Multiple sequence alignment - TraesCS7B01G287300

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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 TraesCS7B01G287300 chr7B 100.000 3523 0 0 1 3523 523103914 523107436 0.000000e+00 6506.0
1 TraesCS7B01G287300 chr7B 91.148 915 74 6 2553 3464 125642151 125641241 0.000000e+00 1234.0
2 TraesCS7B01G287300 chr7D 94.479 1286 56 5 908 2190 495154448 495155721 0.000000e+00 1967.0
3 TraesCS7B01G287300 chr7D 89.668 271 20 4 559 829 495154159 495154421 4.360000e-89 339.0
4 TraesCS7B01G287300 chr7D 89.113 248 24 3 7 251 290865409 290865162 4.420000e-79 305.0
5 TraesCS7B01G287300 chr7D 93.333 45 2 1 3458 3501 495155920 495155964 8.160000e-07 65.8
6 TraesCS7B01G287300 chr7A 92.165 1238 87 6 925 2159 560992725 560993955 0.000000e+00 1740.0
7 TraesCS7B01G287300 chr7A 89.362 470 36 7 914 1379 560987640 560988099 2.360000e-161 579.0
8 TraesCS7B01G287300 chr7A 93.133 233 15 1 914 1145 560991879 560992111 1.210000e-89 340.0
9 TraesCS7B01G287300 chr7A 88.732 142 11 2 2169 2306 560994040 560994180 6.050000e-38 169.0
10 TraesCS7B01G287300 chr7A 79.913 229 29 10 2330 2551 560994533 560994751 6.090000e-33 152.0
11 TraesCS7B01G287300 chr7A 88.889 81 7 1 276 356 560989983 560990061 8.050000e-17 99.0
12 TraesCS7B01G287300 chr4B 92.556 900 64 2 2549 3447 642400121 642399224 0.000000e+00 1288.0
13 TraesCS7B01G287300 chr4B 100.000 28 0 0 3496 3523 300399309 300399282 6.000000e-03 52.8
14 TraesCS7B01G287300 chr2B 91.930 917 70 4 2553 3466 780018345 780019260 0.000000e+00 1280.0
15 TraesCS7B01G287300 chr2B 91.602 905 72 4 2555 3457 49898156 49897254 0.000000e+00 1247.0
16 TraesCS7B01G287300 chr2B 86.508 252 31 3 3 251 741122011 741122262 1.250000e-69 274.0
17 TraesCS7B01G287300 chr3B 92.196 897 68 2 2553 3447 792119556 792120452 0.000000e+00 1267.0
18 TraesCS7B01G287300 chr3B 91.750 897 71 3 2553 3447 792158840 792159735 0.000000e+00 1243.0
19 TraesCS7B01G287300 chr3B 91.300 908 78 1 2553 3459 730897999 730898906 0.000000e+00 1238.0
20 TraesCS7B01G287300 chr3B 100.000 28 0 0 3496 3523 152151721 152151748 6.000000e-03 52.8
21 TraesCS7B01G287300 chr6B 91.964 896 69 3 2553 3447 239281362 239282255 0.000000e+00 1253.0
22 TraesCS7B01G287300 chr6B 91.501 906 72 2 2555 3459 715187277 715186376 0.000000e+00 1242.0
23 TraesCS7B01G287300 chr3D 88.189 254 26 4 1 251 29493799 29493547 2.060000e-77 300.0
24 TraesCS7B01G287300 chrUn 89.121 239 24 2 1 237 223002146 223001908 2.660000e-76 296.0
25 TraesCS7B01G287300 chrUn 86.111 252 32 3 2 251 92406989 92407239 5.800000e-68 268.0
26 TraesCS7B01G287300 chrUn 86.166 253 30 4 2 251 380756581 380756331 5.800000e-68 268.0
27 TraesCS7B01G287300 chr1B 88.362 232 24 2 1 231 305249146 305249375 3.460000e-70 276.0
28 TraesCS7B01G287300 chr1B 86.275 255 29 6 1 251 670716767 670717019 4.480000e-69 272.0
29 TraesCS7B01G287300 chr6D 86.166 253 31 3 2 251 400091954 400092205 1.610000e-68 270.0


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 TraesCS7B01G287300 chr7B 523103914 523107436 3522 False 6506.000000 6506 100.000000 1 3523 1 chr7B.!!$F1 3522
1 TraesCS7B01G287300 chr7B 125641241 125642151 910 True 1234.000000 1234 91.148000 2553 3464 1 chr7B.!!$R1 911
2 TraesCS7B01G287300 chr7D 495154159 495155964 1805 False 790.600000 1967 92.493333 559 3501 3 chr7D.!!$F1 2942
3 TraesCS7B01G287300 chr7A 560987640 560994751 7111 False 513.166667 1740 88.699000 276 2551 6 chr7A.!!$F1 2275
4 TraesCS7B01G287300 chr4B 642399224 642400121 897 True 1288.000000 1288 92.556000 2549 3447 1 chr4B.!!$R2 898
5 TraesCS7B01G287300 chr2B 780018345 780019260 915 False 1280.000000 1280 91.930000 2553 3466 1 chr2B.!!$F2 913
6 TraesCS7B01G287300 chr2B 49897254 49898156 902 True 1247.000000 1247 91.602000 2555 3457 1 chr2B.!!$R1 902
7 TraesCS7B01G287300 chr3B 792119556 792120452 896 False 1267.000000 1267 92.196000 2553 3447 1 chr3B.!!$F3 894
8 TraesCS7B01G287300 chr3B 792158840 792159735 895 False 1243.000000 1243 91.750000 2553 3447 1 chr3B.!!$F4 894
9 TraesCS7B01G287300 chr3B 730897999 730898906 907 False 1238.000000 1238 91.300000 2553 3459 1 chr3B.!!$F2 906
10 TraesCS7B01G287300 chr6B 239281362 239282255 893 False 1253.000000 1253 91.964000 2553 3447 1 chr6B.!!$F1 894
11 TraesCS7B01G287300 chr6B 715186376 715187277 901 True 1242.000000 1242 91.501000 2555 3459 1 chr6B.!!$R1 904

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
48 49 0.036732 AAAGCATCTTGAGTCGCCCA 59.963 50.0 0.00 0.0 0.0 5.36 F
52 53 0.178767 CATCTTGAGTCGCCCATCCA 59.821 55.0 0.00 0.0 0.0 3.41 F
110 111 0.244994 CGGCGATGATCCCCTAGAAG 59.755 60.0 0.00 0.0 0.0 2.85 F
299 2368 0.313672 GTCAAAGTGCGCCCATTTCA 59.686 50.0 4.18 0.0 0.0 2.69 F
1858 6059 0.176680 ATCAGATGTGCGGAGTGGTC 59.823 55.0 0.00 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1223 5421 0.172578 TGCCATTGTCGTCTCTACCG 59.827 55.0 0.00 0.0 0.00 4.02 R
1267 5468 0.457035 CCCGGAAAGATTGGCATGTG 59.543 55.0 0.73 0.0 0.00 3.21 R
1788 5989 0.647410 CATTGCTAACGAGTGCGGAG 59.353 55.0 0.00 0.0 43.17 4.63 R
2192 6468 0.178990 AAACAGGGAGTGGCCTCAAC 60.179 55.0 3.32 0.0 39.64 3.18 R
2762 7403 0.762842 ACTAGGTGGTGGCTGTGTGA 60.763 55.0 0.00 0.0 0.00 3.58 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
44 45 8.679288 ATTATTTTTGAAAGCATCTTGAGTCG 57.321 30.769 0.00 0.00 0.00 4.18
45 46 3.542712 TTTGAAAGCATCTTGAGTCGC 57.457 42.857 0.00 0.00 0.00 5.19
47 48 0.729690 GAAAGCATCTTGAGTCGCCC 59.270 55.000 0.00 0.00 0.00 6.13
48 49 0.036732 AAAGCATCTTGAGTCGCCCA 59.963 50.000 0.00 0.00 0.00 5.36
49 50 0.254178 AAGCATCTTGAGTCGCCCAT 59.746 50.000 0.00 0.00 0.00 4.00
50 51 0.179062 AGCATCTTGAGTCGCCCATC 60.179 55.000 0.00 0.00 0.00 3.51
51 52 1.162800 GCATCTTGAGTCGCCCATCC 61.163 60.000 0.00 0.00 0.00 3.51
52 53 0.178767 CATCTTGAGTCGCCCATCCA 59.821 55.000 0.00 0.00 0.00 3.41
53 54 0.911769 ATCTTGAGTCGCCCATCCAA 59.088 50.000 0.00 0.00 0.00 3.53
54 55 0.690192 TCTTGAGTCGCCCATCCAAA 59.310 50.000 0.00 0.00 0.00 3.28
55 56 1.073125 TCTTGAGTCGCCCATCCAAAA 59.927 47.619 0.00 0.00 0.00 2.44
56 57 1.885887 CTTGAGTCGCCCATCCAAAAA 59.114 47.619 0.00 0.00 0.00 1.94
58 59 1.073125 TGAGTCGCCCATCCAAAAAGA 59.927 47.619 0.00 0.00 0.00 2.52
59 60 2.290896 TGAGTCGCCCATCCAAAAAGAT 60.291 45.455 0.00 0.00 0.00 2.40
60 61 2.094675 AGTCGCCCATCCAAAAAGATG 58.905 47.619 0.00 0.00 42.79 2.90
62 63 2.098117 GTCGCCCATCCAAAAAGATGAG 59.902 50.000 3.14 0.00 45.43 2.90
63 64 2.026356 TCGCCCATCCAAAAAGATGAGA 60.026 45.455 3.14 0.00 45.43 3.27
64 65 2.754552 CGCCCATCCAAAAAGATGAGAA 59.245 45.455 3.14 0.00 45.43 2.87
65 66 3.181493 CGCCCATCCAAAAAGATGAGAAG 60.181 47.826 3.14 0.00 45.43 2.85
66 67 3.429960 GCCCATCCAAAAAGATGAGAAGC 60.430 47.826 3.14 0.00 45.43 3.86
68 69 4.021916 CCATCCAAAAAGATGAGAAGCCT 58.978 43.478 3.14 0.00 45.43 4.58
70 71 5.408356 CATCCAAAAAGATGAGAAGCCTTG 58.592 41.667 0.00 0.00 45.43 3.61
71 72 4.728772 TCCAAAAAGATGAGAAGCCTTGA 58.271 39.130 0.00 0.00 0.00 3.02
72 73 5.327732 TCCAAAAAGATGAGAAGCCTTGAT 58.672 37.500 0.00 0.00 0.00 2.57
74 75 5.330295 CAAAAAGATGAGAAGCCTTGATCG 58.670 41.667 0.00 0.00 0.00 3.69
75 76 4.478206 AAAGATGAGAAGCCTTGATCGA 57.522 40.909 0.00 0.00 0.00 3.59
76 77 4.686191 AAGATGAGAAGCCTTGATCGAT 57.314 40.909 0.00 0.00 0.00 3.59
77 78 3.992643 AGATGAGAAGCCTTGATCGATG 58.007 45.455 0.54 0.00 0.00 3.84
78 79 3.640498 AGATGAGAAGCCTTGATCGATGA 59.360 43.478 0.54 0.00 0.00 2.92
79 80 3.893326 TGAGAAGCCTTGATCGATGAA 57.107 42.857 0.54 0.00 0.00 2.57
82 83 2.093973 AGAAGCCTTGATCGATGAACGT 60.094 45.455 0.54 0.00 43.13 3.99
83 84 3.130516 AGAAGCCTTGATCGATGAACGTA 59.869 43.478 0.54 0.00 43.13 3.57
84 85 2.810650 AGCCTTGATCGATGAACGTAC 58.189 47.619 0.54 0.00 43.13 3.67
85 86 2.427453 AGCCTTGATCGATGAACGTACT 59.573 45.455 0.54 0.00 43.13 2.73
86 87 3.119101 AGCCTTGATCGATGAACGTACTT 60.119 43.478 0.54 0.00 43.13 2.24
88 89 3.551890 CCTTGATCGATGAACGTACTTGG 59.448 47.826 0.54 0.00 43.13 3.61
89 90 3.159353 TGATCGATGAACGTACTTGGG 57.841 47.619 0.54 0.00 43.13 4.12
90 91 1.859080 GATCGATGAACGTACTTGGGC 59.141 52.381 0.54 0.00 43.13 5.36
92 93 1.418342 CGATGAACGTACTTGGGCCG 61.418 60.000 0.00 0.00 37.22 6.13
93 94 1.078708 ATGAACGTACTTGGGCCGG 60.079 57.895 0.00 0.00 0.00 6.13
94 95 3.122971 GAACGTACTTGGGCCGGC 61.123 66.667 21.18 21.18 0.00 6.13
97 98 4.524318 CGTACTTGGGCCGGCGAT 62.524 66.667 22.54 6.04 0.00 4.58
98 99 2.895372 GTACTTGGGCCGGCGATG 60.895 66.667 22.54 13.93 0.00 3.84
99 100 3.078196 TACTTGGGCCGGCGATGA 61.078 61.111 22.54 5.23 0.00 2.92
100 101 2.439960 TACTTGGGCCGGCGATGAT 61.440 57.895 22.54 8.44 0.00 2.45
102 103 4.562425 TTGGGCCGGCGATGATCC 62.562 66.667 22.54 15.56 0.00 3.36
106 107 3.311110 GCCGGCGATGATCCCCTA 61.311 66.667 12.58 0.00 0.00 3.53
107 108 2.973899 CCGGCGATGATCCCCTAG 59.026 66.667 9.30 0.00 0.00 3.02
108 109 1.606601 CCGGCGATGATCCCCTAGA 60.607 63.158 9.30 0.00 0.00 2.43
110 111 0.244994 CGGCGATGATCCCCTAGAAG 59.755 60.000 0.00 0.00 0.00 2.85
112 113 1.001406 GGCGATGATCCCCTAGAAGTG 59.999 57.143 0.00 0.00 0.00 3.16
114 115 2.891580 GCGATGATCCCCTAGAAGTGTA 59.108 50.000 0.00 0.00 0.00 2.90
115 116 3.057174 GCGATGATCCCCTAGAAGTGTAG 60.057 52.174 0.00 0.00 0.00 2.74
117 118 2.679082 TGATCCCCTAGAAGTGTAGGC 58.321 52.381 0.00 0.00 38.70 3.93
118 119 1.972075 GATCCCCTAGAAGTGTAGGCC 59.028 57.143 0.00 0.00 38.70 5.19
120 121 0.686769 CCCCTAGAAGTGTAGGCCGT 60.687 60.000 0.00 0.00 38.70 5.68
121 122 0.745468 CCCTAGAAGTGTAGGCCGTC 59.255 60.000 0.00 0.00 38.70 4.79
122 123 1.471119 CCTAGAAGTGTAGGCCGTCA 58.529 55.000 0.00 0.00 33.33 4.35
123 124 1.822990 CCTAGAAGTGTAGGCCGTCAA 59.177 52.381 0.00 0.00 33.33 3.18
125 126 3.118738 CCTAGAAGTGTAGGCCGTCAAAT 60.119 47.826 0.00 0.00 33.33 2.32
128 129 2.094762 AGTGTAGGCCGTCAAATCAC 57.905 50.000 0.00 0.64 0.00 3.06
129 130 1.623811 AGTGTAGGCCGTCAAATCACT 59.376 47.619 0.00 3.05 0.00 3.41
130 131 2.829720 AGTGTAGGCCGTCAAATCACTA 59.170 45.455 0.00 0.00 33.78 2.74
132 133 4.647853 AGTGTAGGCCGTCAAATCACTATA 59.352 41.667 0.00 0.00 33.78 1.31
133 134 5.304614 AGTGTAGGCCGTCAAATCACTATAT 59.695 40.000 0.00 0.00 33.78 0.86
135 136 5.538813 TGTAGGCCGTCAAATCACTATATCT 59.461 40.000 0.00 0.00 0.00 1.98
136 137 5.552870 AGGCCGTCAAATCACTATATCTT 57.447 39.130 0.00 0.00 0.00 2.40
137 138 5.930135 AGGCCGTCAAATCACTATATCTTT 58.070 37.500 0.00 0.00 0.00 2.52
138 139 7.062749 AGGCCGTCAAATCACTATATCTTTA 57.937 36.000 0.00 0.00 0.00 1.85
139 140 6.929606 AGGCCGTCAAATCACTATATCTTTAC 59.070 38.462 0.00 0.00 0.00 2.01
140 141 6.147328 GGCCGTCAAATCACTATATCTTTACC 59.853 42.308 0.00 0.00 0.00 2.85
141 142 6.704493 GCCGTCAAATCACTATATCTTTACCA 59.296 38.462 0.00 0.00 0.00 3.25
143 144 8.712363 CCGTCAAATCACTATATCTTTACCATG 58.288 37.037 0.00 0.00 0.00 3.66
144 145 8.712363 CGTCAAATCACTATATCTTTACCATGG 58.288 37.037 11.19 11.19 0.00 3.66
145 146 9.561069 GTCAAATCACTATATCTTTACCATGGT 57.439 33.333 23.55 23.55 0.00 3.55
146 147 9.559732 TCAAATCACTATATCTTTACCATGGTG 57.440 33.333 28.17 11.15 33.77 4.17
149 150 7.669089 TCACTATATCTTTACCATGGTGTCA 57.331 36.000 28.17 4.39 34.06 3.58
150 151 8.262601 TCACTATATCTTTACCATGGTGTCAT 57.737 34.615 28.17 15.20 34.06 3.06
151 152 8.713971 TCACTATATCTTTACCATGGTGTCATT 58.286 33.333 28.17 11.66 34.06 2.57
152 153 9.996554 CACTATATCTTTACCATGGTGTCATTA 57.003 33.333 28.17 13.42 0.00 1.90
224 225 9.559732 ACAACAATATAAATTCATCAGATCCGA 57.440 29.630 0.00 0.00 0.00 4.55
243 244 4.120646 CGAATAATCGGACTGCATGAAC 57.879 45.455 0.00 0.00 45.32 3.18
244 245 3.555547 CGAATAATCGGACTGCATGAACA 59.444 43.478 0.00 0.00 45.32 3.18
245 246 4.318333 CGAATAATCGGACTGCATGAACAG 60.318 45.833 0.00 0.00 45.32 3.16
246 247 2.768253 AATCGGACTGCATGAACAGA 57.232 45.000 7.27 0.00 40.25 3.41
247 248 2.768253 ATCGGACTGCATGAACAGAA 57.232 45.000 7.27 0.00 40.25 3.02
248 249 2.542020 TCGGACTGCATGAACAGAAA 57.458 45.000 7.27 0.00 40.25 2.52
249 250 2.844946 TCGGACTGCATGAACAGAAAA 58.155 42.857 7.27 0.00 40.25 2.29
251 252 2.290367 CGGACTGCATGAACAGAAAACA 59.710 45.455 7.27 0.00 40.25 2.83
252 253 3.632189 GGACTGCATGAACAGAAAACAC 58.368 45.455 7.27 0.00 40.25 3.32
253 254 3.550842 GGACTGCATGAACAGAAAACACC 60.551 47.826 7.27 0.00 40.25 4.16
254 255 3.023119 ACTGCATGAACAGAAAACACCA 58.977 40.909 7.27 0.00 40.25 4.17
256 257 2.361757 TGCATGAACAGAAAACACCAGG 59.638 45.455 0.00 0.00 0.00 4.45
257 258 2.622942 GCATGAACAGAAAACACCAGGA 59.377 45.455 0.00 0.00 0.00 3.86
259 260 2.297701 TGAACAGAAAACACCAGGAGC 58.702 47.619 0.00 0.00 0.00 4.70
262 263 1.771255 ACAGAAAACACCAGGAGCTCT 59.229 47.619 14.64 0.00 0.00 4.09
263 264 2.173569 ACAGAAAACACCAGGAGCTCTT 59.826 45.455 14.64 2.08 0.00 2.85
264 265 3.391296 ACAGAAAACACCAGGAGCTCTTA 59.609 43.478 14.64 0.00 0.00 2.10
265 266 4.042187 ACAGAAAACACCAGGAGCTCTTAT 59.958 41.667 14.64 0.00 0.00 1.73
268 269 5.485708 AGAAAACACCAGGAGCTCTTATAGT 59.514 40.000 14.64 4.82 0.00 2.12
269 270 6.668283 AGAAAACACCAGGAGCTCTTATAGTA 59.332 38.462 14.64 0.00 0.00 1.82
270 271 5.855740 AACACCAGGAGCTCTTATAGTAC 57.144 43.478 14.64 0.00 0.00 2.73
271 272 3.884091 ACACCAGGAGCTCTTATAGTACG 59.116 47.826 14.64 0.00 0.00 3.67
272 273 2.885894 ACCAGGAGCTCTTATAGTACGC 59.114 50.000 14.64 0.00 0.00 4.42
273 274 3.150767 CCAGGAGCTCTTATAGTACGCT 58.849 50.000 14.64 0.00 0.00 5.07
274 275 3.189702 CCAGGAGCTCTTATAGTACGCTC 59.810 52.174 14.64 7.81 44.67 5.03
276 277 2.807392 GGAGCTCTTATAGTACGCTCGT 59.193 50.000 14.64 0.00 45.94 4.18
277 278 3.250521 GGAGCTCTTATAGTACGCTCGTT 59.749 47.826 14.64 0.00 45.94 3.85
279 280 3.626670 AGCTCTTATAGTACGCTCGTTGT 59.373 43.478 0.00 0.00 0.00 3.32
282 2351 4.901814 TCTTATAGTACGCTCGTTGTGTC 58.098 43.478 0.00 0.00 40.30 3.67
291 2360 0.654472 CTCGTTGTGTCAAAGTGCGC 60.654 55.000 0.00 0.00 0.00 6.09
299 2368 0.313672 GTCAAAGTGCGCCCATTTCA 59.686 50.000 4.18 0.00 0.00 2.69
305 2374 0.381801 GTGCGCCCATTTCACATAGG 59.618 55.000 4.18 0.00 0.00 2.57
306 2375 0.751277 TGCGCCCATTTCACATAGGG 60.751 55.000 4.18 0.00 44.37 3.53
356 2425 0.969894 ACAGAGCGTCTTGGCTACTT 59.030 50.000 0.00 0.00 44.93 2.24
357 2426 1.337260 ACAGAGCGTCTTGGCTACTTG 60.337 52.381 0.00 0.00 44.93 3.16
358 2427 1.067565 CAGAGCGTCTTGGCTACTTGA 60.068 52.381 0.00 0.00 44.93 3.02
359 2428 1.827969 AGAGCGTCTTGGCTACTTGAT 59.172 47.619 0.00 0.00 44.93 2.57
360 2429 2.234908 AGAGCGTCTTGGCTACTTGATT 59.765 45.455 0.00 0.00 44.93 2.57
361 2430 3.003480 GAGCGTCTTGGCTACTTGATTT 58.997 45.455 0.00 0.00 44.93 2.17
362 2431 3.412386 AGCGTCTTGGCTACTTGATTTT 58.588 40.909 0.00 0.00 42.62 1.82
363 2432 3.821033 AGCGTCTTGGCTACTTGATTTTT 59.179 39.130 0.00 0.00 42.62 1.94
368 2437 6.513393 CGTCTTGGCTACTTGATTTTTCACTT 60.513 38.462 0.00 0.00 0.00 3.16
369 2438 7.203218 GTCTTGGCTACTTGATTTTTCACTTT 58.797 34.615 0.00 0.00 0.00 2.66
372 2441 7.575414 TGGCTACTTGATTTTTCACTTTGTA 57.425 32.000 0.00 0.00 0.00 2.41
373 2442 8.001881 TGGCTACTTGATTTTTCACTTTGTAA 57.998 30.769 0.00 0.00 0.00 2.41
374 2443 8.134895 TGGCTACTTGATTTTTCACTTTGTAAG 58.865 33.333 0.00 0.00 0.00 2.34
375 2444 8.349983 GGCTACTTGATTTTTCACTTTGTAAGA 58.650 33.333 0.00 0.00 0.00 2.10
376 2445 9.730420 GCTACTTGATTTTTCACTTTGTAAGAA 57.270 29.630 0.00 0.00 0.00 2.52
463 2587 8.040132 ACAAGAATGTTTTCCAAATGTTCTGAA 58.960 29.630 0.00 0.00 35.91 3.02
464 2588 8.545420 CAAGAATGTTTTCCAAATGTTCTGAAG 58.455 33.333 0.00 0.00 31.84 3.02
583 2707 4.219944 GTGAAGAAATACCTGAAAACCCCC 59.780 45.833 0.00 0.00 0.00 5.40
586 2710 4.157246 AGAAATACCTGAAAACCCCCAAC 58.843 43.478 0.00 0.00 0.00 3.77
603 2728 3.010138 CCCAACCATCCAGGAACTTCTAA 59.990 47.826 0.00 0.00 41.22 2.10
674 2799 1.877637 TGTTGATCACTTCACCGGTG 58.122 50.000 29.26 29.26 32.84 4.94
675 2800 0.517316 GTTGATCACTTCACCGGTGC 59.483 55.000 30.25 14.20 32.84 5.01
680 2805 0.745128 TCACTTCACCGGTGCGTTTT 60.745 50.000 30.25 8.88 34.97 2.43
721 2848 3.350219 AGTGTCAAATAGGGATTGCGT 57.650 42.857 0.00 0.00 0.00 5.24
781 2908 1.277273 CTGAATGGGCTGAGACTGTGA 59.723 52.381 0.00 0.00 0.00 3.58
786 2913 2.540383 TGGGCTGAGACTGTGATAACT 58.460 47.619 0.00 0.00 0.00 2.24
802 2984 6.882140 TGTGATAACTGATAACCGGAACAAAT 59.118 34.615 9.46 0.00 0.00 2.32
830 3012 0.764890 TAGGCCGGAAGAATGGATGG 59.235 55.000 5.05 0.00 0.00 3.51
832 3014 0.819666 GGCCGGAAGAATGGATGGTC 60.820 60.000 5.05 0.00 0.00 4.02
834 3016 0.532862 CCGGAAGAATGGATGGTCGG 60.533 60.000 0.00 0.00 0.00 4.79
836 3018 0.819666 GGAAGAATGGATGGTCGGCC 60.820 60.000 0.00 0.00 0.00 6.13
846 3028 2.617021 GGATGGTCGGCCTTTGTTTCTA 60.617 50.000 7.97 0.00 35.27 2.10
855 3037 0.794473 CTTTGTTTCTACGTCGGGCC 59.206 55.000 0.00 0.00 0.00 5.80
885 3067 2.906354 CGAAACAGGGATCCAGTTAGG 58.094 52.381 18.71 11.62 32.09 2.69
890 3219 1.141858 CAGGGATCCAGTTAGGCCTTC 59.858 57.143 12.58 4.83 37.29 3.46
892 3221 1.512735 GGATCCAGTTAGGCCTTCCT 58.487 55.000 12.58 3.87 46.57 3.36
893 3222 1.418264 GGATCCAGTTAGGCCTTCCTC 59.582 57.143 12.58 0.00 43.06 3.71
894 3223 2.119495 GATCCAGTTAGGCCTTCCTCA 58.881 52.381 12.58 0.00 43.06 3.86
897 3226 2.919602 TCCAGTTAGGCCTTCCTCAATT 59.080 45.455 12.58 0.00 43.06 2.32
898 3227 3.333680 TCCAGTTAGGCCTTCCTCAATTT 59.666 43.478 12.58 0.00 43.06 1.82
899 3228 4.089361 CCAGTTAGGCCTTCCTCAATTTT 58.911 43.478 12.58 0.00 43.06 1.82
900 3229 4.528206 CCAGTTAGGCCTTCCTCAATTTTT 59.472 41.667 12.58 0.00 43.06 1.94
1020 4382 2.046023 CGAAGCCTGGCATGGTCA 60.046 61.111 22.65 0.00 0.00 4.02
1139 4501 1.067565 CCGTGAGAAGCAGAGTAAGCA 60.068 52.381 0.00 0.00 0.00 3.91
1167 5364 3.793144 CGCCGCTGCTTCTGTTCC 61.793 66.667 0.00 0.00 34.43 3.62
1223 5421 1.374758 CAGACGAGAGCAACCCCAC 60.375 63.158 0.00 0.00 0.00 4.61
1238 5439 0.815734 CCCACGGTAGAGACGACAAT 59.184 55.000 0.00 0.00 34.93 2.71
1267 5468 4.097892 CCCAAGATTTACATTGCCACTACC 59.902 45.833 0.00 0.00 0.00 3.18
1329 5530 4.748892 CGATCTACAAGAAGAGGCTTGAA 58.251 43.478 10.71 0.00 46.31 2.69
1353 5554 1.370172 GAGCGATTACGGCGTCGAT 60.370 57.895 20.03 13.92 40.11 3.59
1357 5558 1.726892 GCGATTACGGCGTCGATATCA 60.727 52.381 20.03 0.00 40.11 2.15
1381 5582 1.506718 CGCACGGAGACTCTGCTTA 59.493 57.895 11.40 0.00 0.00 3.09
1413 5614 0.458370 TGGACGACATGACATGCGAG 60.458 55.000 27.36 17.02 35.10 5.03
1432 5633 2.935201 GAGATGCTGCAGATTTTCTCGT 59.065 45.455 20.43 0.00 0.00 4.18
1443 5644 4.629200 CAGATTTTCTCGTTGAAGCTAGCT 59.371 41.667 12.68 12.68 35.89 3.32
1584 5785 2.435059 GTCGTGCAAGAGGGCTCC 60.435 66.667 1.39 0.00 34.04 4.70
1605 5806 2.040464 ATCCAGATGACCGGCCCT 60.040 61.111 0.00 0.00 0.00 5.19
1683 5884 3.662759 AACGGAGAGAGAGAGGAAGAT 57.337 47.619 0.00 0.00 0.00 2.40
1858 6059 0.176680 ATCAGATGTGCGGAGTGGTC 59.823 55.000 0.00 0.00 0.00 4.02
1954 6155 2.111999 CTGGTGTGGCGAAAGGAGGA 62.112 60.000 0.00 0.00 0.00 3.71
1955 6156 1.376037 GGTGTGGCGAAAGGAGGAG 60.376 63.158 0.00 0.00 0.00 3.69
1956 6157 1.376037 GTGTGGCGAAAGGAGGAGG 60.376 63.158 0.00 0.00 0.00 4.30
1959 6160 0.250770 GTGGCGAAAGGAGGAGGTTT 60.251 55.000 0.00 0.00 0.00 3.27
1962 6163 1.587043 GCGAAAGGAGGAGGTTTGCC 61.587 60.000 0.00 0.00 0.00 4.52
1975 6176 0.664166 GTTTGCCATTGCTGTCACGG 60.664 55.000 0.00 0.00 38.71 4.94
2023 6224 1.553690 GGCTGGTCACAAGGGCTCTA 61.554 60.000 0.00 0.00 0.00 2.43
2024 6225 0.324943 GCTGGTCACAAGGGCTCTAA 59.675 55.000 0.00 0.00 0.00 2.10
2092 6293 0.651031 GGTCAGCCGTCGAATAAAGC 59.349 55.000 0.00 0.00 0.00 3.51
2111 6312 1.068434 GCTTGAGCTCGCCTCTATCTT 59.932 52.381 9.64 0.00 41.35 2.40
2159 6360 5.407502 GCCTTACCATATGTTTTGTTGACC 58.592 41.667 1.24 0.00 0.00 4.02
2172 6448 3.627395 TGTTGACCAGATATCGCCTTT 57.373 42.857 0.00 0.00 0.00 3.11
2192 6468 2.422597 TGTGCTGGAAACCGAGTATTG 58.577 47.619 0.00 0.00 0.00 1.90
2206 6486 1.282157 AGTATTGTTGAGGCCACTCCC 59.718 52.381 5.01 0.00 43.29 4.30
2254 6534 6.040278 TGTTTTCTGGATGTGTTTCATGCTTA 59.960 34.615 0.00 0.00 43.72 3.09
2279 6559 8.268850 ACAGTATATTTTAAAGCACCAGACAG 57.731 34.615 0.00 0.00 0.00 3.51
2282 6562 9.515226 AGTATATTTTAAAGCACCAGACAGAAA 57.485 29.630 0.00 0.00 0.00 2.52
2369 6977 4.649218 ACCTTTGTTACTCCAAGCATTTGT 59.351 37.500 0.00 0.00 32.21 2.83
2371 6979 5.221224 CCTTTGTTACTCCAAGCATTTGTGA 60.221 40.000 0.00 0.00 32.21 3.58
2376 6984 2.887152 ACTCCAAGCATTTGTGAACTCC 59.113 45.455 0.00 0.00 32.21 3.85
2378 6986 1.962807 CCAAGCATTTGTGAACTCCCA 59.037 47.619 0.00 0.00 32.21 4.37
2379 6987 2.288395 CCAAGCATTTGTGAACTCCCAC 60.288 50.000 0.00 0.00 37.55 4.61
2384 6993 0.923358 TTTGTGAACTCCCACCACCT 59.077 50.000 0.00 0.00 36.26 4.00
2397 7006 2.306847 CACCACCTAGCCAAGTGTTTT 58.693 47.619 0.00 0.00 31.88 2.43
2399 7008 3.886505 CACCACCTAGCCAAGTGTTTTAA 59.113 43.478 0.00 0.00 31.88 1.52
2402 7011 5.600898 ACCACCTAGCCAAGTGTTTTAATTT 59.399 36.000 0.00 0.00 31.88 1.82
2403 7012 6.778559 ACCACCTAGCCAAGTGTTTTAATTTA 59.221 34.615 0.00 0.00 31.88 1.40
2404 7013 7.088272 CCACCTAGCCAAGTGTTTTAATTTAC 58.912 38.462 0.00 0.00 31.88 2.01
2405 7014 7.255660 CCACCTAGCCAAGTGTTTTAATTTACA 60.256 37.037 0.00 0.00 31.88 2.41
2406 7015 7.593644 CACCTAGCCAAGTGTTTTAATTTACAC 59.406 37.037 9.07 9.07 43.81 2.90
2462 7102 9.853555 TTTTCTTTATGTTGCTACATACATTGG 57.146 29.630 18.69 8.81 44.73 3.16
2512 7152 8.685257 AACTCCATATTAGATCATGTATCCCA 57.315 34.615 0.00 0.00 34.90 4.37
2596 7237 2.966309 GCGTTCTCCAACTTGCCCG 61.966 63.158 0.00 0.00 0.00 6.13
2625 7266 5.241506 TCTGGATGGTTGTTGATTGTCTTTC 59.758 40.000 0.00 0.00 0.00 2.62
2647 7288 3.613563 GCACGAATCTTGACACGAAAAA 58.386 40.909 0.00 0.00 0.00 1.94
2703 7344 0.534203 GTGGGCGTTGGAGAGTTTGA 60.534 55.000 0.00 0.00 0.00 2.69
2762 7403 0.685097 TGGGCGAAGTAGTTTCTGCT 59.315 50.000 0.00 0.00 36.36 4.24
2912 7553 7.392673 ACTGTGATTCTTTTGCTAGATGACAAT 59.607 33.333 0.00 0.00 0.00 2.71
2915 7556 8.025445 GTGATTCTTTTGCTAGATGACAATTGT 58.975 33.333 11.78 11.78 0.00 2.71
2918 7559 9.846248 ATTCTTTTGCTAGATGACAATTGTAAC 57.154 29.630 11.95 6.08 0.00 2.50
2924 7565 3.073678 AGATGACAATTGTAACTGCGCA 58.926 40.909 11.95 10.98 0.00 6.09
2950 7591 2.621055 TGGCAACCAGATAAACACACAC 59.379 45.455 0.00 0.00 0.00 3.82
3075 7718 0.318869 CACACACGGCAACTACGGTA 60.319 55.000 0.00 0.00 35.23 4.02
3085 7728 4.435425 GGCAACTACGGTATGATTACACA 58.565 43.478 0.00 0.00 0.00 3.72
3086 7729 5.054477 GGCAACTACGGTATGATTACACAT 58.946 41.667 0.00 0.00 0.00 3.21
3118 7761 7.568199 ACCATAAATTAGACATGGCAACTAC 57.432 36.000 0.00 0.00 42.54 2.73
3154 7797 5.010922 ACAAATAGAGTTGCCATGCTTTTGA 59.989 36.000 0.00 0.00 31.29 2.69
3162 7805 4.870123 TGCCATGCTTTTGAAACTACAT 57.130 36.364 0.00 0.00 0.00 2.29
3165 7808 6.054295 TGCCATGCTTTTGAAACTACATTTT 58.946 32.000 0.00 0.00 0.00 1.82
3215 7858 3.063997 CAGGATGGCAACTAAATCGTCAC 59.936 47.826 0.00 0.00 37.61 3.67
3254 7897 2.986979 TGCGCTAGGACGTGTGGA 60.987 61.111 9.73 0.00 34.88 4.02
3276 7919 0.528017 TTTTTGCTTCGTGCCACACA 59.472 45.000 0.00 0.00 42.00 3.72
3402 8045 4.293648 TCCCGCTCACACCACACG 62.294 66.667 0.00 0.00 0.00 4.49
3448 8091 2.927004 CACACGTGTGGGCATTACT 58.073 52.632 35.65 1.12 42.10 2.24
3491 8134 8.655092 TGAGTTTTGAATTCAACAAAATGTCAC 58.345 29.630 20.35 6.49 44.85 3.67
3493 8136 7.605691 AGTTTTGAATTCAACAAAATGTCACCA 59.394 29.630 20.35 0.00 44.85 4.17
3503 8146 9.388506 TCAACAAAATGTCACCAAATTTATTGT 57.611 25.926 0.00 0.00 30.95 2.71
3507 8150 9.790433 CAAAATGTCACCAAATTTATTGTAACG 57.210 29.630 0.00 0.00 0.00 3.18
3508 8151 7.575332 AATGTCACCAAATTTATTGTAACGC 57.425 32.000 0.00 0.00 0.00 4.84
3509 8152 5.462405 TGTCACCAAATTTATTGTAACGCC 58.538 37.500 0.00 0.00 0.00 5.68
3510 8153 4.860352 GTCACCAAATTTATTGTAACGCCC 59.140 41.667 0.00 0.00 0.00 6.13
3511 8154 4.082136 TCACCAAATTTATTGTAACGCCCC 60.082 41.667 0.00 0.00 0.00 5.80
3512 8155 3.119424 ACCAAATTTATTGTAACGCCCCG 60.119 43.478 0.00 0.00 0.00 5.73
3513 8156 3.440228 CAAATTTATTGTAACGCCCCGG 58.560 45.455 0.00 0.00 0.00 5.73
3514 8157 2.713863 ATTTATTGTAACGCCCCGGA 57.286 45.000 0.73 0.00 0.00 5.14
3515 8158 2.713863 TTTATTGTAACGCCCCGGAT 57.286 45.000 0.73 0.00 0.00 4.18
3516 8159 2.713863 TTATTGTAACGCCCCGGATT 57.286 45.000 0.73 0.00 0.00 3.01
3517 8160 2.243602 TATTGTAACGCCCCGGATTC 57.756 50.000 0.73 0.00 0.00 2.52
3518 8161 0.812412 ATTGTAACGCCCCGGATTCG 60.812 55.000 0.73 5.63 0.00 3.34
3519 8162 1.886253 TTGTAACGCCCCGGATTCGA 61.886 55.000 0.73 0.00 39.00 3.71
3520 8163 1.068585 GTAACGCCCCGGATTCGAT 59.931 57.895 0.73 0.02 39.00 3.59
3521 8164 1.068417 TAACGCCCCGGATTCGATG 59.932 57.895 0.73 0.00 39.00 3.84
3522 8165 2.981977 TAACGCCCCGGATTCGATGC 62.982 60.000 0.73 0.00 39.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 9.132521 CGACTCAAGATGCTTTCAAAAATAATT 57.867 29.630 0.00 0.00 0.00 1.40
19 20 7.274250 GCGACTCAAGATGCTTTCAAAAATAAT 59.726 33.333 0.00 0.00 0.00 1.28
20 21 6.582295 GCGACTCAAGATGCTTTCAAAAATAA 59.418 34.615 0.00 0.00 0.00 1.40
21 22 6.086222 GCGACTCAAGATGCTTTCAAAAATA 58.914 36.000 0.00 0.00 0.00 1.40
22 23 4.919754 GCGACTCAAGATGCTTTCAAAAAT 59.080 37.500 0.00 0.00 0.00 1.82
23 24 4.290155 GCGACTCAAGATGCTTTCAAAAA 58.710 39.130 0.00 0.00 0.00 1.94
24 25 3.304659 GGCGACTCAAGATGCTTTCAAAA 60.305 43.478 0.00 0.00 0.00 2.44
25 26 2.226437 GGCGACTCAAGATGCTTTCAAA 59.774 45.455 0.00 0.00 0.00 2.69
27 28 1.442769 GGCGACTCAAGATGCTTTCA 58.557 50.000 0.00 0.00 0.00 2.69
28 29 0.729690 GGGCGACTCAAGATGCTTTC 59.270 55.000 0.00 0.00 0.00 2.62
29 30 0.036732 TGGGCGACTCAAGATGCTTT 59.963 50.000 0.00 0.00 0.00 3.51
31 32 0.179062 GATGGGCGACTCAAGATGCT 60.179 55.000 0.00 0.00 0.00 3.79
32 33 1.162800 GGATGGGCGACTCAAGATGC 61.163 60.000 0.00 0.00 0.00 3.91
33 34 0.178767 TGGATGGGCGACTCAAGATG 59.821 55.000 0.00 0.00 0.00 2.90
34 35 0.911769 TTGGATGGGCGACTCAAGAT 59.088 50.000 0.00 0.00 0.00 2.40
35 36 0.690192 TTTGGATGGGCGACTCAAGA 59.310 50.000 0.00 0.00 0.00 3.02
37 38 1.885887 CTTTTTGGATGGGCGACTCAA 59.114 47.619 0.00 0.00 0.00 3.02
38 39 1.073125 TCTTTTTGGATGGGCGACTCA 59.927 47.619 0.00 0.00 0.00 3.41
39 40 1.821216 TCTTTTTGGATGGGCGACTC 58.179 50.000 0.00 0.00 0.00 3.36
40 41 2.094675 CATCTTTTTGGATGGGCGACT 58.905 47.619 0.00 0.00 39.33 4.18
41 42 2.091541 TCATCTTTTTGGATGGGCGAC 58.908 47.619 4.91 0.00 42.22 5.19
42 43 2.026356 TCTCATCTTTTTGGATGGGCGA 60.026 45.455 4.91 0.00 42.25 5.54
43 44 2.368439 TCTCATCTTTTTGGATGGGCG 58.632 47.619 4.91 0.00 42.25 6.13
44 45 3.429960 GCTTCTCATCTTTTTGGATGGGC 60.430 47.826 4.91 2.41 42.25 5.36
45 46 3.131755 GGCTTCTCATCTTTTTGGATGGG 59.868 47.826 4.91 1.85 43.46 4.00
47 48 5.184479 TCAAGGCTTCTCATCTTTTTGGATG 59.816 40.000 0.00 0.00 43.01 3.51
48 49 5.327732 TCAAGGCTTCTCATCTTTTTGGAT 58.672 37.500 0.00 0.00 0.00 3.41
49 50 4.728772 TCAAGGCTTCTCATCTTTTTGGA 58.271 39.130 0.00 0.00 0.00 3.53
50 51 5.648572 GATCAAGGCTTCTCATCTTTTTGG 58.351 41.667 0.00 0.00 0.00 3.28
51 52 5.122869 TCGATCAAGGCTTCTCATCTTTTTG 59.877 40.000 0.00 0.00 0.00 2.44
52 53 5.248640 TCGATCAAGGCTTCTCATCTTTTT 58.751 37.500 0.00 0.00 0.00 1.94
53 54 4.836825 TCGATCAAGGCTTCTCATCTTTT 58.163 39.130 0.00 0.00 0.00 2.27
54 55 4.478206 TCGATCAAGGCTTCTCATCTTT 57.522 40.909 0.00 0.00 0.00 2.52
55 56 4.100653 TCATCGATCAAGGCTTCTCATCTT 59.899 41.667 0.00 0.00 0.00 2.40
56 57 3.640498 TCATCGATCAAGGCTTCTCATCT 59.360 43.478 0.00 0.00 0.00 2.90
58 59 4.125703 GTTCATCGATCAAGGCTTCTCAT 58.874 43.478 0.00 0.00 0.00 2.90
59 60 3.525537 GTTCATCGATCAAGGCTTCTCA 58.474 45.455 0.00 0.00 0.00 3.27
60 61 2.537625 CGTTCATCGATCAAGGCTTCTC 59.462 50.000 0.00 0.00 42.86 2.87
62 63 2.271800 ACGTTCATCGATCAAGGCTTC 58.728 47.619 1.38 0.00 42.86 3.86
63 64 2.386661 ACGTTCATCGATCAAGGCTT 57.613 45.000 1.38 0.00 42.86 4.35
64 65 2.427453 AGTACGTTCATCGATCAAGGCT 59.573 45.455 1.38 0.00 42.86 4.58
65 66 2.810650 AGTACGTTCATCGATCAAGGC 58.189 47.619 1.38 0.00 42.86 4.35
66 67 3.551890 CCAAGTACGTTCATCGATCAAGG 59.448 47.826 0.00 0.00 42.86 3.61
68 69 3.517602 CCCAAGTACGTTCATCGATCAA 58.482 45.455 0.00 0.00 42.86 2.57
70 71 1.859080 GCCCAAGTACGTTCATCGATC 59.141 52.381 0.00 0.00 42.86 3.69
71 72 1.472728 GGCCCAAGTACGTTCATCGAT 60.473 52.381 0.00 0.00 42.86 3.59
72 73 0.108520 GGCCCAAGTACGTTCATCGA 60.109 55.000 0.00 0.00 42.86 3.59
74 75 1.087771 CCGGCCCAAGTACGTTCATC 61.088 60.000 0.00 0.00 0.00 2.92
75 76 1.078708 CCGGCCCAAGTACGTTCAT 60.079 57.895 0.00 0.00 0.00 2.57
76 77 2.344500 CCGGCCCAAGTACGTTCA 59.656 61.111 0.00 0.00 0.00 3.18
77 78 3.122971 GCCGGCCCAAGTACGTTC 61.123 66.667 18.11 0.00 0.00 3.95
82 83 2.377628 GATCATCGCCGGCCCAAGTA 62.378 60.000 23.46 1.54 0.00 2.24
83 84 3.757248 GATCATCGCCGGCCCAAGT 62.757 63.158 23.46 4.11 0.00 3.16
84 85 2.974698 GATCATCGCCGGCCCAAG 60.975 66.667 23.46 6.82 0.00 3.61
85 86 4.562425 GGATCATCGCCGGCCCAA 62.562 66.667 23.46 7.13 0.00 4.12
93 94 1.689273 ACACTTCTAGGGGATCATCGC 59.311 52.381 0.00 0.00 0.00 4.58
94 95 3.508012 CCTACACTTCTAGGGGATCATCG 59.492 52.174 0.00 0.00 30.95 3.84
96 97 3.243724 GCCTACACTTCTAGGGGATCAT 58.756 50.000 0.00 0.00 34.75 2.45
97 98 2.679082 GCCTACACTTCTAGGGGATCA 58.321 52.381 0.00 0.00 34.75 2.92
98 99 1.972075 GGCCTACACTTCTAGGGGATC 59.028 57.143 0.00 0.00 34.75 3.36
99 100 1.758123 CGGCCTACACTTCTAGGGGAT 60.758 57.143 0.00 0.00 34.75 3.85
100 101 0.396695 CGGCCTACACTTCTAGGGGA 60.397 60.000 0.00 0.00 34.75 4.81
102 103 0.745468 GACGGCCTACACTTCTAGGG 59.255 60.000 0.00 0.00 34.75 3.53
103 104 1.471119 TGACGGCCTACACTTCTAGG 58.529 55.000 0.00 0.00 37.01 3.02
104 105 3.587797 TTTGACGGCCTACACTTCTAG 57.412 47.619 0.00 0.00 0.00 2.43
105 106 3.512329 TGATTTGACGGCCTACACTTCTA 59.488 43.478 0.00 0.00 0.00 2.10
106 107 2.301870 TGATTTGACGGCCTACACTTCT 59.698 45.455 0.00 0.00 0.00 2.85
107 108 2.415512 GTGATTTGACGGCCTACACTTC 59.584 50.000 0.00 1.37 0.00 3.01
108 109 2.038557 AGTGATTTGACGGCCTACACTT 59.961 45.455 0.00 0.00 34.21 3.16
110 111 2.094762 AGTGATTTGACGGCCTACAC 57.905 50.000 0.00 0.67 0.00 2.90
112 113 6.026947 AGATATAGTGATTTGACGGCCTAC 57.973 41.667 0.00 0.00 0.00 3.18
114 115 5.552870 AAGATATAGTGATTTGACGGCCT 57.447 39.130 0.00 0.00 0.00 5.19
115 116 6.147328 GGTAAAGATATAGTGATTTGACGGCC 59.853 42.308 0.00 0.00 0.00 6.13
117 118 8.712363 CATGGTAAAGATATAGTGATTTGACGG 58.288 37.037 0.00 0.00 0.00 4.79
118 119 8.712363 CCATGGTAAAGATATAGTGATTTGACG 58.288 37.037 2.57 0.00 0.00 4.35
120 121 9.559732 CACCATGGTAAAGATATAGTGATTTGA 57.440 33.333 19.28 0.00 0.00 2.69
121 122 9.342308 ACACCATGGTAAAGATATAGTGATTTG 57.658 33.333 19.28 0.59 0.00 2.32
122 123 9.561069 GACACCATGGTAAAGATATAGTGATTT 57.439 33.333 19.28 0.00 0.00 2.17
123 124 8.713971 TGACACCATGGTAAAGATATAGTGATT 58.286 33.333 19.28 0.00 0.00 2.57
125 126 7.669089 TGACACCATGGTAAAGATATAGTGA 57.331 36.000 19.28 0.00 0.00 3.41
197 198 9.603298 CGGATCTGATGAATTTATATTGTTGTG 57.397 33.333 0.00 0.00 0.00 3.33
198 199 9.559732 TCGGATCTGATGAATTTATATTGTTGT 57.440 29.630 0.00 0.00 0.00 3.32
222 223 3.555547 TGTTCATGCAGTCCGATTATTCG 59.444 43.478 0.00 0.02 45.08 3.34
224 225 4.769688 TCTGTTCATGCAGTCCGATTATT 58.230 39.130 0.00 0.00 37.70 1.40
225 226 4.406648 TCTGTTCATGCAGTCCGATTAT 57.593 40.909 0.00 0.00 37.70 1.28
226 227 3.885724 TCTGTTCATGCAGTCCGATTA 57.114 42.857 0.00 0.00 37.70 1.75
227 228 2.768253 TCTGTTCATGCAGTCCGATT 57.232 45.000 0.00 0.00 37.70 3.34
228 229 2.768253 TTCTGTTCATGCAGTCCGAT 57.232 45.000 0.00 0.00 37.70 4.18
229 230 2.542020 TTTCTGTTCATGCAGTCCGA 57.458 45.000 0.00 0.00 37.70 4.55
230 231 2.290367 TGTTTTCTGTTCATGCAGTCCG 59.710 45.455 0.00 0.00 37.70 4.79
233 234 3.023119 TGGTGTTTTCTGTTCATGCAGT 58.977 40.909 0.00 0.00 37.70 4.40
235 236 2.361757 CCTGGTGTTTTCTGTTCATGCA 59.638 45.455 0.00 0.00 0.00 3.96
236 237 2.622942 TCCTGGTGTTTTCTGTTCATGC 59.377 45.455 0.00 0.00 0.00 4.06
237 238 3.304928 GCTCCTGGTGTTTTCTGTTCATG 60.305 47.826 0.00 0.00 0.00 3.07
238 239 2.887152 GCTCCTGGTGTTTTCTGTTCAT 59.113 45.455 0.00 0.00 0.00 2.57
239 240 2.092429 AGCTCCTGGTGTTTTCTGTTCA 60.092 45.455 0.00 0.00 0.00 3.18
240 241 2.550180 GAGCTCCTGGTGTTTTCTGTTC 59.450 50.000 0.87 0.00 0.00 3.18
241 242 2.173569 AGAGCTCCTGGTGTTTTCTGTT 59.826 45.455 10.93 0.00 0.00 3.16
242 243 1.771255 AGAGCTCCTGGTGTTTTCTGT 59.229 47.619 10.93 0.00 0.00 3.41
243 244 2.557920 AGAGCTCCTGGTGTTTTCTG 57.442 50.000 10.93 0.00 0.00 3.02
244 245 4.917906 ATAAGAGCTCCTGGTGTTTTCT 57.082 40.909 10.93 0.00 0.00 2.52
245 246 5.735766 ACTATAAGAGCTCCTGGTGTTTTC 58.264 41.667 10.93 0.00 0.00 2.29
246 247 5.763876 ACTATAAGAGCTCCTGGTGTTTT 57.236 39.130 10.93 0.00 0.00 2.43
247 248 5.163540 CGTACTATAAGAGCTCCTGGTGTTT 60.164 44.000 10.93 0.00 0.00 2.83
248 249 4.338682 CGTACTATAAGAGCTCCTGGTGTT 59.661 45.833 10.93 0.00 0.00 3.32
249 250 3.884091 CGTACTATAAGAGCTCCTGGTGT 59.116 47.826 10.93 7.27 0.00 4.16
251 252 2.885894 GCGTACTATAAGAGCTCCTGGT 59.114 50.000 10.93 6.45 0.00 4.00
252 253 3.150767 AGCGTACTATAAGAGCTCCTGG 58.849 50.000 10.93 0.00 31.94 4.45
253 254 4.413495 GAGCGTACTATAAGAGCTCCTG 57.587 50.000 10.93 0.00 46.00 3.86
257 258 3.626670 ACAACGAGCGTACTATAAGAGCT 59.373 43.478 0.00 0.00 41.29 4.09
259 260 4.906423 ACACAACGAGCGTACTATAAGAG 58.094 43.478 0.00 0.00 0.00 2.85
262 263 4.683501 TGACACAACGAGCGTACTATAA 57.316 40.909 0.00 0.00 0.00 0.98
263 264 4.683501 TTGACACAACGAGCGTACTATA 57.316 40.909 0.00 0.00 0.00 1.31
264 265 3.564235 TTGACACAACGAGCGTACTAT 57.436 42.857 0.00 0.00 0.00 2.12
265 266 3.243168 ACTTTGACACAACGAGCGTACTA 60.243 43.478 0.00 0.00 0.00 1.82
268 269 1.855978 CACTTTGACACAACGAGCGTA 59.144 47.619 0.00 0.00 0.00 4.42
269 270 0.650512 CACTTTGACACAACGAGCGT 59.349 50.000 0.00 0.00 0.00 5.07
270 271 0.654472 GCACTTTGACACAACGAGCG 60.654 55.000 0.00 0.00 0.00 5.03
271 272 0.654472 CGCACTTTGACACAACGAGC 60.654 55.000 0.00 0.00 0.00 5.03
272 273 0.654472 GCGCACTTTGACACAACGAG 60.654 55.000 0.30 0.00 0.00 4.18
273 274 1.350319 GCGCACTTTGACACAACGA 59.650 52.632 0.30 0.00 0.00 3.85
274 275 1.654137 GGCGCACTTTGACACAACG 60.654 57.895 10.83 0.00 0.00 4.10
276 277 1.106351 ATGGGCGCACTTTGACACAA 61.106 50.000 12.74 0.00 0.00 3.33
277 278 1.106351 AATGGGCGCACTTTGACACA 61.106 50.000 12.74 0.00 0.00 3.72
279 280 0.313672 GAAATGGGCGCACTTTGACA 59.686 50.000 12.74 0.00 0.00 3.58
282 2351 0.031857 TGTGAAATGGGCGCACTTTG 59.968 50.000 12.74 0.00 33.83 2.77
291 2360 1.597742 CTCGCCCTATGTGAAATGGG 58.402 55.000 0.00 0.00 42.41 4.00
299 2368 1.395826 GGTCAGAGCTCGCCCTATGT 61.396 60.000 8.37 0.00 0.00 2.29
307 2376 4.504916 CAGCCCGGTCAGAGCTCG 62.505 72.222 8.37 3.55 33.70 5.03
338 2407 1.067565 TCAAGTAGCCAAGACGCTCTG 60.068 52.381 0.00 0.00 40.39 3.35
340 2409 2.301577 ATCAAGTAGCCAAGACGCTC 57.698 50.000 0.00 0.00 40.39 5.03
443 2567 9.617523 AAAATCTTCAGAACATTTGGAAAACAT 57.382 25.926 0.00 0.00 0.00 2.71
545 2669 6.894339 TTTCTTCACTAAGCCCTAAAAAGG 57.106 37.500 0.00 0.00 32.36 3.11
546 2670 8.459635 GGTATTTCTTCACTAAGCCCTAAAAAG 58.540 37.037 0.00 0.00 32.36 2.27
547 2671 8.168058 AGGTATTTCTTCACTAAGCCCTAAAAA 58.832 33.333 0.00 0.00 32.36 1.94
548 2672 7.610305 CAGGTATTTCTTCACTAAGCCCTAAAA 59.390 37.037 0.00 0.00 32.36 1.52
549 2673 7.037873 TCAGGTATTTCTTCACTAAGCCCTAAA 60.038 37.037 0.00 0.00 32.36 1.85
550 2674 6.442564 TCAGGTATTTCTTCACTAAGCCCTAA 59.557 38.462 0.00 0.00 32.36 2.69
551 2675 5.962031 TCAGGTATTTCTTCACTAAGCCCTA 59.038 40.000 0.00 0.00 32.36 3.53
552 2676 4.783227 TCAGGTATTTCTTCACTAAGCCCT 59.217 41.667 0.00 0.00 32.36 5.19
553 2677 5.099042 TCAGGTATTTCTTCACTAAGCCC 57.901 43.478 0.00 0.00 32.36 5.19
554 2678 7.306213 GTTTTCAGGTATTTCTTCACTAAGCC 58.694 38.462 0.00 0.00 32.36 4.35
555 2679 7.306213 GGTTTTCAGGTATTTCTTCACTAAGC 58.694 38.462 0.00 0.00 32.36 3.09
556 2680 7.094334 GGGGTTTTCAGGTATTTCTTCACTAAG 60.094 40.741 0.00 0.00 0.00 2.18
557 2681 6.717997 GGGGTTTTCAGGTATTTCTTCACTAA 59.282 38.462 0.00 0.00 0.00 2.24
583 2707 5.183904 CCTTTTAGAAGTTCCTGGATGGTTG 59.816 44.000 0.00 0.00 37.07 3.77
586 2710 4.923415 ACCTTTTAGAAGTTCCTGGATGG 58.077 43.478 0.00 0.00 37.10 3.51
603 2728 6.790319 ACATGACCCAGTATTAGAAACCTTT 58.210 36.000 0.00 0.00 0.00 3.11
674 2799 3.658088 GCAACAAAATGTCGCTAAAACGC 60.658 43.478 0.00 0.00 25.48 4.84
675 2800 3.483922 TGCAACAAAATGTCGCTAAAACG 59.516 39.130 0.00 0.00 30.26 3.60
680 2805 3.699779 TGTTGCAACAAAATGTCGCTA 57.300 38.095 29.36 1.52 30.26 4.26
703 2830 5.461032 AAAAACGCAATCCCTATTTGACA 57.539 34.783 0.00 0.00 0.00 3.58
781 2908 7.033185 GCAAATTTGTTCCGGTTATCAGTTAT 58.967 34.615 19.03 0.00 0.00 1.89
786 2913 5.473846 TGTAGCAAATTTGTTCCGGTTATCA 59.526 36.000 19.03 0.00 0.00 2.15
802 2984 1.834896 TCTTCCGGCCTATGTAGCAAA 59.165 47.619 0.00 0.00 0.00 3.68
830 3012 1.458445 GACGTAGAAACAAAGGCCGAC 59.542 52.381 0.00 0.00 0.00 4.79
832 3014 0.437295 CGACGTAGAAACAAAGGCCG 59.563 55.000 0.00 0.00 0.00 6.13
834 3016 0.794473 CCCGACGTAGAAACAAAGGC 59.206 55.000 0.00 0.00 0.00 4.35
836 3018 0.794473 GGCCCGACGTAGAAACAAAG 59.206 55.000 0.00 0.00 0.00 2.77
1004 4366 1.188863 AATTGACCATGCCAGGCTTC 58.811 50.000 14.15 4.54 0.00 3.86
1020 4382 4.154195 AGTTTGCTGACGCTTCGAATAATT 59.846 37.500 0.00 0.00 36.97 1.40
1223 5421 0.172578 TGCCATTGTCGTCTCTACCG 59.827 55.000 0.00 0.00 0.00 4.02
1238 5439 3.306641 GCAATGTAAATCTTGGGTTGCCA 60.307 43.478 0.00 0.00 35.65 4.92
1267 5468 0.457035 CCCGGAAAGATTGGCATGTG 59.543 55.000 0.73 0.00 0.00 3.21
1329 5530 1.367840 GCCGTAATCGCTCTCCCAT 59.632 57.895 0.00 0.00 35.54 4.00
1381 5582 1.153901 CGTCCACGTACGATGGCTT 60.154 57.895 24.41 0.00 45.68 4.35
1413 5614 3.125829 TCAACGAGAAAATCTGCAGCATC 59.874 43.478 9.47 4.36 0.00 3.91
1432 5633 4.090090 ACAGGAGACTTAGCTAGCTTCAA 58.910 43.478 24.88 11.31 40.21 2.69
1443 5644 1.895798 CTGGCAGTGACAGGAGACTTA 59.104 52.381 19.06 0.00 40.21 2.24
1509 5710 6.541641 AGTTGAGCTTCAAATCATACTCATCC 59.458 38.462 0.00 0.00 38.22 3.51
1512 5713 8.043113 ACATAGTTGAGCTTCAAATCATACTCA 58.957 33.333 2.85 0.00 38.22 3.41
1518 5719 7.939782 TGAAAACATAGTTGAGCTTCAAATCA 58.060 30.769 2.85 0.00 38.22 2.57
1605 5806 1.277842 TGAAACGCAATGCCTCTCCTA 59.722 47.619 0.00 0.00 0.00 2.94
1662 5863 3.443145 TCTTCCTCTCTCTCTCCGTTT 57.557 47.619 0.00 0.00 0.00 3.60
1683 5884 1.872234 GTCGATTAGCTGCGCGTCA 60.872 57.895 8.43 5.42 0.00 4.35
1788 5989 0.647410 CATTGCTAACGAGTGCGGAG 59.353 55.000 0.00 0.00 43.17 4.63
1858 6059 2.352225 CGGAGCTGAGGGATAAATCGAG 60.352 54.545 0.00 0.00 0.00 4.04
1954 6155 0.675633 GTGACAGCAATGGCAAACCT 59.324 50.000 0.00 0.00 44.61 3.50
1955 6156 0.664166 CGTGACAGCAATGGCAAACC 60.664 55.000 0.00 0.00 44.61 3.27
1956 6157 0.664166 CCGTGACAGCAATGGCAAAC 60.664 55.000 0.00 0.00 44.61 2.93
1959 6160 2.112928 ACCGTGACAGCAATGGCA 59.887 55.556 0.00 0.00 44.61 4.92
1962 6163 1.665679 GTATCCACCGTGACAGCAATG 59.334 52.381 0.00 0.00 0.00 2.82
1975 6176 4.011966 TCAGATGCATCATGGTATCCAC 57.988 45.455 27.81 0.00 35.80 4.02
2023 6224 6.509418 ACATCTGCGTTTAACATTACCATT 57.491 33.333 0.00 0.00 0.00 3.16
2024 6225 6.404293 GGAACATCTGCGTTTAACATTACCAT 60.404 38.462 0.00 0.00 0.00 3.55
2092 6293 2.545532 CCAAGATAGAGGCGAGCTCAAG 60.546 54.545 15.40 0.00 0.00 3.02
2111 6312 1.150536 GCCCAAGTCACCTTCACCA 59.849 57.895 0.00 0.00 0.00 4.17
2159 6360 1.600957 CCAGCACAAAGGCGATATCTG 59.399 52.381 0.34 0.00 39.27 2.90
2172 6448 2.224426 ACAATACTCGGTTTCCAGCACA 60.224 45.455 0.00 0.00 0.00 4.57
2192 6468 0.178990 AAACAGGGAGTGGCCTCAAC 60.179 55.000 3.32 0.00 39.64 3.18
2206 6486 4.022416 AGTCTCTGCTACTCACTGAAACAG 60.022 45.833 0.00 0.00 37.52 3.16
2254 6534 8.100791 TCTGTCTGGTGCTTTAAAATATACTGT 58.899 33.333 0.00 0.00 0.00 3.55
2323 6603 2.972625 CCAGACGTGGCTTCAATAGAA 58.027 47.619 0.00 0.00 36.89 2.10
2324 6604 2.672961 CCAGACGTGGCTTCAATAGA 57.327 50.000 0.00 0.00 36.89 1.98
2339 6947 2.173782 TGGAGTAACAAAGGTTGCCAGA 59.826 45.455 0.00 0.00 40.08 3.86
2369 6977 1.198759 GGCTAGGTGGTGGGAGTTCA 61.199 60.000 0.00 0.00 0.00 3.18
2371 6979 0.770557 TTGGCTAGGTGGTGGGAGTT 60.771 55.000 0.00 0.00 0.00 3.01
2376 6984 0.110486 AACACTTGGCTAGGTGGTGG 59.890 55.000 16.58 0.00 37.72 4.61
2378 6986 2.748209 AAAACACTTGGCTAGGTGGT 57.252 45.000 16.58 7.21 37.72 4.16
2379 6987 5.722021 AATTAAAACACTTGGCTAGGTGG 57.278 39.130 16.58 0.00 37.72 4.61
2421 7030 9.522804 ACATAAAGAAAAGTGTTATTCGCAAAA 57.477 25.926 0.00 0.00 0.00 2.44
2422 7031 9.522804 AACATAAAGAAAAGTGTTATTCGCAAA 57.477 25.926 0.00 0.00 33.39 3.68
2423 7032 8.963130 CAACATAAAGAAAAGTGTTATTCGCAA 58.037 29.630 0.00 0.00 33.79 4.85
2424 7033 7.114247 GCAACATAAAGAAAAGTGTTATTCGCA 59.886 33.333 0.00 0.00 33.79 5.10
2425 7034 7.326063 AGCAACATAAAGAAAAGTGTTATTCGC 59.674 33.333 0.00 0.00 33.79 4.70
2426 7035 8.728088 AGCAACATAAAGAAAAGTGTTATTCG 57.272 30.769 0.00 0.00 33.79 3.34
2508 7148 8.424918 TGCTTTGTTTATTTGTATTTCTTGGGA 58.575 29.630 0.00 0.00 0.00 4.37
2551 7192 0.535553 TGTGGGCGTTAGTGTTTCCC 60.536 55.000 0.00 0.00 37.49 3.97
2596 7237 0.238289 CAACAACCATCCAGACGTGC 59.762 55.000 0.00 0.00 0.00 5.34
2625 7266 0.781787 TTCGTGTCAAGATTCGTGCG 59.218 50.000 0.00 0.00 0.00 5.34
2647 7288 1.134220 ACGTGACACACCAAATCCACT 60.134 47.619 6.37 0.00 0.00 4.00
2762 7403 0.762842 ACTAGGTGGTGGCTGTGTGA 60.763 55.000 0.00 0.00 0.00 3.58
2912 7553 1.400142 GCCACATATGCGCAGTTACAA 59.600 47.619 18.32 0.00 0.00 2.41
2915 7556 1.400142 GTTGCCACATATGCGCAGTTA 59.600 47.619 18.32 4.36 34.71 2.24
2917 7558 1.656818 GGTTGCCACATATGCGCAGT 61.657 55.000 18.32 5.42 34.71 4.40
2918 7559 1.064621 GGTTGCCACATATGCGCAG 59.935 57.895 18.32 4.62 34.71 5.18
2924 7565 5.125417 GTGTGTTTATCTGGTTGCCACATAT 59.875 40.000 0.00 0.00 34.31 1.78
2950 7591 0.796312 ACAGTTAATCGCAGTTGCCG 59.204 50.000 0.00 0.00 37.91 5.69
3075 7718 4.854173 TGGTAGTTGCCATGTGTAATCAT 58.146 39.130 0.00 0.00 32.81 2.45
3086 7729 6.545666 CCATGTCTAATTTATGGTAGTTGCCA 59.454 38.462 0.00 0.00 43.48 4.92
3118 7761 8.915654 GGCAACTCTATTTGTTTTGATTAACTG 58.084 33.333 0.00 0.00 0.00 3.16
3154 7797 4.310022 TCCGGGATGGAAAATGTAGTTT 57.690 40.909 0.00 0.00 46.38 2.66
3276 7919 2.881539 TACTCGTCTCCATCCCGCGT 62.882 60.000 4.92 0.00 0.00 6.01
3388 8031 3.705638 CTGCGTGTGGTGTGAGCG 61.706 66.667 0.00 0.00 0.00 5.03
3402 8045 2.980233 GGTCTGGCCACACACTGC 60.980 66.667 13.57 0.00 37.17 4.40
3404 8047 1.645402 AAAGGGTCTGGCCACACACT 61.645 55.000 10.57 10.57 39.65 3.55
3443 8086 8.761689 ACTCAATTTAATTTGGATGCCAGTAAT 58.238 29.630 9.56 0.00 33.81 1.89
3447 8090 7.910441 AAACTCAATTTAATTTGGATGCCAG 57.090 32.000 9.56 2.72 33.81 4.85
3448 8091 7.935755 TCAAAACTCAATTTAATTTGGATGCCA 59.064 29.630 9.56 0.00 33.08 4.92
3491 8134 3.440228 CGGGGCGTTACAATAAATTTGG 58.560 45.455 0.00 0.00 0.00 3.28
3493 8136 3.354467 TCCGGGGCGTTACAATAAATTT 58.646 40.909 0.00 0.00 0.00 1.82
3501 8144 1.678598 ATCGAATCCGGGGCGTTACA 61.679 55.000 0.00 0.00 36.24 2.41
3502 8145 1.068585 ATCGAATCCGGGGCGTTAC 59.931 57.895 0.00 0.00 36.24 2.50
3503 8146 1.068417 CATCGAATCCGGGGCGTTA 59.932 57.895 0.00 0.00 36.24 3.18
3504 8147 2.203015 CATCGAATCCGGGGCGTT 60.203 61.111 0.00 0.00 36.24 4.84
3505 8148 4.910585 GCATCGAATCCGGGGCGT 62.911 66.667 0.00 0.00 36.24 5.68


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

AutoCloner maintained by Alex Coulton.