Multiple sequence alignment - TraesCS6B01G227500
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 | TraesCS6B01G227500 | chr6B | 100.000 | 3383 | 0 | 0 | 1 | 3383 | 352415987 | 352412605 | 0.000000e+00 | 6248.0 |
1 | TraesCS6B01G227500 | chr6B | 82.456 | 171 | 20 | 6 | 2563 | 2727 | 126311538 | 126311704 | 1.270000e-29 | 141.0 |
2 | TraesCS6B01G227500 | chr6B | 96.154 | 52 | 1 | 1 | 78 | 128 | 493265811 | 493265862 | 2.160000e-12 | 84.2 |
3 | TraesCS6B01G227500 | chr6A | 96.429 | 1680 | 34 | 7 | 780 | 2455 | 330378331 | 330376674 | 0.000000e+00 | 2747.0 |
4 | TraesCS6B01G227500 | chr6A | 88.284 | 606 | 23 | 13 | 177 | 782 | 330383199 | 330382642 | 0.000000e+00 | 682.0 |
5 | TraesCS6B01G227500 | chr6A | 85.906 | 298 | 23 | 8 | 2447 | 2733 | 330376524 | 330376235 | 1.970000e-77 | 300.0 |
6 | TraesCS6B01G227500 | chr6A | 86.232 | 138 | 10 | 6 | 2560 | 2690 | 112005007 | 112005142 | 1.270000e-29 | 141.0 |
7 | TraesCS6B01G227500 | chr6D | 97.858 | 887 | 18 | 1 | 1602 | 2487 | 254839153 | 254840039 | 0.000000e+00 | 1531.0 |
8 | TraesCS6B01G227500 | chr6D | 94.501 | 782 | 34 | 6 | 161 | 939 | 254820562 | 254821337 | 0.000000e+00 | 1197.0 |
9 | TraesCS6B01G227500 | chr6D | 95.147 | 680 | 11 | 1 | 935 | 1614 | 254838236 | 254838893 | 0.000000e+00 | 1053.0 |
10 | TraesCS6B01G227500 | chr6D | 83.158 | 380 | 35 | 16 | 2488 | 2857 | 254841049 | 254841409 | 1.510000e-83 | 320.0 |
11 | TraesCS6B01G227500 | chr6D | 81.395 | 172 | 19 | 8 | 2563 | 2727 | 56124996 | 56125161 | 9.850000e-26 | 128.0 |
12 | TraesCS6B01G227500 | chr6D | 96.154 | 52 | 1 | 1 | 78 | 128 | 423083295 | 423083346 | 2.160000e-12 | 84.2 |
13 | TraesCS6B01G227500 | chr6D | 91.525 | 59 | 3 | 2 | 71 | 128 | 28686964 | 28687021 | 2.800000e-11 | 80.5 |
14 | TraesCS6B01G227500 | chr5B | 93.898 | 508 | 26 | 3 | 2875 | 3381 | 87959699 | 87959196 | 0.000000e+00 | 761.0 |
15 | TraesCS6B01G227500 | chr5D | 92.717 | 508 | 35 | 1 | 2875 | 3382 | 163993714 | 163993209 | 0.000000e+00 | 732.0 |
16 | TraesCS6B01G227500 | chr5D | 82.965 | 452 | 65 | 11 | 2939 | 3383 | 491663362 | 491662916 | 6.800000e-107 | 398.0 |
17 | TraesCS6B01G227500 | chr5D | 80.663 | 181 | 24 | 9 | 2207 | 2385 | 346676168 | 346675997 | 2.740000e-26 | 130.0 |
18 | TraesCS6B01G227500 | chr7A | 86.813 | 455 | 33 | 14 | 2875 | 3308 | 565807174 | 565807622 | 1.830000e-132 | 483.0 |
19 | TraesCS6B01G227500 | chr1D | 82.883 | 444 | 63 | 12 | 2948 | 3383 | 487202227 | 487202665 | 1.470000e-103 | 387.0 |
20 | TraesCS6B01G227500 | chr1D | 86.466 | 133 | 13 | 4 | 2563 | 2690 | 225704785 | 225704917 | 1.270000e-29 | 141.0 |
21 | TraesCS6B01G227500 | chr1D | 97.436 | 39 | 1 | 0 | 2689 | 2727 | 419478013 | 419477975 | 2.180000e-07 | 67.6 |
22 | TraesCS6B01G227500 | chr1B | 82.629 | 426 | 61 | 12 | 2966 | 3383 | 389095405 | 389094985 | 6.900000e-97 | 364.0 |
23 | TraesCS6B01G227500 | chr4A | 84.795 | 171 | 12 | 7 | 2563 | 2727 | 5222460 | 5222622 | 3.490000e-35 | 159.0 |
24 | TraesCS6B01G227500 | chr4A | 90.625 | 64 | 4 | 2 | 2556 | 2619 | 660523834 | 660523895 | 2.160000e-12 | 84.2 |
25 | TraesCS6B01G227500 | chr4A | 86.765 | 68 | 6 | 3 | 78 | 145 | 566775059 | 566774995 | 4.680000e-09 | 73.1 |
26 | TraesCS6B01G227500 | chr2D | 82.857 | 175 | 22 | 6 | 2559 | 2727 | 78687886 | 78688058 | 2.100000e-32 | 150.0 |
27 | TraesCS6B01G227500 | chr2D | 86.567 | 134 | 15 | 2 | 2560 | 2690 | 80797593 | 80797460 | 9.780000e-31 | 145.0 |
28 | TraesCS6B01G227500 | chr7D | 82.222 | 180 | 18 | 8 | 2563 | 2737 | 397555077 | 397554907 | 3.520000e-30 | 143.0 |
29 | TraesCS6B01G227500 | chr7D | 95.349 | 43 | 1 | 1 | 2689 | 2730 | 459937619 | 459937577 | 2.180000e-07 | 67.6 |
30 | TraesCS6B01G227500 | chr3A | 78.488 | 172 | 24 | 6 | 2564 | 2730 | 25233042 | 25233205 | 2.150000e-17 | 100.0 |
31 | TraesCS6B01G227500 | chr3A | 90.476 | 63 | 4 | 2 | 78 | 138 | 611959878 | 611959940 | 7.780000e-12 | 82.4 |
32 | TraesCS6B01G227500 | chr3A | 93.023 | 43 | 3 | 0 | 2688 | 2730 | 735892997 | 735892955 | 2.820000e-06 | 63.9 |
33 | TraesCS6B01G227500 | chr5A | 98.077 | 52 | 0 | 1 | 78 | 128 | 558336576 | 558336627 | 4.650000e-14 | 89.8 |
34 | TraesCS6B01G227500 | chr3D | 94.737 | 57 | 2 | 1 | 73 | 128 | 54818353 | 54818409 | 1.670000e-13 | 87.9 |
35 | TraesCS6B01G227500 | chr3B | 76.630 | 184 | 28 | 12 | 2561 | 2738 | 760608704 | 760608530 | 1.670000e-13 | 87.9 |
36 | TraesCS6B01G227500 | chr3B | 98.000 | 50 | 0 | 1 | 78 | 126 | 811170687 | 811170638 | 6.010000e-13 | 86.1 |
37 | TraesCS6B01G227500 | chr3B | 100.000 | 29 | 0 | 0 | 3064 | 3092 | 236352889 | 236352861 | 2.000000e-03 | 54.7 |
38 | TraesCS6B01G227500 | chrUn | 94.444 | 54 | 2 | 1 | 75 | 127 | 348964524 | 348964577 | 7.780000e-12 | 82.4 |
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 | TraesCS6B01G227500 | chr6B | 352412605 | 352415987 | 3382 | True | 6248.0 | 6248 | 100.000000 | 1 | 3383 | 1 | chr6B.!!$R1 | 3382 |
1 | TraesCS6B01G227500 | chr6A | 330376235 | 330378331 | 2096 | True | 1523.5 | 2747 | 91.167500 | 780 | 2733 | 2 | chr6A.!!$R2 | 1953 |
2 | TraesCS6B01G227500 | chr6A | 330382642 | 330383199 | 557 | True | 682.0 | 682 | 88.284000 | 177 | 782 | 1 | chr6A.!!$R1 | 605 |
3 | TraesCS6B01G227500 | chr6D | 254820562 | 254821337 | 775 | False | 1197.0 | 1197 | 94.501000 | 161 | 939 | 1 | chr6D.!!$F3 | 778 |
4 | TraesCS6B01G227500 | chr6D | 254838236 | 254841409 | 3173 | False | 968.0 | 1531 | 92.054333 | 935 | 2857 | 3 | chr6D.!!$F5 | 1922 |
5 | TraesCS6B01G227500 | chr5B | 87959196 | 87959699 | 503 | True | 761.0 | 761 | 93.898000 | 2875 | 3381 | 1 | chr5B.!!$R1 | 506 |
6 | TraesCS6B01G227500 | chr5D | 163993209 | 163993714 | 505 | True | 732.0 | 732 | 92.717000 | 2875 | 3382 | 1 | chr5D.!!$R1 | 507 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
372 | 373 | 0.041684 | TCCAGTCCTCCTGCTCATCA | 59.958 | 55.0 | 0.0 | 0.0 | 40.06 | 3.07 | F |
961 | 969 | 0.692476 | CCAGGTTGAGGGATGACACA | 59.308 | 55.0 | 0.0 | 0.0 | 0.00 | 3.72 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1211 | 1219 | 0.603065 | GATTGCCGCCTTCCAAGTTT | 59.397 | 50.0 | 0.0 | 0.0 | 0.0 | 2.66 | R |
2872 | 4362 | 0.035056 | AGGAGGAAAGATGCGTTGGG | 60.035 | 55.0 | 0.0 | 0.0 | 0.0 | 4.12 | 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 |
---|---|---|---|---|---|---|---|---|---|
18 | 19 | 2.917172 | TCCGAACACGTAAAAGGCC | 58.083 | 52.632 | 0.00 | 0.00 | 0.00 | 5.19 |
19 | 20 | 0.945265 | TCCGAACACGTAAAAGGCCG | 60.945 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
20 | 21 | 1.223417 | CCGAACACGTAAAAGGCCGT | 61.223 | 55.000 | 0.00 | 0.00 | 37.90 | 5.68 |
21 | 22 | 0.162294 | CGAACACGTAAAAGGCCGTC | 59.838 | 55.000 | 0.00 | 0.00 | 34.59 | 4.79 |
22 | 23 | 0.162294 | GAACACGTAAAAGGCCGTCG | 59.838 | 55.000 | 0.00 | 0.00 | 34.59 | 5.12 |
23 | 24 | 1.223417 | AACACGTAAAAGGCCGTCGG | 61.223 | 55.000 | 6.99 | 6.99 | 34.59 | 4.79 |
24 | 25 | 2.047939 | ACGTAAAAGGCCGTCGGG | 60.048 | 61.111 | 14.38 | 0.00 | 30.05 | 5.14 |
52 | 53 | 4.344865 | GCCCGGCCTGTCCTTCAA | 62.345 | 66.667 | 0.00 | 0.00 | 0.00 | 2.69 |
53 | 54 | 2.434331 | CCCGGCCTGTCCTTCAAA | 59.566 | 61.111 | 0.00 | 0.00 | 0.00 | 2.69 |
54 | 55 | 1.228429 | CCCGGCCTGTCCTTCAAAA | 60.228 | 57.895 | 0.00 | 0.00 | 0.00 | 2.44 |
55 | 56 | 0.825840 | CCCGGCCTGTCCTTCAAAAA | 60.826 | 55.000 | 0.00 | 0.00 | 0.00 | 1.94 |
73 | 74 | 1.708822 | AAAACGCGAAAATGATGGGC | 58.291 | 45.000 | 15.93 | 0.00 | 0.00 | 5.36 |
74 | 75 | 0.108851 | AAACGCGAAAATGATGGGCC | 60.109 | 50.000 | 15.93 | 0.00 | 0.00 | 5.80 |
75 | 76 | 1.944234 | AACGCGAAAATGATGGGCCC | 61.944 | 55.000 | 17.59 | 17.59 | 0.00 | 5.80 |
76 | 77 | 2.413963 | CGCGAAAATGATGGGCCCA | 61.414 | 57.895 | 30.92 | 30.92 | 0.00 | 5.36 |
77 | 78 | 1.438814 | GCGAAAATGATGGGCCCAG | 59.561 | 57.895 | 31.97 | 15.04 | 0.00 | 4.45 |
78 | 79 | 2.019897 | GCGAAAATGATGGGCCCAGG | 62.020 | 60.000 | 31.97 | 11.97 | 0.00 | 4.45 |
79 | 80 | 1.825341 | GAAAATGATGGGCCCAGGC | 59.175 | 57.895 | 31.97 | 24.32 | 41.06 | 4.85 |
101 | 102 | 2.746277 | CCGGGTCAGGCTTTTCGG | 60.746 | 66.667 | 0.00 | 0.00 | 0.00 | 4.30 |
102 | 103 | 2.746277 | CGGGTCAGGCTTTTCGGG | 60.746 | 66.667 | 0.00 | 0.00 | 0.00 | 5.14 |
103 | 104 | 3.062466 | GGGTCAGGCTTTTCGGGC | 61.062 | 66.667 | 0.00 | 0.00 | 0.00 | 6.13 |
127 | 128 | 2.512896 | GCCCATGGCCAGGACTAG | 59.487 | 66.667 | 21.32 | 5.63 | 44.06 | 2.57 |
128 | 129 | 2.512896 | CCCATGGCCAGGACTAGC | 59.487 | 66.667 | 21.32 | 0.00 | 0.00 | 3.42 |
129 | 130 | 2.074948 | CCCATGGCCAGGACTAGCT | 61.075 | 63.158 | 21.32 | 0.00 | 0.00 | 3.32 |
130 | 131 | 0.764369 | CCCATGGCCAGGACTAGCTA | 60.764 | 60.000 | 21.32 | 0.00 | 0.00 | 3.32 |
131 | 132 | 1.131638 | CCATGGCCAGGACTAGCTAA | 58.868 | 55.000 | 21.32 | 0.00 | 0.00 | 3.09 |
132 | 133 | 1.071385 | CCATGGCCAGGACTAGCTAAG | 59.929 | 57.143 | 21.32 | 0.00 | 0.00 | 2.18 |
133 | 134 | 2.042464 | CATGGCCAGGACTAGCTAAGA | 58.958 | 52.381 | 13.35 | 0.00 | 0.00 | 2.10 |
134 | 135 | 2.478872 | TGGCCAGGACTAGCTAAGAT | 57.521 | 50.000 | 0.00 | 0.00 | 0.00 | 2.40 |
135 | 136 | 2.042464 | TGGCCAGGACTAGCTAAGATG | 58.958 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
136 | 137 | 1.270571 | GGCCAGGACTAGCTAAGATGC | 60.271 | 57.143 | 0.00 | 0.00 | 0.00 | 3.91 |
137 | 138 | 1.691434 | GCCAGGACTAGCTAAGATGCT | 59.309 | 52.381 | 0.00 | 0.00 | 46.11 | 3.79 |
138 | 139 | 2.894126 | GCCAGGACTAGCTAAGATGCTA | 59.106 | 50.000 | 0.00 | 0.00 | 43.74 | 3.49 |
139 | 140 | 3.513515 | GCCAGGACTAGCTAAGATGCTAT | 59.486 | 47.826 | 0.00 | 0.00 | 43.54 | 2.97 |
140 | 141 | 4.381505 | GCCAGGACTAGCTAAGATGCTATC | 60.382 | 50.000 | 0.00 | 0.00 | 43.54 | 2.08 |
141 | 142 | 4.159506 | CCAGGACTAGCTAAGATGCTATCC | 59.840 | 50.000 | 0.00 | 12.60 | 43.54 | 2.59 |
142 | 143 | 5.016173 | CAGGACTAGCTAAGATGCTATCCT | 58.984 | 45.833 | 15.19 | 15.19 | 44.52 | 3.24 |
143 | 144 | 5.480073 | CAGGACTAGCTAAGATGCTATCCTT | 59.520 | 44.000 | 16.89 | 0.00 | 43.10 | 3.36 |
144 | 145 | 5.480073 | AGGACTAGCTAAGATGCTATCCTTG | 59.520 | 44.000 | 15.19 | 2.03 | 43.10 | 3.61 |
145 | 146 | 5.337169 | GGACTAGCTAAGATGCTATCCTTGG | 60.337 | 48.000 | 0.00 | 0.00 | 43.54 | 3.61 |
146 | 147 | 4.530161 | ACTAGCTAAGATGCTATCCTTGGG | 59.470 | 45.833 | 0.00 | 0.00 | 43.54 | 4.12 |
147 | 148 | 2.039613 | AGCTAAGATGCTATCCTTGGGC | 59.960 | 50.000 | 0.00 | 0.00 | 42.10 | 5.36 |
148 | 149 | 2.693069 | CTAAGATGCTATCCTTGGGCG | 58.307 | 52.381 | 0.00 | 0.00 | 0.00 | 6.13 |
149 | 150 | 0.109342 | AAGATGCTATCCTTGGGCGG | 59.891 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
150 | 151 | 1.056700 | AGATGCTATCCTTGGGCGGT | 61.057 | 55.000 | 0.00 | 0.00 | 0.00 | 5.68 |
151 | 152 | 0.886490 | GATGCTATCCTTGGGCGGTG | 60.886 | 60.000 | 0.00 | 0.00 | 0.00 | 4.94 |
152 | 153 | 2.203209 | GCTATCCTTGGGCGGTGG | 60.203 | 66.667 | 0.00 | 0.00 | 0.00 | 4.61 |
153 | 154 | 2.742116 | GCTATCCTTGGGCGGTGGA | 61.742 | 63.158 | 0.00 | 0.00 | 0.00 | 4.02 |
154 | 155 | 1.146263 | CTATCCTTGGGCGGTGGAC | 59.854 | 63.158 | 0.00 | 0.00 | 32.16 | 4.02 |
155 | 156 | 2.325393 | CTATCCTTGGGCGGTGGACC | 62.325 | 65.000 | 0.00 | 0.00 | 44.16 | 4.46 |
198 | 199 | 1.956170 | CTGCACGCAAAGGTCGTCT | 60.956 | 57.895 | 0.00 | 0.00 | 38.19 | 4.18 |
288 | 289 | 2.747686 | GTTTCTCCCTCCGCCACA | 59.252 | 61.111 | 0.00 | 0.00 | 0.00 | 4.17 |
289 | 290 | 1.671379 | GTTTCTCCCTCCGCCACAC | 60.671 | 63.158 | 0.00 | 0.00 | 0.00 | 3.82 |
310 | 311 | 1.302192 | GCAACGCACCCACCTAGAA | 60.302 | 57.895 | 0.00 | 0.00 | 0.00 | 2.10 |
325 | 326 | 2.162338 | TAGAACTTGTCCACCGGGCG | 62.162 | 60.000 | 6.32 | 0.00 | 0.00 | 6.13 |
372 | 373 | 0.041684 | TCCAGTCCTCCTGCTCATCA | 59.958 | 55.000 | 0.00 | 0.00 | 40.06 | 3.07 |
390 | 391 | 4.964897 | TCATCATCTACTGTGTGGATCCTT | 59.035 | 41.667 | 14.23 | 0.00 | 31.53 | 3.36 |
410 | 411 | 0.744874 | TCTCGGTAAGCCTCGATTGG | 59.255 | 55.000 | 0.00 | 0.00 | 34.77 | 3.16 |
432 | 433 | 1.498865 | CCAATTCCCCGCTCGAATCG | 61.499 | 60.000 | 0.00 | 0.00 | 0.00 | 3.34 |
433 | 434 | 1.887707 | AATTCCCCGCTCGAATCGC | 60.888 | 57.895 | 0.00 | 0.00 | 0.00 | 4.58 |
480 | 481 | 1.215244 | ATTGCATCAGATGTCTCGCG | 58.785 | 50.000 | 12.18 | 0.00 | 0.00 | 5.87 |
507 | 508 | 3.766691 | GACAGGGCGGCTCCGTAA | 61.767 | 66.667 | 9.56 | 0.00 | 42.09 | 3.18 |
549 | 550 | 3.003173 | CAGGCGGGGGTCTTCTGA | 61.003 | 66.667 | 0.00 | 0.00 | 0.00 | 3.27 |
550 | 551 | 2.041265 | AGGCGGGGGTCTTCTGAT | 59.959 | 61.111 | 0.00 | 0.00 | 0.00 | 2.90 |
551 | 552 | 1.048724 | CAGGCGGGGGTCTTCTGATA | 61.049 | 60.000 | 0.00 | 0.00 | 0.00 | 2.15 |
642 | 646 | 2.041081 | TCTAGGGTGGAATTGGTTGTGG | 59.959 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
659 | 663 | 2.238521 | GTGGGAAAAGGTGCTTGATCA | 58.761 | 47.619 | 0.00 | 0.00 | 0.00 | 2.92 |
667 | 671 | 6.928492 | GGAAAAGGTGCTTGATCAAATTTGTA | 59.072 | 34.615 | 17.47 | 5.54 | 0.00 | 2.41 |
670 | 674 | 5.883661 | AGGTGCTTGATCAAATTTGTATCG | 58.116 | 37.500 | 17.47 | 8.76 | 0.00 | 2.92 |
926 | 933 | 8.791675 | TGAAGCCGATATGCATATAATTTCAAA | 58.208 | 29.630 | 19.12 | 4.57 | 0.00 | 2.69 |
961 | 969 | 0.692476 | CCAGGTTGAGGGATGACACA | 59.308 | 55.000 | 0.00 | 0.00 | 0.00 | 3.72 |
966 | 974 | 1.537202 | GTTGAGGGATGACACAACAGC | 59.463 | 52.381 | 0.00 | 0.00 | 41.16 | 4.40 |
1024 | 1032 | 3.129871 | GGCTCTTATCTAAGCACTGCAG | 58.870 | 50.000 | 13.48 | 13.48 | 40.36 | 4.41 |
1096 | 1104 | 2.536066 | ACAAAAGGGCCAAGATAACCC | 58.464 | 47.619 | 6.18 | 0.00 | 44.62 | 4.11 |
1211 | 1219 | 5.222048 | ACCTAAAGATGAAGTTGGTTAGCCA | 60.222 | 40.000 | 0.00 | 0.00 | 44.38 | 4.75 |
1572 | 1580 | 2.557869 | TGCTTGTATGTCTTAGGGGGT | 58.442 | 47.619 | 0.00 | 0.00 | 0.00 | 4.95 |
1864 | 2159 | 1.135046 | CGATGTGCTGAAGCCTATCG | 58.865 | 55.000 | 17.81 | 17.81 | 43.68 | 2.92 |
1865 | 2160 | 0.864455 | GATGTGCTGAAGCCTATCGC | 59.136 | 55.000 | 0.00 | 0.00 | 41.18 | 4.58 |
1866 | 2161 | 0.533755 | ATGTGCTGAAGCCTATCGCC | 60.534 | 55.000 | 0.00 | 0.00 | 41.18 | 5.54 |
1867 | 2162 | 1.153369 | GTGCTGAAGCCTATCGCCA | 60.153 | 57.895 | 0.00 | 0.00 | 41.18 | 5.69 |
1868 | 2163 | 1.153369 | TGCTGAAGCCTATCGCCAC | 60.153 | 57.895 | 0.00 | 0.00 | 41.18 | 5.01 |
1869 | 2164 | 1.144936 | GCTGAAGCCTATCGCCACT | 59.855 | 57.895 | 0.00 | 0.00 | 38.78 | 4.00 |
1870 | 2165 | 1.156645 | GCTGAAGCCTATCGCCACTG | 61.157 | 60.000 | 0.00 | 0.00 | 38.78 | 3.66 |
1871 | 2166 | 0.531532 | CTGAAGCCTATCGCCACTGG | 60.532 | 60.000 | 0.00 | 0.00 | 38.78 | 4.00 |
1872 | 2167 | 1.227674 | GAAGCCTATCGCCACTGGG | 60.228 | 63.158 | 0.00 | 0.00 | 38.78 | 4.45 |
1873 | 2168 | 1.686325 | GAAGCCTATCGCCACTGGGA | 61.686 | 60.000 | 0.00 | 0.00 | 38.78 | 4.37 |
1874 | 2169 | 1.056700 | AAGCCTATCGCCACTGGGAT | 61.057 | 55.000 | 0.00 | 1.18 | 45.25 | 3.85 |
1875 | 2170 | 1.302033 | GCCTATCGCCACTGGGATG | 60.302 | 63.158 | 0.00 | 0.00 | 43.35 | 3.51 |
1876 | 2171 | 1.372683 | CCTATCGCCACTGGGATGG | 59.627 | 63.158 | 0.00 | 0.78 | 43.35 | 3.51 |
1962 | 2257 | 6.566079 | ATTGGAGGTGAAATCTATGACTCA | 57.434 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
2419 | 2714 | 2.493278 | CCGGCACTGAGATTTTTCCAAT | 59.507 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
2582 | 4044 | 6.608405 | TGATGTACTCCCTCCGTTTCTAAATA | 59.392 | 38.462 | 0.00 | 0.00 | 0.00 | 1.40 |
2587 | 4049 | 7.063934 | ACTCCCTCCGTTTCTAAATATAAGG | 57.936 | 40.000 | 0.00 | 0.00 | 0.00 | 2.69 |
2643 | 4123 | 9.188588 | ACGGATGTATATAAACGTATTTGAGTG | 57.811 | 33.333 | 0.00 | 0.00 | 32.30 | 3.51 |
2644 | 4124 | 9.188588 | CGGATGTATATAAACGTATTTGAGTGT | 57.811 | 33.333 | 0.00 | 0.00 | 0.00 | 3.55 |
2654 | 4134 | 7.956420 | AACGTATTTGAGTGTTGATTCACTA | 57.044 | 32.000 | 0.00 | 0.00 | 46.81 | 2.74 |
2657 | 4137 | 9.647797 | ACGTATTTGAGTGTTGATTCACTATTA | 57.352 | 29.630 | 0.00 | 0.00 | 46.81 | 0.98 |
2674 | 4154 | 7.966812 | TCACTATTACTCCATATGCAGTTCAT | 58.033 | 34.615 | 4.23 | 0.88 | 39.17 | 2.57 |
2683 | 4163 | 9.407380 | ACTCCATATGCAGTTCATGTTTTAATA | 57.593 | 29.630 | 0.00 | 0.00 | 36.63 | 0.98 |
2738 | 4218 | 4.158025 | ACGGAAGGAGTACTAGTGAATGTG | 59.842 | 45.833 | 5.39 | 0.00 | 0.00 | 3.21 |
2739 | 4219 | 4.398358 | CGGAAGGAGTACTAGTGAATGTGA | 59.602 | 45.833 | 5.39 | 0.00 | 0.00 | 3.58 |
2745 | 4225 | 7.120051 | AGGAGTACTAGTGAATGTGATGTACT | 58.880 | 38.462 | 5.39 | 0.00 | 40.85 | 2.73 |
2746 | 4226 | 7.067615 | AGGAGTACTAGTGAATGTGATGTACTG | 59.932 | 40.741 | 5.39 | 0.00 | 39.08 | 2.74 |
2748 | 4228 | 8.803397 | AGTACTAGTGAATGTGATGTACTGTA | 57.197 | 34.615 | 5.39 | 0.00 | 38.04 | 2.74 |
2749 | 4229 | 8.675504 | AGTACTAGTGAATGTGATGTACTGTAC | 58.324 | 37.037 | 10.98 | 10.98 | 38.04 | 2.90 |
2750 | 4230 | 7.462571 | ACTAGTGAATGTGATGTACTGTACA | 57.537 | 36.000 | 21.68 | 21.68 | 43.80 | 2.90 |
2751 | 4231 | 7.313646 | ACTAGTGAATGTGATGTACTGTACAC | 58.686 | 38.462 | 21.84 | 15.61 | 42.23 | 2.90 |
2753 | 4233 | 7.462571 | AGTGAATGTGATGTACTGTACACTA | 57.537 | 36.000 | 21.84 | 11.55 | 42.23 | 2.74 |
2754 | 4234 | 7.539436 | AGTGAATGTGATGTACTGTACACTAG | 58.461 | 38.462 | 21.84 | 0.00 | 42.23 | 2.57 |
2756 | 4236 | 7.273598 | GTGAATGTGATGTACTGTACACTAGTG | 59.726 | 40.741 | 21.84 | 21.44 | 42.23 | 2.74 |
2757 | 4237 | 7.175990 | TGAATGTGATGTACTGTACACTAGTGA | 59.824 | 37.037 | 29.30 | 10.19 | 42.23 | 3.41 |
2758 | 4238 | 6.887626 | TGTGATGTACTGTACACTAGTGAA | 57.112 | 37.500 | 29.30 | 12.81 | 42.23 | 3.18 |
2760 | 4240 | 7.312899 | TGTGATGTACTGTACACTAGTGAATG | 58.687 | 38.462 | 29.30 | 16.66 | 42.23 | 2.67 |
2779 | 4268 | 7.385205 | AGTGAATGTGAATGTACTGTACACTTC | 59.615 | 37.037 | 21.84 | 22.15 | 42.23 | 3.01 |
2780 | 4269 | 6.364976 | TGAATGTGAATGTACTGTACACTTCG | 59.635 | 38.462 | 21.84 | 0.00 | 42.23 | 3.79 |
2795 | 4285 | 3.004524 | ACACTTCGTACAGTGAGGAGTTC | 59.995 | 47.826 | 17.63 | 0.00 | 46.29 | 3.01 |
2809 | 4299 | 2.496470 | AGGAGTTCGGTCAATGTCTACC | 59.504 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2835 | 4325 | 7.043656 | CGTCACGCATTCTGTATCATAACTTAA | 60.044 | 37.037 | 0.00 | 0.00 | 0.00 | 1.85 |
2839 | 4329 | 7.042456 | ACGCATTCTGTATCATAACTTAAGCTG | 60.042 | 37.037 | 1.29 | 0.00 | 0.00 | 4.24 |
2857 | 4347 | 8.534333 | TTAAGCTGTACAGACTTTTGATACAG | 57.466 | 34.615 | 27.08 | 5.53 | 43.62 | 2.74 |
2858 | 4348 | 5.482908 | AGCTGTACAGACTTTTGATACAGG | 58.517 | 41.667 | 27.08 | 0.00 | 41.91 | 4.00 |
2859 | 4349 | 4.093556 | GCTGTACAGACTTTTGATACAGGC | 59.906 | 45.833 | 27.08 | 1.84 | 41.91 | 4.85 |
2860 | 4350 | 4.242475 | TGTACAGACTTTTGATACAGGCG | 58.758 | 43.478 | 0.00 | 0.00 | 0.00 | 5.52 |
2861 | 4351 | 3.678056 | ACAGACTTTTGATACAGGCGA | 57.322 | 42.857 | 0.00 | 0.00 | 0.00 | 5.54 |
2862 | 4352 | 3.326747 | ACAGACTTTTGATACAGGCGAC | 58.673 | 45.455 | 0.00 | 0.00 | 0.00 | 5.19 |
2863 | 4353 | 3.006967 | ACAGACTTTTGATACAGGCGACT | 59.993 | 43.478 | 0.00 | 0.00 | 46.44 | 4.18 |
2895 | 4385 | 2.100605 | ACGCATCTTTCCTCCTTCAC | 57.899 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2909 | 4399 | 4.122776 | CTCCTTCACGTATCCTTTCCATG | 58.877 | 47.826 | 0.00 | 0.00 | 0.00 | 3.66 |
2944 | 4434 | 1.448985 | GAAACATGGCTGCCGTTCTA | 58.551 | 50.000 | 11.51 | 0.00 | 0.00 | 2.10 |
3073 | 4563 | 1.669184 | TTTCGTCGCAGCAAATTTCG | 58.331 | 45.000 | 0.00 | 0.00 | 0.00 | 3.46 |
3114 | 4605 | 4.165779 | GCCGATGATGGTTGTAACAAAAG | 58.834 | 43.478 | 0.00 | 0.00 | 0.00 | 2.27 |
3154 | 4645 | 1.086067 | CAGCTCGTCGCACCATGAAT | 61.086 | 55.000 | 0.00 | 0.00 | 42.61 | 2.57 |
3206 | 4697 | 3.457263 | TAGGCGACGGCATGCTCA | 61.457 | 61.111 | 24.23 | 0.00 | 42.47 | 4.26 |
3209 | 4700 | 3.422303 | GCGACGGCATGCTCACAA | 61.422 | 61.111 | 18.92 | 0.00 | 39.62 | 3.33 |
3254 | 4746 | 1.901464 | GGAGCGGGTTCCAGCAAAA | 60.901 | 57.895 | 15.37 | 0.00 | 37.20 | 2.44 |
3270 | 4762 | 2.676076 | CAAAAGCCAAATCCGGTGAAG | 58.324 | 47.619 | 0.00 | 0.00 | 0.00 | 3.02 |
3317 | 4809 | 3.782889 | AATCAAAAAGGCGATGGTAGC | 57.217 | 42.857 | 0.00 | 0.00 | 0.00 | 3.58 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 0.945265 | CGGCCTTTTACGTGTTCGGA | 60.945 | 55.000 | 0.00 | 0.00 | 41.85 | 4.55 |
1 | 2 | 1.223417 | ACGGCCTTTTACGTGTTCGG | 61.223 | 55.000 | 0.00 | 0.00 | 42.39 | 4.30 |
2 | 3 | 0.162294 | GACGGCCTTTTACGTGTTCG | 59.838 | 55.000 | 0.00 | 0.00 | 44.24 | 3.95 |
3 | 4 | 0.162294 | CGACGGCCTTTTACGTGTTC | 59.838 | 55.000 | 0.00 | 0.00 | 44.24 | 3.18 |
4 | 5 | 1.223417 | CCGACGGCCTTTTACGTGTT | 61.223 | 55.000 | 0.00 | 0.00 | 44.24 | 3.32 |
5 | 6 | 1.665599 | CCGACGGCCTTTTACGTGT | 60.666 | 57.895 | 0.00 | 0.00 | 44.24 | 4.49 |
6 | 7 | 2.385091 | CCCGACGGCCTTTTACGTG | 61.385 | 63.158 | 8.86 | 0.00 | 44.24 | 4.49 |
35 | 36 | 3.860930 | TTTGAAGGACAGGCCGGGC | 62.861 | 63.158 | 22.67 | 22.67 | 43.43 | 6.13 |
36 | 37 | 0.825840 | TTTTTGAAGGACAGGCCGGG | 60.826 | 55.000 | 8.08 | 1.20 | 43.43 | 5.73 |
37 | 38 | 2.727103 | TTTTTGAAGGACAGGCCGG | 58.273 | 52.632 | 0.00 | 0.00 | 43.43 | 6.13 |
53 | 54 | 2.065512 | GCCCATCATTTTCGCGTTTTT | 58.934 | 42.857 | 5.77 | 0.00 | 0.00 | 1.94 |
54 | 55 | 1.671556 | GGCCCATCATTTTCGCGTTTT | 60.672 | 47.619 | 5.77 | 0.00 | 0.00 | 2.43 |
55 | 56 | 0.108851 | GGCCCATCATTTTCGCGTTT | 60.109 | 50.000 | 5.77 | 0.00 | 0.00 | 3.60 |
56 | 57 | 1.510844 | GGCCCATCATTTTCGCGTT | 59.489 | 52.632 | 5.77 | 0.00 | 0.00 | 4.84 |
57 | 58 | 2.414785 | GGGCCCATCATTTTCGCGT | 61.415 | 57.895 | 19.95 | 0.00 | 0.00 | 6.01 |
58 | 59 | 2.340453 | CTGGGCCCATCATTTTCGCG | 62.340 | 60.000 | 28.82 | 5.25 | 0.00 | 5.87 |
59 | 60 | 1.438814 | CTGGGCCCATCATTTTCGC | 59.561 | 57.895 | 28.82 | 0.00 | 0.00 | 4.70 |
60 | 61 | 2.019897 | GCCTGGGCCCATCATTTTCG | 62.020 | 60.000 | 28.82 | 11.09 | 34.56 | 3.46 |
61 | 62 | 1.825341 | GCCTGGGCCCATCATTTTC | 59.175 | 57.895 | 28.82 | 5.60 | 34.56 | 2.29 |
62 | 63 | 4.055178 | GCCTGGGCCCATCATTTT | 57.945 | 55.556 | 28.82 | 0.00 | 34.56 | 1.82 |
84 | 85 | 2.746277 | CCGAAAAGCCTGACCCGG | 60.746 | 66.667 | 0.00 | 0.00 | 0.00 | 5.73 |
85 | 86 | 2.746277 | CCCGAAAAGCCTGACCCG | 60.746 | 66.667 | 0.00 | 0.00 | 0.00 | 5.28 |
86 | 87 | 3.062466 | GCCCGAAAAGCCTGACCC | 61.062 | 66.667 | 0.00 | 0.00 | 0.00 | 4.46 |
111 | 112 | 0.764369 | TAGCTAGTCCTGGCCATGGG | 60.764 | 60.000 | 15.13 | 4.96 | 37.85 | 4.00 |
112 | 113 | 1.071385 | CTTAGCTAGTCCTGGCCATGG | 59.929 | 57.143 | 5.51 | 7.63 | 37.85 | 3.66 |
113 | 114 | 2.042464 | TCTTAGCTAGTCCTGGCCATG | 58.958 | 52.381 | 5.51 | 2.84 | 37.85 | 3.66 |
114 | 115 | 2.478872 | TCTTAGCTAGTCCTGGCCAT | 57.521 | 50.000 | 5.51 | 0.00 | 37.85 | 4.40 |
115 | 116 | 2.042464 | CATCTTAGCTAGTCCTGGCCA | 58.958 | 52.381 | 4.71 | 4.71 | 37.85 | 5.36 |
116 | 117 | 1.270571 | GCATCTTAGCTAGTCCTGGCC | 60.271 | 57.143 | 0.00 | 0.00 | 37.85 | 5.36 |
117 | 118 | 1.691434 | AGCATCTTAGCTAGTCCTGGC | 59.309 | 52.381 | 0.00 | 0.00 | 44.50 | 4.85 |
127 | 128 | 2.431454 | GCCCAAGGATAGCATCTTAGC | 58.569 | 52.381 | 0.00 | 0.00 | 0.00 | 3.09 |
128 | 129 | 2.613977 | CCGCCCAAGGATAGCATCTTAG | 60.614 | 54.545 | 0.00 | 0.00 | 0.00 | 2.18 |
129 | 130 | 1.347707 | CCGCCCAAGGATAGCATCTTA | 59.652 | 52.381 | 0.00 | 0.00 | 0.00 | 2.10 |
130 | 131 | 0.109342 | CCGCCCAAGGATAGCATCTT | 59.891 | 55.000 | 0.00 | 0.00 | 0.00 | 2.40 |
131 | 132 | 1.056700 | ACCGCCCAAGGATAGCATCT | 61.057 | 55.000 | 0.00 | 0.00 | 34.73 | 2.90 |
132 | 133 | 0.886490 | CACCGCCCAAGGATAGCATC | 60.886 | 60.000 | 0.00 | 0.00 | 34.73 | 3.91 |
133 | 134 | 1.149174 | CACCGCCCAAGGATAGCAT | 59.851 | 57.895 | 0.00 | 0.00 | 34.73 | 3.79 |
134 | 135 | 2.589540 | CACCGCCCAAGGATAGCA | 59.410 | 61.111 | 0.00 | 0.00 | 34.73 | 3.49 |
135 | 136 | 2.203209 | CCACCGCCCAAGGATAGC | 60.203 | 66.667 | 0.00 | 0.00 | 34.73 | 2.97 |
136 | 137 | 1.146263 | GTCCACCGCCCAAGGATAG | 59.854 | 63.158 | 0.00 | 0.00 | 33.33 | 2.08 |
137 | 138 | 2.372074 | GGTCCACCGCCCAAGGATA | 61.372 | 63.158 | 0.00 | 0.00 | 33.33 | 2.59 |
138 | 139 | 3.728373 | GGTCCACCGCCCAAGGAT | 61.728 | 66.667 | 0.00 | 0.00 | 33.33 | 3.24 |
148 | 149 | 2.438434 | CCAAGCATCGGGTCCACC | 60.438 | 66.667 | 0.00 | 0.00 | 0.00 | 4.61 |
149 | 150 | 3.134127 | GCCAAGCATCGGGTCCAC | 61.134 | 66.667 | 0.00 | 0.00 | 0.00 | 4.02 |
150 | 151 | 3.329889 | AGCCAAGCATCGGGTCCA | 61.330 | 61.111 | 0.00 | 0.00 | 0.00 | 4.02 |
151 | 152 | 2.825836 | CAGCCAAGCATCGGGTCC | 60.826 | 66.667 | 0.00 | 0.00 | 29.87 | 4.46 |
152 | 153 | 3.512516 | GCAGCCAAGCATCGGGTC | 61.513 | 66.667 | 0.00 | 0.00 | 29.87 | 4.46 |
153 | 154 | 3.866379 | TTGCAGCCAAGCATCGGGT | 62.866 | 57.895 | 0.00 | 0.00 | 45.19 | 5.28 |
154 | 155 | 3.063704 | TTGCAGCCAAGCATCGGG | 61.064 | 61.111 | 0.00 | 0.00 | 45.19 | 5.14 |
155 | 156 | 2.180017 | GTTGCAGCCAAGCATCGG | 59.820 | 61.111 | 0.00 | 0.00 | 45.19 | 4.18 |
156 | 157 | 1.443194 | GTGTTGCAGCCAAGCATCG | 60.443 | 57.895 | 0.00 | 0.00 | 45.19 | 3.84 |
157 | 158 | 1.443194 | CGTGTTGCAGCCAAGCATC | 60.443 | 57.895 | 0.00 | 0.00 | 45.19 | 3.91 |
158 | 159 | 1.898094 | TCGTGTTGCAGCCAAGCAT | 60.898 | 52.632 | 0.00 | 0.00 | 45.19 | 3.79 |
159 | 160 | 2.515757 | TCGTGTTGCAGCCAAGCA | 60.516 | 55.556 | 0.00 | 0.00 | 43.99 | 3.91 |
214 | 215 | 2.534396 | TTCGCAGGGAATGGGTGGT | 61.534 | 57.895 | 0.00 | 0.00 | 42.34 | 4.16 |
294 | 295 | 0.763035 | AAGTTCTAGGTGGGTGCGTT | 59.237 | 50.000 | 0.00 | 0.00 | 0.00 | 4.84 |
325 | 326 | 1.663074 | CTGCTAAGGATCTCGCCGC | 60.663 | 63.158 | 0.00 | 0.00 | 0.00 | 6.53 |
372 | 373 | 4.098654 | CGAGAAAGGATCCACACAGTAGAT | 59.901 | 45.833 | 15.82 | 0.00 | 0.00 | 1.98 |
390 | 391 | 1.136305 | CCAATCGAGGCTTACCGAGAA | 59.864 | 52.381 | 3.19 | 0.00 | 42.76 | 2.87 |
410 | 411 | 2.513897 | CGAGCGGGGAATTGGGAC | 60.514 | 66.667 | 0.00 | 0.00 | 0.00 | 4.46 |
432 | 433 | 2.480419 | ACAGTAACTTGCACAGAATCGC | 59.520 | 45.455 | 0.00 | 0.00 | 0.00 | 4.58 |
433 | 434 | 4.732285 | AACAGTAACTTGCACAGAATCG | 57.268 | 40.909 | 0.00 | 0.00 | 0.00 | 3.34 |
507 | 508 | 1.183676 | AACAACCTAGTCGGACGCCT | 61.184 | 55.000 | 1.89 | 0.00 | 36.31 | 5.52 |
549 | 550 | 6.006449 | GCCCACCAGTTCATCAATCTATTAT | 58.994 | 40.000 | 0.00 | 0.00 | 0.00 | 1.28 |
550 | 551 | 5.376625 | GCCCACCAGTTCATCAATCTATTA | 58.623 | 41.667 | 0.00 | 0.00 | 0.00 | 0.98 |
551 | 552 | 4.210331 | GCCCACCAGTTCATCAATCTATT | 58.790 | 43.478 | 0.00 | 0.00 | 0.00 | 1.73 |
642 | 646 | 5.759763 | ACAAATTTGATCAAGCACCTTTTCC | 59.240 | 36.000 | 24.64 | 0.00 | 0.00 | 3.13 |
659 | 663 | 9.599322 | GATCGATAATCAAAGCGATACAAATTT | 57.401 | 29.630 | 0.00 | 0.00 | 42.78 | 1.82 |
775 | 779 | 7.476667 | CCAACATTGTTTCAACTACAGTAACA | 58.523 | 34.615 | 0.00 | 0.00 | 0.00 | 2.41 |
776 | 780 | 6.416750 | GCCAACATTGTTTCAACTACAGTAAC | 59.583 | 38.462 | 0.00 | 0.00 | 0.00 | 2.50 |
793 | 797 | 2.561478 | AACAGTACGAGGCCAACATT | 57.439 | 45.000 | 5.01 | 0.00 | 0.00 | 2.71 |
830 | 834 | 9.418045 | ACAAACATACCAGTTGCATTTATTAAC | 57.582 | 29.630 | 0.00 | 0.00 | 0.00 | 2.01 |
832 | 836 | 8.247562 | GGACAAACATACCAGTTGCATTTATTA | 58.752 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
834 | 838 | 6.437162 | AGGACAAACATACCAGTTGCATTTAT | 59.563 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
835 | 839 | 5.772672 | AGGACAAACATACCAGTTGCATTTA | 59.227 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
961 | 969 | 4.883083 | TCAAAGTCAGATAACTCGCTGTT | 58.117 | 39.130 | 0.00 | 0.00 | 42.31 | 3.16 |
966 | 974 | 8.314635 | CGTTTATCTTCAAAGTCAGATAACTCG | 58.685 | 37.037 | 1.87 | 6.33 | 40.26 | 4.18 |
1024 | 1032 | 2.546795 | CCATGGATCGAGCCTTACTGAC | 60.547 | 54.545 | 22.18 | 0.00 | 0.00 | 3.51 |
1211 | 1219 | 0.603065 | GATTGCCGCCTTCCAAGTTT | 59.397 | 50.000 | 0.00 | 0.00 | 0.00 | 2.66 |
1572 | 1580 | 3.055530 | TCAAGGCAACAGCTTTGGAAAAA | 60.056 | 39.130 | 11.53 | 0.00 | 43.24 | 1.94 |
1872 | 2167 | 3.437049 | GCTTTCCGTTATAGGATGCCATC | 59.563 | 47.826 | 0.00 | 0.00 | 40.48 | 3.51 |
1873 | 2168 | 3.073062 | AGCTTTCCGTTATAGGATGCCAT | 59.927 | 43.478 | 7.53 | 0.00 | 40.48 | 4.40 |
1874 | 2169 | 2.438021 | AGCTTTCCGTTATAGGATGCCA | 59.562 | 45.455 | 7.53 | 0.00 | 40.48 | 4.92 |
1875 | 2170 | 3.067833 | GAGCTTTCCGTTATAGGATGCC | 58.932 | 50.000 | 0.00 | 0.00 | 40.48 | 4.40 |
1876 | 2171 | 3.996480 | AGAGCTTTCCGTTATAGGATGC | 58.004 | 45.455 | 0.00 | 4.24 | 40.48 | 3.91 |
1877 | 2172 | 6.692486 | ACATAGAGCTTTCCGTTATAGGATG | 58.308 | 40.000 | 0.00 | 0.00 | 40.48 | 3.51 |
1935 | 2230 | 8.267620 | AGTCATAGATTTCACCTCCAATATCA | 57.732 | 34.615 | 0.00 | 0.00 | 0.00 | 2.15 |
1962 | 2257 | 7.121315 | GGCATAGTTGACCAAGAGTTTAATTCT | 59.879 | 37.037 | 0.00 | 0.00 | 0.00 | 2.40 |
2295 | 2590 | 5.223449 | TCCATAAGACGTTTTCTTCAGGT | 57.777 | 39.130 | 0.00 | 0.00 | 44.02 | 4.00 |
2554 | 4016 | 3.543680 | AACGGAGGGAGTACATCAATG | 57.456 | 47.619 | 0.00 | 0.00 | 0.00 | 2.82 |
2587 | 4049 | 8.457238 | AGTCCATATTGAAATCTCTAAAAGGC | 57.543 | 34.615 | 0.00 | 0.00 | 0.00 | 4.35 |
2632 | 4112 | 9.901724 | GTAATAGTGAATCAACACTCAAATACG | 57.098 | 33.333 | 4.63 | 0.00 | 46.36 | 3.06 |
2635 | 4115 | 9.167311 | GGAGTAATAGTGAATCAACACTCAAAT | 57.833 | 33.333 | 4.63 | 0.00 | 46.36 | 2.32 |
2636 | 4116 | 8.154203 | TGGAGTAATAGTGAATCAACACTCAAA | 58.846 | 33.333 | 4.63 | 0.00 | 46.36 | 2.69 |
2637 | 4117 | 7.676004 | TGGAGTAATAGTGAATCAACACTCAA | 58.324 | 34.615 | 4.63 | 1.06 | 46.36 | 3.02 |
2639 | 4119 | 9.988815 | ATATGGAGTAATAGTGAATCAACACTC | 57.011 | 33.333 | 4.63 | 0.00 | 46.36 | 3.51 |
2641 | 4121 | 8.499162 | GCATATGGAGTAATAGTGAATCAACAC | 58.501 | 37.037 | 4.56 | 0.00 | 40.60 | 3.32 |
2642 | 4122 | 8.210265 | TGCATATGGAGTAATAGTGAATCAACA | 58.790 | 33.333 | 4.56 | 0.00 | 0.00 | 3.33 |
2643 | 4123 | 8.607441 | TGCATATGGAGTAATAGTGAATCAAC | 57.393 | 34.615 | 4.56 | 0.00 | 0.00 | 3.18 |
2644 | 4124 | 8.432013 | ACTGCATATGGAGTAATAGTGAATCAA | 58.568 | 33.333 | 26.44 | 0.00 | 45.07 | 2.57 |
2645 | 4125 | 7.966812 | ACTGCATATGGAGTAATAGTGAATCA | 58.033 | 34.615 | 26.44 | 0.00 | 45.07 | 2.57 |
2646 | 4126 | 8.839310 | AACTGCATATGGAGTAATAGTGAATC | 57.161 | 34.615 | 27.58 | 0.00 | 46.21 | 2.52 |
2647 | 4127 | 8.432013 | TGAACTGCATATGGAGTAATAGTGAAT | 58.568 | 33.333 | 27.58 | 10.75 | 46.21 | 2.57 |
2648 | 4128 | 7.791029 | TGAACTGCATATGGAGTAATAGTGAA | 58.209 | 34.615 | 27.58 | 7.09 | 46.21 | 3.18 |
2649 | 4129 | 7.360113 | TGAACTGCATATGGAGTAATAGTGA | 57.640 | 36.000 | 27.58 | 5.74 | 46.21 | 3.41 |
2650 | 4130 | 7.658982 | ACATGAACTGCATATGGAGTAATAGTG | 59.341 | 37.037 | 27.58 | 21.71 | 46.21 | 2.74 |
2651 | 4131 | 7.739825 | ACATGAACTGCATATGGAGTAATAGT | 58.260 | 34.615 | 27.58 | 20.29 | 46.21 | 2.12 |
2652 | 4132 | 8.613060 | AACATGAACTGCATATGGAGTAATAG | 57.387 | 34.615 | 27.58 | 19.74 | 46.21 | 1.73 |
2653 | 4133 | 8.978874 | AAACATGAACTGCATATGGAGTAATA | 57.021 | 30.769 | 27.58 | 17.52 | 46.21 | 0.98 |
2654 | 4134 | 7.886629 | AAACATGAACTGCATATGGAGTAAT | 57.113 | 32.000 | 27.58 | 20.80 | 46.21 | 1.89 |
2712 | 4192 | 4.298103 | TCACTAGTACTCCTTCCGTTCT | 57.702 | 45.455 | 0.00 | 0.00 | 0.00 | 3.01 |
2720 | 4200 | 7.067615 | CAGTACATCACATTCACTAGTACTCCT | 59.932 | 40.741 | 0.00 | 0.00 | 38.76 | 3.69 |
2721 | 4201 | 7.148052 | ACAGTACATCACATTCACTAGTACTCC | 60.148 | 40.741 | 0.00 | 0.00 | 38.76 | 3.85 |
2738 | 4218 | 7.535997 | TCACATTCACTAGTGTACAGTACATC | 58.464 | 38.462 | 21.99 | 10.23 | 41.34 | 3.06 |
2739 | 4219 | 7.462571 | TCACATTCACTAGTGTACAGTACAT | 57.537 | 36.000 | 21.99 | 8.42 | 41.34 | 2.29 |
2745 | 4225 | 7.812669 | CAGTACATTCACATTCACTAGTGTACA | 59.187 | 37.037 | 21.99 | 8.49 | 41.69 | 2.90 |
2746 | 4226 | 7.813148 | ACAGTACATTCACATTCACTAGTGTAC | 59.187 | 37.037 | 21.99 | 12.54 | 40.34 | 2.90 |
2748 | 4228 | 6.759272 | ACAGTACATTCACATTCACTAGTGT | 58.241 | 36.000 | 21.99 | 1.10 | 37.07 | 3.55 |
2749 | 4229 | 7.812669 | TGTACAGTACATTCACATTCACTAGTG | 59.187 | 37.037 | 17.17 | 17.17 | 33.83 | 2.74 |
2750 | 4230 | 7.813148 | GTGTACAGTACATTCACATTCACTAGT | 59.187 | 37.037 | 16.57 | 0.00 | 41.34 | 2.57 |
2751 | 4231 | 8.029522 | AGTGTACAGTACATTCACATTCACTAG | 58.970 | 37.037 | 16.57 | 0.00 | 41.34 | 2.57 |
2753 | 4233 | 6.759272 | AGTGTACAGTACATTCACATTCACT | 58.241 | 36.000 | 16.57 | 2.41 | 41.34 | 3.41 |
2754 | 4234 | 7.421530 | AAGTGTACAGTACATTCACATTCAC | 57.578 | 36.000 | 16.57 | 0.10 | 41.34 | 3.18 |
2756 | 4236 | 6.365247 | ACGAAGTGTACAGTACATTCACATTC | 59.635 | 38.462 | 16.57 | 12.03 | 42.51 | 2.67 |
2757 | 4237 | 6.220930 | ACGAAGTGTACAGTACATTCACATT | 58.779 | 36.000 | 16.57 | 5.56 | 42.51 | 2.71 |
2758 | 4238 | 5.779922 | ACGAAGTGTACAGTACATTCACAT | 58.220 | 37.500 | 16.57 | 0.00 | 42.51 | 3.21 |
2779 | 4268 | 0.879765 | ACCGAACTCCTCACTGTACG | 59.120 | 55.000 | 0.00 | 0.00 | 0.00 | 3.67 |
2780 | 4269 | 1.884579 | TGACCGAACTCCTCACTGTAC | 59.115 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
2809 | 4299 | 4.740205 | AGTTATGATACAGAATGCGTGACG | 59.260 | 41.667 | 0.00 | 0.00 | 42.53 | 4.35 |
2835 | 4325 | 5.482908 | CCTGTATCAAAAGTCTGTACAGCT | 58.517 | 41.667 | 18.45 | 14.93 | 40.37 | 4.24 |
2839 | 4329 | 4.326548 | GTCGCCTGTATCAAAAGTCTGTAC | 59.673 | 45.833 | 0.00 | 0.00 | 0.00 | 2.90 |
2871 | 4361 | 1.657751 | GGAGGAAAGATGCGTTGGGC | 61.658 | 60.000 | 0.00 | 0.00 | 43.96 | 5.36 |
2872 | 4362 | 0.035056 | AGGAGGAAAGATGCGTTGGG | 60.035 | 55.000 | 0.00 | 0.00 | 0.00 | 4.12 |
2873 | 4363 | 1.740025 | GAAGGAGGAAAGATGCGTTGG | 59.260 | 52.381 | 0.00 | 0.00 | 0.00 | 3.77 |
2895 | 4385 | 2.509052 | TCTCGCATGGAAAGGATACG | 57.491 | 50.000 | 0.00 | 0.00 | 46.39 | 3.06 |
2909 | 4399 | 5.572896 | CCATGTTTCCTTTGTTATTTCTCGC | 59.427 | 40.000 | 0.00 | 0.00 | 0.00 | 5.03 |
3073 | 4563 | 1.918543 | GCGTTTGCTACAACCGACAAC | 60.919 | 52.381 | 1.29 | 0.00 | 38.39 | 3.32 |
3114 | 4605 | 2.482839 | GCAACTGAGGGTCTGCTCTATC | 60.483 | 54.545 | 0.00 | 0.00 | 32.93 | 2.08 |
3154 | 4645 | 4.460683 | GGTATGGTGCGGCCGACA | 62.461 | 66.667 | 33.48 | 24.22 | 41.21 | 4.35 |
3206 | 4697 | 0.973496 | ACCACCGGCTTTTTGGTTGT | 60.973 | 50.000 | 7.84 | 0.00 | 40.98 | 3.32 |
3209 | 4700 | 1.176619 | GCTACCACCGGCTTTTTGGT | 61.177 | 55.000 | 16.99 | 16.99 | 45.78 | 3.67 |
3254 | 4746 | 1.678970 | GCCTTCACCGGATTTGGCT | 60.679 | 57.895 | 9.46 | 0.00 | 37.58 | 4.75 |
3270 | 4762 | 4.147449 | GGAGCCGCCCAAAATGCC | 62.147 | 66.667 | 0.00 | 0.00 | 0.00 | 4.40 |
3317 | 4809 | 0.732538 | GGAACGAGCGCCCAAATTTG | 60.733 | 55.000 | 11.40 | 11.40 | 0.00 | 2.32 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.