Multiple sequence alignment - TraesCS7A01G485200

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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 TraesCS7A01G485200 chr7A 100.000 2692 0 0 1 2692 676067434 676064743 0.000000e+00 4972.0
1 TraesCS7A01G485200 chr7A 87.745 1836 128 45 738 2549 676277627 676279389 0.000000e+00 2054.0
2 TraesCS7A01G485200 chr7A 94.737 285 14 1 458 742 33427968 33427685 2.460000e-120 442.0
3 TraesCS7A01G485200 chr7A 93.706 143 8 1 324 466 676277489 676277630 2.100000e-51 213.0
4 TraesCS7A01G485200 chr7D 89.896 1920 128 18 812 2692 585604264 585602372 0.000000e+00 2410.0
5 TraesCS7A01G485200 chr7B 87.801 1123 103 17 917 2027 654996029 654994929 0.000000e+00 1284.0
6 TraesCS7A01G485200 chr7B 88.000 325 25 6 1 324 723879484 723879795 3.270000e-99 372.0
7 TraesCS7A01G485200 chr7B 81.598 413 43 19 2261 2661 654982844 654982453 7.240000e-81 311.0
8 TraesCS7A01G485200 chr7B 88.953 172 13 3 2015 2182 654983035 654982866 9.770000e-50 207.0
9 TraesCS7A01G485200 chr7B 86.022 186 24 1 2397 2580 655108846 655109031 5.880000e-47 198.0
10 TraesCS7A01G485200 chr6B 96.403 278 10 0 464 741 277620593 277620316 2.440000e-125 459.0
11 TraesCS7A01G485200 chr6B 97.048 271 7 1 470 739 444750023 444750293 3.160000e-124 455.0
12 TraesCS7A01G485200 chr3B 96.043 278 11 0 464 741 824369862 824370139 1.140000e-123 453.0
13 TraesCS7A01G485200 chr3B 96.310 271 10 0 466 736 42738607 42738337 1.900000e-121 446.0
14 TraesCS7A01G485200 chr3B 92.953 298 18 3 462 757 199054458 199054162 5.320000e-117 431.0
15 TraesCS7A01G485200 chr3B 89.506 324 24 3 1 324 527375351 527375664 4.170000e-108 401.0
16 TraesCS7A01G485200 chr5A 95.730 281 11 1 466 746 377004537 377004816 4.090000e-123 451.0
17 TraesCS7A01G485200 chr6D 91.317 334 20 3 1 333 324560708 324561033 5.290000e-122 448.0
18 TraesCS7A01G485200 chr3D 91.975 324 18 2 1 324 211382301 211381986 5.290000e-122 448.0
19 TraesCS7A01G485200 chr5B 95.683 278 11 1 464 741 477882956 477882680 1.900000e-121 446.0
20 TraesCS7A01G485200 chr5B 95.341 279 13 0 463 741 477882683 477882405 6.840000e-121 444.0
21 TraesCS7A01G485200 chr4B 91.358 324 20 3 1 324 417678628 417678313 1.140000e-118 436.0
22 TraesCS7A01G485200 chrUn 90.419 334 21 5 1 333 94072536 94072859 1.910000e-116 429.0
23 TraesCS7A01G485200 chr5D 90.432 324 22 3 1 324 191658586 191658272 4.150000e-113 418.0
24 TraesCS7A01G485200 chr2D 89.222 334 27 3 1 333 166157269 166157594 2.490000e-110 409.0
25 TraesCS7A01G485200 chr2D 78.475 446 65 18 1598 2024 143225696 143226129 2.060000e-66 263.0
26 TraesCS7A01G485200 chr2D 81.437 167 22 8 1614 1777 23318163 23318323 7.820000e-26 128.0
27 TraesCS7A01G485200 chr6A 88.509 322 26 4 3 324 218393930 218393620 1.960000e-101 379.0
28 TraesCS7A01G485200 chr4A 90.625 288 18 4 37 324 236867771 236867493 9.100000e-100 374.0
29 TraesCS7A01G485200 chr2B 78.330 443 69 17 1598 2024 200897326 200897757 7.390000e-66 261.0
30 TraesCS7A01G485200 chr2B 79.539 347 52 11 1648 1983 201234424 201234762 2.080000e-56 230.0
31 TraesCS7A01G485200 chr2B 78.363 171 22 9 739 905 36901016 36900857 2.210000e-16 97.1
32 TraesCS7A01G485200 chr2A 82.036 167 21 8 1615 1777 25450098 25449937 1.680000e-27 134.0


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 TraesCS7A01G485200 chr7A 676064743 676067434 2691 True 4972.0 4972 100.0000 1 2692 1 chr7A.!!$R2 2691
1 TraesCS7A01G485200 chr7A 676277489 676279389 1900 False 1133.5 2054 90.7255 324 2549 2 chr7A.!!$F1 2225
2 TraesCS7A01G485200 chr7D 585602372 585604264 1892 True 2410.0 2410 89.8960 812 2692 1 chr7D.!!$R1 1880
3 TraesCS7A01G485200 chr7B 654994929 654996029 1100 True 1284.0 1284 87.8010 917 2027 1 chr7B.!!$R1 1110
4 TraesCS7A01G485200 chr7B 654982453 654983035 582 True 259.0 311 85.2755 2015 2661 2 chr7B.!!$R2 646
5 TraesCS7A01G485200 chr5B 477882405 477882956 551 True 445.0 446 95.5120 463 741 2 chr5B.!!$R1 278

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 0.035881 CAGCCACCAGATGACACTGT 59.964 55.0 0.0 0.0 36.3 3.55 F
318 319 0.306228 TCAACGCACGGACATTTGTG 59.694 50.0 0.0 0.0 39.1 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1444 1723 0.622665 AAGAGTTGGCCTCCATCCAG 59.377 55.0 3.32 0.00 41.47 3.86 R
2208 2519 0.989890 GTAGAGTACAACTTGCGGCG 59.010 55.0 0.51 0.51 0.00 6.46 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
19 20 2.357517 CTGCTCGGTGCGAACCTT 60.358 61.111 11.82 0.00 46.63 3.50
20 21 2.664851 TGCTCGGTGCGAACCTTG 60.665 61.111 11.82 4.05 46.63 3.61
21 22 2.357034 GCTCGGTGCGAACCTTGA 60.357 61.111 11.82 0.00 34.74 3.02
22 23 1.959226 GCTCGGTGCGAACCTTGAA 60.959 57.895 11.82 0.00 34.74 2.69
23 24 1.503818 GCTCGGTGCGAACCTTGAAA 61.504 55.000 11.82 0.00 34.74 2.69
24 25 1.156736 CTCGGTGCGAACCTTGAAAT 58.843 50.000 11.82 0.00 34.74 2.17
25 26 1.535462 CTCGGTGCGAACCTTGAAATT 59.465 47.619 11.82 0.00 34.74 1.82
26 27 1.950909 TCGGTGCGAACCTTGAAATTT 59.049 42.857 11.82 0.00 31.06 1.82
27 28 2.359531 TCGGTGCGAACCTTGAAATTTT 59.640 40.909 11.82 0.00 31.06 1.82
28 29 3.120041 CGGTGCGAACCTTGAAATTTTT 58.880 40.909 11.82 0.00 0.00 1.94
59 60 2.943843 GTGCGAACACCAAAGAGTAC 57.056 50.000 0.00 0.00 41.21 2.73
60 61 1.529865 GTGCGAACACCAAAGAGTACC 59.470 52.381 0.00 0.00 41.21 3.34
61 62 1.154197 GCGAACACCAAAGAGTACCC 58.846 55.000 0.00 0.00 0.00 3.69
62 63 1.270678 GCGAACACCAAAGAGTACCCT 60.271 52.381 0.00 0.00 0.00 4.34
63 64 2.685100 CGAACACCAAAGAGTACCCTC 58.315 52.381 0.00 0.00 38.04 4.30
64 65 2.036733 CGAACACCAAAGAGTACCCTCA 59.963 50.000 0.00 0.00 40.40 3.86
65 66 3.493699 CGAACACCAAAGAGTACCCTCAA 60.494 47.826 0.00 0.00 40.40 3.02
66 67 3.487120 ACACCAAAGAGTACCCTCAAC 57.513 47.619 0.00 0.00 40.40 3.18
67 68 3.046374 ACACCAAAGAGTACCCTCAACT 58.954 45.455 0.00 0.00 40.40 3.16
68 69 3.458487 ACACCAAAGAGTACCCTCAACTT 59.542 43.478 0.00 0.00 40.40 2.66
69 70 4.079958 ACACCAAAGAGTACCCTCAACTTT 60.080 41.667 0.00 0.00 40.40 2.66
70 71 4.515567 CACCAAAGAGTACCCTCAACTTTC 59.484 45.833 0.00 0.00 40.40 2.62
71 72 4.072839 CCAAAGAGTACCCTCAACTTTCC 58.927 47.826 0.00 0.00 40.40 3.13
72 73 4.445735 CCAAAGAGTACCCTCAACTTTCCA 60.446 45.833 0.00 0.00 40.40 3.53
73 74 5.130350 CAAAGAGTACCCTCAACTTTCCAA 58.870 41.667 0.00 0.00 40.40 3.53
74 75 5.382664 AAGAGTACCCTCAACTTTCCAAA 57.617 39.130 0.00 0.00 40.40 3.28
75 76 5.382664 AGAGTACCCTCAACTTTCCAAAA 57.617 39.130 0.00 0.00 40.40 2.44
76 77 5.953571 AGAGTACCCTCAACTTTCCAAAAT 58.046 37.500 0.00 0.00 40.40 1.82
77 78 7.086685 AGAGTACCCTCAACTTTCCAAAATA 57.913 36.000 0.00 0.00 40.40 1.40
78 79 7.168905 AGAGTACCCTCAACTTTCCAAAATAG 58.831 38.462 0.00 0.00 40.40 1.73
79 80 6.849151 AGTACCCTCAACTTTCCAAAATAGT 58.151 36.000 0.00 0.00 0.00 2.12
80 81 7.981142 AGTACCCTCAACTTTCCAAAATAGTA 58.019 34.615 0.00 0.00 0.00 1.82
81 82 7.881751 AGTACCCTCAACTTTCCAAAATAGTAC 59.118 37.037 0.00 0.00 0.00 2.73
82 83 6.008331 ACCCTCAACTTTCCAAAATAGTACC 58.992 40.000 0.00 0.00 0.00 3.34
83 84 6.183361 ACCCTCAACTTTCCAAAATAGTACCT 60.183 38.462 0.00 0.00 0.00 3.08
84 85 6.719829 CCCTCAACTTTCCAAAATAGTACCTT 59.280 38.462 0.00 0.00 0.00 3.50
85 86 7.886446 CCCTCAACTTTCCAAAATAGTACCTTA 59.114 37.037 0.00 0.00 0.00 2.69
86 87 9.462606 CCTCAACTTTCCAAAATAGTACCTTAT 57.537 33.333 0.00 0.00 0.00 1.73
106 107 9.942526 ACCTTATATGGAAGATTTGAATCCTTT 57.057 29.630 11.49 0.00 36.04 3.11
119 120 9.884465 GATTTGAATCCTTTAATATCAGAACCG 57.116 33.333 0.00 0.00 0.00 4.44
120 121 8.801882 TTTGAATCCTTTAATATCAGAACCGT 57.198 30.769 0.00 0.00 0.00 4.83
121 122 8.433421 TTGAATCCTTTAATATCAGAACCGTC 57.567 34.615 0.00 0.00 0.00 4.79
122 123 7.561251 TGAATCCTTTAATATCAGAACCGTCA 58.439 34.615 0.00 0.00 0.00 4.35
123 124 8.210946 TGAATCCTTTAATATCAGAACCGTCAT 58.789 33.333 0.00 0.00 0.00 3.06
124 125 7.969536 ATCCTTTAATATCAGAACCGTCATG 57.030 36.000 0.00 0.00 0.00 3.07
125 126 5.758296 TCCTTTAATATCAGAACCGTCATGC 59.242 40.000 0.00 0.00 0.00 4.06
126 127 5.527214 CCTTTAATATCAGAACCGTCATGCA 59.473 40.000 0.00 0.00 0.00 3.96
127 128 6.038161 CCTTTAATATCAGAACCGTCATGCAA 59.962 38.462 0.00 0.00 0.00 4.08
128 129 6.993786 TTAATATCAGAACCGTCATGCAAA 57.006 33.333 0.00 0.00 0.00 3.68
129 130 5.895636 AATATCAGAACCGTCATGCAAAA 57.104 34.783 0.00 0.00 0.00 2.44
130 131 6.455360 AATATCAGAACCGTCATGCAAAAT 57.545 33.333 0.00 0.00 0.00 1.82
131 132 4.789012 ATCAGAACCGTCATGCAAAATT 57.211 36.364 0.00 0.00 0.00 1.82
132 133 4.159377 TCAGAACCGTCATGCAAAATTC 57.841 40.909 0.00 0.00 0.00 2.17
133 134 3.567585 TCAGAACCGTCATGCAAAATTCA 59.432 39.130 0.00 0.00 0.00 2.57
134 135 4.218200 TCAGAACCGTCATGCAAAATTCAT 59.782 37.500 0.00 0.00 0.00 2.57
135 136 5.414144 TCAGAACCGTCATGCAAAATTCATA 59.586 36.000 0.00 0.00 0.00 2.15
136 137 6.072230 TCAGAACCGTCATGCAAAATTCATAA 60.072 34.615 0.00 0.00 0.00 1.90
137 138 6.033831 CAGAACCGTCATGCAAAATTCATAAC 59.966 38.462 0.00 0.00 0.00 1.89
138 139 5.384063 ACCGTCATGCAAAATTCATAACA 57.616 34.783 0.00 0.00 0.00 2.41
139 140 5.777802 ACCGTCATGCAAAATTCATAACAA 58.222 33.333 0.00 0.00 0.00 2.83
140 141 6.219473 ACCGTCATGCAAAATTCATAACAAA 58.781 32.000 0.00 0.00 0.00 2.83
141 142 6.703607 ACCGTCATGCAAAATTCATAACAAAA 59.296 30.769 0.00 0.00 0.00 2.44
142 143 7.095691 ACCGTCATGCAAAATTCATAACAAAAG 60.096 33.333 0.00 0.00 0.00 2.27
143 144 7.095691 CCGTCATGCAAAATTCATAACAAAAGT 60.096 33.333 0.00 0.00 0.00 2.66
144 145 8.910666 CGTCATGCAAAATTCATAACAAAAGTA 58.089 29.630 0.00 0.00 0.00 2.24
161 162 7.761409 ACAAAAGTATTGTATGTGTAGCATGG 58.239 34.615 0.00 0.00 38.47 3.66
162 163 7.393234 ACAAAAGTATTGTATGTGTAGCATGGT 59.607 33.333 1.62 1.62 38.47 3.55
163 164 7.938140 AAAGTATTGTATGTGTAGCATGGTT 57.062 32.000 1.12 0.00 38.47 3.67
164 165 7.938140 AAGTATTGTATGTGTAGCATGGTTT 57.062 32.000 1.12 0.00 38.47 3.27
165 166 7.938140 AGTATTGTATGTGTAGCATGGTTTT 57.062 32.000 1.12 0.00 38.47 2.43
166 167 8.348285 AGTATTGTATGTGTAGCATGGTTTTT 57.652 30.769 1.12 0.00 38.47 1.94
196 197 9.334693 GTATGACTTATATGCATTTTTGCTAGC 57.665 33.333 8.10 8.10 35.49 3.42
197 198 7.572523 TGACTTATATGCATTTTTGCTAGCT 57.427 32.000 17.23 0.00 35.49 3.32
198 199 7.999679 TGACTTATATGCATTTTTGCTAGCTT 58.000 30.769 17.23 0.00 35.49 3.74
199 200 8.469200 TGACTTATATGCATTTTTGCTAGCTTT 58.531 29.630 17.23 0.00 35.49 3.51
200 201 8.862550 ACTTATATGCATTTTTGCTAGCTTTC 57.137 30.769 17.23 0.00 35.49 2.62
201 202 7.645340 ACTTATATGCATTTTTGCTAGCTTTCG 59.355 33.333 17.23 0.80 35.49 3.46
202 203 2.945278 TGCATTTTTGCTAGCTTTCGG 58.055 42.857 17.23 2.53 35.49 4.30
203 204 1.655597 GCATTTTTGCTAGCTTTCGGC 59.344 47.619 17.23 8.99 42.19 5.54
204 205 2.926159 GCATTTTTGCTAGCTTTCGGCA 60.926 45.455 17.23 0.00 44.79 5.69
205 206 3.514645 CATTTTTGCTAGCTTTCGGCAT 58.485 40.909 17.23 0.00 44.79 4.40
206 207 2.634982 TTTTGCTAGCTTTCGGCATG 57.365 45.000 17.23 0.00 44.79 4.06
207 208 0.171007 TTTGCTAGCTTTCGGCATGC 59.829 50.000 17.23 9.90 44.79 4.06
208 209 1.980951 TTGCTAGCTTTCGGCATGCG 61.981 55.000 17.23 7.41 44.79 4.73
209 210 2.325857 CTAGCTTTCGGCATGCGC 59.674 61.111 12.44 9.10 44.79 6.09
226 227 4.421515 CCTCCCTGCAGCCACCAG 62.422 72.222 8.66 0.00 0.00 4.00
234 235 3.957586 CAGCCACCAGCCACCAGA 61.958 66.667 0.00 0.00 45.47 3.86
235 236 2.937689 AGCCACCAGCCACCAGAT 60.938 61.111 0.00 0.00 45.47 2.90
236 237 2.753043 GCCACCAGCCACCAGATG 60.753 66.667 0.00 0.00 34.35 2.90
237 238 3.080641 CCACCAGCCACCAGATGA 58.919 61.111 0.00 0.00 0.00 2.92
238 239 1.377725 CCACCAGCCACCAGATGAC 60.378 63.158 0.00 0.00 0.00 3.06
239 240 1.376086 CACCAGCCACCAGATGACA 59.624 57.895 0.00 0.00 0.00 3.58
240 241 0.957395 CACCAGCCACCAGATGACAC 60.957 60.000 0.00 0.00 0.00 3.67
241 242 1.130054 ACCAGCCACCAGATGACACT 61.130 55.000 0.00 0.00 0.00 3.55
242 243 0.675837 CCAGCCACCAGATGACACTG 60.676 60.000 0.00 0.00 37.61 3.66
243 244 0.035881 CAGCCACCAGATGACACTGT 59.964 55.000 0.00 0.00 36.30 3.55
244 245 0.767375 AGCCACCAGATGACACTGTT 59.233 50.000 0.00 0.00 36.30 3.16
245 246 1.143684 AGCCACCAGATGACACTGTTT 59.856 47.619 0.00 0.00 36.30 2.83
246 247 2.371841 AGCCACCAGATGACACTGTTTA 59.628 45.455 0.00 0.00 36.30 2.01
247 248 2.744202 GCCACCAGATGACACTGTTTAG 59.256 50.000 0.00 0.00 36.30 1.85
248 249 3.807209 GCCACCAGATGACACTGTTTAGT 60.807 47.826 0.00 0.00 37.75 2.24
249 250 4.389374 CCACCAGATGACACTGTTTAGTT 58.611 43.478 0.00 0.00 34.07 2.24
250 251 5.547465 CCACCAGATGACACTGTTTAGTTA 58.453 41.667 0.00 0.00 34.07 2.24
251 252 6.173339 CCACCAGATGACACTGTTTAGTTAT 58.827 40.000 0.00 0.00 34.07 1.89
252 253 6.655003 CCACCAGATGACACTGTTTAGTTATT 59.345 38.462 0.00 0.00 34.07 1.40
253 254 7.361201 CCACCAGATGACACTGTTTAGTTATTG 60.361 40.741 0.00 0.00 34.07 1.90
254 255 7.173218 CACCAGATGACACTGTTTAGTTATTGT 59.827 37.037 0.00 0.00 34.07 2.71
255 256 7.719633 ACCAGATGACACTGTTTAGTTATTGTT 59.280 33.333 0.00 0.00 34.07 2.83
256 257 8.017373 CCAGATGACACTGTTTAGTTATTGTTG 58.983 37.037 0.00 0.00 34.07 3.33
257 258 7.535258 CAGATGACACTGTTTAGTTATTGTTGC 59.465 37.037 0.00 0.00 34.07 4.17
258 259 5.743467 TGACACTGTTTAGTTATTGTTGCG 58.257 37.500 0.00 0.00 34.07 4.85
259 260 5.294799 TGACACTGTTTAGTTATTGTTGCGT 59.705 36.000 0.00 0.00 34.07 5.24
260 261 6.126568 ACACTGTTTAGTTATTGTTGCGTT 57.873 33.333 0.00 0.00 34.07 4.84
261 262 5.968848 ACACTGTTTAGTTATTGTTGCGTTG 59.031 36.000 0.00 0.00 34.07 4.10
262 263 5.968848 CACTGTTTAGTTATTGTTGCGTTGT 59.031 36.000 0.00 0.00 34.07 3.32
263 264 5.968848 ACTGTTTAGTTATTGTTGCGTTGTG 59.031 36.000 0.00 0.00 31.66 3.33
264 265 4.735822 TGTTTAGTTATTGTTGCGTTGTGC 59.264 37.500 0.00 0.00 46.70 4.57
265 266 4.822036 TTAGTTATTGTTGCGTTGTGCT 57.178 36.364 0.00 0.00 46.63 4.40
266 267 3.708563 AGTTATTGTTGCGTTGTGCTT 57.291 38.095 0.00 0.00 46.63 3.91
267 268 4.822036 AGTTATTGTTGCGTTGTGCTTA 57.178 36.364 0.00 0.00 46.63 3.09
268 269 5.371115 AGTTATTGTTGCGTTGTGCTTAT 57.629 34.783 0.00 0.00 46.63 1.73
269 270 5.768317 AGTTATTGTTGCGTTGTGCTTATT 58.232 33.333 0.00 0.00 46.63 1.40
270 271 5.856455 AGTTATTGTTGCGTTGTGCTTATTC 59.144 36.000 0.00 0.00 46.63 1.75
271 272 3.980646 TTGTTGCGTTGTGCTTATTCT 57.019 38.095 0.00 0.00 46.63 2.40
272 273 5.621197 ATTGTTGCGTTGTGCTTATTCTA 57.379 34.783 0.00 0.00 46.63 2.10
273 274 5.621197 TTGTTGCGTTGTGCTTATTCTAT 57.379 34.783 0.00 0.00 46.63 1.98
274 275 4.968626 TGTTGCGTTGTGCTTATTCTATG 58.031 39.130 0.00 0.00 46.63 2.23
275 276 4.142708 TGTTGCGTTGTGCTTATTCTATGG 60.143 41.667 0.00 0.00 46.63 2.74
276 277 3.867857 TGCGTTGTGCTTATTCTATGGA 58.132 40.909 0.00 0.00 46.63 3.41
277 278 3.621268 TGCGTTGTGCTTATTCTATGGAC 59.379 43.478 0.00 0.00 46.63 4.02
278 279 3.621268 GCGTTGTGCTTATTCTATGGACA 59.379 43.478 0.00 0.00 41.73 4.02
279 280 4.494199 GCGTTGTGCTTATTCTATGGACAC 60.494 45.833 0.00 0.00 41.73 3.67
280 281 4.259810 CGTTGTGCTTATTCTATGGACACG 60.260 45.833 0.00 0.00 34.75 4.49
281 282 4.465632 TGTGCTTATTCTATGGACACGT 57.534 40.909 0.00 0.00 31.15 4.49
282 283 4.430007 TGTGCTTATTCTATGGACACGTC 58.570 43.478 0.00 0.00 31.15 4.34
283 284 4.081917 TGTGCTTATTCTATGGACACGTCA 60.082 41.667 0.00 0.00 31.15 4.35
284 285 4.868171 GTGCTTATTCTATGGACACGTCAA 59.132 41.667 0.00 0.00 0.00 3.18
285 286 5.005779 GTGCTTATTCTATGGACACGTCAAG 59.994 44.000 0.00 0.00 0.00 3.02
286 287 5.109903 GCTTATTCTATGGACACGTCAAGT 58.890 41.667 0.00 0.00 0.00 3.16
287 288 6.127563 TGCTTATTCTATGGACACGTCAAGTA 60.128 38.462 0.00 0.00 0.00 2.24
288 289 6.924060 GCTTATTCTATGGACACGTCAAGTAT 59.076 38.462 0.00 0.00 0.00 2.12
289 290 7.115095 GCTTATTCTATGGACACGTCAAGTATC 59.885 40.741 0.00 0.00 0.00 2.24
290 291 6.716934 ATTCTATGGACACGTCAAGTATCT 57.283 37.500 0.00 0.00 0.00 1.98
291 292 5.752892 TCTATGGACACGTCAAGTATCTC 57.247 43.478 0.00 0.00 0.00 2.75
292 293 5.437946 TCTATGGACACGTCAAGTATCTCT 58.562 41.667 0.00 0.00 0.00 3.10
293 294 4.640789 ATGGACACGTCAAGTATCTCTC 57.359 45.455 0.00 0.00 0.00 3.20
294 295 2.753452 TGGACACGTCAAGTATCTCTCC 59.247 50.000 0.00 0.00 0.00 3.71
295 296 3.018149 GGACACGTCAAGTATCTCTCCT 58.982 50.000 0.00 0.00 0.00 3.69
296 297 3.181495 GGACACGTCAAGTATCTCTCCTG 60.181 52.174 0.00 0.00 0.00 3.86
297 298 3.422796 ACACGTCAAGTATCTCTCCTGT 58.577 45.455 0.00 0.00 0.00 4.00
298 299 3.827302 ACACGTCAAGTATCTCTCCTGTT 59.173 43.478 0.00 0.00 0.00 3.16
299 300 4.281182 ACACGTCAAGTATCTCTCCTGTTT 59.719 41.667 0.00 0.00 0.00 2.83
300 301 4.859798 CACGTCAAGTATCTCTCCTGTTTC 59.140 45.833 0.00 0.00 0.00 2.78
301 302 4.523173 ACGTCAAGTATCTCTCCTGTTTCA 59.477 41.667 0.00 0.00 0.00 2.69
302 303 5.010719 ACGTCAAGTATCTCTCCTGTTTCAA 59.989 40.000 0.00 0.00 0.00 2.69
303 304 5.346281 CGTCAAGTATCTCTCCTGTTTCAAC 59.654 44.000 0.00 0.00 0.00 3.18
304 305 5.346281 GTCAAGTATCTCTCCTGTTTCAACG 59.654 44.000 0.00 0.00 0.00 4.10
305 306 3.851098 AGTATCTCTCCTGTTTCAACGC 58.149 45.455 0.00 0.00 0.00 4.84
306 307 2.839486 ATCTCTCCTGTTTCAACGCA 57.161 45.000 0.00 0.00 0.00 5.24
307 308 1.865865 TCTCTCCTGTTTCAACGCAC 58.134 50.000 0.00 0.00 0.00 5.34
308 309 0.508641 CTCTCCTGTTTCAACGCACG 59.491 55.000 0.00 0.00 0.00 5.34
309 310 0.878523 TCTCCTGTTTCAACGCACGG 60.879 55.000 0.00 0.00 0.00 4.94
310 311 0.878523 CTCCTGTTTCAACGCACGGA 60.879 55.000 0.00 0.00 0.00 4.69
311 312 1.155424 TCCTGTTTCAACGCACGGAC 61.155 55.000 0.00 0.00 0.00 4.79
312 313 1.433053 CCTGTTTCAACGCACGGACA 61.433 55.000 0.00 0.00 0.00 4.02
313 314 0.586319 CTGTTTCAACGCACGGACAT 59.414 50.000 0.00 0.00 0.00 3.06
314 315 1.002900 CTGTTTCAACGCACGGACATT 60.003 47.619 0.00 0.00 0.00 2.71
315 316 1.402259 TGTTTCAACGCACGGACATTT 59.598 42.857 0.00 0.00 0.00 2.32
316 317 1.778591 GTTTCAACGCACGGACATTTG 59.221 47.619 0.00 0.00 0.00 2.32
317 318 1.018148 TTCAACGCACGGACATTTGT 58.982 45.000 0.00 0.00 0.00 2.83
318 319 0.306228 TCAACGCACGGACATTTGTG 59.694 50.000 0.00 0.00 39.10 3.33
339 340 3.010138 TGCTAGTTTCCCCTAAAGCACAT 59.990 43.478 0.00 0.00 0.00 3.21
346 347 1.476833 CCCCTAAAGCACATGCCGTAT 60.477 52.381 0.00 0.00 43.38 3.06
373 374 1.244019 ACACTCCATTTCCCTTGCGC 61.244 55.000 0.00 0.00 0.00 6.09
377 378 2.233271 CTCCATTTCCCTTGCGCATAT 58.767 47.619 12.75 0.00 0.00 1.78
385 386 2.027192 TCCCTTGCGCATATATCCCTTC 60.027 50.000 12.75 0.00 0.00 3.46
403 404 4.518249 CCTTCTCAAATACCAAGTCTCCC 58.482 47.826 0.00 0.00 0.00 4.30
405 406 2.844348 TCTCAAATACCAAGTCTCCCCC 59.156 50.000 0.00 0.00 0.00 5.40
466 467 3.723835 GCGCACACGTTTTGGATACTAAG 60.724 47.826 0.30 0.00 42.83 2.18
467 468 3.181524 CGCACACGTTTTGGATACTAAGG 60.182 47.826 0.00 0.00 31.54 2.69
475 476 5.007332 CGTTTTGGATACTAAGGGCATGTAC 59.993 44.000 0.00 0.00 31.54 2.90
568 569 6.126361 ACAATGGGTCATCTCTTAGCCTTATT 60.126 38.462 0.00 0.00 34.30 1.40
613 888 6.899393 AAAATGTGGTGAGACATATTGTGT 57.101 33.333 0.00 0.00 45.83 3.72
709 984 3.255888 TCATCATCTATCCTACGTGGCAC 59.744 47.826 7.79 7.79 35.26 5.01
711 986 2.885266 TCATCTATCCTACGTGGCACTC 59.115 50.000 16.72 0.00 35.26 3.51
712 987 2.730934 TCTATCCTACGTGGCACTCT 57.269 50.000 16.72 2.90 35.26 3.24
720 995 4.579340 TCCTACGTGGCACTCTTAAGATAG 59.421 45.833 16.72 2.87 35.26 2.08
721 996 3.166489 ACGTGGCACTCTTAAGATAGC 57.834 47.619 16.72 16.75 0.00 2.97
747 1022 4.804868 TTGTACATGCCCTAACGAACTA 57.195 40.909 0.00 0.00 0.00 2.24
757 1032 4.082571 GCCCTAACGAACTAACTACACTCA 60.083 45.833 0.00 0.00 0.00 3.41
776 1051 4.037684 ACTCACGCACTAACTAAACTGACT 59.962 41.667 0.00 0.00 0.00 3.41
777 1052 5.240183 ACTCACGCACTAACTAAACTGACTA 59.760 40.000 0.00 0.00 0.00 2.59
778 1053 6.072064 ACTCACGCACTAACTAAACTGACTAT 60.072 38.462 0.00 0.00 0.00 2.12
779 1054 6.320171 TCACGCACTAACTAAACTGACTATC 58.680 40.000 0.00 0.00 0.00 2.08
780 1055 6.072342 TCACGCACTAACTAAACTGACTATCA 60.072 38.462 0.00 0.00 0.00 2.15
825 1102 4.201950 GCATCGCCTAACAAATTGTCAGAT 60.202 41.667 0.00 0.00 0.00 2.90
827 1104 4.323417 TCGCCTAACAAATTGTCAGATGT 58.677 39.130 0.00 0.00 0.00 3.06
863 1140 2.368875 ACACAAGATATGGATCGACCCC 59.631 50.000 0.00 0.00 37.15 4.95
1185 1464 1.628340 CCGATCCTGCCACCCATATTA 59.372 52.381 0.00 0.00 0.00 0.98
1218 1497 1.202099 TATTCTGTCCCCCAACGCCA 61.202 55.000 0.00 0.00 0.00 5.69
1380 1659 2.779506 GTCCGGTCACTCTTCCAAAAT 58.220 47.619 0.00 0.00 0.00 1.82
1444 1723 1.303317 AAACTCATGTCGGCACCCC 60.303 57.895 0.00 0.00 0.00 4.95
1479 1762 1.188219 TCTTTGGCCTCTCGTCTGCT 61.188 55.000 3.32 0.00 0.00 4.24
1563 1853 9.938670 TTGTGTACAAATTGTTCAGTGTATTAC 57.061 29.630 3.17 0.00 28.32 1.89
1582 1872 7.604927 TGTATTACTGTGCTCGGTTTTTAAGAT 59.395 33.333 5.42 0.00 34.68 2.40
1583 1873 9.090692 GTATTACTGTGCTCGGTTTTTAAGATA 57.909 33.333 5.42 0.00 34.68 1.98
1726 2018 2.300433 GGTAACTGGTTTGTTTCCGGT 58.700 47.619 0.00 0.00 45.29 5.28
1776 2072 5.414765 TGATAGATTCATTCATGGCTGCATC 59.585 40.000 0.50 0.00 0.00 3.91
1839 2135 2.290916 TGTTTATCCGCGTTTTGCAGAA 59.709 40.909 4.92 0.00 46.97 3.02
1879 2182 6.261826 GCATTACAGATGGAAGCTAAAGATGT 59.738 38.462 0.00 0.00 0.00 3.06
1884 2187 6.183360 ACAGATGGAAGCTAAAGATGTCGTAT 60.183 38.462 0.00 0.00 0.00 3.06
1948 2251 6.657541 TGCGAGTTTTTAGTTTGATTAGGGAT 59.342 34.615 0.00 0.00 0.00 3.85
1977 2280 5.412594 TGTAGCTTCATTTGTGTCAATCTCC 59.587 40.000 0.00 0.00 0.00 3.71
2005 2308 7.638683 AGTCGTCTTTAGAAAATTTGTTCGTTG 59.361 33.333 0.00 0.00 32.50 4.10
2006 2309 6.412653 TCGTCTTTAGAAAATTTGTTCGTTGC 59.587 34.615 0.00 0.00 32.50 4.17
2013 2316 4.690731 AAATTTGTTCGTTGCGATTGTG 57.309 36.364 0.00 0.00 35.23 3.33
2024 2329 7.333288 TCGTTGCGATTGTGAACTATATATG 57.667 36.000 0.00 0.00 0.00 1.78
2028 2335 7.637709 TGCGATTGTGAACTATATATGTGTC 57.362 36.000 0.00 0.00 0.00 3.67
2068 2375 3.181511 CGTGGTATGCAATCATCAAACGT 60.182 43.478 0.00 0.00 34.22 3.99
2074 2381 1.981254 CAATCATCAAACGTGCACCC 58.019 50.000 12.15 0.00 0.00 4.61
2087 2394 3.191669 CGTGCACCCAGTTATCGAATTA 58.808 45.455 12.15 0.00 0.00 1.40
2175 2486 6.291377 AGCACTGATAGACTGTGAAAAGAAA 58.709 36.000 10.14 0.00 46.54 2.52
2178 2489 8.887717 GCACTGATAGACTGTGAAAAGAAATAT 58.112 33.333 10.14 0.00 46.54 1.28
2190 2501 8.296000 TGTGAAAAGAAATATGATTTCTCGCAA 58.704 29.630 13.39 0.89 37.75 4.85
2191 2502 9.128107 GTGAAAAGAAATATGATTTCTCGCAAA 57.872 29.630 13.39 0.00 37.75 3.68
2192 2503 9.689976 TGAAAAGAAATATGATTTCTCGCAAAA 57.310 25.926 13.39 0.00 37.75 2.44
2235 2546 4.262510 GCAAGTTGTACTCTACGATCGTTC 59.737 45.833 27.88 10.50 0.00 3.95
2374 2686 3.005554 CAAGTCCTGCTATCTTGTGTGG 58.994 50.000 0.00 0.00 35.34 4.17
2549 2898 7.618502 TTTAGTGCAAAGAACTGACTAAACA 57.381 32.000 0.00 0.00 35.31 2.83
2550 2899 7.801716 TTAGTGCAAAGAACTGACTAAACAT 57.198 32.000 0.00 0.00 0.00 2.71
2610 2959 4.092383 GGCACGTAACACAATTATTCTCGT 59.908 41.667 0.00 0.00 0.00 4.18
2615 2964 7.271868 CACGTAACACAATTATTCTCGTACTCA 59.728 37.037 0.00 0.00 0.00 3.41
2636 2985 7.923888 ACTCAAGAAATGTTCCAATATGATCG 58.076 34.615 0.00 0.00 0.00 3.69
2676 3025 5.766174 GGGTTGTAGACAAAACCTGTGAATA 59.234 40.000 4.70 0.00 44.43 1.75
2687 3036 9.131791 ACAAAACCTGTGAATAGTTTGTAATCT 57.868 29.630 0.00 0.00 36.69 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 1.500512 TTTGGTGTTCGCACTACGGC 61.501 55.000 0.00 0.00 46.81 5.68
35 36 0.511221 CTTTGGTGTTCGCACTACGG 59.489 55.000 0.00 0.00 46.81 4.02
36 37 1.455786 CTCTTTGGTGTTCGCACTACG 59.544 52.381 0.00 0.00 46.81 3.51
37 38 2.480845 ACTCTTTGGTGTTCGCACTAC 58.519 47.619 0.00 0.00 46.81 2.73
38 39 2.902705 ACTCTTTGGTGTTCGCACTA 57.097 45.000 0.00 0.00 46.81 2.74
39 40 2.480845 GTACTCTTTGGTGTTCGCACT 58.519 47.619 0.00 0.00 46.81 4.40
40 41 1.529865 GGTACTCTTTGGTGTTCGCAC 59.470 52.381 0.00 0.00 46.91 5.34
41 42 1.541670 GGGTACTCTTTGGTGTTCGCA 60.542 52.381 0.00 0.00 0.00 5.10
42 43 1.154197 GGGTACTCTTTGGTGTTCGC 58.846 55.000 0.00 0.00 0.00 4.70
43 44 2.036733 TGAGGGTACTCTTTGGTGTTCG 59.963 50.000 0.00 0.00 44.29 3.95
44 45 3.764237 TGAGGGTACTCTTTGGTGTTC 57.236 47.619 0.00 0.00 44.29 3.18
45 46 3.458487 AGTTGAGGGTACTCTTTGGTGTT 59.542 43.478 0.00 0.00 44.29 3.32
46 47 3.046374 AGTTGAGGGTACTCTTTGGTGT 58.954 45.455 0.00 0.00 44.29 4.16
47 48 3.771577 AGTTGAGGGTACTCTTTGGTG 57.228 47.619 0.00 0.00 44.29 4.17
48 49 4.445879 GGAAAGTTGAGGGTACTCTTTGGT 60.446 45.833 0.00 0.00 44.29 3.67
49 50 4.072839 GGAAAGTTGAGGGTACTCTTTGG 58.927 47.826 0.00 0.00 44.29 3.28
50 51 4.714632 TGGAAAGTTGAGGGTACTCTTTG 58.285 43.478 0.00 0.00 44.29 2.77
51 52 5.382664 TTGGAAAGTTGAGGGTACTCTTT 57.617 39.130 0.00 0.00 44.29 2.52
52 53 5.382664 TTTGGAAAGTTGAGGGTACTCTT 57.617 39.130 0.00 0.00 44.29 2.85
53 54 5.382664 TTTTGGAAAGTTGAGGGTACTCT 57.617 39.130 0.00 0.00 44.29 3.24
54 55 6.940867 ACTATTTTGGAAAGTTGAGGGTACTC 59.059 38.462 0.00 0.00 44.23 2.59
55 56 6.849151 ACTATTTTGGAAAGTTGAGGGTACT 58.151 36.000 0.00 0.00 0.00 2.73
56 57 7.120285 GGTACTATTTTGGAAAGTTGAGGGTAC 59.880 40.741 0.00 0.00 0.00 3.34
57 58 7.017850 AGGTACTATTTTGGAAAGTTGAGGGTA 59.982 37.037 0.00 0.00 36.02 3.69
58 59 6.008331 GGTACTATTTTGGAAAGTTGAGGGT 58.992 40.000 0.00 0.00 0.00 4.34
59 60 6.246163 AGGTACTATTTTGGAAAGTTGAGGG 58.754 40.000 0.00 0.00 36.02 4.30
60 61 7.761038 AAGGTACTATTTTGGAAAGTTGAGG 57.239 36.000 0.00 0.00 38.49 3.86
80 81 9.942526 AAAGGATTCAAATCTTCCATATAAGGT 57.057 29.630 2.96 0.00 35.73 3.50
93 94 9.884465 CGGTTCTGATATTAAAGGATTCAAATC 57.116 33.333 0.00 0.00 34.66 2.17
94 95 9.408648 ACGGTTCTGATATTAAAGGATTCAAAT 57.591 29.630 0.00 0.00 0.00 2.32
95 96 8.801882 ACGGTTCTGATATTAAAGGATTCAAA 57.198 30.769 0.00 0.00 0.00 2.69
96 97 8.044309 TGACGGTTCTGATATTAAAGGATTCAA 58.956 33.333 0.00 0.00 0.00 2.69
97 98 7.561251 TGACGGTTCTGATATTAAAGGATTCA 58.439 34.615 0.00 0.00 0.00 2.57
98 99 8.499162 CATGACGGTTCTGATATTAAAGGATTC 58.501 37.037 0.00 0.00 0.00 2.52
99 100 7.041098 GCATGACGGTTCTGATATTAAAGGATT 60.041 37.037 0.00 0.00 0.00 3.01
100 101 6.428159 GCATGACGGTTCTGATATTAAAGGAT 59.572 38.462 0.00 0.00 0.00 3.24
101 102 5.758296 GCATGACGGTTCTGATATTAAAGGA 59.242 40.000 0.00 0.00 0.00 3.36
102 103 5.527214 TGCATGACGGTTCTGATATTAAAGG 59.473 40.000 0.00 0.00 0.00 3.11
103 104 6.603237 TGCATGACGGTTCTGATATTAAAG 57.397 37.500 0.00 0.00 0.00 1.85
104 105 6.993786 TTGCATGACGGTTCTGATATTAAA 57.006 33.333 0.00 0.00 0.00 1.52
105 106 6.993786 TTTGCATGACGGTTCTGATATTAA 57.006 33.333 0.00 0.00 0.00 1.40
106 107 6.993786 TTTTGCATGACGGTTCTGATATTA 57.006 33.333 0.00 0.00 0.00 0.98
107 108 5.895636 TTTTGCATGACGGTTCTGATATT 57.104 34.783 0.00 0.00 0.00 1.28
108 109 6.095300 TGAATTTTGCATGACGGTTCTGATAT 59.905 34.615 0.00 0.00 0.00 1.63
109 110 5.414144 TGAATTTTGCATGACGGTTCTGATA 59.586 36.000 0.00 0.00 0.00 2.15
110 111 4.218200 TGAATTTTGCATGACGGTTCTGAT 59.782 37.500 0.00 0.00 0.00 2.90
111 112 3.567585 TGAATTTTGCATGACGGTTCTGA 59.432 39.130 0.00 0.00 0.00 3.27
112 113 3.899734 TGAATTTTGCATGACGGTTCTG 58.100 40.909 0.00 0.00 0.00 3.02
113 114 4.789012 ATGAATTTTGCATGACGGTTCT 57.211 36.364 0.00 0.00 0.00 3.01
114 115 5.861251 TGTTATGAATTTTGCATGACGGTTC 59.139 36.000 0.00 0.00 35.67 3.62
115 116 5.777802 TGTTATGAATTTTGCATGACGGTT 58.222 33.333 0.00 0.00 35.67 4.44
116 117 5.384063 TGTTATGAATTTTGCATGACGGT 57.616 34.783 0.00 0.00 35.67 4.83
117 118 6.702972 TTTGTTATGAATTTTGCATGACGG 57.297 33.333 0.00 0.00 35.67 4.79
118 119 7.786114 ACTTTTGTTATGAATTTTGCATGACG 58.214 30.769 0.00 0.00 35.67 4.35
135 136 8.243426 CCATGCTACACATACAATACTTTTGTT 58.757 33.333 0.00 0.00 36.64 2.83
136 137 7.393234 ACCATGCTACACATACAATACTTTTGT 59.607 33.333 0.00 0.00 36.64 2.83
137 138 7.761409 ACCATGCTACACATACAATACTTTTG 58.239 34.615 0.00 0.00 36.64 2.44
138 139 7.938140 ACCATGCTACACATACAATACTTTT 57.062 32.000 0.00 0.00 36.64 2.27
139 140 7.938140 AACCATGCTACACATACAATACTTT 57.062 32.000 0.00 0.00 36.64 2.66
140 141 7.938140 AAACCATGCTACACATACAATACTT 57.062 32.000 0.00 0.00 36.64 2.24
141 142 7.938140 AAAACCATGCTACACATACAATACT 57.062 32.000 0.00 0.00 36.64 2.12
170 171 9.334693 GCTAGCAAAAATGCATATAAGTCATAC 57.665 33.333 10.63 0.00 37.25 2.39
171 172 9.288576 AGCTAGCAAAAATGCATATAAGTCATA 57.711 29.630 18.83 0.00 37.25 2.15
172 173 8.174733 AGCTAGCAAAAATGCATATAAGTCAT 57.825 30.769 18.83 0.00 37.25 3.06
173 174 7.572523 AGCTAGCAAAAATGCATATAAGTCA 57.427 32.000 18.83 0.00 37.25 3.41
174 175 8.862550 AAAGCTAGCAAAAATGCATATAAGTC 57.137 30.769 18.83 0.00 37.25 3.01
175 176 7.645340 CGAAAGCTAGCAAAAATGCATATAAGT 59.355 33.333 18.83 0.00 37.25 2.24
176 177 7.113965 CCGAAAGCTAGCAAAAATGCATATAAG 59.886 37.037 18.83 0.00 37.25 1.73
177 178 6.917477 CCGAAAGCTAGCAAAAATGCATATAA 59.083 34.615 18.83 0.00 37.25 0.98
178 179 6.437928 CCGAAAGCTAGCAAAAATGCATATA 58.562 36.000 18.83 0.00 37.25 0.86
179 180 5.284079 CCGAAAGCTAGCAAAAATGCATAT 58.716 37.500 18.83 0.00 37.25 1.78
180 181 4.671377 CCGAAAGCTAGCAAAAATGCATA 58.329 39.130 18.83 0.00 37.25 3.14
181 182 3.514645 CCGAAAGCTAGCAAAAATGCAT 58.485 40.909 18.83 0.00 37.25 3.96
182 183 2.926159 GCCGAAAGCTAGCAAAAATGCA 60.926 45.455 18.83 0.00 38.99 3.96
183 184 1.655597 GCCGAAAGCTAGCAAAAATGC 59.344 47.619 18.83 8.37 38.99 3.56
184 185 2.945278 TGCCGAAAGCTAGCAAAAATG 58.055 42.857 18.83 1.61 44.23 2.32
185 186 3.514645 CATGCCGAAAGCTAGCAAAAAT 58.485 40.909 18.83 0.00 44.23 1.82
186 187 2.926159 GCATGCCGAAAGCTAGCAAAAA 60.926 45.455 18.83 0.00 44.23 1.94
187 188 1.402720 GCATGCCGAAAGCTAGCAAAA 60.403 47.619 18.83 0.00 44.23 2.44
188 189 0.171007 GCATGCCGAAAGCTAGCAAA 59.829 50.000 18.83 0.00 44.23 3.68
189 190 1.802636 GCATGCCGAAAGCTAGCAA 59.197 52.632 18.83 0.00 44.23 3.91
190 191 2.463620 CGCATGCCGAAAGCTAGCA 61.464 57.895 18.83 3.50 44.23 3.49
191 192 2.325857 CGCATGCCGAAAGCTAGC 59.674 61.111 13.15 6.62 44.23 3.42
192 193 2.325857 GCGCATGCCGAAAGCTAG 59.674 61.111 13.15 0.00 44.23 3.42
209 210 4.421515 CTGGTGGCTGCAGGGAGG 62.422 72.222 17.12 0.00 0.00 4.30
217 218 3.278072 ATCTGGTGGCTGGTGGCTG 62.278 63.158 0.00 0.00 41.46 4.85
218 219 2.937689 ATCTGGTGGCTGGTGGCT 60.938 61.111 0.00 0.00 41.46 4.75
219 220 2.753043 CATCTGGTGGCTGGTGGC 60.753 66.667 0.00 0.00 40.90 5.01
220 221 1.377725 GTCATCTGGTGGCTGGTGG 60.378 63.158 0.00 0.00 0.00 4.61
221 222 0.957395 GTGTCATCTGGTGGCTGGTG 60.957 60.000 0.00 0.00 32.24 4.17
222 223 1.130054 AGTGTCATCTGGTGGCTGGT 61.130 55.000 0.00 0.00 32.24 4.00
223 224 0.675837 CAGTGTCATCTGGTGGCTGG 60.676 60.000 0.00 0.00 32.24 4.85
224 225 0.035881 ACAGTGTCATCTGGTGGCTG 59.964 55.000 0.00 0.83 39.48 4.85
225 226 0.767375 AACAGTGTCATCTGGTGGCT 59.233 50.000 0.00 0.00 39.48 4.75
226 227 1.609208 AAACAGTGTCATCTGGTGGC 58.391 50.000 0.00 0.00 39.48 5.01
227 228 4.008074 ACTAAACAGTGTCATCTGGTGG 57.992 45.455 0.00 1.99 39.48 4.61
228 229 7.173218 ACAATAACTAAACAGTGTCATCTGGTG 59.827 37.037 0.00 0.00 39.48 4.17
229 230 7.224297 ACAATAACTAAACAGTGTCATCTGGT 58.776 34.615 0.00 0.00 39.48 4.00
230 231 7.672983 ACAATAACTAAACAGTGTCATCTGG 57.327 36.000 0.00 0.00 39.48 3.86
231 232 7.535258 GCAACAATAACTAAACAGTGTCATCTG 59.465 37.037 0.00 0.00 40.80 2.90
232 233 7.571244 CGCAACAATAACTAAACAGTGTCATCT 60.571 37.037 0.00 0.00 0.00 2.90
233 234 6.519761 CGCAACAATAACTAAACAGTGTCATC 59.480 38.462 0.00 0.00 0.00 2.92
234 235 6.017440 ACGCAACAATAACTAAACAGTGTCAT 60.017 34.615 0.00 0.00 0.00 3.06
235 236 5.294799 ACGCAACAATAACTAAACAGTGTCA 59.705 36.000 0.00 0.00 0.00 3.58
236 237 5.744490 ACGCAACAATAACTAAACAGTGTC 58.256 37.500 0.00 0.00 0.00 3.67
237 238 5.744666 ACGCAACAATAACTAAACAGTGT 57.255 34.783 0.00 0.00 0.00 3.55
238 239 5.968848 ACAACGCAACAATAACTAAACAGTG 59.031 36.000 0.00 0.00 0.00 3.66
239 240 5.968848 CACAACGCAACAATAACTAAACAGT 59.031 36.000 0.00 0.00 0.00 3.55
240 241 5.108405 GCACAACGCAACAATAACTAAACAG 60.108 40.000 0.00 0.00 41.79 3.16
241 242 4.735822 GCACAACGCAACAATAACTAAACA 59.264 37.500 0.00 0.00 41.79 2.83
242 243 4.973663 AGCACAACGCAACAATAACTAAAC 59.026 37.500 0.00 0.00 46.13 2.01
243 244 5.176407 AGCACAACGCAACAATAACTAAA 57.824 34.783 0.00 0.00 46.13 1.85
244 245 4.822036 AGCACAACGCAACAATAACTAA 57.178 36.364 0.00 0.00 46.13 2.24
245 246 4.822036 AAGCACAACGCAACAATAACTA 57.178 36.364 0.00 0.00 46.13 2.24
246 247 3.708563 AAGCACAACGCAACAATAACT 57.291 38.095 0.00 0.00 46.13 2.24
247 248 5.856455 AGAATAAGCACAACGCAACAATAAC 59.144 36.000 0.00 0.00 46.13 1.89
248 249 6.007936 AGAATAAGCACAACGCAACAATAA 57.992 33.333 0.00 0.00 46.13 1.40
249 250 5.621197 AGAATAAGCACAACGCAACAATA 57.379 34.783 0.00 0.00 46.13 1.90
250 251 4.503741 AGAATAAGCACAACGCAACAAT 57.496 36.364 0.00 0.00 46.13 2.71
251 252 3.980646 AGAATAAGCACAACGCAACAA 57.019 38.095 0.00 0.00 46.13 2.83
252 253 4.142708 CCATAGAATAAGCACAACGCAACA 60.143 41.667 0.00 0.00 46.13 3.33
253 254 4.094294 TCCATAGAATAAGCACAACGCAAC 59.906 41.667 0.00 0.00 46.13 4.17
254 255 4.094294 GTCCATAGAATAAGCACAACGCAA 59.906 41.667 0.00 0.00 46.13 4.85
255 256 3.621268 GTCCATAGAATAAGCACAACGCA 59.379 43.478 0.00 0.00 46.13 5.24
256 257 3.621268 TGTCCATAGAATAAGCACAACGC 59.379 43.478 0.00 0.00 42.91 4.84
257 258 4.259810 CGTGTCCATAGAATAAGCACAACG 60.260 45.833 0.00 0.00 0.00 4.10
258 259 4.630069 ACGTGTCCATAGAATAAGCACAAC 59.370 41.667 0.00 0.00 0.00 3.32
259 260 4.827692 ACGTGTCCATAGAATAAGCACAA 58.172 39.130 0.00 0.00 0.00 3.33
260 261 4.081917 TGACGTGTCCATAGAATAAGCACA 60.082 41.667 0.00 0.00 0.00 4.57
261 262 4.430007 TGACGTGTCCATAGAATAAGCAC 58.570 43.478 0.00 0.00 0.00 4.40
262 263 4.729227 TGACGTGTCCATAGAATAAGCA 57.271 40.909 0.00 0.00 0.00 3.91
263 264 5.109903 ACTTGACGTGTCCATAGAATAAGC 58.890 41.667 0.00 0.00 0.00 3.09
264 265 8.353684 AGATACTTGACGTGTCCATAGAATAAG 58.646 37.037 0.00 0.00 34.59 1.73
265 266 8.234136 AGATACTTGACGTGTCCATAGAATAA 57.766 34.615 0.00 0.00 34.59 1.40
266 267 7.720074 AGAGATACTTGACGTGTCCATAGAATA 59.280 37.037 0.00 0.00 34.59 1.75
267 268 6.547880 AGAGATACTTGACGTGTCCATAGAAT 59.452 38.462 0.00 0.00 34.59 2.40
268 269 5.886474 AGAGATACTTGACGTGTCCATAGAA 59.114 40.000 0.00 0.00 34.59 2.10
269 270 5.437946 AGAGATACTTGACGTGTCCATAGA 58.562 41.667 0.00 0.00 34.59 1.98
270 271 5.278071 GGAGAGATACTTGACGTGTCCATAG 60.278 48.000 0.00 0.00 34.59 2.23
271 272 4.579340 GGAGAGATACTTGACGTGTCCATA 59.421 45.833 0.00 0.00 34.59 2.74
272 273 3.381908 GGAGAGATACTTGACGTGTCCAT 59.618 47.826 0.00 0.00 34.59 3.41
273 274 2.753452 GGAGAGATACTTGACGTGTCCA 59.247 50.000 0.00 0.00 34.59 4.02
274 275 3.018149 AGGAGAGATACTTGACGTGTCC 58.982 50.000 0.00 0.00 34.59 4.02
275 276 3.440872 ACAGGAGAGATACTTGACGTGTC 59.559 47.826 0.00 0.00 34.29 3.67
276 277 3.422796 ACAGGAGAGATACTTGACGTGT 58.577 45.455 0.00 0.00 0.00 4.49
277 278 4.442375 AACAGGAGAGATACTTGACGTG 57.558 45.455 0.00 0.00 0.00 4.49
278 279 4.523173 TGAAACAGGAGAGATACTTGACGT 59.477 41.667 0.00 0.00 0.00 4.34
279 280 5.060662 TGAAACAGGAGAGATACTTGACG 57.939 43.478 0.00 0.00 0.00 4.35
280 281 5.346281 CGTTGAAACAGGAGAGATACTTGAC 59.654 44.000 0.00 0.00 0.00 3.18
281 282 5.470368 CGTTGAAACAGGAGAGATACTTGA 58.530 41.667 0.00 0.00 0.00 3.02
282 283 4.092091 GCGTTGAAACAGGAGAGATACTTG 59.908 45.833 0.00 0.00 0.00 3.16
283 284 4.246458 GCGTTGAAACAGGAGAGATACTT 58.754 43.478 0.00 0.00 0.00 2.24
284 285 3.258372 TGCGTTGAAACAGGAGAGATACT 59.742 43.478 0.00 0.00 0.00 2.12
285 286 3.368236 GTGCGTTGAAACAGGAGAGATAC 59.632 47.826 0.00 0.00 0.00 2.24
286 287 3.585862 GTGCGTTGAAACAGGAGAGATA 58.414 45.455 0.00 0.00 0.00 1.98
287 288 2.417719 GTGCGTTGAAACAGGAGAGAT 58.582 47.619 0.00 0.00 0.00 2.75
288 289 1.865865 GTGCGTTGAAACAGGAGAGA 58.134 50.000 0.00 0.00 0.00 3.10
289 290 0.508641 CGTGCGTTGAAACAGGAGAG 59.491 55.000 0.00 0.00 0.00 3.20
290 291 0.878523 CCGTGCGTTGAAACAGGAGA 60.879 55.000 0.00 0.00 0.00 3.71
291 292 0.878523 TCCGTGCGTTGAAACAGGAG 60.879 55.000 0.00 0.00 0.00 3.69
292 293 1.144276 TCCGTGCGTTGAAACAGGA 59.856 52.632 0.00 0.00 0.00 3.86
293 294 1.278637 GTCCGTGCGTTGAAACAGG 59.721 57.895 0.00 0.00 0.00 4.00
294 295 0.586319 ATGTCCGTGCGTTGAAACAG 59.414 50.000 0.00 0.00 0.00 3.16
295 296 1.018148 AATGTCCGTGCGTTGAAACA 58.982 45.000 0.00 0.00 0.00 2.83
296 297 1.778591 CAAATGTCCGTGCGTTGAAAC 59.221 47.619 0.00 0.00 0.00 2.78
297 298 1.402259 ACAAATGTCCGTGCGTTGAAA 59.598 42.857 0.00 0.00 0.00 2.69
298 299 1.018148 ACAAATGTCCGTGCGTTGAA 58.982 45.000 0.00 0.00 0.00 2.69
299 300 0.306228 CACAAATGTCCGTGCGTTGA 59.694 50.000 0.00 0.00 0.00 3.18
300 301 2.782171 CACAAATGTCCGTGCGTTG 58.218 52.632 0.00 0.00 0.00 4.10
305 306 3.364964 GGAAACTAGCACAAATGTCCGTG 60.365 47.826 0.00 0.00 36.18 4.94
306 307 2.812011 GGAAACTAGCACAAATGTCCGT 59.188 45.455 0.00 0.00 0.00 4.69
307 308 2.161609 GGGAAACTAGCACAAATGTCCG 59.838 50.000 0.00 0.00 0.00 4.79
308 309 2.492088 GGGGAAACTAGCACAAATGTCC 59.508 50.000 0.00 0.00 0.00 4.02
309 310 3.421844 AGGGGAAACTAGCACAAATGTC 58.578 45.455 0.00 0.00 0.00 3.06
310 311 3.525800 AGGGGAAACTAGCACAAATGT 57.474 42.857 0.00 0.00 0.00 2.71
311 312 5.622233 GCTTTAGGGGAAACTAGCACAAATG 60.622 44.000 0.00 0.00 0.00 2.32
312 313 4.462834 GCTTTAGGGGAAACTAGCACAAAT 59.537 41.667 0.00 0.00 0.00 2.32
313 314 3.824443 GCTTTAGGGGAAACTAGCACAAA 59.176 43.478 0.00 0.00 0.00 2.83
314 315 3.181438 TGCTTTAGGGGAAACTAGCACAA 60.181 43.478 0.00 0.00 0.00 3.33
315 316 2.373836 TGCTTTAGGGGAAACTAGCACA 59.626 45.455 0.00 0.00 0.00 4.57
316 317 2.747989 GTGCTTTAGGGGAAACTAGCAC 59.252 50.000 8.97 8.97 37.70 4.40
317 318 2.373836 TGTGCTTTAGGGGAAACTAGCA 59.626 45.455 0.00 0.00 0.00 3.49
318 319 3.067684 TGTGCTTTAGGGGAAACTAGC 57.932 47.619 0.00 0.00 0.00 3.42
319 320 3.378427 GCATGTGCTTTAGGGGAAACTAG 59.622 47.826 0.00 0.00 38.21 2.57
320 321 3.352648 GCATGTGCTTTAGGGGAAACTA 58.647 45.455 0.00 0.00 38.21 2.24
321 322 2.171003 GCATGTGCTTTAGGGGAAACT 58.829 47.619 0.00 0.00 38.21 2.66
322 323 1.204704 GGCATGTGCTTTAGGGGAAAC 59.795 52.381 4.84 0.00 41.70 2.78
339 340 6.659745 ATGGAGTGTTAGTTATATACGGCA 57.340 37.500 0.00 0.00 0.00 5.69
346 347 6.826741 GCAAGGGAAATGGAGTGTTAGTTATA 59.173 38.462 0.00 0.00 0.00 0.98
373 374 9.442047 GACTTGGTATTTGAGAAGGGATATATG 57.558 37.037 0.00 0.00 0.00 1.78
377 378 6.099845 GGAGACTTGGTATTTGAGAAGGGATA 59.900 42.308 0.00 0.00 0.00 2.59
385 386 3.283259 GGGGGAGACTTGGTATTTGAG 57.717 52.381 0.00 0.00 0.00 3.02
405 406 3.864243 TGTATAAGCCCGTGTAACAAGG 58.136 45.455 0.00 0.00 35.74 3.61
406 407 5.176958 GCTATGTATAAGCCCGTGTAACAAG 59.823 44.000 0.00 0.00 32.45 3.16
407 408 5.051816 GCTATGTATAAGCCCGTGTAACAA 58.948 41.667 0.00 0.00 32.45 2.83
466 467 4.887071 TCTTATCAACCATTGTACATGCCC 59.113 41.667 0.00 0.00 0.00 5.36
467 468 6.639632 ATCTTATCAACCATTGTACATGCC 57.360 37.500 0.00 0.00 0.00 4.40
577 578 7.121168 TCTCACCACATTTTTAGGAATTGCTAG 59.879 37.037 6.79 0.00 0.00 3.42
656 931 8.608185 AGGAGAGAGAACTCATAAGAAAAGAT 57.392 34.615 4.64 0.00 44.79 2.40
709 984 7.307632 GCATGTACAATGGTGCTATCTTAAGAG 60.308 40.741 11.53 0.00 34.85 2.85
711 986 6.293626 GGCATGTACAATGGTGCTATCTTAAG 60.294 42.308 16.47 0.00 37.70 1.85
712 987 5.530915 GGCATGTACAATGGTGCTATCTTAA 59.469 40.000 16.47 0.00 37.70 1.85
720 995 2.051334 TAGGGCATGTACAATGGTGC 57.949 50.000 10.12 10.12 36.88 5.01
721 996 2.354510 CGTTAGGGCATGTACAATGGTG 59.645 50.000 0.00 0.00 0.00 4.17
747 1022 5.443185 TTAGTTAGTGCGTGAGTGTAGTT 57.557 39.130 0.00 0.00 0.00 2.24
757 1032 6.263516 TGATAGTCAGTTTAGTTAGTGCGT 57.736 37.500 0.00 0.00 0.00 5.24
783 1058 1.364721 CATGTGGGTTGCAATGCATG 58.635 50.000 9.39 11.08 38.76 4.06
784 1059 0.391927 GCATGTGGGTTGCAATGCAT 60.392 50.000 9.39 8.38 38.76 3.96
785 1060 1.004799 GCATGTGGGTTGCAATGCA 60.005 52.632 14.02 2.72 39.90 3.96
786 1061 1.004799 TGCATGTGGGTTGCAATGC 60.005 52.632 12.42 12.42 46.48 3.56
825 1102 2.429250 TGTGTTCTCTCCTCACGAAACA 59.571 45.455 0.00 0.00 35.20 2.83
827 1104 3.383505 TCTTGTGTTCTCTCCTCACGAAA 59.616 43.478 0.00 0.00 35.20 3.46
863 1140 9.829507 ATAAGGAGATAGAGATGTTTTCTGTTG 57.170 33.333 0.00 0.00 33.74 3.33
1380 1659 0.975887 GGCAAAGGCAGATGGGAAAA 59.024 50.000 0.00 0.00 43.71 2.29
1444 1723 0.622665 AAGAGTTGGCCTCCATCCAG 59.377 55.000 3.32 0.00 41.47 3.86
1467 1746 2.329379 GTGTTACAAGCAGACGAGAGG 58.671 52.381 0.00 0.00 0.00 3.69
1479 1762 2.033372 TCACTCGGACTGGTGTTACAA 58.967 47.619 0.00 0.00 35.26 2.41
1582 1872 9.631257 CATAATTGGAGATGGGCACAATATATA 57.369 33.333 0.00 0.00 33.54 0.86
1583 1873 8.338493 TCATAATTGGAGATGGGCACAATATAT 58.662 33.333 0.00 0.00 33.54 0.86
1746 2038 4.453478 CCATGAATGAATCTATCACCCACG 59.547 45.833 0.00 0.00 41.93 4.94
1810 2106 4.394099 AACGCGGATAAACACAAGTTAC 57.606 40.909 12.47 0.00 36.84 2.50
1839 2135 2.710096 AATGCTACTACGGCAATGGT 57.290 45.000 0.00 0.00 43.14 3.55
1879 2182 8.173542 TGATACTAACAAATCTAGGCATACGA 57.826 34.615 0.00 0.00 0.00 3.43
1938 2241 7.797121 TGAAGCTACATATCATCCCTAATCA 57.203 36.000 0.00 0.00 0.00 2.57
1948 2251 7.920160 TTGACACAAATGAAGCTACATATCA 57.080 32.000 0.00 0.00 0.00 2.15
1977 2280 6.511977 CGAACAAATTTTCTAAAGACGACTCG 59.488 38.462 0.00 0.00 0.00 4.18
2005 2308 7.382488 ACAGACACATATATAGTTCACAATCGC 59.618 37.037 0.00 0.00 0.00 4.58
2006 2309 8.803201 ACAGACACATATATAGTTCACAATCG 57.197 34.615 0.00 0.00 0.00 3.34
2024 2329 5.408604 ACGGACATTCATAAAGAACAGACAC 59.591 40.000 0.00 0.00 39.49 3.67
2028 2335 4.695455 ACCACGGACATTCATAAAGAACAG 59.305 41.667 0.00 0.00 39.49 3.16
2068 2375 7.867305 TTAAATAATTCGATAACTGGGTGCA 57.133 32.000 0.00 0.00 0.00 4.57
2100 2407 2.954989 CAGGAGAGCATGCAGAGTAGTA 59.045 50.000 21.98 0.00 0.00 1.82
2166 2477 9.689976 TTTTGCGAGAAATCATATTTCTTTTCA 57.310 25.926 14.33 10.39 38.73 2.69
2208 2519 0.989890 GTAGAGTACAACTTGCGGCG 59.010 55.000 0.51 0.51 0.00 6.46
2235 2546 2.163412 TGCTTACTTTGCGGCATTAAGG 59.837 45.455 16.38 0.67 0.00 2.69
2273 2584 9.725019 TCTTAAGAGAAATAGCAAATGAGTTGA 57.275 29.630 0.00 0.00 39.87 3.18
2549 2898 6.698380 ACGACCAAAGTTGTAATCTACTCAT 58.302 36.000 0.00 0.00 38.95 2.90
2550 2899 6.092955 ACGACCAAAGTTGTAATCTACTCA 57.907 37.500 0.00 0.00 38.95 3.41
2590 2939 7.307694 TGAGTACGAGAATAATTGTGTTACGT 58.692 34.615 0.00 0.00 35.71 3.57
2610 2959 9.045223 CGATCATATTGGAACATTTCTTGAGTA 57.955 33.333 0.00 0.00 39.30 2.59
2615 2964 6.460123 GCACCGATCATATTGGAACATTTCTT 60.460 38.462 0.01 0.00 39.30 2.52
2636 2985 0.827507 ACCCACCTTTCATGTGCACC 60.828 55.000 15.69 0.00 32.30 5.01


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

AutoCloner maintained by Alex Coulton.