Multiple sequence alignment - TraesCS3B01G327100
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 | TraesCS3B01G327100 | chr3B | 100.000 | 1964 | 0 | 0 | 688 | 2651 | 527727693 | 527729656 | 0.000000e+00 | 3627.0 |
1 | TraesCS3B01G327100 | chr3B | 100.000 | 338 | 0 | 0 | 1 | 338 | 527727006 | 527727343 | 2.240000e-175 | 625.0 |
2 | TraesCS3B01G327100 | chr3D | 91.771 | 1908 | 104 | 17 | 697 | 2583 | 402348343 | 402350218 | 0.000000e+00 | 2604.0 |
3 | TraesCS3B01G327100 | chr3D | 89.349 | 169 | 11 | 5 | 177 | 338 | 402348095 | 402348263 | 3.460000e-49 | 206.0 |
4 | TraesCS3B01G327100 | chr3D | 95.349 | 43 | 2 | 0 | 177 | 219 | 402347956 | 402347998 | 4.740000e-08 | 69.4 |
5 | TraesCS3B01G327100 | chr3A | 96.277 | 1316 | 41 | 3 | 689 | 1996 | 523157721 | 523159036 | 0.000000e+00 | 2152.0 |
6 | TraesCS3B01G327100 | chr3A | 90.000 | 560 | 37 | 12 | 2025 | 2583 | 523159035 | 523159576 | 0.000000e+00 | 706.0 |
7 | TraesCS3B01G327100 | chr3A | 92.063 | 126 | 4 | 4 | 219 | 338 | 523157523 | 523157648 | 3.510000e-39 | 172.0 |
8 | TraesCS3B01G327100 | chr5B | 95.376 | 173 | 8 | 0 | 1 | 173 | 439263877 | 439263705 | 2.600000e-70 | 276.0 |
9 | TraesCS3B01G327100 | chr5B | 100.000 | 68 | 0 | 0 | 2583 | 2650 | 690095353 | 690095286 | 2.770000e-25 | 126.0 |
10 | TraesCS3B01G327100 | chr5B | 100.000 | 67 | 0 | 0 | 2585 | 2651 | 256611729 | 256611663 | 9.960000e-25 | 124.0 |
11 | TraesCS3B01G327100 | chr1B | 95.882 | 170 | 7 | 0 | 1 | 170 | 495804132 | 495803963 | 2.600000e-70 | 276.0 |
12 | TraesCS3B01G327100 | chr1B | 95.376 | 173 | 8 | 0 | 1 | 173 | 666981335 | 666981163 | 2.600000e-70 | 276.0 |
13 | TraesCS3B01G327100 | chr1B | 95.266 | 169 | 8 | 0 | 1 | 169 | 687415060 | 687415228 | 4.350000e-68 | 268.0 |
14 | TraesCS3B01G327100 | chr1B | 98.611 | 72 | 0 | 1 | 2581 | 2651 | 28419961 | 28419890 | 2.770000e-25 | 126.0 |
15 | TraesCS3B01G327100 | chr4B | 95.858 | 169 | 7 | 0 | 1 | 169 | 178850142 | 178849974 | 9.350000e-70 | 274.0 |
16 | TraesCS3B01G327100 | chr4B | 95.294 | 170 | 8 | 0 | 1 | 170 | 79528717 | 79528886 | 1.210000e-68 | 270.0 |
17 | TraesCS3B01G327100 | chr2B | 95.858 | 169 | 7 | 0 | 1 | 169 | 583409882 | 583409714 | 9.350000e-70 | 274.0 |
18 | TraesCS3B01G327100 | chr6A | 95.266 | 169 | 8 | 0 | 1 | 169 | 922230 | 922398 | 4.350000e-68 | 268.0 |
19 | TraesCS3B01G327100 | chr6A | 100.000 | 70 | 0 | 0 | 2582 | 2651 | 518672837 | 518672906 | 2.140000e-26 | 130.0 |
20 | TraesCS3B01G327100 | chr5A | 94.253 | 174 | 10 | 0 | 1 | 174 | 383894656 | 383894829 | 1.560000e-67 | 267.0 |
21 | TraesCS3B01G327100 | chr5A | 100.000 | 68 | 0 | 0 | 2584 | 2651 | 50751204 | 50751137 | 2.770000e-25 | 126.0 |
22 | TraesCS3B01G327100 | chr5A | 98.485 | 66 | 1 | 0 | 2586 | 2651 | 441161174 | 441161109 | 1.670000e-22 | 117.0 |
23 | TraesCS3B01G327100 | chr7A | 100.000 | 67 | 0 | 0 | 2585 | 2651 | 211797791 | 211797725 | 9.960000e-25 | 124.0 |
24 | TraesCS3B01G327100 | chr4A | 100.000 | 67 | 0 | 0 | 2585 | 2651 | 135451588 | 135451654 | 9.960000e-25 | 124.0 |
25 | TraesCS3B01G327100 | chr1A | 100.000 | 67 | 0 | 0 | 2585 | 2651 | 478156115 | 478156049 | 9.960000e-25 | 124.0 |
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 | TraesCS3B01G327100 | chr3B | 527727006 | 527729656 | 2650 | False | 2126.0 | 3627 | 100.000000 | 1 | 2651 | 2 | chr3B.!!$F1 | 2650 |
1 | TraesCS3B01G327100 | chr3D | 402347956 | 402350218 | 2262 | False | 959.8 | 2604 | 92.156333 | 177 | 2583 | 3 | chr3D.!!$F1 | 2406 |
2 | TraesCS3B01G327100 | chr3A | 523157523 | 523159576 | 2053 | False | 1010.0 | 2152 | 92.780000 | 219 | 2583 | 3 | chr3A.!!$F1 | 2364 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
91 | 92 | 0.478507 | AGTCCCAGGAACCAAACAGG | 59.521 | 55.0 | 0.0 | 0.0 | 45.67 | 4.0 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1792 | 1953 | 0.032678 | CCACACCGGCAGCTAGATAG | 59.967 | 60.0 | 0.0 | 0.0 | 0.0 | 2.08 | 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 |
---|---|---|---|---|---|---|---|---|---|
25 | 26 | 5.683876 | TGAAATAAGACTCTCAAGGAGGG | 57.316 | 43.478 | 0.00 | 0.00 | 45.83 | 4.30 |
26 | 27 | 5.342017 | TGAAATAAGACTCTCAAGGAGGGA | 58.658 | 41.667 | 0.00 | 0.00 | 45.83 | 4.20 |
27 | 28 | 5.187967 | TGAAATAAGACTCTCAAGGAGGGAC | 59.812 | 44.000 | 0.00 | 0.00 | 45.83 | 4.46 |
28 | 29 | 4.618378 | ATAAGACTCTCAAGGAGGGACT | 57.382 | 45.455 | 0.00 | 0.00 | 45.83 | 3.85 |
29 | 30 | 3.268034 | AAGACTCTCAAGGAGGGACTT | 57.732 | 47.619 | 5.25 | 5.25 | 45.83 | 3.01 |
30 | 31 | 4.405756 | AAGACTCTCAAGGAGGGACTTA | 57.594 | 45.455 | 8.68 | 0.00 | 41.64 | 2.24 |
31 | 32 | 4.618378 | AGACTCTCAAGGAGGGACTTAT | 57.382 | 45.455 | 0.00 | 0.00 | 45.83 | 1.73 |
32 | 33 | 5.735733 | AGACTCTCAAGGAGGGACTTATA | 57.264 | 43.478 | 0.00 | 0.00 | 45.83 | 0.98 |
33 | 34 | 5.701224 | AGACTCTCAAGGAGGGACTTATAG | 58.299 | 45.833 | 0.00 | 0.00 | 45.83 | 1.31 |
34 | 35 | 4.810345 | ACTCTCAAGGAGGGACTTATAGG | 58.190 | 47.826 | 0.00 | 0.00 | 45.83 | 2.57 |
35 | 36 | 4.482772 | ACTCTCAAGGAGGGACTTATAGGA | 59.517 | 45.833 | 0.00 | 0.00 | 45.83 | 2.94 |
36 | 37 | 5.043281 | ACTCTCAAGGAGGGACTTATAGGAA | 60.043 | 44.000 | 0.00 | 0.00 | 45.83 | 3.36 |
37 | 38 | 5.209659 | TCTCAAGGAGGGACTTATAGGAAC | 58.790 | 45.833 | 0.00 | 0.00 | 41.55 | 3.62 |
38 | 39 | 5.043281 | TCTCAAGGAGGGACTTATAGGAACT | 60.043 | 44.000 | 0.00 | 0.00 | 41.55 | 3.01 |
39 | 40 | 5.600749 | TCAAGGAGGGACTTATAGGAACTT | 58.399 | 41.667 | 0.00 | 0.00 | 41.55 | 2.66 |
40 | 41 | 6.748969 | TCAAGGAGGGACTTATAGGAACTTA | 58.251 | 40.000 | 0.00 | 0.00 | 41.55 | 2.24 |
41 | 42 | 7.371043 | TCAAGGAGGGACTTATAGGAACTTAT | 58.629 | 38.462 | 0.00 | 0.00 | 41.55 | 1.73 |
42 | 43 | 8.517047 | TCAAGGAGGGACTTATAGGAACTTATA | 58.483 | 37.037 | 0.00 | 0.00 | 41.55 | 0.98 |
43 | 44 | 8.808092 | CAAGGAGGGACTTATAGGAACTTATAG | 58.192 | 40.741 | 0.00 | 0.00 | 41.55 | 1.31 |
44 | 45 | 8.071235 | AGGAGGGACTTATAGGAACTTATAGT | 57.929 | 38.462 | 0.00 | 0.00 | 41.55 | 2.12 |
45 | 46 | 8.521301 | AGGAGGGACTTATAGGAACTTATAGTT | 58.479 | 37.037 | 0.00 | 0.00 | 41.55 | 2.24 |
46 | 47 | 8.586744 | GGAGGGACTTATAGGAACTTATAGTTG | 58.413 | 40.741 | 0.00 | 0.00 | 41.55 | 3.16 |
47 | 48 | 9.145442 | GAGGGACTTATAGGAACTTATAGTTGT | 57.855 | 37.037 | 0.00 | 0.00 | 41.55 | 3.32 |
68 | 69 | 9.448587 | AGTTGTAATATGGTCTTATAGGGACTT | 57.551 | 33.333 | 7.52 | 0.00 | 41.75 | 3.01 |
87 | 88 | 5.853572 | ACTTATAAGTCCCAGGAACCAAA | 57.146 | 39.130 | 12.50 | 0.00 | 32.86 | 3.28 |
88 | 89 | 5.567430 | ACTTATAAGTCCCAGGAACCAAAC | 58.433 | 41.667 | 12.50 | 0.00 | 32.86 | 2.93 |
89 | 90 | 5.073965 | ACTTATAAGTCCCAGGAACCAAACA | 59.926 | 40.000 | 12.50 | 0.00 | 32.86 | 2.83 |
90 | 91 | 2.364972 | AAGTCCCAGGAACCAAACAG | 57.635 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
91 | 92 | 0.478507 | AGTCCCAGGAACCAAACAGG | 59.521 | 55.000 | 0.00 | 0.00 | 45.67 | 4.00 |
107 | 108 | 7.203255 | CCAAACAGGTAAGGACTTTTTAGAG | 57.797 | 40.000 | 0.00 | 0.00 | 0.00 | 2.43 |
108 | 109 | 6.996282 | CCAAACAGGTAAGGACTTTTTAGAGA | 59.004 | 38.462 | 0.00 | 0.00 | 0.00 | 3.10 |
109 | 110 | 7.041303 | CCAAACAGGTAAGGACTTTTTAGAGAC | 60.041 | 40.741 | 0.00 | 0.00 | 0.00 | 3.36 |
110 | 111 | 6.997942 | ACAGGTAAGGACTTTTTAGAGACT | 57.002 | 37.500 | 0.00 | 0.00 | 0.00 | 3.24 |
111 | 112 | 7.376335 | ACAGGTAAGGACTTTTTAGAGACTT | 57.624 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
112 | 113 | 7.803131 | ACAGGTAAGGACTTTTTAGAGACTTT | 58.197 | 34.615 | 0.00 | 0.00 | 0.00 | 2.66 |
113 | 114 | 7.715686 | ACAGGTAAGGACTTTTTAGAGACTTTG | 59.284 | 37.037 | 0.00 | 0.00 | 0.00 | 2.77 |
114 | 115 | 7.173390 | CAGGTAAGGACTTTTTAGAGACTTTGG | 59.827 | 40.741 | 0.00 | 0.00 | 0.00 | 3.28 |
115 | 116 | 7.072076 | AGGTAAGGACTTTTTAGAGACTTTGGA | 59.928 | 37.037 | 0.00 | 0.00 | 0.00 | 3.53 |
116 | 117 | 7.172875 | GGTAAGGACTTTTTAGAGACTTTGGAC | 59.827 | 40.741 | 0.00 | 0.00 | 0.00 | 4.02 |
117 | 118 | 6.502074 | AGGACTTTTTAGAGACTTTGGACT | 57.498 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
118 | 119 | 6.901300 | AGGACTTTTTAGAGACTTTGGACTT | 58.099 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
119 | 120 | 8.030913 | AGGACTTTTTAGAGACTTTGGACTTA | 57.969 | 34.615 | 0.00 | 0.00 | 0.00 | 2.24 |
120 | 121 | 8.661345 | AGGACTTTTTAGAGACTTTGGACTTAT | 58.339 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
121 | 122 | 9.939802 | GGACTTTTTAGAGACTTTGGACTTATA | 57.060 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
127 | 128 | 9.720769 | TTTAGAGACTTTGGACTTATAAGTTGG | 57.279 | 33.333 | 18.96 | 10.07 | 39.88 | 3.77 |
128 | 129 | 6.712276 | AGAGACTTTGGACTTATAAGTTGGG | 58.288 | 40.000 | 18.96 | 10.37 | 39.88 | 4.12 |
129 | 130 | 6.500751 | AGAGACTTTGGACTTATAAGTTGGGA | 59.499 | 38.462 | 18.96 | 6.15 | 39.88 | 4.37 |
130 | 131 | 6.473758 | AGACTTTGGACTTATAAGTTGGGAC | 58.526 | 40.000 | 18.96 | 6.19 | 39.88 | 4.46 |
131 | 132 | 6.272558 | AGACTTTGGACTTATAAGTTGGGACT | 59.727 | 38.462 | 18.96 | 10.11 | 39.88 | 3.85 |
132 | 133 | 7.456902 | AGACTTTGGACTTATAAGTTGGGACTA | 59.543 | 37.037 | 18.96 | 1.74 | 39.88 | 2.59 |
133 | 134 | 7.981142 | ACTTTGGACTTATAAGTTGGGACTAA | 58.019 | 34.615 | 18.96 | 7.60 | 39.88 | 2.24 |
134 | 135 | 8.442374 | ACTTTGGACTTATAAGTTGGGACTAAA | 58.558 | 33.333 | 18.96 | 13.80 | 39.88 | 1.85 |
135 | 136 | 9.292195 | CTTTGGACTTATAAGTTGGGACTAAAA | 57.708 | 33.333 | 18.96 | 9.70 | 39.88 | 1.52 |
136 | 137 | 9.643735 | TTTGGACTTATAAGTTGGGACTAAAAA | 57.356 | 29.630 | 18.96 | 7.28 | 39.88 | 1.94 |
165 | 166 | 9.110502 | GTCTTAGGACTTATAAATCAAACAGGG | 57.889 | 37.037 | 0.00 | 0.00 | 39.24 | 4.45 |
166 | 167 | 7.773690 | TCTTAGGACTTATAAATCAAACAGGGC | 59.226 | 37.037 | 0.00 | 0.00 | 0.00 | 5.19 |
167 | 168 | 5.201243 | AGGACTTATAAATCAAACAGGGCC | 58.799 | 41.667 | 0.00 | 0.00 | 0.00 | 5.80 |
168 | 169 | 5.044105 | AGGACTTATAAATCAAACAGGGCCT | 60.044 | 40.000 | 0.00 | 0.00 | 0.00 | 5.19 |
169 | 170 | 5.656859 | GGACTTATAAATCAAACAGGGCCTT | 59.343 | 40.000 | 1.32 | 0.00 | 0.00 | 4.35 |
170 | 171 | 6.405842 | GGACTTATAAATCAAACAGGGCCTTG | 60.406 | 42.308 | 14.35 | 14.35 | 0.00 | 3.61 |
171 | 172 | 6.252995 | ACTTATAAATCAAACAGGGCCTTGA | 58.747 | 36.000 | 23.57 | 14.81 | 36.08 | 3.02 |
172 | 173 | 6.897413 | ACTTATAAATCAAACAGGGCCTTGAT | 59.103 | 34.615 | 23.57 | 16.51 | 42.67 | 2.57 |
174 | 175 | 4.541973 | AAATCAAACAGGGCCTTGATTC | 57.458 | 40.909 | 24.90 | 0.00 | 46.52 | 2.52 |
175 | 176 | 1.533625 | TCAAACAGGGCCTTGATTCG | 58.466 | 50.000 | 23.57 | 10.81 | 0.00 | 3.34 |
176 | 177 | 1.202879 | TCAAACAGGGCCTTGATTCGT | 60.203 | 47.619 | 23.57 | 0.00 | 0.00 | 3.85 |
177 | 178 | 2.039216 | TCAAACAGGGCCTTGATTCGTA | 59.961 | 45.455 | 23.57 | 0.97 | 0.00 | 3.43 |
178 | 179 | 2.817258 | CAAACAGGGCCTTGATTCGTAA | 59.183 | 45.455 | 23.57 | 0.00 | 0.00 | 3.18 |
179 | 180 | 2.403252 | ACAGGGCCTTGATTCGTAAG | 57.597 | 50.000 | 23.57 | 0.00 | 0.00 | 2.34 |
180 | 181 | 1.017387 | CAGGGCCTTGATTCGTAAGC | 58.983 | 55.000 | 9.80 | 0.00 | 37.18 | 3.09 |
186 | 187 | 0.652592 | CTTGATTCGTAAGCAGGGCG | 59.347 | 55.000 | 0.00 | 0.00 | 37.18 | 6.13 |
221 | 361 | 1.480545 | TGAATCACCACACGGATCGAT | 59.519 | 47.619 | 0.00 | 0.00 | 35.59 | 3.59 |
293 | 434 | 2.575111 | CTTGATCGCTCGCAGCTCG | 61.575 | 63.158 | 6.58 | 0.00 | 39.60 | 5.03 |
323 | 470 | 3.624726 | CGAGACTTACGCAAATGTCTG | 57.375 | 47.619 | 8.14 | 0.27 | 39.53 | 3.51 |
822 | 974 | 1.006571 | GCGAACGGAGACCAGACAA | 60.007 | 57.895 | 0.00 | 0.00 | 0.00 | 3.18 |
901 | 1053 | 2.034879 | CACGACGCTTCCATGGCTT | 61.035 | 57.895 | 6.96 | 0.00 | 0.00 | 4.35 |
1236 | 1388 | 3.598715 | AACGTCGTGCCGGAGACA | 61.599 | 61.111 | 20.00 | 1.43 | 37.23 | 3.41 |
1610 | 1768 | 1.801913 | CCGAGAAGCAGAACGACGG | 60.802 | 63.158 | 0.00 | 0.00 | 0.00 | 4.79 |
1659 | 1820 | 4.504461 | CAGTACAATCCATGAGTAAGACGC | 59.496 | 45.833 | 0.00 | 0.00 | 0.00 | 5.19 |
1677 | 1838 | 1.538075 | CGCATACGAGGGGTTTGTTTT | 59.462 | 47.619 | 0.00 | 0.00 | 43.93 | 2.43 |
1687 | 1848 | 1.326245 | GGGTTTGTTTTTGCTTGCGAC | 59.674 | 47.619 | 0.00 | 0.00 | 0.00 | 5.19 |
1790 | 1951 | 6.015856 | GCTACTTCTACTATGCTGAAGGATGA | 60.016 | 42.308 | 0.00 | 0.00 | 40.83 | 2.92 |
1791 | 1952 | 6.403866 | ACTTCTACTATGCTGAAGGATGAG | 57.596 | 41.667 | 0.00 | 0.00 | 40.83 | 2.90 |
1792 | 1953 | 4.862902 | TCTACTATGCTGAAGGATGAGC | 57.137 | 45.455 | 0.00 | 0.00 | 35.65 | 4.26 |
1793 | 1954 | 4.478203 | TCTACTATGCTGAAGGATGAGCT | 58.522 | 43.478 | 0.00 | 0.00 | 36.11 | 4.09 |
1794 | 1955 | 5.635120 | TCTACTATGCTGAAGGATGAGCTA | 58.365 | 41.667 | 0.00 | 0.00 | 36.11 | 3.32 |
1795 | 1956 | 6.252233 | TCTACTATGCTGAAGGATGAGCTAT | 58.748 | 40.000 | 0.00 | 0.00 | 36.11 | 2.97 |
1796 | 1957 | 5.404466 | ACTATGCTGAAGGATGAGCTATC | 57.596 | 43.478 | 0.00 | 0.00 | 36.11 | 2.08 |
1797 | 1958 | 5.085920 | ACTATGCTGAAGGATGAGCTATCT | 58.914 | 41.667 | 0.00 | 0.00 | 36.11 | 1.98 |
1958 | 2134 | 6.003326 | TGTGCCAGAATGAAGAAAATAGTGA | 58.997 | 36.000 | 0.00 | 0.00 | 39.69 | 3.41 |
1962 | 2138 | 5.649395 | CCAGAATGAAGAAAATAGTGAGGCA | 59.351 | 40.000 | 0.00 | 0.00 | 39.69 | 4.75 |
2003 | 2179 | 2.358898 | GGCATGATTGGTTTAGTCGCAT | 59.641 | 45.455 | 0.00 | 0.00 | 0.00 | 4.73 |
2004 | 2180 | 3.365832 | GCATGATTGGTTTAGTCGCATG | 58.634 | 45.455 | 0.00 | 0.00 | 35.87 | 4.06 |
2012 | 2194 | 8.556194 | TGATTGGTTTAGTCGCATGTATATTTC | 58.444 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
2014 | 2196 | 6.588204 | TGGTTTAGTCGCATGTATATTTCCT | 58.412 | 36.000 | 0.00 | 0.00 | 0.00 | 3.36 |
2016 | 2198 | 6.482308 | GGTTTAGTCGCATGTATATTTCCTGT | 59.518 | 38.462 | 0.00 | 0.00 | 0.00 | 4.00 |
2024 | 2206 | 2.769663 | TGTATATTTCCTGTGTCCGCCT | 59.230 | 45.455 | 0.00 | 0.00 | 0.00 | 5.52 |
2069 | 2251 | 4.589908 | AGGAATTAGAATGGCACTTTCGT | 58.410 | 39.130 | 0.00 | 0.00 | 0.00 | 3.85 |
2079 | 2261 | 1.333619 | GGCACTTTCGTCTTTTGCTGA | 59.666 | 47.619 | 0.00 | 0.00 | 33.55 | 4.26 |
2081 | 2263 | 2.644078 | CACTTTCGTCTTTTGCTGAGC | 58.356 | 47.619 | 0.00 | 0.00 | 0.00 | 4.26 |
2106 | 2288 | 7.148590 | GCTAGATTCGCACCAAAAATTTCAAAT | 60.149 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
2107 | 2289 | 7.495135 | AGATTCGCACCAAAAATTTCAAATT | 57.505 | 28.000 | 0.00 | 0.00 | 0.00 | 1.82 |
2108 | 2290 | 8.600449 | AGATTCGCACCAAAAATTTCAAATTA | 57.400 | 26.923 | 0.00 | 0.00 | 0.00 | 1.40 |
2109 | 2291 | 9.050601 | AGATTCGCACCAAAAATTTCAAATTAA | 57.949 | 25.926 | 0.00 | 0.00 | 0.00 | 1.40 |
2110 | 2292 | 9.657121 | GATTCGCACCAAAAATTTCAAATTAAA | 57.343 | 25.926 | 0.00 | 0.00 | 0.00 | 1.52 |
2123 | 2305 | 5.993748 | TCAAATTAAACCTGTTCATCCCC | 57.006 | 39.130 | 0.00 | 0.00 | 0.00 | 4.81 |
2124 | 2306 | 5.398236 | TCAAATTAAACCTGTTCATCCCCA | 58.602 | 37.500 | 0.00 | 0.00 | 0.00 | 4.96 |
2125 | 2307 | 6.022315 | TCAAATTAAACCTGTTCATCCCCAT | 58.978 | 36.000 | 0.00 | 0.00 | 0.00 | 4.00 |
2127 | 2309 | 2.236489 | AAACCTGTTCATCCCCATGG | 57.764 | 50.000 | 4.14 | 4.14 | 0.00 | 3.66 |
2130 | 2312 | 0.396139 | CCTGTTCATCCCCATGGGTG | 60.396 | 60.000 | 29.33 | 21.36 | 44.74 | 4.61 |
2131 | 2313 | 0.332632 | CTGTTCATCCCCATGGGTGT | 59.667 | 55.000 | 29.33 | 14.54 | 44.74 | 4.16 |
2132 | 2314 | 0.331278 | TGTTCATCCCCATGGGTGTC | 59.669 | 55.000 | 29.33 | 17.65 | 44.74 | 3.67 |
2133 | 2315 | 0.625849 | GTTCATCCCCATGGGTGTCT | 59.374 | 55.000 | 29.33 | 7.89 | 44.74 | 3.41 |
2134 | 2316 | 1.843851 | GTTCATCCCCATGGGTGTCTA | 59.156 | 52.381 | 29.33 | 8.96 | 44.74 | 2.59 |
2135 | 2317 | 1.507140 | TCATCCCCATGGGTGTCTAC | 58.493 | 55.000 | 29.33 | 0.00 | 44.74 | 2.59 |
2136 | 2318 | 0.474184 | CATCCCCATGGGTGTCTACC | 59.526 | 60.000 | 29.33 | 0.00 | 44.74 | 3.18 |
2137 | 2319 | 0.346932 | ATCCCCATGGGTGTCTACCT | 59.653 | 55.000 | 29.33 | 1.66 | 46.66 | 3.08 |
2138 | 2320 | 1.020462 | TCCCCATGGGTGTCTACCTA | 58.980 | 55.000 | 29.33 | 0.60 | 46.66 | 3.08 |
2139 | 2321 | 1.129058 | CCCCATGGGTGTCTACCTAC | 58.871 | 60.000 | 29.33 | 0.00 | 46.66 | 3.18 |
2140 | 2322 | 1.129058 | CCCATGGGTGTCTACCTACC | 58.871 | 60.000 | 23.93 | 0.00 | 46.66 | 3.18 |
2141 | 2323 | 1.344087 | CCCATGGGTGTCTACCTACCT | 60.344 | 57.143 | 23.93 | 0.00 | 46.66 | 3.08 |
2142 | 2324 | 2.090943 | CCCATGGGTGTCTACCTACCTA | 60.091 | 54.545 | 23.93 | 0.00 | 46.66 | 3.08 |
2143 | 2325 | 2.963782 | CCATGGGTGTCTACCTACCTAC | 59.036 | 54.545 | 2.85 | 0.00 | 46.66 | 3.18 |
2149 | 2331 | 1.288932 | TGTCTACCTACCTACCCACCC | 59.711 | 57.143 | 0.00 | 0.00 | 0.00 | 4.61 |
2153 | 2335 | 1.691689 | CCTACCTACCCACCCACCC | 60.692 | 68.421 | 0.00 | 0.00 | 0.00 | 4.61 |
2158 | 2340 | 2.204029 | TACCCACCCACCCACCTC | 60.204 | 66.667 | 0.00 | 0.00 | 0.00 | 3.85 |
2171 | 2357 | 0.319900 | CCACCTCGTGTCCTTGTGAG | 60.320 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2172 | 2358 | 0.673985 | CACCTCGTGTCCTTGTGAGA | 59.326 | 55.000 | 0.00 | 0.00 | 0.00 | 3.27 |
2178 | 2364 | 2.492088 | TCGTGTCCTTGTGAGATCGATT | 59.508 | 45.455 | 0.00 | 0.00 | 0.00 | 3.34 |
2181 | 2367 | 4.437239 | GTGTCCTTGTGAGATCGATTGAT | 58.563 | 43.478 | 0.00 | 0.00 | 37.60 | 2.57 |
2279 | 2465 | 2.389962 | TACCACGTAGGCCACAATTC | 57.610 | 50.000 | 5.01 | 0.00 | 43.14 | 2.17 |
2288 | 2474 | 1.026718 | GGCCACAATTCGTCCTCCTG | 61.027 | 60.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2426 | 2612 | 0.035458 | ACCTACAGCTGGAACACTGC | 59.965 | 55.000 | 19.93 | 0.00 | 39.73 | 4.40 |
2447 | 2633 | 0.453793 | CCACTTTGTTCGGTGCAACA | 59.546 | 50.000 | 0.98 | 0.00 | 39.98 | 3.33 |
2557 | 2743 | 3.064408 | GGTAAGTTTTGCCGGCTACATAC | 59.936 | 47.826 | 29.70 | 24.97 | 0.00 | 2.39 |
2560 | 2746 | 2.027561 | AGTTTTGCCGGCTACATACAGA | 60.028 | 45.455 | 29.70 | 0.00 | 0.00 | 3.41 |
2566 | 2752 | 2.036733 | GCCGGCTACATACAGAACCATA | 59.963 | 50.000 | 22.15 | 0.00 | 0.00 | 2.74 |
2583 | 2769 | 8.960591 | CAGAACCATAATGTATTGAGGAGTTTT | 58.039 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
2584 | 2770 | 9.533831 | AGAACCATAATGTATTGAGGAGTTTTT | 57.466 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
2585 | 2771 | 9.788960 | GAACCATAATGTATTGAGGAGTTTTTC | 57.211 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
2586 | 2772 | 7.985476 | ACCATAATGTATTGAGGAGTTTTTCG | 58.015 | 34.615 | 0.00 | 0.00 | 0.00 | 3.46 |
2587 | 2773 | 7.067008 | ACCATAATGTATTGAGGAGTTTTTCGG | 59.933 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
2588 | 2774 | 7.067008 | CCATAATGTATTGAGGAGTTTTTCGGT | 59.933 | 37.037 | 0.00 | 0.00 | 0.00 | 4.69 |
2589 | 2775 | 9.104965 | CATAATGTATTGAGGAGTTTTTCGGTA | 57.895 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
2590 | 2776 | 7.989416 | AATGTATTGAGGAGTTTTTCGGTAA | 57.011 | 32.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2591 | 2777 | 8.575649 | AATGTATTGAGGAGTTTTTCGGTAAT | 57.424 | 30.769 | 0.00 | 0.00 | 0.00 | 1.89 |
2592 | 2778 | 7.989416 | TGTATTGAGGAGTTTTTCGGTAATT | 57.011 | 32.000 | 0.00 | 0.00 | 0.00 | 1.40 |
2593 | 2779 | 7.812648 | TGTATTGAGGAGTTTTTCGGTAATTG | 58.187 | 34.615 | 0.00 | 0.00 | 0.00 | 2.32 |
2594 | 2780 | 4.759516 | TGAGGAGTTTTTCGGTAATTGC | 57.240 | 40.909 | 0.00 | 0.00 | 0.00 | 3.56 |
2595 | 2781 | 3.504520 | TGAGGAGTTTTTCGGTAATTGCC | 59.495 | 43.478 | 1.83 | 1.83 | 0.00 | 4.52 |
2596 | 2782 | 3.756963 | GAGGAGTTTTTCGGTAATTGCCT | 59.243 | 43.478 | 11.07 | 0.00 | 0.00 | 4.75 |
2597 | 2783 | 4.149598 | AGGAGTTTTTCGGTAATTGCCTT | 58.850 | 39.130 | 11.07 | 0.00 | 0.00 | 4.35 |
2598 | 2784 | 4.587262 | AGGAGTTTTTCGGTAATTGCCTTT | 59.413 | 37.500 | 11.07 | 0.00 | 0.00 | 3.11 |
2599 | 2785 | 4.684242 | GGAGTTTTTCGGTAATTGCCTTTG | 59.316 | 41.667 | 11.07 | 0.00 | 0.00 | 2.77 |
2600 | 2786 | 4.627058 | AGTTTTTCGGTAATTGCCTTTGG | 58.373 | 39.130 | 11.07 | 0.00 | 0.00 | 3.28 |
2610 | 2796 | 4.645809 | GCCTTTGGCTCCTAGGTG | 57.354 | 61.111 | 9.08 | 7.68 | 46.69 | 4.00 |
2611 | 2797 | 1.750780 | GCCTTTGGCTCCTAGGTGC | 60.751 | 63.158 | 24.68 | 24.68 | 46.69 | 5.01 |
2612 | 2798 | 1.685224 | CCTTTGGCTCCTAGGTGCA | 59.315 | 57.895 | 31.19 | 17.76 | 36.47 | 4.57 |
2613 | 2799 | 0.257039 | CCTTTGGCTCCTAGGTGCAT | 59.743 | 55.000 | 31.19 | 0.00 | 36.47 | 3.96 |
2614 | 2800 | 1.490490 | CCTTTGGCTCCTAGGTGCATA | 59.510 | 52.381 | 31.19 | 19.50 | 36.47 | 3.14 |
2615 | 2801 | 2.107204 | CCTTTGGCTCCTAGGTGCATAT | 59.893 | 50.000 | 31.19 | 0.00 | 36.47 | 1.78 |
2616 | 2802 | 2.936919 | TTGGCTCCTAGGTGCATATG | 57.063 | 50.000 | 31.19 | 0.00 | 36.47 | 1.78 |
2617 | 2803 | 0.397941 | TGGCTCCTAGGTGCATATGC | 59.602 | 55.000 | 31.19 | 21.09 | 42.50 | 3.14 |
2628 | 2814 | 3.851620 | GCATATGCACCCATTGTCG | 57.148 | 52.632 | 22.84 | 0.00 | 41.59 | 4.35 |
2629 | 2815 | 1.308047 | GCATATGCACCCATTGTCGA | 58.692 | 50.000 | 22.84 | 0.00 | 41.59 | 4.20 |
2630 | 2816 | 1.675483 | GCATATGCACCCATTGTCGAA | 59.325 | 47.619 | 22.84 | 0.00 | 41.59 | 3.71 |
2631 | 2817 | 2.098934 | GCATATGCACCCATTGTCGAAA | 59.901 | 45.455 | 22.84 | 0.00 | 41.59 | 3.46 |
2632 | 2818 | 3.243501 | GCATATGCACCCATTGTCGAAAT | 60.244 | 43.478 | 22.84 | 0.00 | 41.59 | 2.17 |
2633 | 2819 | 4.539870 | CATATGCACCCATTGTCGAAATC | 58.460 | 43.478 | 0.00 | 0.00 | 32.85 | 2.17 |
2634 | 2820 | 1.173043 | TGCACCCATTGTCGAAATCC | 58.827 | 50.000 | 0.00 | 0.00 | 0.00 | 3.01 |
2635 | 2821 | 1.173043 | GCACCCATTGTCGAAATCCA | 58.827 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
2636 | 2822 | 1.543802 | GCACCCATTGTCGAAATCCAA | 59.456 | 47.619 | 0.00 | 0.00 | 0.00 | 3.53 |
2637 | 2823 | 2.029470 | GCACCCATTGTCGAAATCCAAA | 60.029 | 45.455 | 0.00 | 0.00 | 0.00 | 3.28 |
2638 | 2824 | 3.368323 | GCACCCATTGTCGAAATCCAAAT | 60.368 | 43.478 | 0.00 | 0.00 | 0.00 | 2.32 |
2639 | 2825 | 4.819769 | CACCCATTGTCGAAATCCAAATT | 58.180 | 39.130 | 0.00 | 0.00 | 0.00 | 1.82 |
2640 | 2826 | 4.864247 | CACCCATTGTCGAAATCCAAATTC | 59.136 | 41.667 | 0.00 | 0.00 | 0.00 | 2.17 |
2641 | 2827 | 4.081697 | ACCCATTGTCGAAATCCAAATTCC | 60.082 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
2642 | 2828 | 4.104776 | CCATTGTCGAAATCCAAATTCCG | 58.895 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
2643 | 2829 | 4.142491 | CCATTGTCGAAATCCAAATTCCGA | 60.142 | 41.667 | 0.00 | 0.00 | 0.00 | 4.55 |
2644 | 2830 | 4.678509 | TTGTCGAAATCCAAATTCCGAG | 57.321 | 40.909 | 0.00 | 0.00 | 0.00 | 4.63 |
2645 | 2831 | 3.932822 | TGTCGAAATCCAAATTCCGAGA | 58.067 | 40.909 | 0.00 | 0.00 | 0.00 | 4.04 |
2646 | 2832 | 4.320023 | TGTCGAAATCCAAATTCCGAGAA | 58.680 | 39.130 | 0.00 | 0.00 | 0.00 | 2.87 |
2647 | 2833 | 4.391830 | TGTCGAAATCCAAATTCCGAGAAG | 59.608 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
2648 | 2834 | 4.392138 | GTCGAAATCCAAATTCCGAGAAGT | 59.608 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
2649 | 2835 | 5.001232 | TCGAAATCCAAATTCCGAGAAGTT | 58.999 | 37.500 | 0.00 | 0.00 | 0.00 | 2.66 |
2650 | 2836 | 6.091713 | GTCGAAATCCAAATTCCGAGAAGTTA | 59.908 | 38.462 | 0.00 | 0.00 | 0.00 | 2.24 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
1 | 2 | 7.070074 | GTCCCTCCTTGAGAGTCTTATTTCATA | 59.930 | 40.741 | 0.00 | 0.00 | 41.47 | 2.15 |
3 | 4 | 5.187967 | GTCCCTCCTTGAGAGTCTTATTTCA | 59.812 | 44.000 | 0.00 | 0.00 | 41.47 | 2.69 |
4 | 5 | 5.423931 | AGTCCCTCCTTGAGAGTCTTATTTC | 59.576 | 44.000 | 0.00 | 0.00 | 41.47 | 2.17 |
5 | 6 | 5.346270 | AGTCCCTCCTTGAGAGTCTTATTT | 58.654 | 41.667 | 0.00 | 0.00 | 41.47 | 1.40 |
6 | 7 | 4.954089 | AGTCCCTCCTTGAGAGTCTTATT | 58.046 | 43.478 | 0.00 | 0.00 | 41.47 | 1.40 |
7 | 8 | 4.618378 | AGTCCCTCCTTGAGAGTCTTAT | 57.382 | 45.455 | 0.00 | 0.00 | 41.47 | 1.73 |
8 | 9 | 4.405756 | AAGTCCCTCCTTGAGAGTCTTA | 57.594 | 45.455 | 0.00 | 0.00 | 41.47 | 2.10 |
9 | 10 | 3.268034 | AAGTCCCTCCTTGAGAGTCTT | 57.732 | 47.619 | 0.00 | 0.00 | 41.47 | 3.01 |
10 | 11 | 4.618378 | ATAAGTCCCTCCTTGAGAGTCT | 57.382 | 45.455 | 0.00 | 0.00 | 41.47 | 3.24 |
11 | 12 | 4.830600 | CCTATAAGTCCCTCCTTGAGAGTC | 59.169 | 50.000 | 0.00 | 0.00 | 41.47 | 3.36 |
12 | 13 | 4.482772 | TCCTATAAGTCCCTCCTTGAGAGT | 59.517 | 45.833 | 0.00 | 0.00 | 41.47 | 3.24 |
13 | 14 | 5.068215 | TCCTATAAGTCCCTCCTTGAGAG | 57.932 | 47.826 | 0.00 | 0.00 | 42.83 | 3.20 |
14 | 15 | 5.043281 | AGTTCCTATAAGTCCCTCCTTGAGA | 60.043 | 44.000 | 0.00 | 0.00 | 0.00 | 3.27 |
15 | 16 | 5.212745 | AGTTCCTATAAGTCCCTCCTTGAG | 58.787 | 45.833 | 0.00 | 0.00 | 0.00 | 3.02 |
16 | 17 | 5.222278 | AGTTCCTATAAGTCCCTCCTTGA | 57.778 | 43.478 | 0.00 | 0.00 | 0.00 | 3.02 |
17 | 18 | 5.959583 | AAGTTCCTATAAGTCCCTCCTTG | 57.040 | 43.478 | 0.00 | 0.00 | 0.00 | 3.61 |
18 | 19 | 8.521301 | ACTATAAGTTCCTATAAGTCCCTCCTT | 58.479 | 37.037 | 0.00 | 0.00 | 0.00 | 3.36 |
19 | 20 | 8.071235 | ACTATAAGTTCCTATAAGTCCCTCCT | 57.929 | 38.462 | 0.00 | 0.00 | 0.00 | 3.69 |
20 | 21 | 8.586744 | CAACTATAAGTTCCTATAAGTCCCTCC | 58.413 | 40.741 | 0.00 | 0.00 | 36.03 | 4.30 |
21 | 22 | 9.145442 | ACAACTATAAGTTCCTATAAGTCCCTC | 57.855 | 37.037 | 0.00 | 0.00 | 36.03 | 4.30 |
42 | 43 | 9.448587 | AAGTCCCTATAAGACCATATTACAACT | 57.551 | 33.333 | 0.09 | 0.00 | 34.67 | 3.16 |
65 | 66 | 5.073965 | TGTTTGGTTCCTGGGACTTATAAGT | 59.926 | 40.000 | 18.05 | 18.05 | 43.16 | 2.24 |
66 | 67 | 5.566469 | TGTTTGGTTCCTGGGACTTATAAG | 58.434 | 41.667 | 11.05 | 11.05 | 0.00 | 1.73 |
67 | 68 | 5.515886 | CCTGTTTGGTTCCTGGGACTTATAA | 60.516 | 44.000 | 4.84 | 0.00 | 0.00 | 0.98 |
68 | 69 | 4.018779 | CCTGTTTGGTTCCTGGGACTTATA | 60.019 | 45.833 | 4.84 | 0.00 | 0.00 | 0.98 |
69 | 70 | 3.245264 | CCTGTTTGGTTCCTGGGACTTAT | 60.245 | 47.826 | 4.84 | 0.00 | 0.00 | 1.73 |
70 | 71 | 2.107552 | CCTGTTTGGTTCCTGGGACTTA | 59.892 | 50.000 | 4.84 | 0.00 | 0.00 | 2.24 |
71 | 72 | 1.133482 | CCTGTTTGGTTCCTGGGACTT | 60.133 | 52.381 | 4.84 | 0.00 | 0.00 | 3.01 |
72 | 73 | 0.478507 | CCTGTTTGGTTCCTGGGACT | 59.521 | 55.000 | 4.84 | 0.00 | 0.00 | 3.85 |
73 | 74 | 3.036431 | CCTGTTTGGTTCCTGGGAC | 57.964 | 57.895 | 0.00 | 0.00 | 0.00 | 4.46 |
83 | 84 | 6.996282 | TCTCTAAAAAGTCCTTACCTGTTTGG | 59.004 | 38.462 | 0.00 | 0.00 | 42.93 | 3.28 |
84 | 85 | 7.715686 | AGTCTCTAAAAAGTCCTTACCTGTTTG | 59.284 | 37.037 | 0.00 | 0.00 | 0.00 | 2.93 |
85 | 86 | 7.803131 | AGTCTCTAAAAAGTCCTTACCTGTTT | 58.197 | 34.615 | 0.00 | 0.00 | 0.00 | 2.83 |
86 | 87 | 7.376335 | AGTCTCTAAAAAGTCCTTACCTGTT | 57.624 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
87 | 88 | 6.997942 | AGTCTCTAAAAAGTCCTTACCTGT | 57.002 | 37.500 | 0.00 | 0.00 | 0.00 | 4.00 |
88 | 89 | 7.173390 | CCAAAGTCTCTAAAAAGTCCTTACCTG | 59.827 | 40.741 | 0.00 | 0.00 | 0.00 | 4.00 |
89 | 90 | 7.072076 | TCCAAAGTCTCTAAAAAGTCCTTACCT | 59.928 | 37.037 | 0.00 | 0.00 | 0.00 | 3.08 |
90 | 91 | 7.172875 | GTCCAAAGTCTCTAAAAAGTCCTTACC | 59.827 | 40.741 | 0.00 | 0.00 | 0.00 | 2.85 |
91 | 92 | 7.932491 | AGTCCAAAGTCTCTAAAAAGTCCTTAC | 59.068 | 37.037 | 0.00 | 0.00 | 0.00 | 2.34 |
92 | 93 | 8.030913 | AGTCCAAAGTCTCTAAAAAGTCCTTA | 57.969 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
93 | 94 | 6.901300 | AGTCCAAAGTCTCTAAAAAGTCCTT | 58.099 | 36.000 | 0.00 | 0.00 | 0.00 | 3.36 |
94 | 95 | 6.502074 | AGTCCAAAGTCTCTAAAAAGTCCT | 57.498 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
95 | 96 | 8.850007 | ATAAGTCCAAAGTCTCTAAAAAGTCC | 57.150 | 34.615 | 0.00 | 0.00 | 0.00 | 3.85 |
101 | 102 | 9.720769 | CCAACTTATAAGTCCAAAGTCTCTAAA | 57.279 | 33.333 | 18.28 | 0.00 | 38.57 | 1.85 |
102 | 103 | 8.319146 | CCCAACTTATAAGTCCAAAGTCTCTAA | 58.681 | 37.037 | 18.28 | 0.00 | 38.57 | 2.10 |
103 | 104 | 7.676893 | TCCCAACTTATAAGTCCAAAGTCTCTA | 59.323 | 37.037 | 18.28 | 0.00 | 38.57 | 2.43 |
104 | 105 | 6.500751 | TCCCAACTTATAAGTCCAAAGTCTCT | 59.499 | 38.462 | 18.28 | 0.00 | 38.57 | 3.10 |
105 | 106 | 6.594547 | GTCCCAACTTATAAGTCCAAAGTCTC | 59.405 | 42.308 | 18.28 | 1.23 | 38.57 | 3.36 |
106 | 107 | 6.272558 | AGTCCCAACTTATAAGTCCAAAGTCT | 59.727 | 38.462 | 18.28 | 8.64 | 38.57 | 3.24 |
107 | 108 | 6.473758 | AGTCCCAACTTATAAGTCCAAAGTC | 58.526 | 40.000 | 18.28 | 6.78 | 38.57 | 3.01 |
108 | 109 | 6.449830 | AGTCCCAACTTATAAGTCCAAAGT | 57.550 | 37.500 | 18.28 | 5.74 | 38.57 | 2.66 |
109 | 110 | 8.857694 | TTTAGTCCCAACTTATAAGTCCAAAG | 57.142 | 34.615 | 18.28 | 6.66 | 38.57 | 2.77 |
110 | 111 | 9.643735 | TTTTTAGTCCCAACTTATAAGTCCAAA | 57.356 | 29.630 | 18.28 | 4.97 | 38.57 | 3.28 |
139 | 140 | 9.110502 | CCCTGTTTGATTTATAAGTCCTAAGAC | 57.889 | 37.037 | 5.61 | 0.00 | 43.89 | 3.01 |
140 | 141 | 7.773690 | GCCCTGTTTGATTTATAAGTCCTAAGA | 59.226 | 37.037 | 5.61 | 0.00 | 0.00 | 2.10 |
141 | 142 | 7.013369 | GGCCCTGTTTGATTTATAAGTCCTAAG | 59.987 | 40.741 | 5.61 | 0.00 | 0.00 | 2.18 |
142 | 143 | 6.831868 | GGCCCTGTTTGATTTATAAGTCCTAA | 59.168 | 38.462 | 5.61 | 0.00 | 0.00 | 2.69 |
143 | 144 | 6.159751 | AGGCCCTGTTTGATTTATAAGTCCTA | 59.840 | 38.462 | 0.00 | 0.00 | 0.00 | 2.94 |
144 | 145 | 5.044105 | AGGCCCTGTTTGATTTATAAGTCCT | 60.044 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
145 | 146 | 5.201243 | AGGCCCTGTTTGATTTATAAGTCC | 58.799 | 41.667 | 0.00 | 0.00 | 0.00 | 3.85 |
146 | 147 | 6.377146 | TCAAGGCCCTGTTTGATTTATAAGTC | 59.623 | 38.462 | 0.00 | 1.17 | 0.00 | 3.01 |
147 | 148 | 6.252995 | TCAAGGCCCTGTTTGATTTATAAGT | 58.747 | 36.000 | 0.00 | 0.00 | 0.00 | 2.24 |
148 | 149 | 6.773976 | TCAAGGCCCTGTTTGATTTATAAG | 57.226 | 37.500 | 0.00 | 0.00 | 0.00 | 1.73 |
149 | 150 | 7.732222 | AATCAAGGCCCTGTTTGATTTATAA | 57.268 | 32.000 | 19.73 | 0.00 | 46.41 | 0.98 |
155 | 156 | 2.094675 | CGAATCAAGGCCCTGTTTGAT | 58.905 | 47.619 | 11.21 | 11.21 | 43.79 | 2.57 |
156 | 157 | 1.202879 | ACGAATCAAGGCCCTGTTTGA | 60.203 | 47.619 | 7.53 | 7.53 | 37.68 | 2.69 |
157 | 158 | 1.247567 | ACGAATCAAGGCCCTGTTTG | 58.752 | 50.000 | 0.00 | 0.00 | 0.00 | 2.93 |
158 | 159 | 2.871096 | TACGAATCAAGGCCCTGTTT | 57.129 | 45.000 | 0.00 | 0.00 | 0.00 | 2.83 |
159 | 160 | 2.711542 | CTTACGAATCAAGGCCCTGTT | 58.288 | 47.619 | 0.00 | 0.00 | 0.00 | 3.16 |
160 | 161 | 1.679032 | GCTTACGAATCAAGGCCCTGT | 60.679 | 52.381 | 0.00 | 0.00 | 0.00 | 4.00 |
161 | 162 | 1.017387 | GCTTACGAATCAAGGCCCTG | 58.983 | 55.000 | 0.00 | 0.00 | 0.00 | 4.45 |
162 | 163 | 0.618458 | TGCTTACGAATCAAGGCCCT | 59.382 | 50.000 | 0.00 | 0.00 | 0.00 | 5.19 |
163 | 164 | 1.017387 | CTGCTTACGAATCAAGGCCC | 58.983 | 55.000 | 0.00 | 0.00 | 0.00 | 5.80 |
164 | 165 | 1.017387 | CCTGCTTACGAATCAAGGCC | 58.983 | 55.000 | 0.00 | 0.00 | 0.00 | 5.19 |
165 | 166 | 1.017387 | CCCTGCTTACGAATCAAGGC | 58.983 | 55.000 | 0.00 | 0.00 | 0.00 | 4.35 |
166 | 167 | 1.017387 | GCCCTGCTTACGAATCAAGG | 58.983 | 55.000 | 0.00 | 0.00 | 0.00 | 3.61 |
167 | 168 | 0.652592 | CGCCCTGCTTACGAATCAAG | 59.347 | 55.000 | 0.00 | 0.00 | 0.00 | 3.02 |
168 | 169 | 0.248012 | TCGCCCTGCTTACGAATCAA | 59.752 | 50.000 | 0.00 | 0.00 | 31.97 | 2.57 |
169 | 170 | 0.248012 | TTCGCCCTGCTTACGAATCA | 59.752 | 50.000 | 0.00 | 0.00 | 40.56 | 2.57 |
170 | 171 | 1.327764 | CTTTCGCCCTGCTTACGAATC | 59.672 | 52.381 | 0.00 | 0.00 | 44.37 | 2.52 |
171 | 172 | 1.369625 | CTTTCGCCCTGCTTACGAAT | 58.630 | 50.000 | 0.00 | 0.00 | 44.37 | 3.34 |
172 | 173 | 1.296056 | GCTTTCGCCCTGCTTACGAA | 61.296 | 55.000 | 0.00 | 0.00 | 43.42 | 3.85 |
173 | 174 | 1.740296 | GCTTTCGCCCTGCTTACGA | 60.740 | 57.895 | 0.00 | 0.00 | 0.00 | 3.43 |
174 | 175 | 1.741770 | AGCTTTCGCCCTGCTTACG | 60.742 | 57.895 | 0.00 | 0.00 | 36.60 | 3.18 |
175 | 176 | 0.673644 | TCAGCTTTCGCCCTGCTTAC | 60.674 | 55.000 | 0.00 | 0.00 | 34.51 | 2.34 |
176 | 177 | 0.036164 | TTCAGCTTTCGCCCTGCTTA | 59.964 | 50.000 | 0.00 | 0.00 | 34.51 | 3.09 |
177 | 178 | 1.228245 | TTCAGCTTTCGCCCTGCTT | 60.228 | 52.632 | 0.00 | 0.00 | 34.51 | 3.91 |
178 | 179 | 1.673665 | CTTCAGCTTTCGCCCTGCT | 60.674 | 57.895 | 0.00 | 0.00 | 37.56 | 4.24 |
179 | 180 | 2.873288 | CTTCAGCTTTCGCCCTGC | 59.127 | 61.111 | 0.00 | 0.00 | 36.60 | 4.85 |
180 | 181 | 2.873288 | GCTTCAGCTTTCGCCCTG | 59.127 | 61.111 | 0.00 | 0.00 | 38.21 | 4.45 |
221 | 361 | 9.888878 | CGTGAGTTCTTAAATACCTATCGAATA | 57.111 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
692 | 839 | 0.393808 | TAGATTGGAAAGGGCCGTGC | 60.394 | 55.000 | 0.00 | 0.00 | 0.00 | 5.34 |
807 | 955 | 1.208535 | TGTGTTTGTCTGGTCTCCGTT | 59.791 | 47.619 | 0.00 | 0.00 | 0.00 | 4.44 |
816 | 964 | 1.355210 | GGCCGTGTGTGTTTGTCTG | 59.645 | 57.895 | 0.00 | 0.00 | 0.00 | 3.51 |
1067 | 1219 | 3.414700 | CGCTGTTGGTGTCGAGCC | 61.415 | 66.667 | 0.00 | 0.00 | 0.00 | 4.70 |
1200 | 1352 | 1.112916 | TGGTGGTCGTCAGCTTCTCA | 61.113 | 55.000 | 10.73 | 0.00 | 43.76 | 3.27 |
1374 | 1526 | 1.162181 | TCATCCCGTAGTAGTCGCGG | 61.162 | 60.000 | 6.13 | 6.53 | 44.55 | 6.46 |
1455 | 1607 | 0.179153 | GGTTGGACTCGTAGCCGTAC | 60.179 | 60.000 | 0.00 | 0.00 | 35.01 | 3.67 |
1557 | 1709 | 2.670592 | TCGTTCTCGTCTCCGGCA | 60.671 | 61.111 | 0.00 | 0.00 | 38.33 | 5.69 |
1564 | 1716 | 1.186623 | GTTGTCGTTGTCGTTCTCGTC | 59.813 | 52.381 | 0.00 | 0.00 | 38.33 | 4.20 |
1570 | 1722 | 1.884004 | CCCCGTTGTCGTTGTCGTT | 60.884 | 57.895 | 0.00 | 0.00 | 38.33 | 3.85 |
1571 | 1723 | 2.279650 | CCCCGTTGTCGTTGTCGT | 60.280 | 61.111 | 0.00 | 0.00 | 38.33 | 4.34 |
1572 | 1724 | 2.279650 | ACCCCGTTGTCGTTGTCG | 60.280 | 61.111 | 0.00 | 0.00 | 38.55 | 4.35 |
1573 | 1725 | 2.248835 | CCACCCCGTTGTCGTTGTC | 61.249 | 63.158 | 0.00 | 0.00 | 35.01 | 3.18 |
1574 | 1726 | 2.203098 | CCACCCCGTTGTCGTTGT | 60.203 | 61.111 | 0.00 | 0.00 | 35.01 | 3.32 |
1575 | 1727 | 3.656045 | GCCACCCCGTTGTCGTTG | 61.656 | 66.667 | 0.00 | 0.00 | 35.01 | 4.10 |
1610 | 1768 | 3.680786 | GGTTTTCCTGGTGGCCGC | 61.681 | 66.667 | 8.12 | 8.12 | 36.94 | 6.53 |
1615 | 1773 | 0.951558 | CCGTTCTGGTTTTCCTGGTG | 59.048 | 55.000 | 0.00 | 0.00 | 41.38 | 4.17 |
1616 | 1774 | 0.179001 | CCCGTTCTGGTTTTCCTGGT | 60.179 | 55.000 | 0.00 | 0.00 | 41.38 | 4.00 |
1659 | 1820 | 3.005367 | AGCAAAAACAAACCCCTCGTATG | 59.995 | 43.478 | 0.00 | 0.00 | 0.00 | 2.39 |
1677 | 1838 | 0.245266 | TATCTGACGGTCGCAAGCAA | 59.755 | 50.000 | 3.34 | 0.00 | 37.18 | 3.91 |
1792 | 1953 | 0.032678 | CCACACCGGCAGCTAGATAG | 59.967 | 60.000 | 0.00 | 0.00 | 0.00 | 2.08 |
1793 | 1954 | 0.396556 | TCCACACCGGCAGCTAGATA | 60.397 | 55.000 | 0.00 | 0.00 | 33.14 | 1.98 |
1794 | 1955 | 1.264749 | TTCCACACCGGCAGCTAGAT | 61.265 | 55.000 | 0.00 | 0.00 | 33.14 | 1.98 |
1795 | 1956 | 1.264749 | ATTCCACACCGGCAGCTAGA | 61.265 | 55.000 | 0.00 | 0.00 | 33.14 | 2.43 |
1796 | 1957 | 1.091771 | CATTCCACACCGGCAGCTAG | 61.092 | 60.000 | 0.00 | 0.00 | 33.14 | 3.42 |
1797 | 1958 | 1.078497 | CATTCCACACCGGCAGCTA | 60.078 | 57.895 | 0.00 | 0.00 | 33.14 | 3.32 |
1962 | 2138 | 3.019564 | CCTTTCCGAATGAGGCTTGATT | 58.980 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
2003 | 2179 | 2.769663 | AGGCGGACACAGGAAATATACA | 59.230 | 45.455 | 0.00 | 0.00 | 0.00 | 2.29 |
2004 | 2180 | 3.470645 | AGGCGGACACAGGAAATATAC | 57.529 | 47.619 | 0.00 | 0.00 | 0.00 | 1.47 |
2012 | 2194 | 2.429930 | TCCAAAGGCGGACACAGG | 59.570 | 61.111 | 0.00 | 0.00 | 0.00 | 4.00 |
2069 | 2251 | 2.932614 | GCGAATCTAGCTCAGCAAAAGA | 59.067 | 45.455 | 0.00 | 0.00 | 0.00 | 2.52 |
2079 | 2261 | 5.048083 | TGAAATTTTTGGTGCGAATCTAGCT | 60.048 | 36.000 | 0.00 | 0.00 | 35.28 | 3.32 |
2081 | 2263 | 7.636259 | TTTGAAATTTTTGGTGCGAATCTAG | 57.364 | 32.000 | 0.00 | 0.00 | 0.00 | 2.43 |
2106 | 2288 | 3.707316 | CCATGGGGATGAACAGGTTTAA | 58.293 | 45.455 | 2.85 | 0.00 | 35.59 | 1.52 |
2107 | 2289 | 3.380471 | CCATGGGGATGAACAGGTTTA | 57.620 | 47.619 | 2.85 | 0.00 | 35.59 | 2.01 |
2108 | 2290 | 2.236489 | CCATGGGGATGAACAGGTTT | 57.764 | 50.000 | 2.85 | 0.00 | 35.59 | 3.27 |
2127 | 2309 | 2.382882 | GTGGGTAGGTAGGTAGACACC | 58.617 | 57.143 | 0.00 | 0.00 | 46.19 | 4.16 |
2130 | 2312 | 1.288932 | TGGGTGGGTAGGTAGGTAGAC | 59.711 | 57.143 | 0.00 | 0.00 | 0.00 | 2.59 |
2131 | 2313 | 1.288932 | GTGGGTGGGTAGGTAGGTAGA | 59.711 | 57.143 | 0.00 | 0.00 | 0.00 | 2.59 |
2132 | 2314 | 1.690527 | GGTGGGTGGGTAGGTAGGTAG | 60.691 | 61.905 | 0.00 | 0.00 | 0.00 | 3.18 |
2133 | 2315 | 0.339510 | GGTGGGTGGGTAGGTAGGTA | 59.660 | 60.000 | 0.00 | 0.00 | 0.00 | 3.08 |
2134 | 2316 | 1.081648 | GGTGGGTGGGTAGGTAGGT | 59.918 | 63.158 | 0.00 | 0.00 | 0.00 | 3.08 |
2135 | 2317 | 1.691689 | GGGTGGGTGGGTAGGTAGG | 60.692 | 68.421 | 0.00 | 0.00 | 0.00 | 3.18 |
2136 | 2318 | 1.081462 | TGGGTGGGTGGGTAGGTAG | 59.919 | 63.158 | 0.00 | 0.00 | 0.00 | 3.18 |
2137 | 2319 | 1.229593 | GTGGGTGGGTGGGTAGGTA | 60.230 | 63.158 | 0.00 | 0.00 | 0.00 | 3.08 |
2138 | 2320 | 2.530916 | GTGGGTGGGTGGGTAGGT | 60.531 | 66.667 | 0.00 | 0.00 | 0.00 | 3.08 |
2139 | 2321 | 3.335729 | GGTGGGTGGGTGGGTAGG | 61.336 | 72.222 | 0.00 | 0.00 | 0.00 | 3.18 |
2140 | 2322 | 2.204090 | AGGTGGGTGGGTGGGTAG | 60.204 | 66.667 | 0.00 | 0.00 | 0.00 | 3.18 |
2141 | 2323 | 2.204029 | GAGGTGGGTGGGTGGGTA | 60.204 | 66.667 | 0.00 | 0.00 | 0.00 | 3.69 |
2149 | 2331 | 1.301716 | CAAGGACACGAGGTGGGTG | 60.302 | 63.158 | 0.42 | 0.00 | 37.94 | 4.61 |
2153 | 2335 | 0.673985 | TCTCACAAGGACACGAGGTG | 59.326 | 55.000 | 0.00 | 0.00 | 39.75 | 4.00 |
2158 | 2340 | 2.568696 | ATCGATCTCACAAGGACACG | 57.431 | 50.000 | 0.00 | 0.00 | 0.00 | 4.49 |
2171 | 2357 | 5.175856 | CGTGAAGGGAGTAAATCAATCGATC | 59.824 | 44.000 | 0.00 | 0.00 | 0.00 | 3.69 |
2172 | 2358 | 5.050490 | CGTGAAGGGAGTAAATCAATCGAT | 58.950 | 41.667 | 0.00 | 0.00 | 0.00 | 3.59 |
2178 | 2364 | 2.821378 | TCGACGTGAAGGGAGTAAATCA | 59.179 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
2181 | 2367 | 2.673043 | GCATCGACGTGAAGGGAGTAAA | 60.673 | 50.000 | 0.00 | 0.00 | 0.00 | 2.01 |
2288 | 2474 | 1.028868 | GCCATGCACCTTGTCCTCTC | 61.029 | 60.000 | 0.00 | 0.00 | 0.00 | 3.20 |
2420 | 2606 | 0.732571 | CGAACAAAGTGGTGCAGTGT | 59.267 | 50.000 | 0.00 | 0.00 | 0.00 | 3.55 |
2557 | 2743 | 8.511604 | AAACTCCTCAATACATTATGGTTCTG | 57.488 | 34.615 | 0.00 | 0.00 | 0.00 | 3.02 |
2560 | 2746 | 8.458843 | CGAAAAACTCCTCAATACATTATGGTT | 58.541 | 33.333 | 0.00 | 0.00 | 0.00 | 3.67 |
2566 | 2752 | 7.989416 | TTACCGAAAAACTCCTCAATACATT | 57.011 | 32.000 | 0.00 | 0.00 | 0.00 | 2.71 |
2594 | 2780 | 0.257039 | ATGCACCTAGGAGCCAAAGG | 59.743 | 55.000 | 25.94 | 6.43 | 36.42 | 3.11 |
2595 | 2781 | 3.144506 | CATATGCACCTAGGAGCCAAAG | 58.855 | 50.000 | 25.94 | 11.57 | 0.00 | 2.77 |
2596 | 2782 | 2.749466 | GCATATGCACCTAGGAGCCAAA | 60.749 | 50.000 | 25.94 | 13.05 | 41.59 | 3.28 |
2597 | 2783 | 1.202806 | GCATATGCACCTAGGAGCCAA | 60.203 | 52.381 | 25.94 | 15.39 | 41.59 | 4.52 |
2598 | 2784 | 0.397941 | GCATATGCACCTAGGAGCCA | 59.602 | 55.000 | 25.94 | 15.42 | 41.59 | 4.75 |
2599 | 2785 | 3.239861 | GCATATGCACCTAGGAGCC | 57.760 | 57.895 | 25.94 | 8.49 | 41.59 | 4.70 |
2610 | 2796 | 1.308047 | TCGACAATGGGTGCATATGC | 58.692 | 50.000 | 21.09 | 21.09 | 42.50 | 3.14 |
2611 | 2797 | 4.539870 | GATTTCGACAATGGGTGCATATG | 58.460 | 43.478 | 0.00 | 0.00 | 0.00 | 1.78 |
2612 | 2798 | 3.569701 | GGATTTCGACAATGGGTGCATAT | 59.430 | 43.478 | 0.00 | 0.00 | 0.00 | 1.78 |
2613 | 2799 | 2.948979 | GGATTTCGACAATGGGTGCATA | 59.051 | 45.455 | 0.00 | 0.00 | 0.00 | 3.14 |
2614 | 2800 | 1.750778 | GGATTTCGACAATGGGTGCAT | 59.249 | 47.619 | 0.00 | 0.00 | 0.00 | 3.96 |
2615 | 2801 | 1.173043 | GGATTTCGACAATGGGTGCA | 58.827 | 50.000 | 0.00 | 0.00 | 0.00 | 4.57 |
2616 | 2802 | 1.173043 | TGGATTTCGACAATGGGTGC | 58.827 | 50.000 | 0.00 | 0.00 | 0.00 | 5.01 |
2617 | 2803 | 3.932545 | TTTGGATTTCGACAATGGGTG | 57.067 | 42.857 | 0.00 | 0.00 | 0.00 | 4.61 |
2618 | 2804 | 4.081697 | GGAATTTGGATTTCGACAATGGGT | 60.082 | 41.667 | 0.00 | 0.00 | 0.00 | 4.51 |
2619 | 2805 | 4.432712 | GGAATTTGGATTTCGACAATGGG | 58.567 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
2620 | 2806 | 4.104776 | CGGAATTTGGATTTCGACAATGG | 58.895 | 43.478 | 0.00 | 0.00 | 45.23 | 3.16 |
2621 | 2807 | 4.980590 | TCGGAATTTGGATTTCGACAATG | 58.019 | 39.130 | 0.00 | 0.00 | 45.79 | 2.82 |
2622 | 2808 | 4.941263 | TCTCGGAATTTGGATTTCGACAAT | 59.059 | 37.500 | 0.00 | 0.00 | 45.79 | 2.71 |
2623 | 2809 | 4.320023 | TCTCGGAATTTGGATTTCGACAA | 58.680 | 39.130 | 0.00 | 0.00 | 45.79 | 3.18 |
2624 | 2810 | 3.932822 | TCTCGGAATTTGGATTTCGACA | 58.067 | 40.909 | 0.00 | 0.00 | 45.79 | 4.35 |
2625 | 2811 | 4.392138 | ACTTCTCGGAATTTGGATTTCGAC | 59.608 | 41.667 | 0.00 | 0.00 | 45.79 | 4.20 |
2627 | 2813 | 4.946784 | ACTTCTCGGAATTTGGATTTCG | 57.053 | 40.909 | 0.00 | 0.00 | 44.05 | 3.46 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.