Multiple sequence alignment - TraesCS2D01G318600
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 | TraesCS2D01G318600 | chr2D | 100.000 | 2462 | 0 | 0 | 1 | 2462 | 408361401 | 408363862 | 0.000000e+00 | 4547 |
1 | TraesCS2D01G318600 | chr2D | 76.504 | 349 | 68 | 11 | 449 | 790 | 407982059 | 407981718 | 7.000000e-41 | 178 |
2 | TraesCS2D01G318600 | chr2A | 93.579 | 2305 | 77 | 22 | 185 | 2462 | 576357629 | 576359889 | 0.000000e+00 | 3371 |
3 | TraesCS2D01G318600 | chr2A | 75.522 | 335 | 74 | 6 | 460 | 790 | 575694661 | 575694331 | 9.110000e-35 | 158 |
4 | TraesCS2D01G318600 | chr2B | 95.528 | 1789 | 47 | 16 | 355 | 2128 | 483681065 | 483682835 | 0.000000e+00 | 2830 |
5 | TraesCS2D01G318600 | chr2B | 87.819 | 353 | 19 | 14 | 2133 | 2462 | 483683151 | 483683502 | 2.300000e-105 | 392 |
6 | TraesCS2D01G318600 | chr2B | 76.119 | 335 | 72 | 6 | 460 | 790 | 483469788 | 483469458 | 4.210000e-38 | 169 |
7 | TraesCS2D01G318600 | chr2B | 98.734 | 79 | 1 | 0 | 239 | 317 | 483680991 | 483681069 | 9.180000e-30 | 141 |
8 | TraesCS2D01G318600 | chr3A | 90.625 | 128 | 11 | 1 | 60 | 187 | 685427584 | 685427710 | 4.210000e-38 | 169 |
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 | TraesCS2D01G318600 | chr2D | 408361401 | 408363862 | 2461 | False | 4547 | 4547 | 100.000 | 1 | 2462 | 1 | chr2D.!!$F1 | 2461 |
1 | TraesCS2D01G318600 | chr2A | 576357629 | 576359889 | 2260 | False | 3371 | 3371 | 93.579 | 185 | 2462 | 1 | chr2A.!!$F1 | 2277 |
2 | TraesCS2D01G318600 | chr2B | 483680991 | 483683502 | 2511 | False | 1121 | 2830 | 94.027 | 239 | 2462 | 3 | chr2B.!!$F1 | 2223 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
36 | 37 | 0.035881 | CAGAAGCCTCTGTGCAAGGA | 59.964 | 55.0 | 7.13 | 0.0 | 43.64 | 3.36 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1825 | 1872 | 0.16747 | TTACTCAAGACGACGAGGCG | 59.833 | 55.0 | 0.0 | 0.0 | 33.36 | 5.52 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
35 | 36 | 2.552802 | CAGAAGCCTCTGTGCAAGG | 58.447 | 57.895 | 4.01 | 0.00 | 43.64 | 3.61 |
36 | 37 | 0.035881 | CAGAAGCCTCTGTGCAAGGA | 59.964 | 55.000 | 7.13 | 0.00 | 43.64 | 3.36 |
37 | 38 | 0.767375 | AGAAGCCTCTGTGCAAGGAA | 59.233 | 50.000 | 7.13 | 0.00 | 35.83 | 3.36 |
38 | 39 | 0.877743 | GAAGCCTCTGTGCAAGGAAC | 59.122 | 55.000 | 7.13 | 0.00 | 35.83 | 3.62 |
39 | 40 | 0.886490 | AAGCCTCTGTGCAAGGAACG | 60.886 | 55.000 | 7.13 | 0.00 | 35.83 | 3.95 |
40 | 41 | 1.301716 | GCCTCTGTGCAAGGAACGA | 60.302 | 57.895 | 7.13 | 0.00 | 35.83 | 3.85 |
41 | 42 | 1.294659 | GCCTCTGTGCAAGGAACGAG | 61.295 | 60.000 | 7.13 | 0.00 | 35.83 | 4.18 |
42 | 43 | 0.671781 | CCTCTGTGCAAGGAACGAGG | 60.672 | 60.000 | 0.00 | 0.00 | 35.83 | 4.63 |
43 | 44 | 1.294659 | CTCTGTGCAAGGAACGAGGC | 61.295 | 60.000 | 0.00 | 0.00 | 0.00 | 4.70 |
44 | 45 | 2.664851 | TGTGCAAGGAACGAGGCG | 60.665 | 61.111 | 0.00 | 0.00 | 0.00 | 5.52 |
45 | 46 | 2.357034 | GTGCAAGGAACGAGGCGA | 60.357 | 61.111 | 0.00 | 0.00 | 0.00 | 5.54 |
46 | 47 | 2.048222 | TGCAAGGAACGAGGCGAG | 60.048 | 61.111 | 0.00 | 0.00 | 0.00 | 5.03 |
47 | 48 | 2.815647 | GCAAGGAACGAGGCGAGG | 60.816 | 66.667 | 0.00 | 0.00 | 0.00 | 4.63 |
48 | 49 | 2.125512 | CAAGGAACGAGGCGAGGG | 60.126 | 66.667 | 0.00 | 0.00 | 0.00 | 4.30 |
49 | 50 | 4.083862 | AAGGAACGAGGCGAGGGC | 62.084 | 66.667 | 0.00 | 0.00 | 38.90 | 5.19 |
51 | 52 | 3.145551 | GGAACGAGGCGAGGGCTA | 61.146 | 66.667 | 0.00 | 0.00 | 38.98 | 3.93 |
52 | 53 | 2.499827 | GGAACGAGGCGAGGGCTAT | 61.500 | 63.158 | 0.00 | 0.00 | 38.98 | 2.97 |
53 | 54 | 1.442148 | GAACGAGGCGAGGGCTATT | 59.558 | 57.895 | 0.00 | 0.00 | 38.98 | 1.73 |
54 | 55 | 0.672342 | GAACGAGGCGAGGGCTATTA | 59.328 | 55.000 | 0.00 | 0.00 | 38.98 | 0.98 |
55 | 56 | 0.674534 | AACGAGGCGAGGGCTATTAG | 59.325 | 55.000 | 0.00 | 0.00 | 38.98 | 1.73 |
56 | 57 | 1.080434 | CGAGGCGAGGGCTATTAGC | 60.080 | 63.158 | 7.16 | 7.16 | 38.98 | 3.09 |
57 | 58 | 1.080434 | GAGGCGAGGGCTATTAGCG | 60.080 | 63.158 | 9.50 | 0.00 | 43.62 | 4.26 |
58 | 59 | 1.524863 | GAGGCGAGGGCTATTAGCGA | 61.525 | 60.000 | 9.50 | 0.00 | 43.62 | 4.93 |
59 | 60 | 1.373121 | GGCGAGGGCTATTAGCGAC | 60.373 | 63.158 | 9.50 | 5.40 | 43.62 | 5.19 |
60 | 61 | 1.660917 | GCGAGGGCTATTAGCGACT | 59.339 | 57.895 | 9.50 | 9.91 | 43.62 | 4.18 |
61 | 62 | 0.879765 | GCGAGGGCTATTAGCGACTA | 59.120 | 55.000 | 9.50 | 0.00 | 43.62 | 2.59 |
62 | 63 | 1.135632 | GCGAGGGCTATTAGCGACTAG | 60.136 | 57.143 | 9.50 | 10.93 | 43.62 | 2.57 |
63 | 64 | 2.152830 | CGAGGGCTATTAGCGACTAGT | 58.847 | 52.381 | 9.50 | 0.00 | 43.62 | 2.57 |
64 | 65 | 2.095668 | CGAGGGCTATTAGCGACTAGTG | 60.096 | 54.545 | 0.00 | 0.00 | 43.62 | 2.74 |
65 | 66 | 3.147629 | GAGGGCTATTAGCGACTAGTGA | 58.852 | 50.000 | 0.00 | 0.00 | 43.62 | 3.41 |
66 | 67 | 3.563223 | AGGGCTATTAGCGACTAGTGAA | 58.437 | 45.455 | 0.00 | 0.00 | 43.62 | 3.18 |
67 | 68 | 4.153411 | AGGGCTATTAGCGACTAGTGAAT | 58.847 | 43.478 | 0.00 | 0.00 | 43.62 | 2.57 |
68 | 69 | 4.218852 | AGGGCTATTAGCGACTAGTGAATC | 59.781 | 45.833 | 0.00 | 0.00 | 43.62 | 2.52 |
69 | 70 | 4.487019 | GGCTATTAGCGACTAGTGAATCC | 58.513 | 47.826 | 0.00 | 0.00 | 43.62 | 3.01 |
70 | 71 | 4.022242 | GGCTATTAGCGACTAGTGAATCCA | 60.022 | 45.833 | 0.00 | 0.00 | 43.62 | 3.41 |
71 | 72 | 5.509163 | GGCTATTAGCGACTAGTGAATCCAA | 60.509 | 44.000 | 0.00 | 0.00 | 43.62 | 3.53 |
72 | 73 | 5.983720 | GCTATTAGCGACTAGTGAATCCAAA | 59.016 | 40.000 | 0.00 | 0.00 | 0.00 | 3.28 |
73 | 74 | 6.647067 | GCTATTAGCGACTAGTGAATCCAAAT | 59.353 | 38.462 | 0.00 | 0.00 | 0.00 | 2.32 |
74 | 75 | 6.851222 | ATTAGCGACTAGTGAATCCAAATG | 57.149 | 37.500 | 0.00 | 0.00 | 0.00 | 2.32 |
75 | 76 | 4.471904 | AGCGACTAGTGAATCCAAATGA | 57.528 | 40.909 | 0.00 | 0.00 | 0.00 | 2.57 |
76 | 77 | 4.184629 | AGCGACTAGTGAATCCAAATGAC | 58.815 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
77 | 78 | 3.309954 | GCGACTAGTGAATCCAAATGACC | 59.690 | 47.826 | 0.00 | 0.00 | 0.00 | 4.02 |
78 | 79 | 4.503910 | CGACTAGTGAATCCAAATGACCA | 58.496 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
79 | 80 | 4.568359 | CGACTAGTGAATCCAAATGACCAG | 59.432 | 45.833 | 0.00 | 0.00 | 0.00 | 4.00 |
80 | 81 | 4.848357 | ACTAGTGAATCCAAATGACCAGG | 58.152 | 43.478 | 0.00 | 0.00 | 0.00 | 4.45 |
81 | 82 | 4.536090 | ACTAGTGAATCCAAATGACCAGGA | 59.464 | 41.667 | 0.00 | 0.00 | 35.59 | 3.86 |
82 | 83 | 4.387026 | AGTGAATCCAAATGACCAGGAA | 57.613 | 40.909 | 0.00 | 0.00 | 34.62 | 3.36 |
83 | 84 | 4.739793 | AGTGAATCCAAATGACCAGGAAA | 58.260 | 39.130 | 0.00 | 0.00 | 34.62 | 3.13 |
84 | 85 | 5.147032 | AGTGAATCCAAATGACCAGGAAAA | 58.853 | 37.500 | 0.00 | 0.00 | 34.62 | 2.29 |
85 | 86 | 5.602145 | AGTGAATCCAAATGACCAGGAAAAA | 59.398 | 36.000 | 0.00 | 0.00 | 34.62 | 1.94 |
134 | 135 | 9.411189 | TCTTTTGTAGGTTTGTAAATTACACCT | 57.589 | 29.630 | 16.32 | 16.32 | 38.63 | 4.00 |
135 | 136 | 9.458374 | CTTTTGTAGGTTTGTAAATTACACCTG | 57.542 | 33.333 | 19.55 | 4.32 | 36.29 | 4.00 |
136 | 137 | 8.522542 | TTTGTAGGTTTGTAAATTACACCTGT | 57.477 | 30.769 | 19.55 | 4.68 | 36.29 | 4.00 |
137 | 138 | 9.624373 | TTTGTAGGTTTGTAAATTACACCTGTA | 57.376 | 29.630 | 19.55 | 9.62 | 36.29 | 2.74 |
138 | 139 | 8.606040 | TGTAGGTTTGTAAATTACACCTGTAC | 57.394 | 34.615 | 19.55 | 13.49 | 36.29 | 2.90 |
139 | 140 | 8.209584 | TGTAGGTTTGTAAATTACACCTGTACA | 58.790 | 33.333 | 19.55 | 15.23 | 36.29 | 2.90 |
140 | 141 | 9.223099 | GTAGGTTTGTAAATTACACCTGTACAT | 57.777 | 33.333 | 19.55 | 8.70 | 36.29 | 2.29 |
142 | 143 | 9.796180 | AGGTTTGTAAATTACACCTGTACATAA | 57.204 | 29.630 | 12.71 | 0.00 | 38.63 | 1.90 |
151 | 152 | 8.833231 | ATTACACCTGTACATAATCTACATGC | 57.167 | 34.615 | 0.00 | 0.00 | 0.00 | 4.06 |
152 | 153 | 5.289595 | ACACCTGTACATAATCTACATGCG | 58.710 | 41.667 | 0.00 | 0.00 | 0.00 | 4.73 |
153 | 154 | 5.163447 | ACACCTGTACATAATCTACATGCGT | 60.163 | 40.000 | 0.00 | 0.00 | 0.00 | 5.24 |
154 | 155 | 6.040054 | ACACCTGTACATAATCTACATGCGTA | 59.960 | 38.462 | 0.00 | 0.00 | 0.00 | 4.42 |
155 | 156 | 7.090808 | CACCTGTACATAATCTACATGCGTAT | 58.909 | 38.462 | 0.00 | 0.00 | 0.00 | 3.06 |
156 | 157 | 7.598869 | CACCTGTACATAATCTACATGCGTATT | 59.401 | 37.037 | 0.00 | 0.00 | 0.00 | 1.89 |
157 | 158 | 8.799367 | ACCTGTACATAATCTACATGCGTATTA | 58.201 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
158 | 159 | 9.073368 | CCTGTACATAATCTACATGCGTATTAC | 57.927 | 37.037 | 0.00 | 0.00 | 0.00 | 1.89 |
159 | 160 | 9.841880 | CTGTACATAATCTACATGCGTATTACT | 57.158 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
166 | 167 | 8.589335 | AATCTACATGCGTATTACTTTACAGG | 57.411 | 34.615 | 0.00 | 0.00 | 0.00 | 4.00 |
167 | 168 | 7.104043 | TCTACATGCGTATTACTTTACAGGT | 57.896 | 36.000 | 0.00 | 0.00 | 0.00 | 4.00 |
168 | 169 | 7.198390 | TCTACATGCGTATTACTTTACAGGTC | 58.802 | 38.462 | 0.00 | 0.00 | 0.00 | 3.85 |
169 | 170 | 5.974108 | ACATGCGTATTACTTTACAGGTCT | 58.026 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
170 | 171 | 6.403878 | ACATGCGTATTACTTTACAGGTCTT | 58.596 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
171 | 172 | 6.534079 | ACATGCGTATTACTTTACAGGTCTTC | 59.466 | 38.462 | 0.00 | 0.00 | 0.00 | 2.87 |
172 | 173 | 5.413499 | TGCGTATTACTTTACAGGTCTTCC | 58.587 | 41.667 | 0.00 | 0.00 | 0.00 | 3.46 |
173 | 174 | 5.047164 | TGCGTATTACTTTACAGGTCTTCCA | 60.047 | 40.000 | 0.00 | 0.00 | 35.89 | 3.53 |
174 | 175 | 5.870978 | GCGTATTACTTTACAGGTCTTCCAA | 59.129 | 40.000 | 0.00 | 0.00 | 35.89 | 3.53 |
175 | 176 | 6.537660 | GCGTATTACTTTACAGGTCTTCCAAT | 59.462 | 38.462 | 0.00 | 0.00 | 35.89 | 3.16 |
176 | 177 | 7.254353 | GCGTATTACTTTACAGGTCTTCCAATC | 60.254 | 40.741 | 0.00 | 0.00 | 35.89 | 2.67 |
177 | 178 | 7.043590 | CGTATTACTTTACAGGTCTTCCAATCG | 60.044 | 40.741 | 0.00 | 0.00 | 35.89 | 3.34 |
178 | 179 | 3.939066 | ACTTTACAGGTCTTCCAATCGG | 58.061 | 45.455 | 0.00 | 0.00 | 35.89 | 4.18 |
179 | 180 | 3.270877 | CTTTACAGGTCTTCCAATCGGG | 58.729 | 50.000 | 0.00 | 0.00 | 35.89 | 5.14 |
180 | 181 | 1.200519 | TACAGGTCTTCCAATCGGGG | 58.799 | 55.000 | 0.00 | 0.00 | 37.22 | 5.73 |
181 | 182 | 1.452108 | CAGGTCTTCCAATCGGGGC | 60.452 | 63.158 | 0.00 | 0.00 | 37.22 | 5.80 |
182 | 183 | 2.124278 | GGTCTTCCAATCGGGGCC | 60.124 | 66.667 | 0.00 | 0.00 | 37.22 | 5.80 |
183 | 184 | 2.124278 | GTCTTCCAATCGGGGCCC | 60.124 | 66.667 | 15.76 | 15.76 | 37.22 | 5.80 |
201 | 202 | 2.863740 | GCCCAAAAGTTTTTCGACAAGG | 59.136 | 45.455 | 0.00 | 0.00 | 0.00 | 3.61 |
222 | 223 | 1.297598 | GCATCGCGCACGCTAAAAT | 60.298 | 52.632 | 13.70 | 0.00 | 41.79 | 1.82 |
223 | 224 | 1.255635 | GCATCGCGCACGCTAAAATC | 61.256 | 55.000 | 13.70 | 0.00 | 41.79 | 2.17 |
318 | 353 | 9.793245 | CTAGCATTTTAATTTCGAGTTATACCG | 57.207 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
319 | 354 | 7.636326 | AGCATTTTAATTTCGAGTTATACCGG | 58.364 | 34.615 | 0.00 | 0.00 | 0.00 | 5.28 |
320 | 355 | 7.496591 | AGCATTTTAATTTCGAGTTATACCGGA | 59.503 | 33.333 | 9.46 | 0.00 | 0.00 | 5.14 |
321 | 356 | 8.124199 | GCATTTTAATTTCGAGTTATACCGGAA | 58.876 | 33.333 | 9.46 | 0.00 | 0.00 | 4.30 |
325 | 360 | 6.998258 | AATTTCGAGTTATACCGGAATACG | 57.002 | 37.500 | 9.46 | 4.61 | 43.80 | 3.06 |
340 | 375 | 4.474113 | GGAATACGAGTACCAATCTAGCG | 58.526 | 47.826 | 0.00 | 0.00 | 0.00 | 4.26 |
341 | 376 | 3.555917 | ATACGAGTACCAATCTAGCGC | 57.444 | 47.619 | 0.00 | 0.00 | 0.00 | 5.92 |
342 | 377 | 1.390565 | ACGAGTACCAATCTAGCGCT | 58.609 | 50.000 | 17.26 | 17.26 | 0.00 | 5.92 |
343 | 378 | 2.569059 | ACGAGTACCAATCTAGCGCTA | 58.431 | 47.619 | 17.75 | 17.75 | 0.00 | 4.26 |
344 | 379 | 2.947652 | ACGAGTACCAATCTAGCGCTAA | 59.052 | 45.455 | 19.37 | 9.97 | 0.00 | 3.09 |
345 | 380 | 3.568853 | ACGAGTACCAATCTAGCGCTAAT | 59.431 | 43.478 | 19.37 | 11.81 | 0.00 | 1.73 |
346 | 381 | 4.758674 | ACGAGTACCAATCTAGCGCTAATA | 59.241 | 41.667 | 19.37 | 10.08 | 0.00 | 0.98 |
347 | 382 | 5.106634 | ACGAGTACCAATCTAGCGCTAATAG | 60.107 | 44.000 | 19.37 | 9.11 | 0.00 | 1.73 |
348 | 383 | 5.642686 | GAGTACCAATCTAGCGCTAATAGG | 58.357 | 45.833 | 19.37 | 18.57 | 0.00 | 2.57 |
349 | 384 | 5.322754 | AGTACCAATCTAGCGCTAATAGGA | 58.677 | 41.667 | 19.37 | 12.43 | 0.00 | 2.94 |
350 | 385 | 4.792521 | ACCAATCTAGCGCTAATAGGAG | 57.207 | 45.455 | 19.37 | 7.48 | 0.00 | 3.69 |
351 | 386 | 4.153411 | ACCAATCTAGCGCTAATAGGAGT | 58.847 | 43.478 | 19.37 | 8.54 | 0.00 | 3.85 |
352 | 387 | 5.322754 | ACCAATCTAGCGCTAATAGGAGTA | 58.677 | 41.667 | 19.37 | 0.00 | 0.00 | 2.59 |
353 | 388 | 5.416326 | ACCAATCTAGCGCTAATAGGAGTAG | 59.584 | 44.000 | 19.37 | 7.12 | 0.00 | 2.57 |
354 | 389 | 5.416326 | CCAATCTAGCGCTAATAGGAGTAGT | 59.584 | 44.000 | 19.37 | 0.00 | 0.00 | 2.73 |
355 | 390 | 6.598457 | CCAATCTAGCGCTAATAGGAGTAGTA | 59.402 | 42.308 | 19.37 | 0.00 | 0.00 | 1.82 |
356 | 391 | 7.283580 | CCAATCTAGCGCTAATAGGAGTAGTAT | 59.716 | 40.741 | 19.37 | 0.00 | 0.00 | 2.12 |
357 | 392 | 9.327628 | CAATCTAGCGCTAATAGGAGTAGTATA | 57.672 | 37.037 | 19.37 | 0.00 | 0.00 | 1.47 |
358 | 393 | 8.891671 | ATCTAGCGCTAATAGGAGTAGTATAC | 57.108 | 38.462 | 19.37 | 0.00 | 43.47 | 1.47 |
807 | 842 | 1.755783 | CCCCTTGGGCATCTTGCTC | 60.756 | 63.158 | 0.00 | 0.00 | 46.11 | 4.26 |
871 | 906 | 1.580815 | CAACCAAACGCAAAGCCATT | 58.419 | 45.000 | 0.00 | 0.00 | 0.00 | 3.16 |
883 | 918 | 3.420893 | CAAAGCCATTAGTGTCCCAGAA | 58.579 | 45.455 | 0.00 | 0.00 | 0.00 | 3.02 |
922 | 969 | 6.183360 | GGATGGAAAATGTAGTAGGTCTTTGC | 60.183 | 42.308 | 0.00 | 0.00 | 0.00 | 3.68 |
1485 | 1532 | 1.153823 | CAGGTTGGCGACGAGGTAG | 60.154 | 63.158 | 0.00 | 0.00 | 0.00 | 3.18 |
1806 | 1853 | 1.518325 | CCTGGTCGTTGTACATGCAA | 58.482 | 50.000 | 0.00 | 0.00 | 0.00 | 4.08 |
1901 | 1948 | 0.872021 | GACACACCGCCTGATCGATC | 60.872 | 60.000 | 18.72 | 18.72 | 0.00 | 3.69 |
1909 | 1957 | 1.132588 | GCCTGATCGATCACGTTAGC | 58.867 | 55.000 | 23.99 | 16.52 | 40.69 | 3.09 |
1930 | 1978 | 3.126858 | GCGCCATGAACAAGATTCACTTA | 59.873 | 43.478 | 0.00 | 0.00 | 37.03 | 2.24 |
1998 | 2046 | 6.837992 | ACGTACGATAAAATGTCATTTTGCT | 58.162 | 32.000 | 26.74 | 16.84 | 42.08 | 3.91 |
1999 | 2047 | 7.966111 | ACGTACGATAAAATGTCATTTTGCTA | 58.034 | 30.769 | 26.74 | 12.53 | 42.08 | 3.49 |
2000 | 2048 | 8.444715 | ACGTACGATAAAATGTCATTTTGCTAA | 58.555 | 29.630 | 26.74 | 12.22 | 42.08 | 3.09 |
2067 | 2120 | 1.467342 | GCGGATGACTGTAAACCCAAC | 59.533 | 52.381 | 0.00 | 0.00 | 0.00 | 3.77 |
2083 | 2136 | 5.897377 | ACCCAACTGTTGATATTTACTGC | 57.103 | 39.130 | 21.49 | 0.00 | 0.00 | 4.40 |
2172 | 2536 | 0.609151 | TCTGGCAACCGGATTCGTTA | 59.391 | 50.000 | 9.46 | 0.00 | 33.41 | 3.18 |
2318 | 2694 | 6.813649 | TCTCATAAAAGTCCGATCTTGTCAAG | 59.186 | 38.462 | 6.21 | 6.21 | 0.00 | 3.02 |
2329 | 2712 | 3.986996 | TCTTGTCAAGCTCATCCATCA | 57.013 | 42.857 | 7.78 | 0.00 | 0.00 | 3.07 |
2330 | 2713 | 3.603532 | TCTTGTCAAGCTCATCCATCAC | 58.396 | 45.455 | 7.78 | 0.00 | 0.00 | 3.06 |
2340 | 2723 | 1.827344 | TCATCCATCACTCACTCGCTT | 59.173 | 47.619 | 0.00 | 0.00 | 0.00 | 4.68 |
2410 | 2793 | 6.427974 | CGAGAGCACAATCGACTAATAACTA | 58.572 | 40.000 | 0.00 | 0.00 | 41.40 | 2.24 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 2.436824 | GCCTCGGGCTTGTTCTCC | 60.437 | 66.667 | 7.58 | 0.00 | 46.69 | 3.71 |
18 | 19 | 0.767375 | TTCCTTGCACAGAGGCTTCT | 59.233 | 50.000 | 0.00 | 0.00 | 34.17 | 2.85 |
19 | 20 | 0.877743 | GTTCCTTGCACAGAGGCTTC | 59.122 | 55.000 | 0.00 | 0.00 | 34.17 | 3.86 |
20 | 21 | 0.886490 | CGTTCCTTGCACAGAGGCTT | 60.886 | 55.000 | 0.00 | 0.00 | 34.17 | 4.35 |
21 | 22 | 1.302033 | CGTTCCTTGCACAGAGGCT | 60.302 | 57.895 | 0.00 | 0.00 | 34.17 | 4.58 |
22 | 23 | 1.294659 | CTCGTTCCTTGCACAGAGGC | 61.295 | 60.000 | 0.00 | 0.00 | 34.17 | 4.70 |
23 | 24 | 0.671781 | CCTCGTTCCTTGCACAGAGG | 60.672 | 60.000 | 0.00 | 0.00 | 39.18 | 3.69 |
24 | 25 | 1.294659 | GCCTCGTTCCTTGCACAGAG | 61.295 | 60.000 | 0.00 | 0.00 | 0.00 | 3.35 |
25 | 26 | 1.301716 | GCCTCGTTCCTTGCACAGA | 60.302 | 57.895 | 0.00 | 0.00 | 0.00 | 3.41 |
26 | 27 | 2.671177 | CGCCTCGTTCCTTGCACAG | 61.671 | 63.158 | 0.00 | 0.00 | 0.00 | 3.66 |
27 | 28 | 2.664851 | CGCCTCGTTCCTTGCACA | 60.665 | 61.111 | 0.00 | 0.00 | 0.00 | 4.57 |
28 | 29 | 2.357034 | TCGCCTCGTTCCTTGCAC | 60.357 | 61.111 | 0.00 | 0.00 | 0.00 | 4.57 |
29 | 30 | 2.048222 | CTCGCCTCGTTCCTTGCA | 60.048 | 61.111 | 0.00 | 0.00 | 0.00 | 4.08 |
30 | 31 | 2.815647 | CCTCGCCTCGTTCCTTGC | 60.816 | 66.667 | 0.00 | 0.00 | 0.00 | 4.01 |
31 | 32 | 2.125512 | CCCTCGCCTCGTTCCTTG | 60.126 | 66.667 | 0.00 | 0.00 | 0.00 | 3.61 |
32 | 33 | 4.083862 | GCCCTCGCCTCGTTCCTT | 62.084 | 66.667 | 0.00 | 0.00 | 0.00 | 3.36 |
33 | 34 | 2.930777 | ATAGCCCTCGCCTCGTTCCT | 62.931 | 60.000 | 0.00 | 0.00 | 34.57 | 3.36 |
34 | 35 | 2.029307 | AATAGCCCTCGCCTCGTTCC | 62.029 | 60.000 | 0.00 | 0.00 | 34.57 | 3.62 |
35 | 36 | 0.672342 | TAATAGCCCTCGCCTCGTTC | 59.328 | 55.000 | 0.00 | 0.00 | 34.57 | 3.95 |
36 | 37 | 0.674534 | CTAATAGCCCTCGCCTCGTT | 59.325 | 55.000 | 0.00 | 0.00 | 34.57 | 3.85 |
37 | 38 | 1.807495 | GCTAATAGCCCTCGCCTCGT | 61.807 | 60.000 | 0.00 | 0.00 | 34.48 | 4.18 |
38 | 39 | 1.080434 | GCTAATAGCCCTCGCCTCG | 60.080 | 63.158 | 0.00 | 0.00 | 34.48 | 4.63 |
39 | 40 | 1.080434 | CGCTAATAGCCCTCGCCTC | 60.080 | 63.158 | 6.69 | 0.00 | 38.18 | 4.70 |
40 | 41 | 1.530891 | TCGCTAATAGCCCTCGCCT | 60.531 | 57.895 | 6.69 | 0.00 | 38.18 | 5.52 |
41 | 42 | 1.373121 | GTCGCTAATAGCCCTCGCC | 60.373 | 63.158 | 6.69 | 0.00 | 38.18 | 5.54 |
42 | 43 | 0.879765 | TAGTCGCTAATAGCCCTCGC | 59.120 | 55.000 | 6.69 | 0.00 | 38.18 | 5.03 |
43 | 44 | 2.095668 | CACTAGTCGCTAATAGCCCTCG | 60.096 | 54.545 | 6.69 | 2.18 | 38.18 | 4.63 |
44 | 45 | 3.147629 | TCACTAGTCGCTAATAGCCCTC | 58.852 | 50.000 | 6.69 | 0.00 | 38.18 | 4.30 |
45 | 46 | 3.225177 | TCACTAGTCGCTAATAGCCCT | 57.775 | 47.619 | 6.69 | 5.60 | 38.18 | 5.19 |
46 | 47 | 4.487019 | GATTCACTAGTCGCTAATAGCCC | 58.513 | 47.826 | 6.69 | 0.00 | 38.18 | 5.19 |
47 | 48 | 4.022242 | TGGATTCACTAGTCGCTAATAGCC | 60.022 | 45.833 | 6.69 | 0.00 | 38.18 | 3.93 |
48 | 49 | 5.122512 | TGGATTCACTAGTCGCTAATAGC | 57.877 | 43.478 | 1.41 | 1.41 | 38.02 | 2.97 |
49 | 50 | 7.867909 | TCATTTGGATTCACTAGTCGCTAATAG | 59.132 | 37.037 | 0.00 | 0.00 | 0.00 | 1.73 |
50 | 51 | 7.652105 | GTCATTTGGATTCACTAGTCGCTAATA | 59.348 | 37.037 | 0.00 | 0.00 | 0.00 | 0.98 |
51 | 52 | 6.480320 | GTCATTTGGATTCACTAGTCGCTAAT | 59.520 | 38.462 | 0.00 | 0.00 | 0.00 | 1.73 |
52 | 53 | 5.810587 | GTCATTTGGATTCACTAGTCGCTAA | 59.189 | 40.000 | 0.00 | 0.00 | 0.00 | 3.09 |
53 | 54 | 5.348986 | GTCATTTGGATTCACTAGTCGCTA | 58.651 | 41.667 | 0.00 | 0.00 | 0.00 | 4.26 |
54 | 55 | 4.184629 | GTCATTTGGATTCACTAGTCGCT | 58.815 | 43.478 | 0.00 | 0.00 | 0.00 | 4.93 |
55 | 56 | 3.309954 | GGTCATTTGGATTCACTAGTCGC | 59.690 | 47.826 | 0.00 | 0.00 | 0.00 | 5.19 |
56 | 57 | 4.503910 | TGGTCATTTGGATTCACTAGTCG | 58.496 | 43.478 | 0.00 | 0.00 | 0.00 | 4.18 |
57 | 58 | 4.878397 | CCTGGTCATTTGGATTCACTAGTC | 59.122 | 45.833 | 0.00 | 0.00 | 0.00 | 2.59 |
58 | 59 | 4.536090 | TCCTGGTCATTTGGATTCACTAGT | 59.464 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
59 | 60 | 5.102953 | TCCTGGTCATTTGGATTCACTAG | 57.897 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
60 | 61 | 5.512942 | TTCCTGGTCATTTGGATTCACTA | 57.487 | 39.130 | 0.00 | 0.00 | 0.00 | 2.74 |
61 | 62 | 4.387026 | TTCCTGGTCATTTGGATTCACT | 57.613 | 40.909 | 0.00 | 0.00 | 0.00 | 3.41 |
62 | 63 | 5.467035 | TTTTCCTGGTCATTTGGATTCAC | 57.533 | 39.130 | 0.00 | 0.00 | 0.00 | 3.18 |
108 | 109 | 9.411189 | AGGTGTAATTTACAAACCTACAAAAGA | 57.589 | 29.630 | 14.10 | 0.00 | 40.93 | 2.52 |
109 | 110 | 9.458374 | CAGGTGTAATTTACAAACCTACAAAAG | 57.542 | 33.333 | 14.91 | 3.07 | 40.93 | 2.27 |
110 | 111 | 8.968969 | ACAGGTGTAATTTACAAACCTACAAAA | 58.031 | 29.630 | 14.91 | 0.00 | 40.93 | 2.44 |
111 | 112 | 8.522542 | ACAGGTGTAATTTACAAACCTACAAA | 57.477 | 30.769 | 14.91 | 0.00 | 40.93 | 2.83 |
112 | 113 | 9.054922 | GTACAGGTGTAATTTACAAACCTACAA | 57.945 | 33.333 | 14.91 | 5.09 | 40.93 | 2.41 |
113 | 114 | 8.209584 | TGTACAGGTGTAATTTACAAACCTACA | 58.790 | 33.333 | 14.91 | 13.87 | 40.93 | 2.74 |
114 | 115 | 8.606040 | TGTACAGGTGTAATTTACAAACCTAC | 57.394 | 34.615 | 14.91 | 12.16 | 40.93 | 3.18 |
116 | 117 | 9.796180 | TTATGTACAGGTGTAATTTACAAACCT | 57.204 | 29.630 | 10.73 | 11.00 | 40.93 | 3.50 |
125 | 126 | 9.273016 | GCATGTAGATTATGTACAGGTGTAATT | 57.727 | 33.333 | 13.97 | 0.00 | 35.19 | 1.40 |
126 | 127 | 7.598869 | CGCATGTAGATTATGTACAGGTGTAAT | 59.401 | 37.037 | 16.05 | 0.22 | 37.71 | 1.89 |
127 | 128 | 6.921307 | CGCATGTAGATTATGTACAGGTGTAA | 59.079 | 38.462 | 16.05 | 0.00 | 37.71 | 2.41 |
128 | 129 | 6.443792 | CGCATGTAGATTATGTACAGGTGTA | 58.556 | 40.000 | 16.05 | 0.00 | 37.71 | 2.90 |
129 | 130 | 5.163447 | ACGCATGTAGATTATGTACAGGTGT | 60.163 | 40.000 | 21.59 | 21.59 | 45.85 | 4.16 |
130 | 131 | 5.289595 | ACGCATGTAGATTATGTACAGGTG | 58.710 | 41.667 | 20.54 | 20.54 | 44.33 | 4.00 |
131 | 132 | 5.531122 | ACGCATGTAGATTATGTACAGGT | 57.469 | 39.130 | 13.97 | 6.85 | 35.19 | 4.00 |
132 | 133 | 9.073368 | GTAATACGCATGTAGATTATGTACAGG | 57.927 | 37.037 | 9.34 | 9.34 | 35.71 | 4.00 |
133 | 134 | 9.841880 | AGTAATACGCATGTAGATTATGTACAG | 57.158 | 33.333 | 8.16 | 2.57 | 33.94 | 2.74 |
140 | 141 | 9.687210 | CCTGTAAAGTAATACGCATGTAGATTA | 57.313 | 33.333 | 0.00 | 0.00 | 33.17 | 1.75 |
141 | 142 | 8.202137 | ACCTGTAAAGTAATACGCATGTAGATT | 58.798 | 33.333 | 0.00 | 0.00 | 33.17 | 2.40 |
142 | 143 | 7.723324 | ACCTGTAAAGTAATACGCATGTAGAT | 58.277 | 34.615 | 0.00 | 0.00 | 33.17 | 1.98 |
143 | 144 | 7.067859 | AGACCTGTAAAGTAATACGCATGTAGA | 59.932 | 37.037 | 0.00 | 0.00 | 33.17 | 2.59 |
144 | 145 | 7.201145 | AGACCTGTAAAGTAATACGCATGTAG | 58.799 | 38.462 | 0.00 | 0.00 | 33.17 | 2.74 |
145 | 146 | 7.104043 | AGACCTGTAAAGTAATACGCATGTA | 57.896 | 36.000 | 0.00 | 0.00 | 34.45 | 2.29 |
146 | 147 | 5.974108 | AGACCTGTAAAGTAATACGCATGT | 58.026 | 37.500 | 0.00 | 0.00 | 0.00 | 3.21 |
147 | 148 | 6.018994 | GGAAGACCTGTAAAGTAATACGCATG | 60.019 | 42.308 | 0.00 | 0.00 | 0.00 | 4.06 |
148 | 149 | 6.047231 | GGAAGACCTGTAAAGTAATACGCAT | 58.953 | 40.000 | 0.00 | 0.00 | 0.00 | 4.73 |
149 | 150 | 5.047164 | TGGAAGACCTGTAAAGTAATACGCA | 60.047 | 40.000 | 0.00 | 0.00 | 37.04 | 5.24 |
150 | 151 | 5.413499 | TGGAAGACCTGTAAAGTAATACGC | 58.587 | 41.667 | 0.00 | 0.00 | 37.04 | 4.42 |
151 | 152 | 7.043590 | CGATTGGAAGACCTGTAAAGTAATACG | 60.044 | 40.741 | 0.00 | 0.00 | 37.04 | 3.06 |
152 | 153 | 7.224167 | CCGATTGGAAGACCTGTAAAGTAATAC | 59.776 | 40.741 | 0.00 | 0.00 | 37.49 | 1.89 |
153 | 154 | 7.270047 | CCGATTGGAAGACCTGTAAAGTAATA | 58.730 | 38.462 | 0.00 | 0.00 | 37.49 | 0.98 |
154 | 155 | 6.113411 | CCGATTGGAAGACCTGTAAAGTAAT | 58.887 | 40.000 | 0.00 | 0.00 | 37.49 | 1.89 |
155 | 156 | 5.484715 | CCGATTGGAAGACCTGTAAAGTAA | 58.515 | 41.667 | 0.00 | 0.00 | 37.49 | 2.24 |
156 | 157 | 4.081309 | CCCGATTGGAAGACCTGTAAAGTA | 60.081 | 45.833 | 0.00 | 0.00 | 37.49 | 2.24 |
157 | 158 | 3.307480 | CCCGATTGGAAGACCTGTAAAGT | 60.307 | 47.826 | 0.00 | 0.00 | 37.49 | 2.66 |
158 | 159 | 3.270877 | CCCGATTGGAAGACCTGTAAAG | 58.729 | 50.000 | 0.00 | 0.00 | 37.49 | 1.85 |
159 | 160 | 2.026636 | CCCCGATTGGAAGACCTGTAAA | 60.027 | 50.000 | 0.00 | 0.00 | 37.49 | 2.01 |
160 | 161 | 1.557832 | CCCCGATTGGAAGACCTGTAA | 59.442 | 52.381 | 0.00 | 0.00 | 37.49 | 2.41 |
161 | 162 | 1.200519 | CCCCGATTGGAAGACCTGTA | 58.799 | 55.000 | 0.00 | 0.00 | 37.49 | 2.74 |
162 | 163 | 1.991230 | CCCCGATTGGAAGACCTGT | 59.009 | 57.895 | 0.00 | 0.00 | 37.49 | 4.00 |
163 | 164 | 1.452108 | GCCCCGATTGGAAGACCTG | 60.452 | 63.158 | 0.00 | 0.00 | 37.49 | 4.00 |
164 | 165 | 2.680370 | GGCCCCGATTGGAAGACCT | 61.680 | 63.158 | 0.00 | 0.00 | 37.49 | 3.85 |
165 | 166 | 2.124278 | GGCCCCGATTGGAAGACC | 60.124 | 66.667 | 0.00 | 0.00 | 37.49 | 3.85 |
166 | 167 | 2.124278 | GGGCCCCGATTGGAAGAC | 60.124 | 66.667 | 12.23 | 0.00 | 37.49 | 3.01 |
167 | 168 | 1.794885 | TTTGGGCCCCGATTGGAAGA | 61.795 | 55.000 | 22.27 | 0.00 | 37.49 | 2.87 |
168 | 169 | 0.902516 | TTTTGGGCCCCGATTGGAAG | 60.903 | 55.000 | 22.27 | 0.00 | 37.49 | 3.46 |
169 | 170 | 0.902516 | CTTTTGGGCCCCGATTGGAA | 60.903 | 55.000 | 22.27 | 0.75 | 37.49 | 3.53 |
170 | 171 | 1.304879 | CTTTTGGGCCCCGATTGGA | 60.305 | 57.895 | 22.27 | 0.00 | 37.49 | 3.53 |
171 | 172 | 1.191489 | AACTTTTGGGCCCCGATTGG | 61.191 | 55.000 | 22.27 | 7.18 | 0.00 | 3.16 |
172 | 173 | 0.684535 | AAACTTTTGGGCCCCGATTG | 59.315 | 50.000 | 22.27 | 8.38 | 0.00 | 2.67 |
173 | 174 | 1.429930 | AAAACTTTTGGGCCCCGATT | 58.570 | 45.000 | 22.27 | 3.41 | 0.00 | 3.34 |
174 | 175 | 1.346395 | GAAAAACTTTTGGGCCCCGAT | 59.654 | 47.619 | 22.27 | 0.00 | 0.00 | 4.18 |
175 | 176 | 0.753867 | GAAAAACTTTTGGGCCCCGA | 59.246 | 50.000 | 22.27 | 4.75 | 0.00 | 5.14 |
176 | 177 | 0.598942 | CGAAAAACTTTTGGGCCCCG | 60.599 | 55.000 | 22.27 | 7.42 | 0.00 | 5.73 |
177 | 178 | 0.753867 | TCGAAAAACTTTTGGGCCCC | 59.246 | 50.000 | 22.27 | 0.85 | 0.00 | 5.80 |
178 | 179 | 1.137282 | TGTCGAAAAACTTTTGGGCCC | 59.863 | 47.619 | 17.59 | 17.59 | 30.78 | 5.80 |
179 | 180 | 2.588027 | TGTCGAAAAACTTTTGGGCC | 57.412 | 45.000 | 0.00 | 0.00 | 30.78 | 5.80 |
180 | 181 | 2.863740 | CCTTGTCGAAAAACTTTTGGGC | 59.136 | 45.455 | 0.00 | 0.00 | 32.20 | 5.36 |
181 | 182 | 3.131400 | TCCCTTGTCGAAAAACTTTTGGG | 59.869 | 43.478 | 2.30 | 2.30 | 30.97 | 4.12 |
182 | 183 | 4.359706 | CTCCCTTGTCGAAAAACTTTTGG | 58.640 | 43.478 | 0.00 | 0.00 | 0.00 | 3.28 |
183 | 184 | 3.796717 | GCTCCCTTGTCGAAAAACTTTTG | 59.203 | 43.478 | 0.00 | 0.00 | 0.00 | 2.44 |
317 | 352 | 4.474113 | GCTAGATTGGTACTCGTATTCCG | 58.526 | 47.826 | 0.00 | 0.00 | 38.13 | 4.30 |
318 | 353 | 4.474113 | CGCTAGATTGGTACTCGTATTCC | 58.526 | 47.826 | 0.00 | 0.00 | 0.00 | 3.01 |
319 | 354 | 3.913163 | GCGCTAGATTGGTACTCGTATTC | 59.087 | 47.826 | 0.00 | 0.00 | 0.00 | 1.75 |
320 | 355 | 3.568853 | AGCGCTAGATTGGTACTCGTATT | 59.431 | 43.478 | 8.99 | 0.00 | 0.00 | 1.89 |
321 | 356 | 3.147629 | AGCGCTAGATTGGTACTCGTAT | 58.852 | 45.455 | 8.99 | 0.00 | 0.00 | 3.06 |
322 | 357 | 2.569059 | AGCGCTAGATTGGTACTCGTA | 58.431 | 47.619 | 8.99 | 0.00 | 0.00 | 3.43 |
323 | 358 | 1.390565 | AGCGCTAGATTGGTACTCGT | 58.609 | 50.000 | 8.99 | 0.00 | 0.00 | 4.18 |
324 | 359 | 3.620929 | TTAGCGCTAGATTGGTACTCG | 57.379 | 47.619 | 17.98 | 0.00 | 0.00 | 4.18 |
325 | 360 | 5.415077 | TCCTATTAGCGCTAGATTGGTACTC | 59.585 | 44.000 | 24.27 | 0.00 | 0.00 | 2.59 |
326 | 361 | 5.322754 | TCCTATTAGCGCTAGATTGGTACT | 58.677 | 41.667 | 24.27 | 4.57 | 0.00 | 2.73 |
327 | 362 | 5.183522 | ACTCCTATTAGCGCTAGATTGGTAC | 59.816 | 44.000 | 24.27 | 0.00 | 0.00 | 3.34 |
328 | 363 | 5.322754 | ACTCCTATTAGCGCTAGATTGGTA | 58.677 | 41.667 | 24.27 | 10.93 | 0.00 | 3.25 |
329 | 364 | 4.153411 | ACTCCTATTAGCGCTAGATTGGT | 58.847 | 43.478 | 24.27 | 16.33 | 0.00 | 3.67 |
330 | 365 | 4.792521 | ACTCCTATTAGCGCTAGATTGG | 57.207 | 45.455 | 17.98 | 20.53 | 0.00 | 3.16 |
331 | 366 | 6.503589 | ACTACTCCTATTAGCGCTAGATTG | 57.496 | 41.667 | 17.98 | 13.69 | 0.00 | 2.67 |
332 | 367 | 9.328845 | GTATACTACTCCTATTAGCGCTAGATT | 57.671 | 37.037 | 17.98 | 8.20 | 0.00 | 2.40 |
333 | 368 | 8.484575 | TGTATACTACTCCTATTAGCGCTAGAT | 58.515 | 37.037 | 17.98 | 15.49 | 0.00 | 1.98 |
334 | 369 | 7.845037 | TGTATACTACTCCTATTAGCGCTAGA | 58.155 | 38.462 | 17.98 | 10.41 | 0.00 | 2.43 |
335 | 370 | 8.665643 | ATGTATACTACTCCTATTAGCGCTAG | 57.334 | 38.462 | 17.98 | 9.23 | 0.00 | 3.42 |
336 | 371 | 7.714377 | GGATGTATACTACTCCTATTAGCGCTA | 59.286 | 40.741 | 14.45 | 14.45 | 0.00 | 4.26 |
337 | 372 | 6.543100 | GGATGTATACTACTCCTATTAGCGCT | 59.457 | 42.308 | 17.26 | 17.26 | 0.00 | 5.92 |
338 | 373 | 6.318144 | TGGATGTATACTACTCCTATTAGCGC | 59.682 | 42.308 | 0.00 | 0.00 | 31.49 | 5.92 |
339 | 374 | 7.860918 | TGGATGTATACTACTCCTATTAGCG | 57.139 | 40.000 | 15.90 | 0.00 | 31.49 | 4.26 |
340 | 375 | 9.409918 | TGATGGATGTATACTACTCCTATTAGC | 57.590 | 37.037 | 15.90 | 4.71 | 31.49 | 3.09 |
343 | 378 | 9.026121 | GTGTGATGGATGTATACTACTCCTATT | 57.974 | 37.037 | 15.90 | 6.02 | 31.49 | 1.73 |
344 | 379 | 8.170730 | TGTGTGATGGATGTATACTACTCCTAT | 58.829 | 37.037 | 15.90 | 10.31 | 31.49 | 2.57 |
345 | 380 | 7.523415 | TGTGTGATGGATGTATACTACTCCTA | 58.477 | 38.462 | 15.90 | 7.34 | 31.49 | 2.94 |
346 | 381 | 6.373759 | TGTGTGATGGATGTATACTACTCCT | 58.626 | 40.000 | 15.90 | 6.42 | 31.49 | 3.69 |
347 | 382 | 6.650427 | TGTGTGATGGATGTATACTACTCC | 57.350 | 41.667 | 4.17 | 8.30 | 0.00 | 3.85 |
348 | 383 | 7.116948 | GCATTGTGTGATGGATGTATACTACTC | 59.883 | 40.741 | 4.17 | 0.00 | 0.00 | 2.59 |
349 | 384 | 6.931281 | GCATTGTGTGATGGATGTATACTACT | 59.069 | 38.462 | 4.17 | 0.00 | 0.00 | 2.57 |
350 | 385 | 6.128822 | CGCATTGTGTGATGGATGTATACTAC | 60.129 | 42.308 | 4.17 | 0.00 | 0.00 | 2.73 |
351 | 386 | 5.925969 | CGCATTGTGTGATGGATGTATACTA | 59.074 | 40.000 | 4.17 | 0.00 | 0.00 | 1.82 |
352 | 387 | 4.751600 | CGCATTGTGTGATGGATGTATACT | 59.248 | 41.667 | 4.17 | 0.00 | 0.00 | 2.12 |
353 | 388 | 4.749598 | TCGCATTGTGTGATGGATGTATAC | 59.250 | 41.667 | 0.00 | 0.00 | 31.05 | 1.47 |
354 | 389 | 4.954875 | TCGCATTGTGTGATGGATGTATA | 58.045 | 39.130 | 0.00 | 0.00 | 31.05 | 1.47 |
355 | 390 | 3.807553 | TCGCATTGTGTGATGGATGTAT | 58.192 | 40.909 | 0.00 | 0.00 | 31.05 | 2.29 |
356 | 391 | 3.258971 | TCGCATTGTGTGATGGATGTA | 57.741 | 42.857 | 0.00 | 0.00 | 31.05 | 2.29 |
357 | 392 | 2.112380 | TCGCATTGTGTGATGGATGT | 57.888 | 45.000 | 0.00 | 0.00 | 31.05 | 3.06 |
358 | 393 | 3.173599 | GTTTCGCATTGTGTGATGGATG | 58.826 | 45.455 | 0.00 | 0.00 | 36.69 | 3.51 |
552 | 587 | 2.126618 | TACGCGTTCTGGCTCGTG | 60.127 | 61.111 | 20.78 | 0.00 | 42.16 | 4.35 |
855 | 890 | 2.288152 | ACACTAATGGCTTTGCGTTTGG | 60.288 | 45.455 | 0.00 | 0.00 | 0.00 | 3.28 |
871 | 906 | 3.374988 | CGTACGTATGTTCTGGGACACTA | 59.625 | 47.826 | 7.22 | 0.00 | 31.30 | 2.74 |
883 | 918 | 0.387929 | CCATCCCAGCGTACGTATGT | 59.612 | 55.000 | 17.90 | 0.00 | 0.00 | 2.29 |
1485 | 1532 | 1.416813 | CTCTGTTCATCAGCGTCGGC | 61.417 | 60.000 | 0.00 | 0.00 | 43.32 | 5.54 |
1806 | 1853 | 1.516386 | CGCGAGCAAGGACGTGTAT | 60.516 | 57.895 | 0.00 | 0.00 | 35.70 | 2.29 |
1825 | 1872 | 0.167470 | TTACTCAAGACGACGAGGCG | 59.833 | 55.000 | 0.00 | 0.00 | 33.36 | 5.52 |
1869 | 1916 | 0.888619 | GTGTGTCGGAGATGGAGTCA | 59.111 | 55.000 | 0.00 | 0.00 | 40.67 | 3.41 |
1901 | 1948 | 0.515127 | TTGTTCATGGCGCTAACGTG | 59.485 | 50.000 | 7.64 | 2.23 | 42.83 | 4.49 |
1909 | 1957 | 3.837213 | AAGTGAATCTTGTTCATGGCG | 57.163 | 42.857 | 0.00 | 0.00 | 34.77 | 5.69 |
1945 | 1993 | 8.780249 | ACGTACTAACTTTGCAAATGATTTAGT | 58.220 | 29.630 | 24.22 | 24.22 | 31.94 | 2.24 |
1975 | 2023 | 8.814733 | TTAGCAAAATGACATTTTATCGTACG | 57.185 | 30.769 | 22.46 | 9.53 | 40.27 | 3.67 |
1993 | 2041 | 3.369756 | CGCTCGTTCCAGTTATTAGCAAA | 59.630 | 43.478 | 0.00 | 0.00 | 0.00 | 3.68 |
1998 | 2046 | 3.853831 | TCACGCTCGTTCCAGTTATTA | 57.146 | 42.857 | 0.00 | 0.00 | 0.00 | 0.98 |
1999 | 2047 | 2.736144 | TCACGCTCGTTCCAGTTATT | 57.264 | 45.000 | 0.00 | 0.00 | 0.00 | 1.40 |
2000 | 2048 | 2.961526 | ATCACGCTCGTTCCAGTTAT | 57.038 | 45.000 | 0.00 | 0.00 | 0.00 | 1.89 |
2083 | 2136 | 9.880157 | AATTTGGTTCAAGGAATATGAAGAATG | 57.120 | 29.630 | 0.00 | 0.00 | 37.46 | 2.67 |
2172 | 2536 | 3.441572 | GCCAGTGAGTGTCAAATAATGCT | 59.558 | 43.478 | 0.00 | 0.00 | 0.00 | 3.79 |
2318 | 2694 | 1.850377 | CGAGTGAGTGATGGATGAGC | 58.150 | 55.000 | 0.00 | 0.00 | 0.00 | 4.26 |
2329 | 2712 | 2.224281 | TGTCATTTCCAAGCGAGTGAGT | 60.224 | 45.455 | 0.00 | 0.00 | 0.00 | 3.41 |
2330 | 2713 | 2.158449 | GTGTCATTTCCAAGCGAGTGAG | 59.842 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2340 | 2723 | 3.531538 | GATTAGGAGCGTGTCATTTCCA | 58.468 | 45.455 | 3.87 | 0.00 | 32.02 | 3.53 |
2410 | 2793 | 8.689707 | AGTAGAACTATAGGCTACTCTCCTAT | 57.310 | 38.462 | 22.14 | 6.76 | 45.92 | 2.57 |
2429 | 2820 | 5.408356 | GTTTATTCGAGCAGTGGAGTAGAA | 58.592 | 41.667 | 0.00 | 0.00 | 0.00 | 2.10 |
2430 | 2821 | 4.142227 | GGTTTATTCGAGCAGTGGAGTAGA | 60.142 | 45.833 | 0.00 | 0.00 | 0.00 | 2.59 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.