Multiple sequence alignment - TraesCS7B01G467700

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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 TraesCS7B01G467700 chr7B 100.000 2591 0 0 1 2591 725156287 725153697 0.000000e+00 4785.0
1 TraesCS7B01G467700 chr7B 92.784 1178 52 11 454 1602 725148459 725147286 0.000000e+00 1674.0
2 TraesCS7B01G467700 chr7B 91.257 732 50 6 923 1644 725636331 725637058 0.000000e+00 985.0
3 TraesCS7B01G467700 chr7B 90.117 597 52 5 1012 1602 682366275 682365680 0.000000e+00 769.0
4 TraesCS7B01G467700 chr7B 86.100 482 49 8 1652 2128 682365414 682364946 1.070000e-138 503.0
5 TraesCS7B01G467700 chr7B 85.835 473 40 13 1652 2114 725147022 725146567 6.490000e-131 477.0
6 TraesCS7B01G467700 chr7B 92.308 273 19 1 1999 2269 725603231 725603503 1.120000e-103 387.0
7 TraesCS7B01G467700 chr7B 92.308 273 19 1 1999 2269 725638970 725639242 1.120000e-103 387.0
8 TraesCS7B01G467700 chr7B 82.561 367 52 9 2234 2591 682364722 682364359 1.940000e-81 313.0
9 TraesCS7B01G467700 chr7B 100.000 34 0 0 2558 2591 16832442 16832475 2.150000e-06 63.9
10 TraesCS7B01G467700 chrUn 98.092 2201 12 6 412 2591 213339971 213337780 0.000000e+00 3805.0
11 TraesCS7B01G467700 chrUn 91.388 569 49 0 1038 1606 87772958 87773526 0.000000e+00 780.0
12 TraesCS7B01G467700 chrUn 85.906 596 54 14 1649 2228 87773785 87774366 2.200000e-170 608.0
13 TraesCS7B01G467700 chrUn 90.974 421 33 5 1225 1644 353851582 353851998 1.740000e-156 562.0
14 TraesCS7B01G467700 chrUn 92.784 388 26 1 2061 2448 87771507 87771892 6.260000e-156 560.0
15 TraesCS7B01G467700 chrUn 92.208 385 21 1 926 1301 464595415 464595031 1.060000e-148 536.0
16 TraesCS7B01G467700 chrUn 99.655 290 1 0 2302 2591 438163193 438162904 4.910000e-147 531.0
17 TraesCS7B01G467700 chrUn 92.978 356 23 1 1691 2046 87771169 87771522 3.820000e-143 518.0
18 TraesCS7B01G467700 chrUn 80.628 382 34 15 673 1015 87772582 87772962 2.560000e-65 259.0
19 TraesCS7B01G467700 chrUn 89.560 182 11 4 1772 1953 353852205 353852378 9.330000e-55 224.0
20 TraesCS7B01G467700 chrUn 89.560 182 11 4 1772 1953 380046931 380047104 9.330000e-55 224.0
21 TraesCS7B01G467700 chrUn 94.643 56 3 0 1952 2007 353852489 353852544 1.280000e-13 87.9
22 TraesCS7B01G467700 chrUn 94.643 56 3 0 1952 2007 380047215 380047270 1.280000e-13 87.9
23 TraesCS7B01G467700 chrUn 100.000 34 0 0 2558 2591 87775047 87775080 2.150000e-06 63.9
24 TraesCS7B01G467700 chr7D 83.910 1417 122 54 669 2024 625624896 625626267 0.000000e+00 1256.0
25 TraesCS7B01G467700 chr7D 87.225 454 47 6 1180 1630 625765822 625765377 8.270000e-140 507.0
26 TraesCS7B01G467700 chr7D 87.222 180 21 1 2051 2228 625764888 625764709 1.220000e-48 204.0
27 TraesCS7B01G467700 chr7D 79.330 179 27 6 1009 1186 620202649 620202818 1.630000e-22 117.0
28 TraesCS7B01G467700 chr7A 90.017 601 53 2 1012 1606 721220485 721221084 0.000000e+00 771.0
29 TraesCS7B01G467700 chr7A 87.724 391 37 4 1649 2039 721221401 721221780 1.830000e-121 446.0
30 TraesCS7B01G467700 chr7A 89.691 194 14 3 603 794 721219678 721219867 2.580000e-60 243.0
31 TraesCS7B01G467700 chr5B 87.245 392 44 1 27 412 470975891 470976282 2.370000e-120 442.0
32 TraesCS7B01G467700 chr2A 83.623 403 61 4 12 413 735309136 735308738 8.760000e-100 374.0
33 TraesCS7B01G467700 chr2D 79.370 349 59 12 73 412 275001534 275001878 1.550000e-57 233.0


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 TraesCS7B01G467700 chr7B 725153697 725156287 2590 True 4785.000000 4785 100.000000 1 2591 1 chr7B.!!$R1 2590
1 TraesCS7B01G467700 chr7B 725146567 725148459 1892 True 1075.500000 1674 89.309500 454 2114 2 chr7B.!!$R3 1660
2 TraesCS7B01G467700 chr7B 725636331 725639242 2911 False 686.000000 985 91.782500 923 2269 2 chr7B.!!$F3 1346
3 TraesCS7B01G467700 chr7B 682364359 682366275 1916 True 528.333333 769 86.259333 1012 2591 3 chr7B.!!$R2 1579
4 TraesCS7B01G467700 chrUn 213337780 213339971 2191 True 3805.000000 3805 98.092000 412 2591 1 chrUn.!!$R1 2179
5 TraesCS7B01G467700 chrUn 87771169 87775080 3911 False 464.816667 780 90.614000 673 2591 6 chrUn.!!$F1 1918
6 TraesCS7B01G467700 chrUn 353851582 353852544 962 False 291.300000 562 91.725667 1225 2007 3 chrUn.!!$F2 782
7 TraesCS7B01G467700 chr7D 625624896 625626267 1371 False 1256.000000 1256 83.910000 669 2024 1 chr7D.!!$F2 1355
8 TraesCS7B01G467700 chr7D 625764709 625765822 1113 True 355.500000 507 87.223500 1180 2228 2 chr7D.!!$R1 1048
9 TraesCS7B01G467700 chr7A 721219678 721221780 2102 False 486.666667 771 89.144000 603 2039 3 chr7A.!!$F1 1436

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
324 325 0.105593 CTATCAGCTGGCCGACATGT 59.894 55.0 15.13 0.0 0.0 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2300 5738 6.419413 GTCTTCTTCGATCTCCATCAATGTAC 59.581 42.308 0.0 0.0 0.0 2.9 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 3.813150 GAGGTCAAGTGGGCCTCT 58.187 61.111 11.27 2.86 43.93 3.69
18 19 2.070639 GAGGTCAAGTGGGCCTCTT 58.929 57.895 11.27 14.88 43.93 2.85
25 26 0.113190 AAGTGGGCCTCTTTCTTGGG 59.887 55.000 14.88 0.00 0.00 4.12
26 27 1.304464 GTGGGCCTCTTTCTTGGGG 60.304 63.158 4.53 0.00 0.00 4.96
27 28 2.363018 GGGCCTCTTTCTTGGGGC 60.363 66.667 0.84 0.00 43.68 5.80
30 31 1.379176 GCCTCTTTCTTGGGGCCTC 60.379 63.158 0.84 0.00 38.77 4.70
31 32 1.857638 GCCTCTTTCTTGGGGCCTCT 61.858 60.000 3.07 0.00 38.77 3.69
33 34 1.210722 CCTCTTTCTTGGGGCCTCTAC 59.789 57.143 3.07 0.00 0.00 2.59
34 35 0.902531 TCTTTCTTGGGGCCTCTACG 59.097 55.000 3.07 0.00 0.00 3.51
35 36 0.107654 CTTTCTTGGGGCCTCTACGG 60.108 60.000 3.07 0.00 0.00 4.02
38 39 1.078426 CTTGGGGCCTCTACGGTTG 60.078 63.158 3.07 0.00 34.25 3.77
39 40 1.838073 CTTGGGGCCTCTACGGTTGT 61.838 60.000 3.07 0.00 34.25 3.32
41 42 1.377612 GGGGCCTCTACGGTTGTTT 59.622 57.895 0.84 0.00 34.25 2.83
42 43 0.614812 GGGGCCTCTACGGTTGTTTA 59.385 55.000 0.84 0.00 34.25 2.01
44 45 2.558378 GGGCCTCTACGGTTGTTTATC 58.442 52.381 0.84 0.00 34.25 1.75
45 46 2.558378 GGCCTCTACGGTTGTTTATCC 58.442 52.381 0.00 0.00 34.25 2.59
55 56 4.684484 GGTTGTTTATCCGAGGGTATCT 57.316 45.455 0.00 0.00 0.00 1.98
56 57 4.377897 GGTTGTTTATCCGAGGGTATCTG 58.622 47.826 0.00 0.00 0.00 2.90
57 58 4.100498 GGTTGTTTATCCGAGGGTATCTGA 59.900 45.833 0.00 0.00 0.00 3.27
58 59 5.221661 GGTTGTTTATCCGAGGGTATCTGAT 60.222 44.000 0.00 0.00 36.09 2.90
59 60 5.723672 TGTTTATCCGAGGGTATCTGATC 57.276 43.478 0.00 0.00 34.18 2.92
60 61 4.527038 TGTTTATCCGAGGGTATCTGATCC 59.473 45.833 0.00 0.00 34.18 3.36
61 62 4.397919 TTATCCGAGGGTATCTGATCCA 57.602 45.455 0.00 0.00 34.18 3.41
62 63 2.767644 TCCGAGGGTATCTGATCCAA 57.232 50.000 0.00 0.00 0.00 3.53
65 66 1.000163 CGAGGGTATCTGATCCAACGG 60.000 57.143 0.00 0.00 0.00 4.44
66 67 0.759346 AGGGTATCTGATCCAACGGC 59.241 55.000 0.00 0.00 0.00 5.68
67 68 0.468226 GGGTATCTGATCCAACGGCA 59.532 55.000 0.00 0.00 0.00 5.69
68 69 1.583054 GGTATCTGATCCAACGGCAC 58.417 55.000 0.00 0.00 0.00 5.01
69 70 1.139058 GGTATCTGATCCAACGGCACT 59.861 52.381 0.00 0.00 0.00 4.40
72 73 0.684535 TCTGATCCAACGGCACTTGA 59.315 50.000 0.00 0.00 0.00 3.02
73 74 1.071542 TCTGATCCAACGGCACTTGAA 59.928 47.619 0.00 0.00 0.00 2.69
75 76 2.083774 TGATCCAACGGCACTTGAATC 58.916 47.619 0.00 0.00 0.00 2.52
79 80 1.135315 CCAACGGCACTTGAATCCATG 60.135 52.381 0.00 0.00 0.00 3.66
80 81 1.135315 CAACGGCACTTGAATCCATGG 60.135 52.381 4.97 4.97 0.00 3.66
81 82 1.315257 ACGGCACTTGAATCCATGGC 61.315 55.000 6.96 0.00 0.00 4.40
83 84 1.031571 GGCACTTGAATCCATGGCGA 61.032 55.000 6.96 0.00 0.00 5.54
84 85 1.027357 GCACTTGAATCCATGGCGAT 58.973 50.000 6.96 0.00 0.00 4.58
85 86 1.002033 GCACTTGAATCCATGGCGATC 60.002 52.381 6.96 5.59 0.00 3.69
87 88 2.289820 CACTTGAATCCATGGCGATCAG 59.710 50.000 6.96 2.67 0.00 2.90
88 89 2.171237 ACTTGAATCCATGGCGATCAGA 59.829 45.455 6.96 2.35 0.00 3.27
89 90 2.538512 TGAATCCATGGCGATCAGAG 57.461 50.000 6.96 0.00 0.00 3.35
90 91 2.041701 TGAATCCATGGCGATCAGAGA 58.958 47.619 6.96 0.00 0.00 3.10
91 92 2.036862 TGAATCCATGGCGATCAGAGAG 59.963 50.000 6.96 0.00 0.00 3.20
92 93 0.975135 ATCCATGGCGATCAGAGAGG 59.025 55.000 6.96 0.00 0.00 3.69
93 94 1.301558 CCATGGCGATCAGAGAGGC 60.302 63.158 0.00 0.00 0.00 4.70
94 95 1.444672 CATGGCGATCAGAGAGGCA 59.555 57.895 6.62 6.62 44.36 4.75
96 97 0.763652 ATGGCGATCAGAGAGGCATT 59.236 50.000 10.13 0.00 46.77 3.56
97 98 1.413118 TGGCGATCAGAGAGGCATTA 58.587 50.000 0.00 0.00 35.49 1.90
98 99 1.342496 TGGCGATCAGAGAGGCATTAG 59.658 52.381 0.00 0.00 35.49 1.73
99 100 1.427435 GCGATCAGAGAGGCATTAGC 58.573 55.000 0.00 0.00 41.10 3.09
101 102 2.402305 CGATCAGAGAGGCATTAGCAC 58.598 52.381 0.00 0.00 44.61 4.40
104 105 3.257469 TCAGAGAGGCATTAGCACTTG 57.743 47.619 0.00 0.00 44.61 3.16
119 120 4.025015 GCACTTGCTGATGACCTTTATG 57.975 45.455 0.00 0.00 38.21 1.90
120 121 3.691118 GCACTTGCTGATGACCTTTATGA 59.309 43.478 0.00 0.00 38.21 2.15
121 122 4.201891 GCACTTGCTGATGACCTTTATGAG 60.202 45.833 0.00 0.00 38.21 2.90
122 123 5.181009 CACTTGCTGATGACCTTTATGAGA 58.819 41.667 0.00 0.00 0.00 3.27
123 124 5.293814 CACTTGCTGATGACCTTTATGAGAG 59.706 44.000 0.00 0.00 0.00 3.20
124 125 4.412796 TGCTGATGACCTTTATGAGAGG 57.587 45.455 0.00 0.00 40.24 3.69
125 126 4.033009 TGCTGATGACCTTTATGAGAGGA 58.967 43.478 0.00 0.00 37.72 3.71
127 128 5.055812 GCTGATGACCTTTATGAGAGGAAG 58.944 45.833 0.00 0.00 37.72 3.46
129 130 6.464180 GCTGATGACCTTTATGAGAGGAAGAT 60.464 42.308 0.00 0.00 37.72 2.40
132 133 8.811017 TGATGACCTTTATGAGAGGAAGATATC 58.189 37.037 0.00 0.00 37.72 1.63
133 134 8.971032 ATGACCTTTATGAGAGGAAGATATCT 57.029 34.615 0.00 0.00 37.72 1.98
134 135 8.789767 TGACCTTTATGAGAGGAAGATATCTT 57.210 34.615 17.96 17.96 37.72 2.40
149 150 5.374921 AGATATCTTCAGATTGCCAAGTGG 58.625 41.667 0.00 0.00 36.05 4.00
150 151 2.957402 TCTTCAGATTGCCAAGTGGT 57.043 45.000 0.00 0.00 37.57 4.16
151 152 2.507484 TCTTCAGATTGCCAAGTGGTG 58.493 47.619 0.00 0.00 37.57 4.17
152 153 4.867927 TATCTTCAGATTGCCAAGTGGTGG 60.868 45.833 0.00 0.00 42.01 4.61
153 154 7.279448 TATCTTCAGATTGCCAAGTGGTGGT 62.279 44.000 0.00 0.00 41.56 4.16
159 160 2.515398 CCAAGTGGTGGTGCAGGA 59.485 61.111 0.00 0.00 43.20 3.86
162 163 0.538057 CAAGTGGTGGTGCAGGACAT 60.538 55.000 0.00 0.00 0.00 3.06
163 164 0.250901 AAGTGGTGGTGCAGGACATC 60.251 55.000 0.00 0.00 0.00 3.06
164 165 1.675641 GTGGTGGTGCAGGACATCC 60.676 63.158 0.00 0.00 0.00 3.51
165 166 2.152729 TGGTGGTGCAGGACATCCA 61.153 57.895 0.00 3.90 38.89 3.41
166 167 1.074775 GGTGGTGCAGGACATCCAA 59.925 57.895 0.00 0.00 38.89 3.53
171 172 1.446907 GTGCAGGACATCCAAGACAG 58.553 55.000 0.00 0.00 38.89 3.51
172 173 1.002430 GTGCAGGACATCCAAGACAGA 59.998 52.381 0.00 0.00 38.89 3.41
173 174 1.699083 TGCAGGACATCCAAGACAGAA 59.301 47.619 0.00 0.00 38.89 3.02
174 175 2.289882 TGCAGGACATCCAAGACAGAAG 60.290 50.000 0.00 0.00 38.89 2.85
175 176 2.027745 GCAGGACATCCAAGACAGAAGA 60.028 50.000 0.00 0.00 38.89 2.87
176 177 3.859443 CAGGACATCCAAGACAGAAGAG 58.141 50.000 0.00 0.00 38.89 2.85
177 178 2.235898 AGGACATCCAAGACAGAAGAGC 59.764 50.000 0.00 0.00 38.89 4.09
178 179 2.027745 GGACATCCAAGACAGAAGAGCA 60.028 50.000 0.00 0.00 35.64 4.26
180 181 3.406764 ACATCCAAGACAGAAGAGCAAC 58.593 45.455 0.00 0.00 0.00 4.17
181 182 3.181451 ACATCCAAGACAGAAGAGCAACA 60.181 43.478 0.00 0.00 0.00 3.33
182 183 3.117491 TCCAAGACAGAAGAGCAACAG 57.883 47.619 0.00 0.00 0.00 3.16
184 185 3.641436 TCCAAGACAGAAGAGCAACAGTA 59.359 43.478 0.00 0.00 0.00 2.74
185 186 4.284490 TCCAAGACAGAAGAGCAACAGTAT 59.716 41.667 0.00 0.00 0.00 2.12
186 187 5.480422 TCCAAGACAGAAGAGCAACAGTATA 59.520 40.000 0.00 0.00 0.00 1.47
187 188 6.155221 TCCAAGACAGAAGAGCAACAGTATAT 59.845 38.462 0.00 0.00 0.00 0.86
188 189 6.257411 CCAAGACAGAAGAGCAACAGTATATG 59.743 42.308 0.00 0.00 0.00 1.78
189 190 5.911752 AGACAGAAGAGCAACAGTATATGG 58.088 41.667 0.00 0.00 0.00 2.74
190 191 5.658634 AGACAGAAGAGCAACAGTATATGGA 59.341 40.000 0.00 0.00 0.00 3.41
191 192 5.911752 ACAGAAGAGCAACAGTATATGGAG 58.088 41.667 0.00 0.00 0.00 3.86
192 193 4.749099 CAGAAGAGCAACAGTATATGGAGC 59.251 45.833 0.00 0.00 34.20 4.70
193 194 3.377346 AGAGCAACAGTATATGGAGCG 57.623 47.619 0.00 0.00 37.73 5.03
194 195 2.959030 AGAGCAACAGTATATGGAGCGA 59.041 45.455 0.00 0.00 37.73 4.93
195 196 3.576118 AGAGCAACAGTATATGGAGCGAT 59.424 43.478 0.00 0.00 37.73 4.58
196 197 4.039730 AGAGCAACAGTATATGGAGCGATT 59.960 41.667 0.00 0.00 37.73 3.34
197 198 5.243954 AGAGCAACAGTATATGGAGCGATTA 59.756 40.000 0.00 0.00 37.73 1.75
198 199 6.042638 AGCAACAGTATATGGAGCGATTAT 57.957 37.500 0.00 0.00 37.73 1.28
199 200 7.122799 AGAGCAACAGTATATGGAGCGATTATA 59.877 37.037 0.00 0.00 37.73 0.98
200 201 7.036220 AGCAACAGTATATGGAGCGATTATAC 58.964 38.462 0.00 0.00 37.73 1.47
201 202 6.811665 GCAACAGTATATGGAGCGATTATACA 59.188 38.462 4.39 0.00 33.29 2.29
202 203 7.492669 GCAACAGTATATGGAGCGATTATACAT 59.507 37.037 4.39 0.00 33.29 2.29
203 204 8.811378 CAACAGTATATGGAGCGATTATACATG 58.189 37.037 4.39 0.00 33.29 3.21
204 205 8.293699 ACAGTATATGGAGCGATTATACATGA 57.706 34.615 0.00 0.00 33.29 3.07
206 207 8.624776 CAGTATATGGAGCGATTATACATGAGA 58.375 37.037 0.00 0.00 33.29 3.27
207 208 9.360901 AGTATATGGAGCGATTATACATGAGAT 57.639 33.333 0.00 0.00 33.29 2.75
210 211 9.973450 ATATGGAGCGATTATACATGAGATTAC 57.027 33.333 0.00 0.00 0.00 1.89
212 213 8.575649 TGGAGCGATTATACATGAGATTACTA 57.424 34.615 0.00 0.00 0.00 1.82
213 214 8.459635 TGGAGCGATTATACATGAGATTACTAC 58.540 37.037 0.00 0.00 0.00 2.73
215 216 7.773149 AGCGATTATACATGAGATTACTACCC 58.227 38.462 0.00 0.00 0.00 3.69
217 218 8.198109 GCGATTATACATGAGATTACTACCCAT 58.802 37.037 0.00 0.00 0.00 4.00
222 223 6.919775 ACATGAGATTACTACCCATAGGTC 57.080 41.667 0.00 0.00 46.45 3.85
223 224 6.625267 ACATGAGATTACTACCCATAGGTCT 58.375 40.000 0.00 0.00 46.45 3.85
224 225 7.766628 ACATGAGATTACTACCCATAGGTCTA 58.233 38.462 0.00 0.00 46.45 2.59
225 226 7.670559 ACATGAGATTACTACCCATAGGTCTAC 59.329 40.741 0.00 0.00 46.45 2.59
226 227 7.403837 TGAGATTACTACCCATAGGTCTACT 57.596 40.000 0.00 0.00 46.45 2.57
228 229 8.287350 TGAGATTACTACCCATAGGTCTACTTT 58.713 37.037 0.00 0.00 46.45 2.66
229 230 9.145442 GAGATTACTACCCATAGGTCTACTTTT 57.855 37.037 0.00 0.00 46.45 2.27
230 231 9.145442 AGATTACTACCCATAGGTCTACTTTTC 57.855 37.037 0.00 0.00 46.45 2.29
231 232 8.849543 ATTACTACCCATAGGTCTACTTTTCA 57.150 34.615 0.00 0.00 46.45 2.69
232 233 8.669055 TTACTACCCATAGGTCTACTTTTCAA 57.331 34.615 0.00 0.00 46.45 2.69
234 235 7.793036 ACTACCCATAGGTCTACTTTTCAATC 58.207 38.462 0.00 0.00 46.45 2.67
235 236 6.893020 ACCCATAGGTCTACTTTTCAATCT 57.107 37.500 0.00 0.00 46.45 2.40
236 237 7.272144 ACCCATAGGTCTACTTTTCAATCTT 57.728 36.000 0.00 0.00 46.45 2.40
237 238 7.112779 ACCCATAGGTCTACTTTTCAATCTTG 58.887 38.462 0.00 0.00 46.45 3.02
238 239 7.112779 CCCATAGGTCTACTTTTCAATCTTGT 58.887 38.462 0.00 0.00 0.00 3.16
239 240 8.265055 CCCATAGGTCTACTTTTCAATCTTGTA 58.735 37.037 0.00 0.00 0.00 2.41
254 255 9.851686 TTCAATCTTGTAATATTAGGCATGAGT 57.148 29.630 0.00 0.00 0.00 3.41
255 256 9.851686 TCAATCTTGTAATATTAGGCATGAGTT 57.148 29.630 0.00 0.00 0.00 3.01
265 266 6.910536 ATTAGGCATGAGTTTAGAAGTTCG 57.089 37.500 0.00 0.00 0.00 3.95
267 268 4.894784 AGGCATGAGTTTAGAAGTTCGAA 58.105 39.130 0.00 0.00 0.00 3.71
268 269 5.491982 AGGCATGAGTTTAGAAGTTCGAAT 58.508 37.500 0.00 0.00 0.00 3.34
269 270 5.352569 AGGCATGAGTTTAGAAGTTCGAATG 59.647 40.000 0.00 0.00 0.00 2.67
270 271 5.122396 GGCATGAGTTTAGAAGTTCGAATGT 59.878 40.000 0.00 0.00 0.00 2.71
271 272 6.244275 GCATGAGTTTAGAAGTTCGAATGTC 58.756 40.000 0.00 1.76 0.00 3.06
272 273 6.461816 CATGAGTTTAGAAGTTCGAATGTCG 58.538 40.000 0.00 0.00 42.10 4.35
273 274 4.921515 TGAGTTTAGAAGTTCGAATGTCGG 59.078 41.667 0.00 0.00 40.88 4.79
274 275 5.130292 AGTTTAGAAGTTCGAATGTCGGA 57.870 39.130 0.00 0.00 40.88 4.55
275 276 5.162075 AGTTTAGAAGTTCGAATGTCGGAG 58.838 41.667 0.00 0.00 40.88 4.63
276 277 1.997669 AGAAGTTCGAATGTCGGAGC 58.002 50.000 0.00 0.00 40.88 4.70
277 278 1.546476 AGAAGTTCGAATGTCGGAGCT 59.454 47.619 0.00 0.00 40.88 4.09
278 279 1.921230 GAAGTTCGAATGTCGGAGCTC 59.079 52.381 4.71 4.71 40.88 4.09
279 280 0.888619 AGTTCGAATGTCGGAGCTCA 59.111 50.000 17.19 0.00 40.88 4.26
280 281 0.992802 GTTCGAATGTCGGAGCTCAC 59.007 55.000 17.19 6.65 40.88 3.51
281 282 0.601057 TTCGAATGTCGGAGCTCACA 59.399 50.000 17.19 12.76 40.88 3.58
282 283 0.601057 TCGAATGTCGGAGCTCACAA 59.399 50.000 17.19 0.00 40.88 3.33
284 285 1.126846 CGAATGTCGGAGCTCACAAAC 59.873 52.381 17.19 7.96 36.00 2.93
285 286 2.417719 GAATGTCGGAGCTCACAAACT 58.582 47.619 17.19 1.65 0.00 2.66
286 287 2.086054 ATGTCGGAGCTCACAAACTC 57.914 50.000 17.19 0.00 0.00 3.01
287 288 0.318699 TGTCGGAGCTCACAAACTCG 60.319 55.000 17.19 8.01 33.55 4.18
289 290 0.318699 TCGGAGCTCACAAACTCGTG 60.319 55.000 17.19 0.00 38.29 4.35
290 291 0.318699 CGGAGCTCACAAACTCGTGA 60.319 55.000 17.19 0.00 43.54 4.35
291 292 1.865865 GGAGCTCACAAACTCGTGAA 58.134 50.000 17.19 0.00 44.97 3.18
292 293 1.795286 GGAGCTCACAAACTCGTGAAG 59.205 52.381 17.19 0.00 44.97 3.02
293 294 1.193426 GAGCTCACAAACTCGTGAAGC 59.807 52.381 9.40 0.00 44.97 3.86
294 295 0.937304 GCTCACAAACTCGTGAAGCA 59.063 50.000 0.00 0.00 44.97 3.91
295 296 1.333258 GCTCACAAACTCGTGAAGCAC 60.333 52.381 0.00 0.00 44.97 4.40
306 307 1.739067 GTGAAGCACGCTTTATCCCT 58.261 50.000 5.63 0.00 36.26 4.20
307 308 2.901249 GTGAAGCACGCTTTATCCCTA 58.099 47.619 5.63 0.00 36.26 3.53
308 309 3.467803 GTGAAGCACGCTTTATCCCTAT 58.532 45.455 5.63 0.00 36.26 2.57
310 311 3.133901 TGAAGCACGCTTTATCCCTATCA 59.866 43.478 5.63 0.00 36.26 2.15
311 312 3.393089 AGCACGCTTTATCCCTATCAG 57.607 47.619 0.00 0.00 0.00 2.90
312 313 1.801178 GCACGCTTTATCCCTATCAGC 59.199 52.381 0.00 0.00 0.00 4.26
313 314 2.548920 GCACGCTTTATCCCTATCAGCT 60.549 50.000 0.00 0.00 0.00 4.24
314 315 3.062763 CACGCTTTATCCCTATCAGCTG 58.937 50.000 7.63 7.63 0.00 4.24
315 316 2.037772 ACGCTTTATCCCTATCAGCTGG 59.962 50.000 15.13 0.00 0.00 4.85
316 317 2.431454 GCTTTATCCCTATCAGCTGGC 58.569 52.381 15.13 0.19 0.00 4.85
318 319 0.976641 TTATCCCTATCAGCTGGCCG 59.023 55.000 15.13 1.91 0.00 6.13
319 320 0.114364 TATCCCTATCAGCTGGCCGA 59.886 55.000 15.13 3.20 0.00 5.54
321 322 2.434843 CCCTATCAGCTGGCCGACA 61.435 63.158 15.13 0.00 0.00 4.35
324 325 0.105593 CTATCAGCTGGCCGACATGT 59.894 55.000 15.13 0.00 0.00 3.21
325 326 1.341209 CTATCAGCTGGCCGACATGTA 59.659 52.381 15.13 0.00 0.00 2.29
326 327 0.761187 ATCAGCTGGCCGACATGTAT 59.239 50.000 15.13 0.00 0.00 2.29
327 328 1.408969 TCAGCTGGCCGACATGTATA 58.591 50.000 15.13 0.00 0.00 1.47
328 329 1.341209 TCAGCTGGCCGACATGTATAG 59.659 52.381 15.13 0.00 0.00 1.31
329 330 1.069204 CAGCTGGCCGACATGTATAGT 59.931 52.381 5.57 0.00 0.00 2.12
330 331 1.762957 AGCTGGCCGACATGTATAGTT 59.237 47.619 0.00 0.00 0.00 2.24
331 332 2.963101 AGCTGGCCGACATGTATAGTTA 59.037 45.455 0.00 0.00 0.00 2.24
332 333 3.005897 AGCTGGCCGACATGTATAGTTAG 59.994 47.826 0.00 0.00 0.00 2.34
333 334 3.861131 GCTGGCCGACATGTATAGTTAGG 60.861 52.174 0.00 0.00 0.00 2.69
335 336 2.685100 GCCGACATGTATAGTTAGGCC 58.315 52.381 0.00 0.00 37.22 5.19
336 337 2.036733 GCCGACATGTATAGTTAGGCCA 59.963 50.000 5.01 0.00 37.22 5.36
338 339 3.318017 CGACATGTATAGTTAGGCCAGC 58.682 50.000 5.01 0.00 0.00 4.85
340 341 2.037251 ACATGTATAGTTAGGCCAGCCG 59.963 50.000 5.01 0.00 41.95 5.52
341 342 1.045407 TGTATAGTTAGGCCAGCCGG 58.955 55.000 5.01 0.00 41.95 6.13
345 346 0.397957 TAGTTAGGCCAGCCGGATGA 60.398 55.000 24.05 0.00 41.95 2.92
347 348 1.095807 GTTAGGCCAGCCGGATGAAC 61.096 60.000 24.05 13.88 41.95 3.18
348 349 1.271840 TTAGGCCAGCCGGATGAACT 61.272 55.000 24.05 20.26 41.95 3.01
349 350 0.397957 TAGGCCAGCCGGATGAACTA 60.398 55.000 24.05 19.18 41.95 2.24
350 351 1.056700 AGGCCAGCCGGATGAACTAT 61.057 55.000 24.05 3.32 41.95 2.12
351 352 0.603975 GGCCAGCCGGATGAACTATC 60.604 60.000 24.05 2.46 34.93 2.08
354 355 2.811873 GCCAGCCGGATGAACTATCATT 60.812 50.000 24.05 0.00 46.30 2.57
355 356 3.070018 CCAGCCGGATGAACTATCATTC 58.930 50.000 24.05 0.00 46.30 2.67
362 363 4.956034 GATGAACTATCATTCGTCCGTG 57.044 45.455 0.00 0.00 46.30 4.94
363 364 3.861276 TGAACTATCATTCGTCCGTGT 57.139 42.857 0.00 0.00 0.00 4.49
365 366 5.313520 TGAACTATCATTCGTCCGTGTAA 57.686 39.130 0.00 0.00 0.00 2.41
366 367 5.712004 TGAACTATCATTCGTCCGTGTAAA 58.288 37.500 0.00 0.00 0.00 2.01
368 369 5.063180 ACTATCATTCGTCCGTGTAAACA 57.937 39.130 0.00 0.00 0.00 2.83
371 372 4.655440 TCATTCGTCCGTGTAAACATTG 57.345 40.909 0.00 0.00 0.00 2.82
372 373 4.059511 TCATTCGTCCGTGTAAACATTGT 58.940 39.130 0.00 0.00 0.00 2.71
373 374 5.228665 TCATTCGTCCGTGTAAACATTGTA 58.771 37.500 0.00 0.00 0.00 2.41
374 375 5.695363 TCATTCGTCCGTGTAAACATTGTAA 59.305 36.000 0.00 0.00 0.00 2.41
375 376 4.970472 TCGTCCGTGTAAACATTGTAAC 57.030 40.909 0.00 0.00 0.00 2.50
376 377 3.424861 TCGTCCGTGTAAACATTGTAACG 59.575 43.478 0.00 0.00 0.00 3.18
377 378 3.424861 CGTCCGTGTAAACATTGTAACGA 59.575 43.478 12.84 0.00 33.03 3.85
378 379 4.661402 CGTCCGTGTAAACATTGTAACGAC 60.661 45.833 12.84 7.01 33.03 4.34
379 380 4.445385 GTCCGTGTAAACATTGTAACGACT 59.555 41.667 12.84 0.00 33.03 4.18
380 381 5.049167 TCCGTGTAAACATTGTAACGACTT 58.951 37.500 12.84 0.00 33.03 3.01
381 382 6.143758 GTCCGTGTAAACATTGTAACGACTTA 59.856 38.462 12.84 0.00 33.03 2.24
394 395 8.922738 TTGTAACGACTTAATAAAAAGCTTCG 57.077 30.769 0.00 0.00 33.56 3.79
395 396 7.512297 TGTAACGACTTAATAAAAAGCTTCGG 58.488 34.615 0.00 0.00 32.35 4.30
396 397 6.790285 AACGACTTAATAAAAAGCTTCGGA 57.210 33.333 0.00 0.00 32.35 4.55
397 398 6.404712 ACGACTTAATAAAAAGCTTCGGAG 57.595 37.500 0.00 0.00 32.35 4.63
398 399 5.930569 ACGACTTAATAAAAAGCTTCGGAGT 59.069 36.000 0.00 0.00 32.35 3.85
399 400 6.426025 ACGACTTAATAAAAAGCTTCGGAGTT 59.574 34.615 0.00 0.00 32.35 3.01
400 401 7.041576 ACGACTTAATAAAAAGCTTCGGAGTTT 60.042 33.333 0.00 0.00 32.35 2.66
401 402 7.268447 CGACTTAATAAAAAGCTTCGGAGTTTG 59.732 37.037 0.00 0.00 0.00 2.93
402 403 7.937649 ACTTAATAAAAAGCTTCGGAGTTTGT 58.062 30.769 0.00 0.00 0.00 2.83
403 404 8.074370 ACTTAATAAAAAGCTTCGGAGTTTGTC 58.926 33.333 0.00 0.00 0.00 3.18
404 405 6.635030 AATAAAAAGCTTCGGAGTTTGTCT 57.365 33.333 0.00 0.00 0.00 3.41
405 406 7.739498 AATAAAAAGCTTCGGAGTTTGTCTA 57.261 32.000 0.00 0.00 0.00 2.59
406 407 7.739498 ATAAAAAGCTTCGGAGTTTGTCTAA 57.261 32.000 0.00 0.00 0.00 2.10
407 408 6.445357 AAAAAGCTTCGGAGTTTGTCTAAA 57.555 33.333 0.00 0.00 0.00 1.85
408 409 6.445357 AAAAGCTTCGGAGTTTGTCTAAAA 57.555 33.333 0.00 0.00 0.00 1.52
409 410 6.445357 AAAGCTTCGGAGTTTGTCTAAAAA 57.555 33.333 0.00 0.00 0.00 1.94
432 433 2.430694 ACATATGACTTGTAGCCGCTGA 59.569 45.455 10.38 0.00 0.00 4.26
940 2169 3.998672 GCCCAACCGAGACCGTCA 61.999 66.667 0.40 0.00 0.00 4.35
1770 3356 1.067821 GGTCCCGTGCAATGTTTTCAA 59.932 47.619 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 0.402121 AGAAAGAGGCCCACTTGACC 59.598 55.000 12.56 6.54 0.00 4.02
3 4 1.882623 CAAGAAAGAGGCCCACTTGAC 59.117 52.381 12.56 10.21 39.84 3.18
6 7 0.113190 CCCAAGAAAGAGGCCCACTT 59.887 55.000 0.00 2.48 0.00 3.16
7 8 1.770324 CCCAAGAAAGAGGCCCACT 59.230 57.895 0.00 0.00 0.00 4.00
8 9 1.304464 CCCCAAGAAAGAGGCCCAC 60.304 63.158 0.00 0.00 0.00 4.61
13 14 1.210722 GTAGAGGCCCCAAGAAAGAGG 59.789 57.143 0.00 0.00 0.00 3.69
14 15 1.134670 CGTAGAGGCCCCAAGAAAGAG 60.135 57.143 0.00 0.00 0.00 2.85
15 16 0.902531 CGTAGAGGCCCCAAGAAAGA 59.097 55.000 0.00 0.00 0.00 2.52
16 17 0.107654 CCGTAGAGGCCCCAAGAAAG 60.108 60.000 0.00 0.00 0.00 2.62
17 18 0.838987 ACCGTAGAGGCCCCAAGAAA 60.839 55.000 0.00 0.00 46.52 2.52
18 19 0.838987 AACCGTAGAGGCCCCAAGAA 60.839 55.000 0.00 0.00 46.52 2.52
25 26 2.558378 GGATAAACAACCGTAGAGGCC 58.442 52.381 0.00 0.00 46.52 5.19
26 27 2.199236 CGGATAAACAACCGTAGAGGC 58.801 52.381 0.00 0.00 46.52 4.70
34 35 4.100498 TCAGATACCCTCGGATAAACAACC 59.900 45.833 0.00 0.00 0.00 3.77
35 36 5.272283 TCAGATACCCTCGGATAAACAAC 57.728 43.478 0.00 0.00 0.00 3.32
38 39 4.527038 TGGATCAGATACCCTCGGATAAAC 59.473 45.833 0.00 0.00 38.68 2.01
39 40 4.747583 TGGATCAGATACCCTCGGATAAA 58.252 43.478 0.00 0.00 38.68 1.40
41 42 4.087182 GTTGGATCAGATACCCTCGGATA 58.913 47.826 0.00 0.00 38.68 2.59
42 43 2.900546 GTTGGATCAGATACCCTCGGAT 59.099 50.000 0.00 0.00 40.89 4.18
44 45 1.000163 CGTTGGATCAGATACCCTCGG 60.000 57.143 0.00 0.00 0.00 4.63
45 46 1.000163 CCGTTGGATCAGATACCCTCG 60.000 57.143 0.00 0.00 0.00 4.63
46 47 1.270358 GCCGTTGGATCAGATACCCTC 60.270 57.143 0.00 0.00 0.00 4.30
47 48 0.759346 GCCGTTGGATCAGATACCCT 59.241 55.000 0.00 0.00 0.00 4.34
48 49 0.468226 TGCCGTTGGATCAGATACCC 59.532 55.000 0.00 0.00 0.00 3.69
49 50 1.139058 AGTGCCGTTGGATCAGATACC 59.861 52.381 0.00 0.00 0.00 2.73
50 51 2.604046 AGTGCCGTTGGATCAGATAC 57.396 50.000 0.00 0.00 0.00 2.24
52 53 1.278985 TCAAGTGCCGTTGGATCAGAT 59.721 47.619 0.00 0.00 0.00 2.90
54 55 1.522668 TTCAAGTGCCGTTGGATCAG 58.477 50.000 0.00 0.00 0.00 2.90
55 56 2.083774 GATTCAAGTGCCGTTGGATCA 58.916 47.619 10.29 0.00 40.79 2.92
56 57 1.401905 GGATTCAAGTGCCGTTGGATC 59.598 52.381 7.58 7.58 40.50 3.36
57 58 1.271871 TGGATTCAAGTGCCGTTGGAT 60.272 47.619 0.00 0.00 0.00 3.41
58 59 0.109532 TGGATTCAAGTGCCGTTGGA 59.890 50.000 0.00 0.00 0.00 3.53
59 60 1.135315 CATGGATTCAAGTGCCGTTGG 60.135 52.381 0.00 0.00 0.00 3.77
60 61 1.135315 CCATGGATTCAAGTGCCGTTG 60.135 52.381 5.56 0.00 0.00 4.10
61 62 1.176527 CCATGGATTCAAGTGCCGTT 58.823 50.000 5.56 0.00 0.00 4.44
62 63 1.315257 GCCATGGATTCAAGTGCCGT 61.315 55.000 18.40 0.00 0.00 5.68
65 66 1.002033 GATCGCCATGGATTCAAGTGC 60.002 52.381 18.40 0.00 0.00 4.40
66 67 2.289820 CTGATCGCCATGGATTCAAGTG 59.710 50.000 18.40 0.00 0.00 3.16
67 68 2.171237 TCTGATCGCCATGGATTCAAGT 59.829 45.455 18.40 0.00 0.00 3.16
68 69 2.806818 CTCTGATCGCCATGGATTCAAG 59.193 50.000 18.40 6.89 0.00 3.02
69 70 2.435437 TCTCTGATCGCCATGGATTCAA 59.565 45.455 18.40 5.15 0.00 2.69
72 73 1.347050 CCTCTCTGATCGCCATGGATT 59.653 52.381 18.40 0.00 0.00 3.01
73 74 0.975135 CCTCTCTGATCGCCATGGAT 59.025 55.000 18.40 0.00 0.00 3.41
75 76 1.301558 GCCTCTCTGATCGCCATGG 60.302 63.158 7.63 7.63 0.00 3.66
79 80 1.938926 GCTAATGCCTCTCTGATCGCC 60.939 57.143 0.00 0.00 0.00 5.54
80 81 1.269988 TGCTAATGCCTCTCTGATCGC 60.270 52.381 0.00 0.00 38.71 4.58
81 82 2.035704 AGTGCTAATGCCTCTCTGATCG 59.964 50.000 0.00 0.00 38.71 3.69
83 84 3.806380 CAAGTGCTAATGCCTCTCTGAT 58.194 45.455 0.00 0.00 38.71 2.90
84 85 2.679059 GCAAGTGCTAATGCCTCTCTGA 60.679 50.000 0.00 0.00 38.71 3.27
85 86 1.669779 GCAAGTGCTAATGCCTCTCTG 59.330 52.381 0.00 0.00 38.71 3.35
98 99 3.691118 TCATAAAGGTCATCAGCAAGTGC 59.309 43.478 0.00 0.00 42.49 4.40
99 100 5.181009 TCTCATAAAGGTCATCAGCAAGTG 58.819 41.667 0.00 0.00 0.00 3.16
101 102 4.815308 CCTCTCATAAAGGTCATCAGCAAG 59.185 45.833 0.00 0.00 0.00 4.01
104 105 4.679373 TCCTCTCATAAAGGTCATCAGC 57.321 45.455 0.00 0.00 35.29 4.26
106 107 8.733092 ATATCTTCCTCTCATAAAGGTCATCA 57.267 34.615 0.00 0.00 35.29 3.07
107 108 9.034800 AGATATCTTCCTCTCATAAAGGTCATC 57.965 37.037 0.00 0.00 35.29 2.92
108 109 8.971032 AGATATCTTCCTCTCATAAAGGTCAT 57.029 34.615 0.00 0.00 35.29 3.06
109 110 8.789767 AAGATATCTTCCTCTCATAAAGGTCA 57.210 34.615 12.37 0.00 35.29 4.02
124 125 8.334074 ACCACTTGGCAATCTGAAGATATCTTC 61.334 40.741 30.59 30.59 44.65 2.87
125 126 5.826737 CCACTTGGCAATCTGAAGATATCTT 59.173 40.000 17.96 17.96 39.23 2.40
127 128 5.008415 CACCACTTGGCAATCTGAAGATATC 59.992 44.000 0.00 0.00 39.32 1.63
129 130 4.264253 CACCACTTGGCAATCTGAAGATA 58.736 43.478 0.00 0.00 39.32 1.98
132 133 1.542915 CCACCACTTGGCAATCTGAAG 59.457 52.381 0.00 0.00 39.07 3.02
133 134 1.619654 CCACCACTTGGCAATCTGAA 58.380 50.000 0.00 0.00 39.07 3.02
134 135 3.344703 CCACCACTTGGCAATCTGA 57.655 52.632 0.00 0.00 39.07 3.27
143 144 0.538057 ATGTCCTGCACCACCACTTG 60.538 55.000 0.00 0.00 0.00 3.16
145 146 1.376466 GATGTCCTGCACCACCACT 59.624 57.895 0.00 0.00 0.00 4.00
146 147 1.675641 GGATGTCCTGCACCACCAC 60.676 63.158 0.00 0.00 0.00 4.16
149 150 0.036732 TCTTGGATGTCCTGCACCAC 59.963 55.000 0.09 0.00 36.82 4.16
150 151 0.036732 GTCTTGGATGTCCTGCACCA 59.963 55.000 0.09 0.00 36.82 4.17
151 152 0.036732 TGTCTTGGATGTCCTGCACC 59.963 55.000 0.09 0.00 36.82 5.01
152 153 1.002430 TCTGTCTTGGATGTCCTGCAC 59.998 52.381 0.09 0.00 36.82 4.57
153 154 1.351076 TCTGTCTTGGATGTCCTGCA 58.649 50.000 0.09 0.00 36.82 4.41
154 155 2.027745 TCTTCTGTCTTGGATGTCCTGC 60.028 50.000 0.09 0.00 36.82 4.85
155 156 3.859443 CTCTTCTGTCTTGGATGTCCTG 58.141 50.000 0.09 0.00 36.82 3.86
157 158 2.027745 TGCTCTTCTGTCTTGGATGTCC 60.028 50.000 0.00 0.00 0.00 4.02
158 159 3.325293 TGCTCTTCTGTCTTGGATGTC 57.675 47.619 0.00 0.00 0.00 3.06
159 160 3.181451 TGTTGCTCTTCTGTCTTGGATGT 60.181 43.478 0.00 0.00 0.00 3.06
162 163 2.435805 ACTGTTGCTCTTCTGTCTTGGA 59.564 45.455 0.00 0.00 0.00 3.53
163 164 2.843701 ACTGTTGCTCTTCTGTCTTGG 58.156 47.619 0.00 0.00 0.00 3.61
164 165 6.257411 CCATATACTGTTGCTCTTCTGTCTTG 59.743 42.308 0.00 0.00 0.00 3.02
165 166 6.155221 TCCATATACTGTTGCTCTTCTGTCTT 59.845 38.462 0.00 0.00 0.00 3.01
166 167 5.658634 TCCATATACTGTTGCTCTTCTGTCT 59.341 40.000 0.00 0.00 0.00 3.41
171 172 3.738282 CGCTCCATATACTGTTGCTCTTC 59.262 47.826 0.00 0.00 0.00 2.87
172 173 3.384789 TCGCTCCATATACTGTTGCTCTT 59.615 43.478 0.00 0.00 0.00 2.85
173 174 2.959030 TCGCTCCATATACTGTTGCTCT 59.041 45.455 0.00 0.00 0.00 4.09
174 175 3.371102 TCGCTCCATATACTGTTGCTC 57.629 47.619 0.00 0.00 0.00 4.26
175 176 4.342862 AATCGCTCCATATACTGTTGCT 57.657 40.909 0.00 0.00 0.00 3.91
176 177 6.811665 TGTATAATCGCTCCATATACTGTTGC 59.188 38.462 0.00 0.00 34.87 4.17
177 178 8.811378 CATGTATAATCGCTCCATATACTGTTG 58.189 37.037 0.00 0.00 34.87 3.33
178 179 8.749354 TCATGTATAATCGCTCCATATACTGTT 58.251 33.333 0.00 0.00 34.87 3.16
180 181 8.624776 TCTCATGTATAATCGCTCCATATACTG 58.375 37.037 0.00 0.00 34.87 2.74
181 182 8.753497 TCTCATGTATAATCGCTCCATATACT 57.247 34.615 0.00 0.00 34.87 2.12
182 183 9.973450 AATCTCATGTATAATCGCTCCATATAC 57.027 33.333 0.00 0.00 34.55 1.47
184 185 9.973450 GTAATCTCATGTATAATCGCTCCATAT 57.027 33.333 0.00 0.00 0.00 1.78
185 186 9.190317 AGTAATCTCATGTATAATCGCTCCATA 57.810 33.333 0.00 0.00 0.00 2.74
186 187 8.072321 AGTAATCTCATGTATAATCGCTCCAT 57.928 34.615 0.00 0.00 0.00 3.41
187 188 7.468141 AGTAATCTCATGTATAATCGCTCCA 57.532 36.000 0.00 0.00 0.00 3.86
188 189 7.916450 GGTAGTAATCTCATGTATAATCGCTCC 59.084 40.741 0.00 0.00 0.00 4.70
189 190 7.916450 GGGTAGTAATCTCATGTATAATCGCTC 59.084 40.741 0.00 0.00 0.00 5.03
190 191 7.396339 TGGGTAGTAATCTCATGTATAATCGCT 59.604 37.037 0.00 0.00 0.00 4.93
191 192 7.544622 TGGGTAGTAATCTCATGTATAATCGC 58.455 38.462 0.00 0.00 0.00 4.58
213 214 7.112779 ACAAGATTGAAAAGTAGACCTATGGG 58.887 38.462 0.00 0.00 38.88 4.00
228 229 9.851686 ACTCATGCCTAATATTACAAGATTGAA 57.148 29.630 0.00 0.00 0.00 2.69
229 230 9.851686 AACTCATGCCTAATATTACAAGATTGA 57.148 29.630 0.00 0.00 0.00 2.57
239 240 9.046296 CGAACTTCTAAACTCATGCCTAATATT 57.954 33.333 0.00 0.00 0.00 1.28
243 244 6.032956 TCGAACTTCTAAACTCATGCCTAA 57.967 37.500 0.00 0.00 0.00 2.69
244 245 5.654603 TCGAACTTCTAAACTCATGCCTA 57.345 39.130 0.00 0.00 0.00 3.93
245 246 4.537135 TCGAACTTCTAAACTCATGCCT 57.463 40.909 0.00 0.00 0.00 4.75
246 247 5.122396 ACATTCGAACTTCTAAACTCATGCC 59.878 40.000 0.00 0.00 0.00 4.40
247 248 6.170675 ACATTCGAACTTCTAAACTCATGC 57.829 37.500 0.00 0.00 0.00 4.06
248 249 6.454318 CCGACATTCGAACTTCTAAACTCATG 60.454 42.308 0.00 0.00 43.74 3.07
249 250 5.577164 CCGACATTCGAACTTCTAAACTCAT 59.423 40.000 0.00 0.00 43.74 2.90
251 252 5.159209 TCCGACATTCGAACTTCTAAACTC 58.841 41.667 0.00 0.00 43.74 3.01
254 255 3.924686 GCTCCGACATTCGAACTTCTAAA 59.075 43.478 0.00 0.00 43.74 1.85
255 256 3.192844 AGCTCCGACATTCGAACTTCTAA 59.807 43.478 0.00 0.00 43.74 2.10
257 258 1.546476 AGCTCCGACATTCGAACTTCT 59.454 47.619 0.00 0.00 43.74 2.85
258 259 1.921230 GAGCTCCGACATTCGAACTTC 59.079 52.381 0.87 0.00 43.74 3.01
259 260 1.272490 TGAGCTCCGACATTCGAACTT 59.728 47.619 12.15 0.00 43.74 2.66
262 263 0.601057 TGTGAGCTCCGACATTCGAA 59.399 50.000 12.15 0.00 43.74 3.71
263 264 0.601057 TTGTGAGCTCCGACATTCGA 59.399 50.000 12.15 0.00 43.74 3.71
264 265 1.126846 GTTTGTGAGCTCCGACATTCG 59.873 52.381 12.15 0.00 40.07 3.34
265 266 2.413453 GAGTTTGTGAGCTCCGACATTC 59.587 50.000 12.15 6.21 0.00 2.67
267 268 1.670087 CGAGTTTGTGAGCTCCGACAT 60.670 52.381 12.15 0.00 30.07 3.06
268 269 0.318699 CGAGTTTGTGAGCTCCGACA 60.319 55.000 12.15 7.06 30.07 4.35
269 270 0.318784 ACGAGTTTGTGAGCTCCGAC 60.319 55.000 12.15 4.05 30.07 4.79
270 271 0.318699 CACGAGTTTGTGAGCTCCGA 60.319 55.000 12.15 0.00 42.55 4.55
271 272 0.318699 TCACGAGTTTGTGAGCTCCG 60.319 55.000 12.15 8.01 43.62 4.63
272 273 3.588277 TCACGAGTTTGTGAGCTCC 57.412 52.632 12.15 3.09 43.62 4.70
287 288 1.739067 AGGGATAAAGCGTGCTTCAC 58.261 50.000 7.67 0.00 34.84 3.18
289 290 3.728845 TGATAGGGATAAAGCGTGCTTC 58.271 45.455 7.67 0.00 34.84 3.86
290 291 3.733337 CTGATAGGGATAAAGCGTGCTT 58.267 45.455 0.24 0.24 37.98 3.91
291 292 2.548920 GCTGATAGGGATAAAGCGTGCT 60.549 50.000 0.00 0.00 0.00 4.40
292 293 1.801178 GCTGATAGGGATAAAGCGTGC 59.199 52.381 0.00 0.00 0.00 5.34
293 294 3.062763 CAGCTGATAGGGATAAAGCGTG 58.937 50.000 8.42 0.00 38.90 5.34
294 295 2.037772 CCAGCTGATAGGGATAAAGCGT 59.962 50.000 17.39 0.00 38.90 5.07
295 296 2.693069 CCAGCTGATAGGGATAAAGCG 58.307 52.381 17.39 0.00 38.90 4.68
296 297 2.431454 GCCAGCTGATAGGGATAAAGC 58.569 52.381 17.39 0.80 0.00 3.51
297 298 2.613977 CGGCCAGCTGATAGGGATAAAG 60.614 54.545 17.39 0.00 0.00 1.85
298 299 1.347707 CGGCCAGCTGATAGGGATAAA 59.652 52.381 17.39 0.00 0.00 1.40
299 300 0.976641 CGGCCAGCTGATAGGGATAA 59.023 55.000 17.39 0.00 0.00 1.75
300 301 0.114364 TCGGCCAGCTGATAGGGATA 59.886 55.000 17.39 0.00 0.00 2.59
303 304 1.762522 ATGTCGGCCAGCTGATAGGG 61.763 60.000 17.39 0.00 33.49 3.53
304 305 0.602106 CATGTCGGCCAGCTGATAGG 60.602 60.000 17.39 0.00 33.49 2.57
305 306 0.105593 ACATGTCGGCCAGCTGATAG 59.894 55.000 17.39 5.58 33.49 2.08
306 307 1.408969 TACATGTCGGCCAGCTGATA 58.591 50.000 17.39 2.03 33.49 2.15
307 308 0.761187 ATACATGTCGGCCAGCTGAT 59.239 50.000 17.39 0.00 33.49 2.90
308 309 1.341209 CTATACATGTCGGCCAGCTGA 59.659 52.381 17.39 0.00 0.00 4.26
310 311 1.414158 ACTATACATGTCGGCCAGCT 58.586 50.000 0.00 0.00 0.00 4.24
311 312 2.240493 AACTATACATGTCGGCCAGC 57.760 50.000 0.00 0.00 0.00 4.85
312 313 3.861131 GCCTAACTATACATGTCGGCCAG 60.861 52.174 0.00 0.00 31.82 4.85
313 314 2.036733 GCCTAACTATACATGTCGGCCA 59.963 50.000 0.00 0.00 31.82 5.36
314 315 2.612221 GGCCTAACTATACATGTCGGCC 60.612 54.545 0.00 9.83 42.51 6.13
315 316 2.036733 TGGCCTAACTATACATGTCGGC 59.963 50.000 0.00 4.36 34.95 5.54
316 317 3.861131 GCTGGCCTAACTATACATGTCGG 60.861 52.174 0.00 0.00 0.00 4.79
318 319 3.665190 GGCTGGCCTAACTATACATGTC 58.335 50.000 0.00 0.00 0.00 3.06
319 320 2.037251 CGGCTGGCCTAACTATACATGT 59.963 50.000 3.32 2.69 0.00 3.21
321 322 1.623811 CCGGCTGGCCTAACTATACAT 59.376 52.381 3.32 0.00 0.00 2.29
324 325 1.899814 CATCCGGCTGGCCTAACTATA 59.100 52.381 6.73 0.00 34.14 1.31
325 326 0.687354 CATCCGGCTGGCCTAACTAT 59.313 55.000 6.73 0.00 34.14 2.12
326 327 0.397957 TCATCCGGCTGGCCTAACTA 60.398 55.000 6.73 0.00 34.14 2.24
327 328 1.271840 TTCATCCGGCTGGCCTAACT 61.272 55.000 6.73 0.00 34.14 2.24
328 329 1.095807 GTTCATCCGGCTGGCCTAAC 61.096 60.000 6.73 6.84 34.14 2.34
329 330 1.223487 GTTCATCCGGCTGGCCTAA 59.777 57.895 6.73 0.00 34.14 2.69
330 331 0.397957 TAGTTCATCCGGCTGGCCTA 60.398 55.000 6.73 3.37 34.14 3.93
331 332 1.056700 ATAGTTCATCCGGCTGGCCT 61.057 55.000 6.73 4.33 34.14 5.19
332 333 0.603975 GATAGTTCATCCGGCTGGCC 60.604 60.000 6.73 0.00 34.14 5.36
333 334 0.106708 TGATAGTTCATCCGGCTGGC 59.893 55.000 6.73 0.00 32.09 4.85
335 336 2.733552 CGAATGATAGTTCATCCGGCTG 59.266 50.000 0.00 0.00 41.83 4.85
336 337 2.365617 ACGAATGATAGTTCATCCGGCT 59.634 45.455 0.00 0.00 43.60 5.52
338 339 3.318017 GGACGAATGATAGTTCATCCGG 58.682 50.000 0.00 0.00 43.60 5.14
340 341 3.736252 CACGGACGAATGATAGTTCATCC 59.264 47.826 0.00 0.00 41.83 3.51
341 342 4.360563 ACACGGACGAATGATAGTTCATC 58.639 43.478 0.00 0.00 41.83 2.92
345 346 5.472148 TGTTTACACGGACGAATGATAGTT 58.528 37.500 0.00 0.00 0.00 2.24
347 348 6.035650 ACAATGTTTACACGGACGAATGATAG 59.964 38.462 0.00 0.00 0.00 2.08
348 349 5.870433 ACAATGTTTACACGGACGAATGATA 59.130 36.000 0.00 0.00 0.00 2.15
349 350 4.693566 ACAATGTTTACACGGACGAATGAT 59.306 37.500 0.00 0.00 0.00 2.45
350 351 4.059511 ACAATGTTTACACGGACGAATGA 58.940 39.130 0.00 0.00 0.00 2.57
351 352 4.398549 ACAATGTTTACACGGACGAATG 57.601 40.909 0.00 0.00 0.00 2.67
353 354 4.085158 CGTTACAATGTTTACACGGACGAA 60.085 41.667 0.00 0.00 0.00 3.85
354 355 3.424861 CGTTACAATGTTTACACGGACGA 59.575 43.478 0.00 0.00 0.00 4.20
355 356 3.424861 TCGTTACAATGTTTACACGGACG 59.575 43.478 0.00 0.00 0.00 4.79
356 357 4.445385 AGTCGTTACAATGTTTACACGGAC 59.555 41.667 0.00 0.00 0.00 4.79
357 358 4.619973 AGTCGTTACAATGTTTACACGGA 58.380 39.130 0.00 0.00 0.00 4.69
358 359 4.977741 AGTCGTTACAATGTTTACACGG 57.022 40.909 0.00 0.00 0.00 4.94
368 369 9.537848 CGAAGCTTTTTATTAAGTCGTTACAAT 57.462 29.630 0.00 0.00 0.00 2.71
371 372 7.732664 TCCGAAGCTTTTTATTAAGTCGTTAC 58.267 34.615 0.00 0.00 0.00 2.50
372 373 7.599998 ACTCCGAAGCTTTTTATTAAGTCGTTA 59.400 33.333 0.00 0.00 0.00 3.18
373 374 6.426025 ACTCCGAAGCTTTTTATTAAGTCGTT 59.574 34.615 0.00 0.00 0.00 3.85
374 375 5.930569 ACTCCGAAGCTTTTTATTAAGTCGT 59.069 36.000 0.00 0.00 0.00 4.34
375 376 6.404712 ACTCCGAAGCTTTTTATTAAGTCG 57.595 37.500 0.00 0.00 0.00 4.18
376 377 8.074370 ACAAACTCCGAAGCTTTTTATTAAGTC 58.926 33.333 0.00 0.00 0.00 3.01
377 378 7.937649 ACAAACTCCGAAGCTTTTTATTAAGT 58.062 30.769 0.00 0.00 0.00 2.24
378 379 8.290325 AGACAAACTCCGAAGCTTTTTATTAAG 58.710 33.333 0.00 0.00 0.00 1.85
379 380 8.161699 AGACAAACTCCGAAGCTTTTTATTAA 57.838 30.769 0.00 0.00 0.00 1.40
380 381 7.739498 AGACAAACTCCGAAGCTTTTTATTA 57.261 32.000 0.00 0.00 0.00 0.98
381 382 6.635030 AGACAAACTCCGAAGCTTTTTATT 57.365 33.333 0.00 0.00 0.00 1.40
385 386 6.445357 TTTTAGACAAACTCCGAAGCTTTT 57.555 33.333 0.00 0.00 0.00 2.27
386 387 6.445357 TTTTTAGACAAACTCCGAAGCTTT 57.555 33.333 0.00 0.00 0.00 3.51
407 408 4.700213 AGCGGCTACAAGTCATATGTTTTT 59.300 37.500 0.00 0.00 32.27 1.94
408 409 4.094887 CAGCGGCTACAAGTCATATGTTTT 59.905 41.667 0.26 0.00 32.27 2.43
409 410 3.623060 CAGCGGCTACAAGTCATATGTTT 59.377 43.478 0.26 0.00 32.27 2.83
410 411 3.118775 TCAGCGGCTACAAGTCATATGTT 60.119 43.478 0.26 0.00 32.27 2.71
432 433 5.510520 CCTTTGCTAATCGGAATAGAGCTCT 60.511 44.000 22.17 22.17 34.19 4.09
940 2169 2.555664 AGATGAGATGTGTGGAAGGGT 58.444 47.619 0.00 0.00 0.00 4.34
2300 5738 6.419413 GTCTTCTTCGATCTCCATCAATGTAC 59.581 42.308 0.00 0.00 0.00 2.90
2526 6198 4.539726 ACCTTAAGTTTCGTCCCCTTTTT 58.460 39.130 0.97 0.00 0.00 1.94


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

AutoCloner maintained by Alex Coulton.