 42.63 3.10
165 166 4.687483 GCCAATTTGGTTGAATTGTCTCTG 59.313 41.667 16.62 0.00 42.63 3.35
166 167 5.232463 CCAATTTGGTTGAATTGTCTCTGG 58.768 41.667 7.31 0.00 42.63 3.86
167 168 5.232463 CAATTTGGTTGAATTGTCTCTGGG 58.768 41.667 2.94 0.00 40.46 4.45
168 169 2.584835 TGGTTGAATTGTCTCTGGGG 57.415 50.000 0.00 0.00 0.00 4.96
169 170 1.177401 GGTTGAATTGTCTCTGGGGC 58.823 55.000 0.00 0.00 0.00 5.80
170 171 1.177401 GTTGAATTGTCTCTGGGGCC 58.823 55.000 0.00 0.00 0.00 5.80
171 172 1.075601 TTGAATTGTCTCTGGGGCCT 58.924 50.000 0.84 0.00 0.00 5.19
172 173 0.329261 TGAATTGTCTCTGGGGCCTG 59.671 55.000 0.84 0.00 0.00 4.85
173 174 0.329596 GAATTGTCTCTGGGGCCTGT 59.670 55.000 0.84 0.00 0.00 4.00
174 175 1.559682 GAATTGTCTCTGGGGCCTGTA 59.440 52.381 0.84 0.00 0.00 2.74
175 176 0.912486 ATTGTCTCTGGGGCCTGTAC 59.088 55.000 0.84 1.56 0.00 2.90
176 177 0.472925 TTGTCTCTGGGGCCTGTACA 60.473 55.000 0.84 0.00 0.00 2.90
177 178 0.252696 TGTCTCTGGGGCCTGTACAT 60.253 55.000 0.84 0.00 0.00 2.29
178 179 0.179000 GTCTCTGGGGCCTGTACATG 59.821 60.000 0.84 0.00 0.00 3.21
179 180 0.982852 TCTCTGGGGCCTGTACATGG 60.983 60.000 0.84 1.26 0.00 3.66
180 181 1.229820 TCTGGGGCCTGTACATGGT 60.230 57.895 0.84 0.00 0.00 3.55
181 182 1.224592 CTGGGGCCTGTACATGGTC 59.775 63.158 0.84 1.47 0.00 4.02
182 183 1.540118 TGGGGCCTGTACATGGTCA 60.540 57.895 15.04 8.30 0.00 4.02
183 184 0.918799 TGGGGCCTGTACATGGTCAT 60.919 55.000 15.04 0.00 0.00 3.06
184 185 0.466189 GGGGCCTGTACATGGTCATG 60.466 60.000 15.04 9.19 44.15 3.07
197 198 3.912496 TGGTCATGTGATCCAAGTAGG 57.088 47.619 0.00 0.00 39.47 3.18
198 199 2.505407 TGGTCATGTGATCCAAGTAGGG 59.495 50.000 0.00 0.00 38.24 3.53
199 200 2.565841 GTCATGTGATCCAAGTAGGGC 58.434 52.381 0.00 0.00 38.24 5.19
200 201 2.171448 GTCATGTGATCCAAGTAGGGCT 59.829 50.000 0.00 0.00 38.24 5.19
201 202 3.388024 GTCATGTGATCCAAGTAGGGCTA 59.612 47.826 0.00 0.00 38.24 3.93
202 203 4.037222 TCATGTGATCCAAGTAGGGCTAA 58.963 43.478 0.00 0.00 38.24 3.09
203 204 4.473196 TCATGTGATCCAAGTAGGGCTAAA 59.527 41.667 0.00 0.00 38.24 1.85
204 205 4.216411 TGTGATCCAAGTAGGGCTAAAC 57.784 45.455 0.00 0.00 38.24 2.01
205 206 3.195661 GTGATCCAAGTAGGGCTAAACG 58.804 50.000 0.00 0.00 38.24 3.60
206 207 2.835764 TGATCCAAGTAGGGCTAAACGT 59.164 45.455 0.00 0.00 38.24 3.99
207 208 2.754946 TCCAAGTAGGGCTAAACGTG 57.245 50.000 0.00 0.00 38.24 4.49
208 209 1.972795 TCCAAGTAGGGCTAAACGTGT 59.027 47.619 0.00 0.00 38.24 4.49
209 210 2.369532 TCCAAGTAGGGCTAAACGTGTT 59.630 45.455 0.00 0.00 38.24 3.32
210 211 2.482721 CCAAGTAGGGCTAAACGTGTTG 59.517 50.000 0.00 0.00 0.00 3.33
211 212 3.395639 CAAGTAGGGCTAAACGTGTTGA 58.604 45.455 0.00 0.00 0.00 3.18
212 213 3.975168 AGTAGGGCTAAACGTGTTGAT 57.025 42.857 0.00 0.00 0.00 2.57
213 214 3.596214 AGTAGGGCTAAACGTGTTGATG 58.404 45.455 0.00 0.00 0.00 3.07
214 215 1.165270 AGGGCTAAACGTGTTGATGC 58.835 50.000 0.00 0.00 0.00 3.91
215 216 1.165270 GGGCTAAACGTGTTGATGCT 58.835 50.000 0.00 0.00 0.00 3.79
216 217 2.027561 AGGGCTAAACGTGTTGATGCTA 60.028 45.455 0.00 0.00 0.00 3.49
217 218 2.095372 GGGCTAAACGTGTTGATGCTAC 59.905 50.000 0.00 0.00 0.00 3.58
218 219 3.000727 GGCTAAACGTGTTGATGCTACT 58.999 45.455 0.00 0.00 0.00 2.57
219 220 3.181520 GGCTAAACGTGTTGATGCTACTG 60.182 47.826 0.00 0.00 0.00 2.74
220 221 3.678072 GCTAAACGTGTTGATGCTACTGA 59.322 43.478 0.00 0.00 0.00 3.41
221 222 4.434330 GCTAAACGTGTTGATGCTACTGAC 60.434 45.833 0.00 0.00 0.00 3.51
222 223 2.080286 ACGTGTTGATGCTACTGACC 57.920 50.000 0.00 0.00 0.00 4.02
223 224 1.618837 ACGTGTTGATGCTACTGACCT 59.381 47.619 0.00 0.00 0.00 3.85
224 225 2.263077 CGTGTTGATGCTACTGACCTC 58.737 52.381 0.00 0.00 0.00 3.85
225 226 2.094494 CGTGTTGATGCTACTGACCTCT 60.094 50.000 0.00 0.00 0.00 3.69
226 227 3.516615 GTGTTGATGCTACTGACCTCTC 58.483 50.000 0.00 0.00 0.00 3.20
227 228 3.194542 GTGTTGATGCTACTGACCTCTCT 59.805 47.826 0.00 0.00 0.00 3.10
228 229 3.194329 TGTTGATGCTACTGACCTCTCTG 59.806 47.826 0.00 0.00 0.00 3.35
229 230 1.753649 TGATGCTACTGACCTCTCTGC 59.246 52.381 0.00 0.00 0.00 4.26
230 231 2.031120 GATGCTACTGACCTCTCTGCT 58.969 52.381 0.00 0.00 0.00 4.24
231 232 1.180907 TGCTACTGACCTCTCTGCTG 58.819 55.000 0.00 0.00 0.00 4.41
232 233 1.181786 GCTACTGACCTCTCTGCTGT 58.818 55.000 0.00 0.00 0.00 4.40
233 234 2.290960 TGCTACTGACCTCTCTGCTGTA 60.291 50.000 0.00 0.00 0.00 2.74
234 235 2.098443 GCTACTGACCTCTCTGCTGTAC 59.902 54.545 0.00 0.00 0.00 2.90
235 236 1.551452 ACTGACCTCTCTGCTGTACC 58.449 55.000 0.00 0.00 0.00 3.34
236 237 1.203063 ACTGACCTCTCTGCTGTACCA 60.203 52.381 0.00 0.00 0.00 3.25
237 238 1.203523 CTGACCTCTCTGCTGTACCAC 59.796 57.143 0.00 0.00 0.00 4.16
238 239 0.533032 GACCTCTCTGCTGTACCACC 59.467 60.000 0.00 0.00 0.00 4.61
239 240 0.178932 ACCTCTCTGCTGTACCACCA 60.179 55.000 0.00 0.00 0.00 4.17
240 241 1.198713 CCTCTCTGCTGTACCACCAT 58.801 55.000 0.00 0.00 0.00 3.55
241 242 1.134580 CCTCTCTGCTGTACCACCATG 60.135 57.143 0.00 0.00 0.00 3.66
242 243 0.250234 TCTCTGCTGTACCACCATGC 59.750 55.000 0.00 0.00 0.00 4.06
243 244 0.036105 CTCTGCTGTACCACCATGCA 60.036 55.000 0.00 0.00 0.00 3.96
244 245 0.620030 TCTGCTGTACCACCATGCAT 59.380 50.000 0.00 0.00 33.02 3.96
245 246 1.004628 TCTGCTGTACCACCATGCATT 59.995 47.619 0.00 0.00 33.02 3.56
246 247 1.133598 CTGCTGTACCACCATGCATTG 59.866 52.381 0.00 0.00 33.02 2.82
247 248 0.179129 GCTGTACCACCATGCATTGC 60.179 55.000 0.00 0.46 0.00 3.56
248 249 0.457035 CTGTACCACCATGCATTGCC 59.543 55.000 6.12 0.00 0.00 4.52
249 250 1.311651 TGTACCACCATGCATTGCCG 61.312 55.000 6.12 0.00 0.00 5.69
250 251 1.001517 TACCACCATGCATTGCCGT 60.002 52.632 6.12 0.00 0.00 5.68
251 252 0.610509 TACCACCATGCATTGCCGTT 60.611 50.000 6.12 0.00 0.00 4.44
252 253 1.446445 CCACCATGCATTGCCGTTG 60.446 57.895 6.12 1.50 0.00 4.10
253 254 2.095847 CACCATGCATTGCCGTTGC 61.096 57.895 6.12 0.00 40.55 4.17
254 255 2.277591 ACCATGCATTGCCGTTGCT 61.278 52.632 6.12 0.00 40.77 3.91
255 256 1.079681 CCATGCATTGCCGTTGCTT 60.080 52.632 6.12 0.00 40.77 3.91
256 257 1.355796 CCATGCATTGCCGTTGCTTG 61.356 55.000 6.12 9.94 42.03 4.01
257 258 0.668096 CATGCATTGCCGTTGCTTGT 60.668 50.000 6.12 0.00 40.77 3.16
258 259 0.887247 ATGCATTGCCGTTGCTTGTA 59.113 45.000 6.12 0.00 40.77 2.41
259 260 0.887247 TGCATTGCCGTTGCTTGTAT 59.113 45.000 6.12 0.00 40.77 2.29
260 261 2.087646 TGCATTGCCGTTGCTTGTATA 58.912 42.857 6.12 0.00 40.77 1.47
261 262 2.687425 TGCATTGCCGTTGCTTGTATAT 59.313 40.909 6.12 0.00 40.77 0.86
262 263 3.879892 TGCATTGCCGTTGCTTGTATATA 59.120 39.130 6.12 0.00 40.77 0.86
353 378 7.790027 TGCTACTACTACTACTACTACTGCTT 58.210 38.462 0.00 0.00 0.00 3.91
458 483 3.795623 ATGGAGTTGAATTGCAGCATC 57.204 42.857 0.00 0.00 0.00 3.91
532 557 3.639561 TCACGCCCAAGATTAGTATGCTA 59.360 43.478 0.00 0.00 0.00 3.49
587 612 1.302192 GTTACCCAACGAGCAGCCA 60.302 57.895 0.00 0.00 0.00 4.75
865 917 7.362401 GCTCATGTTGTTAGACAGGATTTTCAT 60.362 37.037 0.00 0.00 39.31 2.57
881 933 1.002069 TCATTTCCTGCCATCCCAGT 58.998 50.000 0.00 0.00 0.00 4.00
929 981 2.501223 TACACGGCAGTAGCACCAGC 62.501 60.000 0.00 0.00 44.61 4.85
1029 1081 0.403655 TCACCTTGGGCATGCTTGTA 59.596 50.000 18.92 0.00 0.00 2.41
1190 1251 3.901844 GCCCCATTGATGTCCTACTACTA 59.098 47.826 0.00 0.00 0.00 1.82
1214 1275 9.772973 CTATTAATTGTTACTACCATGGTGCTA 57.227 33.333 28.17 13.01 0.00 3.49
1298 1359 7.653713 CACTTCTAGCTTTTCTGACTCAAAGTA 59.346 37.037 0.00 0.00 33.27 2.24
1361 1422 5.744345 CAGAGAGTATTTACTACTGCCAACG 59.256 44.000 9.72 0.00 40.88 4.10
1385 1446 5.220912 GCAGAGATTTTGTATGCATGCTACA 60.221 40.000 20.33 19.85 36.88 2.74
1459 1521 5.684184 CGGTTTGAATATTGCATGACATGAG 59.316 40.000 19.76 0.00 0.00 2.90
1498 1560 8.573035 AGTGTTTTTCTCAACTTGTTTTCACTA 58.427 29.630 0.00 0.00 0.00 2.74
1693 1759 7.745620 TGCTAACTCAATCTAGATCATCGTA 57.254 36.000 5.51 0.00 0.00 3.43
1806 1872 5.748402 AGATCTTGCCAGTTGAATGTATGA 58.252 37.500 0.00 0.00 0.00 2.15
2037 2103 7.448161 TGGTCTGTTCATAATATATTTGCCCTG 59.552 37.037 2.68 0.00 0.00 4.45
2070 2136 9.159364 CTCATTCTTCTCTGATTCATGTAACAA 57.841 33.333 0.00 0.00 0.00 2.83
2085 2151 7.389232 TCATGTAACAAGATGACAGATGAAGT 58.611 34.615 0.00 0.00 0.00 3.01
2123 2189 1.007118 TGGTCTCAGCCCTGACTATCA 59.993 52.381 0.00 0.00 35.46 2.15
2190 2256 3.426292 GCCCTGACTATCGAAGTTTTTGC 60.426 47.826 0.00 0.00 39.07 3.68
2339 2422 8.678199 CGGATAGAGCTTGTATTATGTGATCTA 58.322 37.037 0.00 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.880027 GAATTCCACCAACGACAGCTT 59.120 47.619 0.00 0.00 0.00 3.74
2 3 1.197721 CAGAATTCCACCAACGACAGC 59.802 52.381 0.65 0.00 0.00 4.40
3 4 2.766313 TCAGAATTCCACCAACGACAG 58.234 47.619 0.65 0.00 0.00 3.51
7 8 8.712363 CAGTATATATTCAGAATTCCACCAACG 58.288 37.037 0.00 0.00 0.00 4.10
8 9 9.778741 TCAGTATATATTCAGAATTCCACCAAC 57.221 33.333 0.00 0.00 0.00 3.77
52 53 9.298250 AGTACACATCTCTTTAGAACAGAGTAA 57.702 33.333 0.00 0.00 39.18 2.24
53 54 8.731605 CAGTACACATCTCTTTAGAACAGAGTA 58.268 37.037 0.00 0.00 39.18 2.59
54 55 7.448777 TCAGTACACATCTCTTTAGAACAGAGT 59.551 37.037 0.00 0.00 39.18 3.24
55 56 7.821652 TCAGTACACATCTCTTTAGAACAGAG 58.178 38.462 0.00 0.00 39.45 3.35
56 57 7.761038 TCAGTACACATCTCTTTAGAACAGA 57.239 36.000 0.00 0.00 34.73 3.41
57 58 8.085296 AGTTCAGTACACATCTCTTTAGAACAG 58.915 37.037 0.00 0.00 34.73 3.16
58 59 7.867909 CAGTTCAGTACACATCTCTTTAGAACA 59.132 37.037 0.00 0.00 34.73 3.18
59 60 8.082852 TCAGTTCAGTACACATCTCTTTAGAAC 58.917 37.037 0.00 0.00 34.73 3.01
60 61 8.178313 TCAGTTCAGTACACATCTCTTTAGAA 57.822 34.615 0.00 0.00 34.73 2.10
61 62 7.761038 TCAGTTCAGTACACATCTCTTTAGA 57.239 36.000 0.00 0.00 35.80 2.10
62 63 8.300286 TCTTCAGTTCAGTACACATCTCTTTAG 58.700 37.037 0.00 0.00 0.00 1.85
63 64 8.178313 TCTTCAGTTCAGTACACATCTCTTTA 57.822 34.615 0.00 0.00 0.00 1.85
64 65 7.055667 TCTTCAGTTCAGTACACATCTCTTT 57.944 36.000 0.00 0.00 0.00 2.52
65 66 6.656632 TCTTCAGTTCAGTACACATCTCTT 57.343 37.500 0.00 0.00 0.00 2.85
66 67 6.849085 ATCTTCAGTTCAGTACACATCTCT 57.151 37.500 0.00 0.00 0.00 3.10
67 68 6.870965 ACAATCTTCAGTTCAGTACACATCTC 59.129 38.462 0.00 0.00 0.00 2.75
68 69 6.763355 ACAATCTTCAGTTCAGTACACATCT 58.237 36.000 0.00 0.00 0.00 2.90
69 70 7.276658 CCTACAATCTTCAGTTCAGTACACATC 59.723 40.741 0.00 0.00 0.00 3.06
70 71 7.099764 CCTACAATCTTCAGTTCAGTACACAT 58.900 38.462 0.00 0.00 0.00 3.21
71 72 6.455647 CCTACAATCTTCAGTTCAGTACACA 58.544 40.000 0.00 0.00 0.00 3.72
72 73 5.348997 GCCTACAATCTTCAGTTCAGTACAC 59.651 44.000 0.00 0.00 0.00 2.90
73 74 5.011635 TGCCTACAATCTTCAGTTCAGTACA 59.988 40.000 0.00 0.00 0.00 2.90
74 75 5.479306 TGCCTACAATCTTCAGTTCAGTAC 58.521 41.667 0.00 0.00 0.00 2.73
75 76 5.738619 TGCCTACAATCTTCAGTTCAGTA 57.261 39.130 0.00 0.00 0.00 2.74
76 77 4.623932 TGCCTACAATCTTCAGTTCAGT 57.376 40.909 0.00 0.00 0.00 3.41
77 78 5.645067 TCAATGCCTACAATCTTCAGTTCAG 59.355 40.000 0.00 0.00 0.00 3.02
78 79 5.559770 TCAATGCCTACAATCTTCAGTTCA 58.440 37.500 0.00 0.00 0.00 3.18
79 80 6.094603 ACATCAATGCCTACAATCTTCAGTTC 59.905 38.462 0.00 0.00 0.00 3.01
80 81 5.948162 ACATCAATGCCTACAATCTTCAGTT 59.052 36.000 0.00 0.00 0.00 3.16
81 82 5.503927 ACATCAATGCCTACAATCTTCAGT 58.496 37.500 0.00 0.00 0.00 3.41
82 83 7.741027 ATACATCAATGCCTACAATCTTCAG 57.259 36.000 0.00 0.00 0.00 3.02
83 84 8.432013 AGTATACATCAATGCCTACAATCTTCA 58.568 33.333 5.50 0.00 0.00 3.02
84 85 8.839310 AGTATACATCAATGCCTACAATCTTC 57.161 34.615 5.50 0.00 0.00 2.87
85 86 9.632638 AAAGTATACATCAATGCCTACAATCTT 57.367 29.630 5.50 0.00 0.00 2.40
86 87 9.060347 CAAAGTATACATCAATGCCTACAATCT 57.940 33.333 5.50 0.00 0.00 2.40
87 88 8.840321 ACAAAGTATACATCAATGCCTACAATC 58.160 33.333 5.50 0.00 0.00 2.67
88 89 8.752005 ACAAAGTATACATCAATGCCTACAAT 57.248 30.769 5.50 0.00 0.00 2.71
89 90 8.046708 AGACAAAGTATACATCAATGCCTACAA 58.953 33.333 5.50 0.00 0.00 2.41
90 91 7.564793 AGACAAAGTATACATCAATGCCTACA 58.435 34.615 5.50 0.00 0.00 2.74
91 92 8.438676 AAGACAAAGTATACATCAATGCCTAC 57.561 34.615 5.50 0.00 0.00 3.18
92 93 8.892723 CAAAGACAAAGTATACATCAATGCCTA 58.107 33.333 5.50 0.00 0.00 3.93
93 94 7.629222 GCAAAGACAAAGTATACATCAATGCCT 60.629 37.037 5.50 0.00 0.00 4.75
94 95 6.473455 GCAAAGACAAAGTATACATCAATGCC 59.527 38.462 5.50 0.00 0.00 4.40
95 96 6.473455 GGCAAAGACAAAGTATACATCAATGC 59.527 38.462 5.50 10.39 0.00 3.56
96 97 7.765307 AGGCAAAGACAAAGTATACATCAATG 58.235 34.615 5.50 0.00 0.00 2.82
97 98 7.944729 AGGCAAAGACAAAGTATACATCAAT 57.055 32.000 5.50 0.00 0.00 2.57
98 99 7.759489 AAGGCAAAGACAAAGTATACATCAA 57.241 32.000 5.50 0.00 0.00 2.57
99 100 7.230510 ACAAAGGCAAAGACAAAGTATACATCA 59.769 33.333 5.50 0.00 0.00 3.07
100 101 7.538678 CACAAAGGCAAAGACAAAGTATACATC 59.461 37.037 5.50 0.00 0.00 3.06
101 102 7.370383 CACAAAGGCAAAGACAAAGTATACAT 58.630 34.615 5.50 0.00 0.00 2.29
102 103 6.734137 CACAAAGGCAAAGACAAAGTATACA 58.266 36.000 5.50 0.00 0.00 2.29
103 104 5.629435 GCACAAAGGCAAAGACAAAGTATAC 59.371 40.000 0.00 0.00 0.00 1.47
104 105 5.534654 AGCACAAAGGCAAAGACAAAGTATA 59.465 36.000 0.00 0.00 35.83 1.47
105 106 4.342092 AGCACAAAGGCAAAGACAAAGTAT 59.658 37.500 0.00 0.00 35.83 2.12
106 107 3.699038 AGCACAAAGGCAAAGACAAAGTA 59.301 39.130 0.00 0.00 35.83 2.24
107 108 2.497273 AGCACAAAGGCAAAGACAAAGT 59.503 40.909 0.00 0.00 35.83 2.66
108 109 3.118542 GAGCACAAAGGCAAAGACAAAG 58.881 45.455 0.00 0.00 35.83 2.77
109 110 2.760092 AGAGCACAAAGGCAAAGACAAA 59.240 40.909 0.00 0.00 35.83 2.83
110 111 2.099592 CAGAGCACAAAGGCAAAGACAA 59.900 45.455 0.00 0.00 35.83 3.18
111 112 1.677576 CAGAGCACAAAGGCAAAGACA 59.322 47.619 0.00 0.00 35.83 3.41
112 113 1.601412 GCAGAGCACAAAGGCAAAGAC 60.601 52.381 0.00 0.00 35.83 3.01
113 114 0.670162 GCAGAGCACAAAGGCAAAGA 59.330 50.000 0.00 0.00 35.83 2.52
114 115 0.672342 AGCAGAGCACAAAGGCAAAG 59.328 50.000 0.00 0.00 35.83 2.77
115 116 0.670162 GAGCAGAGCACAAAGGCAAA 59.330 50.000 0.00 0.00 35.83 3.68
116 117 1.509644 CGAGCAGAGCACAAAGGCAA 61.510 55.000 0.00 0.00 35.83 4.52
117 118 1.962822 CGAGCAGAGCACAAAGGCA 60.963 57.895 0.00 0.00 35.83 4.75
118 119 1.230635 TTCGAGCAGAGCACAAAGGC 61.231 55.000 0.00 0.00 0.00 4.35
119 120 0.514691 GTTCGAGCAGAGCACAAAGG 59.485 55.000 0.00 0.00 0.00 3.11
120 121 0.514691 GGTTCGAGCAGAGCACAAAG 59.485 55.000 0.53 0.00 0.00 2.77
121 122 0.106708 AGGTTCGAGCAGAGCACAAA 59.893 50.000 0.53 0.00 0.00 2.83
122 123 0.601046 CAGGTTCGAGCAGAGCACAA 60.601 55.000 0.53 0.00 0.00 3.33
123 124 1.005748 CAGGTTCGAGCAGAGCACA 60.006 57.895 0.53 0.00 0.00 4.57
124 125 1.739562 CCAGGTTCGAGCAGAGCAC 60.740 63.158 0.53 0.00 0.00 4.40
125 126 2.659016 CCAGGTTCGAGCAGAGCA 59.341 61.111 0.53 0.00 0.00 4.26
126 127 2.817396 GCCAGGTTCGAGCAGAGC 60.817 66.667 0.53 0.00 0.00 4.09
127 128 2.125350 GGCCAGGTTCGAGCAGAG 60.125 66.667 0.00 0.00 0.00 3.35
128 129 1.841302 ATTGGCCAGGTTCGAGCAGA 61.841 55.000 5.11 0.00 0.00 4.26
129 130 0.962356 AATTGGCCAGGTTCGAGCAG 60.962 55.000 5.11 0.00 0.00 4.24
130 131 0.539438 AAATTGGCCAGGTTCGAGCA 60.539 50.000 5.11 0.00 0.00 4.26
131 132 0.109132 CAAATTGGCCAGGTTCGAGC 60.109 55.000 5.11 0.00 0.00 5.03
132 133 0.527565 CCAAATTGGCCAGGTTCGAG 59.472 55.000 5.11 0.00 0.00 4.04
133 134 0.178975 ACCAAATTGGCCAGGTTCGA 60.179 50.000 12.67 0.00 42.67 3.71
134 135 0.678950 AACCAAATTGGCCAGGTTCG 59.321 50.000 18.91 7.31 42.67 3.95
135 136 1.691434 TCAACCAAATTGGCCAGGTTC 59.309 47.619 21.16 0.00 42.67 3.62
136 137 1.799933 TCAACCAAATTGGCCAGGTT 58.200 45.000 18.91 18.91 42.67 3.50
137 138 1.799933 TTCAACCAAATTGGCCAGGT 58.200 45.000 12.67 7.13 42.67 4.00
138 139 3.075884 CAATTCAACCAAATTGGCCAGG 58.924 45.455 12.67 6.33 42.67 4.45
139 140 3.742385 ACAATTCAACCAAATTGGCCAG 58.258 40.909 12.67 2.22 46.32 4.85
140 141 3.737850 GACAATTCAACCAAATTGGCCA 58.262 40.909 12.67 0.00 45.18 5.36
143 144 5.232463 CCAGAGACAATTCAACCAAATTGG 58.768 41.667 11.02 11.02 46.32 3.16
145 146 4.284234 CCCCAGAGACAATTCAACCAAATT 59.716 41.667 0.00 0.00 0.00 1.82
146 147 3.834231 CCCCAGAGACAATTCAACCAAAT 59.166 43.478 0.00 0.00 0.00 2.32
147 148 3.230134 CCCCAGAGACAATTCAACCAAA 58.770 45.455 0.00 0.00 0.00 3.28
148 149 2.875296 CCCCAGAGACAATTCAACCAA 58.125 47.619 0.00 0.00 0.00 3.67
149 150 1.547675 GCCCCAGAGACAATTCAACCA 60.548 52.381 0.00 0.00 0.00 3.67
150 151 1.177401 GCCCCAGAGACAATTCAACC 58.823 55.000 0.00 0.00 0.00 3.77
151 152 1.177401 GGCCCCAGAGACAATTCAAC 58.823 55.000 0.00 0.00 0.00 3.18
152 153 1.075601 AGGCCCCAGAGACAATTCAA 58.924 50.000 0.00 0.00 0.00 2.69
153 154 0.329261 CAGGCCCCAGAGACAATTCA 59.671 55.000 0.00 0.00 0.00 2.57
154 155 0.329596 ACAGGCCCCAGAGACAATTC 59.670 55.000 0.00 0.00 0.00 2.17
155 156 1.282157 GTACAGGCCCCAGAGACAATT 59.718 52.381 0.00 0.00 0.00 2.32
156 157 0.912486 GTACAGGCCCCAGAGACAAT 59.088 55.000 0.00 0.00 0.00 2.71
157 158 0.472925 TGTACAGGCCCCAGAGACAA 60.473 55.000 0.00 0.00 0.00 3.18
158 159 0.252696 ATGTACAGGCCCCAGAGACA 60.253 55.000 0.00 0.93 0.00 3.41
159 160 0.179000 CATGTACAGGCCCCAGAGAC 59.821 60.000 0.00 0.00 0.00 3.36
160 161 0.982852 CCATGTACAGGCCCCAGAGA 60.983 60.000 0.00 0.00 0.00 3.10
161 162 1.274703 ACCATGTACAGGCCCCAGAG 61.275 60.000 0.00 0.00 0.00 3.35
162 163 1.229820 ACCATGTACAGGCCCCAGA 60.230 57.895 0.00 0.00 0.00 3.86
163 164 1.224592 GACCATGTACAGGCCCCAG 59.775 63.158 0.00 0.00 0.00 4.45
164 165 0.918799 ATGACCATGTACAGGCCCCA 60.919 55.000 0.00 0.00 0.00 4.96
165 166 0.466189 CATGACCATGTACAGGCCCC 60.466 60.000 0.00 0.00 34.23 5.80
166 167 3.100545 CATGACCATGTACAGGCCC 57.899 57.895 0.00 0.00 34.23 5.80
171 172 9.469602 CCTACTTGGATCACATGACCATGTACA 62.470 44.444 14.47 0.00 43.56 2.90
172 173 7.181862 CCTACTTGGATCACATGACCATGTAC 61.182 46.154 14.47 9.49 43.56 2.90
173 174 5.163311 CCTACTTGGATCACATGACCATGTA 60.163 44.000 14.47 17.87 43.56 2.29
174 175 4.384537 CCTACTTGGATCACATGACCATGT 60.385 45.833 9.64 9.64 45.11 3.21
175 176 4.132336 CCTACTTGGATCACATGACCATG 58.868 47.826 0.00 8.34 40.51 3.66
176 177 3.137176 CCCTACTTGGATCACATGACCAT 59.863 47.826 0.00 0.00 38.35 3.55
177 178 2.505407 CCCTACTTGGATCACATGACCA 59.495 50.000 0.00 0.47 38.35 4.02
178 179 2.746472 GCCCTACTTGGATCACATGACC 60.746 54.545 0.00 0.00 38.35 4.02
179 180 2.171448 AGCCCTACTTGGATCACATGAC 59.829 50.000 0.00 0.00 38.35 3.06
180 181 2.481441 AGCCCTACTTGGATCACATGA 58.519 47.619 0.00 0.00 38.35 3.07
181 182 4.422073 TTAGCCCTACTTGGATCACATG 57.578 45.455 0.00 0.00 38.35 3.21
182 183 4.683400 CGTTTAGCCCTACTTGGATCACAT 60.683 45.833 0.00 0.00 38.35 3.21
183 184 3.369052 CGTTTAGCCCTACTTGGATCACA 60.369 47.826 0.00 0.00 38.35 3.58
184 185 3.195661 CGTTTAGCCCTACTTGGATCAC 58.804 50.000 0.00 0.00 38.35 3.06
185 186 2.835764 ACGTTTAGCCCTACTTGGATCA 59.164 45.455 0.00 0.00 38.35 2.92
186 187 3.195661 CACGTTTAGCCCTACTTGGATC 58.804 50.000 0.00 0.00 38.35 3.36
187 188 2.570302 ACACGTTTAGCCCTACTTGGAT 59.430 45.455 0.00 0.00 38.35 3.41
188 189 1.972795 ACACGTTTAGCCCTACTTGGA 59.027 47.619 0.00 0.00 38.35 3.53
189 190 2.467566 ACACGTTTAGCCCTACTTGG 57.532 50.000 0.00 0.00 0.00 3.61
190 191 3.395639 TCAACACGTTTAGCCCTACTTG 58.604 45.455 0.00 0.00 0.00 3.16
191 192 3.756933 TCAACACGTTTAGCCCTACTT 57.243 42.857 0.00 0.00 0.00 2.24
192 193 3.596214 CATCAACACGTTTAGCCCTACT 58.404 45.455 0.00 0.00 0.00 2.57
193 194 2.095372 GCATCAACACGTTTAGCCCTAC 59.905 50.000 0.00 0.00 0.00 3.18
194 195 2.027561 AGCATCAACACGTTTAGCCCTA 60.028 45.455 0.00 0.00 0.00 3.53
195 196 1.165270 GCATCAACACGTTTAGCCCT 58.835 50.000 0.00 0.00 0.00 5.19
196 197 1.165270 AGCATCAACACGTTTAGCCC 58.835 50.000 0.00 0.00 0.00 5.19
197 198 3.000727 AGTAGCATCAACACGTTTAGCC 58.999 45.455 0.00 0.00 0.00 3.93
198 199 3.678072 TCAGTAGCATCAACACGTTTAGC 59.322 43.478 0.00 0.00 0.00 3.09
199 200 4.091509 GGTCAGTAGCATCAACACGTTTAG 59.908 45.833 0.00 0.00 0.00 1.85
200 201 3.991773 GGTCAGTAGCATCAACACGTTTA 59.008 43.478 0.00 0.00 0.00 2.01
201 202 2.806244 GGTCAGTAGCATCAACACGTTT 59.194 45.455 0.00 0.00 0.00 3.60
202 203 2.037251 AGGTCAGTAGCATCAACACGTT 59.963 45.455 0.00 0.00 0.00 3.99
203 204 1.618837 AGGTCAGTAGCATCAACACGT 59.381 47.619 0.00 0.00 0.00 4.49
204 205 2.094494 AGAGGTCAGTAGCATCAACACG 60.094 50.000 0.00 0.00 0.00 4.49
205 206 3.194542 AGAGAGGTCAGTAGCATCAACAC 59.805 47.826 0.00 0.00 0.00 3.32
206 207 3.194329 CAGAGAGGTCAGTAGCATCAACA 59.806 47.826 0.00 0.00 0.00 3.33
207 208 3.779759 CAGAGAGGTCAGTAGCATCAAC 58.220 50.000 0.00 0.00 0.00 3.18
208 209 2.167281 GCAGAGAGGTCAGTAGCATCAA 59.833 50.000 0.00 0.00 0.00 2.57
209 210 1.753649 GCAGAGAGGTCAGTAGCATCA 59.246 52.381 0.00 0.00 0.00 3.07
210 211 2.031120 AGCAGAGAGGTCAGTAGCATC 58.969 52.381 0.00 0.00 0.00 3.91
211 212 1.755959 CAGCAGAGAGGTCAGTAGCAT 59.244 52.381 0.00 0.00 0.00 3.79
212 213 1.180907 CAGCAGAGAGGTCAGTAGCA 58.819 55.000 0.00 0.00 0.00 3.49
213 214 1.181786 ACAGCAGAGAGGTCAGTAGC 58.818 55.000 0.00 0.00 0.00 3.58
214 215 2.685897 GGTACAGCAGAGAGGTCAGTAG 59.314 54.545 0.00 0.00 0.00 2.57
215 216 2.041216 TGGTACAGCAGAGAGGTCAGTA 59.959 50.000 0.00 0.00 0.00 2.74
216 217 1.203063 TGGTACAGCAGAGAGGTCAGT 60.203 52.381 0.00 0.00 0.00 3.41
217 218 1.203523 GTGGTACAGCAGAGAGGTCAG 59.796 57.143 0.00 0.00 41.80 3.51
218 219 1.257743 GTGGTACAGCAGAGAGGTCA 58.742 55.000 0.00 0.00 41.80 4.02
229 230 0.457035 GGCAATGCATGGTGGTACAG 59.543 55.000 7.79 0.00 41.80 2.74
230 231 1.311651 CGGCAATGCATGGTGGTACA 61.312 55.000 7.79 0.00 0.00 2.90
231 232 1.312371 ACGGCAATGCATGGTGGTAC 61.312 55.000 7.79 0.00 0.00 3.34
232 233 0.610509 AACGGCAATGCATGGTGGTA 60.611 50.000 7.79 0.00 0.00 3.25
233 234 1.907807 AACGGCAATGCATGGTGGT 60.908 52.632 7.79 0.00 0.00 4.16
234 235 1.446445 CAACGGCAATGCATGGTGG 60.446 57.895 7.79 0.00 0.00 4.61
235 236 2.095847 GCAACGGCAATGCATGGTG 61.096 57.895 7.79 9.02 43.29 4.17
236 237 1.818959 AAGCAACGGCAATGCATGGT 61.819 50.000 7.79 5.68 46.22 3.55
237 238 1.079681 AAGCAACGGCAATGCATGG 60.080 52.632 7.79 0.00 46.22 3.66
238 239 0.668096 ACAAGCAACGGCAATGCATG 60.668 50.000 7.79 13.15 46.22 4.06
239 240 0.887247 TACAAGCAACGGCAATGCAT 59.113 45.000 7.79 0.00 46.22 3.96
240 241 0.887247 ATACAAGCAACGGCAATGCA 59.113 45.000 7.79 0.00 46.22 3.96
241 242 2.842208 TATACAAGCAACGGCAATGC 57.158 45.000 0.00 0.00 44.61 3.56
242 243 7.806690 AGTTATATATACAAGCAACGGCAATG 58.193 34.615 0.00 0.00 44.61 2.82
243 244 7.979444 AGTTATATATACAAGCAACGGCAAT 57.021 32.000 0.00 0.00 44.61 3.56
244 245 7.496263 TGAAGTTATATATACAAGCAACGGCAA 59.504 33.333 0.00 0.00 44.61 4.52
245 246 6.987404 TGAAGTTATATATACAAGCAACGGCA 59.013 34.615 0.00 0.00 44.61 5.69
246 247 7.416154 TGAAGTTATATATACAAGCAACGGC 57.584 36.000 0.00 0.00 41.61 5.68
247 248 9.811655 CAATGAAGTTATATATACAAGCAACGG 57.188 33.333 0.00 0.00 0.00 4.44
260 261 9.618890 ACAAGTCTGCATACAATGAAGTTATAT 57.381 29.630 12.80 0.00 37.22 0.86
261 262 8.882736 CACAAGTCTGCATACAATGAAGTTATA 58.117 33.333 12.80 0.00 37.22 0.98
262 263 7.148188 CCACAAGTCTGCATACAATGAAGTTAT 60.148 37.037 12.80 0.00 37.22 1.89
458 483 1.619654 TGAACCCAGCTTTGACATGG 58.380 50.000 0.00 0.00 0.00 3.66
532 557 0.324275 GAGTGAGGAGGGAGAGCTGT 60.324 60.000 0.00 0.00 0.00 4.40
865 917 1.004745 GAAGACTGGGATGGCAGGAAA 59.995 52.381 0.00 0.00 0.00 3.13
911 963 2.343758 CTGGTGCTACTGCCGTGT 59.656 61.111 0.00 0.00 38.71 4.49
1137 1190 5.471556 TTTAACTACAGACGGATGGACAA 57.528 39.130 0.00 0.00 0.00 3.18
1190 1251 9.640952 ATTAGCACCATGGTAGTAACAATTAAT 57.359 29.630 19.28 8.21 31.46 1.40
1214 1275 7.309012 GGCACATATCATATTCTGAACAGCATT 60.309 37.037 0.00 0.00 37.44 3.56
1298 1359 5.228945 ACTCATGCAGTACCAAGTTAACT 57.771 39.130 1.12 1.12 31.37 2.24
1361 1422 4.303086 AGCATGCATACAAAATCTCTGC 57.697 40.909 21.98 0.00 0.00 4.26
1693 1759 5.710646 AGATACCTGTGGATGATAGTGTCT 58.289 41.667 0.00 0.00 0.00 3.41
1806 1872 9.832445 AACAAAATACCATTCTACTATCACGAT 57.168 29.630 0.00 0.00 0.00 3.73
1944 2010 5.278266 GCTAGTACCATGCTTTTTGTTGTCA 60.278 40.000 0.00 0.00 0.00 3.58
2037 2103 8.103948 TGAATCAGAGAAGAATGAGAAAAACC 57.896 34.615 0.00 0.00 0.00 3.27
2085 2151 4.081752 AGACCAAACAAAACAGCAACATGA 60.082 37.500 0.00 0.00 0.00 3.07
2190 2256 5.649782 ATTTCTATGCAACTTCAACAGGG 57.350 39.130 0.00 0.00 0.00 4.45
2339 2422 7.067008 ACACACAATACTTAAACAAGAGCAACT 59.933 33.333 0.00 0.00 0.00 3.16
2587 2681 1.534717 AAGCCCAACATTGCAGCCT 60.535 52.632 0.00 0.00 0.00 4.58


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

AutoCloner maintained by Alex Coulton.