Multiple sequence alignment - TraesCS6B01G352200
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 | TraesCS6B01G352200 | chr6B | 100.000 | 2879 | 0 | 0 | 1 | 2879 | 617972926 | 617975804 | 0.000000e+00 | 5317.0 |
1 | TraesCS6B01G352200 | chr6B | 93.252 | 1882 | 126 | 1 | 999 | 2879 | 706615656 | 706617537 | 0.000000e+00 | 2771.0 |
2 | TraesCS6B01G352200 | chr6B | 87.251 | 251 | 27 | 4 | 309 | 557 | 387134446 | 387134693 | 6.070000e-72 | 281.0 |
3 | TraesCS6B01G352200 | chr6B | 93.011 | 186 | 8 | 4 | 308 | 490 | 236409018 | 236408835 | 1.700000e-67 | 267.0 |
4 | TraesCS6B01G352200 | chr6B | 87.678 | 211 | 19 | 6 | 309 | 516 | 642965352 | 642965558 | 3.710000e-59 | 239.0 |
5 | TraesCS6B01G352200 | chr2B | 96.813 | 2573 | 76 | 4 | 308 | 2879 | 675532434 | 675529867 | 0.000000e+00 | 4292.0 |
6 | TraesCS6B01G352200 | chr2B | 91.662 | 1919 | 156 | 4 | 963 | 2879 | 771411040 | 771409124 | 0.000000e+00 | 2654.0 |
7 | TraesCS6B01G352200 | chr3B | 93.804 | 2324 | 111 | 12 | 563 | 2879 | 727150780 | 727148483 | 0.000000e+00 | 3463.0 |
8 | TraesCS6B01G352200 | chr3B | 95.000 | 220 | 10 | 1 | 87 | 306 | 201516898 | 201517116 | 7.640000e-91 | 344.0 |
9 | TraesCS6B01G352200 | chr2A | 93.411 | 1882 | 121 | 3 | 1000 | 2879 | 16072558 | 16070678 | 0.000000e+00 | 2785.0 |
10 | TraesCS6B01G352200 | chr2A | 87.251 | 251 | 26 | 6 | 309 | 557 | 109577084 | 109577330 | 6.070000e-72 | 281.0 |
11 | TraesCS6B01G352200 | chr7B | 93.140 | 1895 | 129 | 1 | 986 | 2879 | 145705124 | 145703230 | 0.000000e+00 | 2778.0 |
12 | TraesCS6B01G352200 | chr4B | 92.320 | 1888 | 142 | 2 | 995 | 2879 | 35246391 | 35244504 | 0.000000e+00 | 2680.0 |
13 | TraesCS6B01G352200 | chr1B | 92.340 | 1880 | 143 | 1 | 1001 | 2879 | 341520038 | 341518159 | 0.000000e+00 | 2673.0 |
14 | TraesCS6B01G352200 | chr5D | 91.654 | 1929 | 150 | 8 | 955 | 2879 | 220688343 | 220686422 | 0.000000e+00 | 2660.0 |
15 | TraesCS6B01G352200 | chr5D | 95.928 | 221 | 8 | 1 | 87 | 306 | 560874687 | 560874907 | 9.810000e-95 | 357.0 |
16 | TraesCS6B01G352200 | chr5D | 95.455 | 220 | 10 | 0 | 87 | 306 | 6199063 | 6198844 | 4.560000e-93 | 351.0 |
17 | TraesCS6B01G352200 | chr5B | 93.976 | 249 | 14 | 1 | 310 | 557 | 74663420 | 74663668 | 2.710000e-100 | 375.0 |
18 | TraesCS6B01G352200 | chr1D | 95.909 | 220 | 9 | 0 | 87 | 306 | 206075146 | 206074927 | 9.810000e-95 | 357.0 |
19 | TraesCS6B01G352200 | chr1D | 95.455 | 220 | 10 | 0 | 87 | 306 | 254500217 | 254500436 | 4.560000e-93 | 351.0 |
20 | TraesCS6B01G352200 | chr1D | 93.846 | 65 | 4 | 0 | 493 | 557 | 198884023 | 198884087 | 6.570000e-17 | 99.0 |
21 | TraesCS6B01G352200 | chr6A | 95.455 | 220 | 10 | 0 | 87 | 306 | 260130553 | 260130334 | 4.560000e-93 | 351.0 |
22 | TraesCS6B01G352200 | chr6A | 90.674 | 193 | 14 | 4 | 308 | 497 | 79276271 | 79276462 | 1.320000e-63 | 254.0 |
23 | TraesCS6B01G352200 | chrUn | 95.000 | 220 | 10 | 1 | 87 | 306 | 439559001 | 439558783 | 7.640000e-91 | 344.0 |
24 | TraesCS6B01G352200 | chr7A | 94.091 | 220 | 13 | 0 | 87 | 306 | 352191808 | 352191589 | 4.600000e-88 | 335.0 |
25 | TraesCS6B01G352200 | chr4D | 94.091 | 220 | 13 | 0 | 87 | 306 | 19918711 | 19918930 | 4.600000e-88 | 335.0 |
26 | TraesCS6B01G352200 | chr3A | 88.095 | 252 | 22 | 8 | 310 | 557 | 696251907 | 696251660 | 2.810000e-75 | 292.0 |
27 | TraesCS6B01G352200 | chr7D | 89.231 | 65 | 7 | 0 | 493 | 557 | 98282633 | 98282569 | 6.610000e-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 | TraesCS6B01G352200 | chr6B | 617972926 | 617975804 | 2878 | False | 5317 | 5317 | 100.000 | 1 | 2879 | 1 | chr6B.!!$F2 | 2878 |
1 | TraesCS6B01G352200 | chr6B | 706615656 | 706617537 | 1881 | False | 2771 | 2771 | 93.252 | 999 | 2879 | 1 | chr6B.!!$F4 | 1880 |
2 | TraesCS6B01G352200 | chr2B | 675529867 | 675532434 | 2567 | True | 4292 | 4292 | 96.813 | 308 | 2879 | 1 | chr2B.!!$R1 | 2571 |
3 | TraesCS6B01G352200 | chr2B | 771409124 | 771411040 | 1916 | True | 2654 | 2654 | 91.662 | 963 | 2879 | 1 | chr2B.!!$R2 | 1916 |
4 | TraesCS6B01G352200 | chr3B | 727148483 | 727150780 | 2297 | True | 3463 | 3463 | 93.804 | 563 | 2879 | 1 | chr3B.!!$R1 | 2316 |
5 | TraesCS6B01G352200 | chr2A | 16070678 | 16072558 | 1880 | True | 2785 | 2785 | 93.411 | 1000 | 2879 | 1 | chr2A.!!$R1 | 1879 |
6 | TraesCS6B01G352200 | chr7B | 145703230 | 145705124 | 1894 | True | 2778 | 2778 | 93.140 | 986 | 2879 | 1 | chr7B.!!$R1 | 1893 |
7 | TraesCS6B01G352200 | chr4B | 35244504 | 35246391 | 1887 | True | 2680 | 2680 | 92.320 | 995 | 2879 | 1 | chr4B.!!$R1 | 1884 |
8 | TraesCS6B01G352200 | chr1B | 341518159 | 341520038 | 1879 | True | 2673 | 2673 | 92.340 | 1001 | 2879 | 1 | chr1B.!!$R1 | 1878 |
9 | TraesCS6B01G352200 | chr5D | 220686422 | 220688343 | 1921 | True | 2660 | 2660 | 91.654 | 955 | 2879 | 1 | chr5D.!!$R2 | 1924 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
212 | 213 | 0.108186 | TGCTTGAGCCGTATGAGGTG | 60.108 | 55.0 | 0.00 | 0.00 | 41.18 | 4.00 | F |
213 | 214 | 0.175760 | GCTTGAGCCGTATGAGGTGA | 59.824 | 55.0 | 0.00 | 0.00 | 34.31 | 4.02 | F |
1361 | 1367 | 0.530211 | GATGATGCTCGAGCTGCTGT | 60.530 | 55.0 | 35.27 | 18.73 | 42.66 | 4.40 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1100 | 1105 | 0.396556 | AACCCCGCACAAAAGGAGTT | 60.397 | 50.0 | 0.0 | 0.0 | 0.0 | 3.01 | R |
1582 | 1589 | 0.814457 | GTGCCACAAACAACTGTCCA | 59.186 | 50.0 | 0.0 | 0.0 | 0.0 | 4.02 | R |
2557 | 2566 | 0.901124 | AGACGAAGAGGCAGCAAGAT | 59.099 | 50.0 | 0.0 | 0.0 | 0.0 | 2.40 | 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 |
---|---|---|---|---|---|---|---|---|---|
23 | 24 | 5.914898 | AAAAATAAGCCGATAAACTGCCT | 57.085 | 34.783 | 0.00 | 0.00 | 0.00 | 4.75 |
25 | 26 | 7.582667 | AAAAATAAGCCGATAAACTGCCTAT | 57.417 | 32.000 | 0.00 | 0.00 | 0.00 | 2.57 |
26 | 27 | 8.685838 | AAAAATAAGCCGATAAACTGCCTATA | 57.314 | 30.769 | 0.00 | 0.00 | 0.00 | 1.31 |
27 | 28 | 7.668525 | AAATAAGCCGATAAACTGCCTATAC | 57.331 | 36.000 | 0.00 | 0.00 | 0.00 | 1.47 |
28 | 29 | 4.682778 | AAGCCGATAAACTGCCTATACA | 57.317 | 40.909 | 0.00 | 0.00 | 0.00 | 2.29 |
29 | 30 | 4.682778 | AGCCGATAAACTGCCTATACAA | 57.317 | 40.909 | 0.00 | 0.00 | 0.00 | 2.41 |
30 | 31 | 5.228945 | AGCCGATAAACTGCCTATACAAT | 57.771 | 39.130 | 0.00 | 0.00 | 0.00 | 2.71 |
31 | 32 | 4.997395 | AGCCGATAAACTGCCTATACAATG | 59.003 | 41.667 | 0.00 | 0.00 | 0.00 | 2.82 |
32 | 33 | 4.994852 | GCCGATAAACTGCCTATACAATGA | 59.005 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
33 | 34 | 5.107065 | GCCGATAAACTGCCTATACAATGAC | 60.107 | 44.000 | 0.00 | 0.00 | 0.00 | 3.06 |
34 | 35 | 5.989168 | CCGATAAACTGCCTATACAATGACA | 59.011 | 40.000 | 0.00 | 0.00 | 0.00 | 3.58 |
35 | 36 | 6.481976 | CCGATAAACTGCCTATACAATGACAA | 59.518 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
36 | 37 | 7.307396 | CCGATAAACTGCCTATACAATGACAAG | 60.307 | 40.741 | 0.00 | 0.00 | 0.00 | 3.16 |
37 | 38 | 7.224753 | CGATAAACTGCCTATACAATGACAAGT | 59.775 | 37.037 | 0.00 | 0.00 | 0.00 | 3.16 |
38 | 39 | 9.542462 | GATAAACTGCCTATACAATGACAAGTA | 57.458 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
43 | 44 | 9.712305 | ACTGCCTATACAATGACAAGTATATTC | 57.288 | 33.333 | 10.02 | 7.06 | 33.93 | 1.75 |
44 | 45 | 9.935241 | CTGCCTATACAATGACAAGTATATTCT | 57.065 | 33.333 | 10.02 | 0.00 | 33.93 | 2.40 |
45 | 46 | 9.929180 | TGCCTATACAATGACAAGTATATTCTC | 57.071 | 33.333 | 10.02 | 3.86 | 33.93 | 2.87 |
46 | 47 | 9.929180 | GCCTATACAATGACAAGTATATTCTCA | 57.071 | 33.333 | 10.02 | 0.00 | 33.93 | 3.27 |
125 | 126 | 9.390795 | CTTATTTGATATCTTCAAGGCAAATCG | 57.609 | 33.333 | 3.98 | 0.00 | 44.90 | 3.34 |
126 | 127 | 7.572523 | ATTTGATATCTTCAAGGCAAATCGA | 57.427 | 32.000 | 3.98 | 0.00 | 44.90 | 3.59 |
127 | 128 | 5.991328 | TGATATCTTCAAGGCAAATCGAC | 57.009 | 39.130 | 3.98 | 0.00 | 0.00 | 4.20 |
128 | 129 | 4.816385 | TGATATCTTCAAGGCAAATCGACC | 59.184 | 41.667 | 3.98 | 0.00 | 0.00 | 4.79 |
129 | 130 | 1.821216 | TCTTCAAGGCAAATCGACCC | 58.179 | 50.000 | 0.00 | 0.00 | 0.00 | 4.46 |
130 | 131 | 1.073125 | TCTTCAAGGCAAATCGACCCA | 59.927 | 47.619 | 0.00 | 0.00 | 0.00 | 4.51 |
131 | 132 | 1.885887 | CTTCAAGGCAAATCGACCCAA | 59.114 | 47.619 | 0.00 | 0.00 | 0.00 | 4.12 |
132 | 133 | 2.214376 | TCAAGGCAAATCGACCCAAT | 57.786 | 45.000 | 0.00 | 0.00 | 0.00 | 3.16 |
133 | 134 | 2.524306 | TCAAGGCAAATCGACCCAATT | 58.476 | 42.857 | 0.00 | 0.00 | 0.00 | 2.32 |
134 | 135 | 2.491693 | TCAAGGCAAATCGACCCAATTC | 59.508 | 45.455 | 0.00 | 0.00 | 0.00 | 2.17 |
135 | 136 | 2.214376 | AGGCAAATCGACCCAATTCA | 57.786 | 45.000 | 0.00 | 0.00 | 0.00 | 2.57 |
136 | 137 | 2.094675 | AGGCAAATCGACCCAATTCAG | 58.905 | 47.619 | 0.00 | 0.00 | 0.00 | 3.02 |
137 | 138 | 1.818674 | GGCAAATCGACCCAATTCAGT | 59.181 | 47.619 | 0.00 | 0.00 | 0.00 | 3.41 |
138 | 139 | 2.415893 | GGCAAATCGACCCAATTCAGTG | 60.416 | 50.000 | 0.00 | 0.00 | 0.00 | 3.66 |
139 | 140 | 2.415893 | GCAAATCGACCCAATTCAGTGG | 60.416 | 50.000 | 0.00 | 0.00 | 38.51 | 4.00 |
140 | 141 | 1.463674 | AATCGACCCAATTCAGTGGC | 58.536 | 50.000 | 0.00 | 0.00 | 37.34 | 5.01 |
141 | 142 | 0.620556 | ATCGACCCAATTCAGTGGCT | 59.379 | 50.000 | 0.00 | 0.00 | 37.34 | 4.75 |
142 | 143 | 0.321564 | TCGACCCAATTCAGTGGCTG | 60.322 | 55.000 | 0.00 | 0.00 | 37.34 | 4.85 |
143 | 144 | 0.321564 | CGACCCAATTCAGTGGCTGA | 60.322 | 55.000 | 0.00 | 0.00 | 38.87 | 4.26 |
144 | 145 | 1.679944 | CGACCCAATTCAGTGGCTGAT | 60.680 | 52.381 | 0.00 | 0.00 | 40.39 | 2.90 |
145 | 146 | 1.747355 | GACCCAATTCAGTGGCTGATG | 59.253 | 52.381 | 0.00 | 0.00 | 40.39 | 3.07 |
146 | 147 | 1.355381 | ACCCAATTCAGTGGCTGATGA | 59.645 | 47.619 | 0.00 | 0.00 | 40.39 | 2.92 |
147 | 148 | 2.225091 | ACCCAATTCAGTGGCTGATGAA | 60.225 | 45.455 | 0.00 | 2.89 | 40.39 | 2.57 |
148 | 149 | 2.426024 | CCCAATTCAGTGGCTGATGAAG | 59.574 | 50.000 | 0.00 | 0.00 | 40.39 | 3.02 |
149 | 150 | 3.087031 | CCAATTCAGTGGCTGATGAAGT | 58.913 | 45.455 | 0.00 | 1.31 | 40.39 | 3.01 |
150 | 151 | 3.508793 | CCAATTCAGTGGCTGATGAAGTT | 59.491 | 43.478 | 0.00 | 0.00 | 40.39 | 2.66 |
151 | 152 | 4.021719 | CCAATTCAGTGGCTGATGAAGTTT | 60.022 | 41.667 | 0.00 | 0.00 | 40.39 | 2.66 |
152 | 153 | 5.510179 | CCAATTCAGTGGCTGATGAAGTTTT | 60.510 | 40.000 | 0.00 | 0.00 | 40.39 | 2.43 |
153 | 154 | 4.572985 | TTCAGTGGCTGATGAAGTTTTG | 57.427 | 40.909 | 0.00 | 0.00 | 40.39 | 2.44 |
154 | 155 | 3.819368 | TCAGTGGCTGATGAAGTTTTGA | 58.181 | 40.909 | 0.00 | 0.00 | 35.39 | 2.69 |
155 | 156 | 4.206375 | TCAGTGGCTGATGAAGTTTTGAA | 58.794 | 39.130 | 0.00 | 0.00 | 35.39 | 2.69 |
156 | 157 | 4.036734 | TCAGTGGCTGATGAAGTTTTGAAC | 59.963 | 41.667 | 0.00 | 0.00 | 35.39 | 3.18 |
157 | 158 | 3.319122 | AGTGGCTGATGAAGTTTTGAACC | 59.681 | 43.478 | 0.00 | 0.00 | 0.00 | 3.62 |
158 | 159 | 3.319122 | GTGGCTGATGAAGTTTTGAACCT | 59.681 | 43.478 | 0.00 | 0.00 | 0.00 | 3.50 |
159 | 160 | 3.960102 | TGGCTGATGAAGTTTTGAACCTT | 59.040 | 39.130 | 0.00 | 0.00 | 0.00 | 3.50 |
160 | 161 | 4.405358 | TGGCTGATGAAGTTTTGAACCTTT | 59.595 | 37.500 | 0.00 | 0.00 | 0.00 | 3.11 |
161 | 162 | 5.104982 | TGGCTGATGAAGTTTTGAACCTTTT | 60.105 | 36.000 | 0.00 | 0.00 | 0.00 | 2.27 |
162 | 163 | 5.817296 | GGCTGATGAAGTTTTGAACCTTTTT | 59.183 | 36.000 | 0.00 | 0.00 | 0.00 | 1.94 |
201 | 202 | 3.698029 | TTTTTGTGTCTCTGCTTGAGC | 57.302 | 42.857 | 0.00 | 0.00 | 42.38 | 4.26 |
202 | 203 | 1.597742 | TTTGTGTCTCTGCTTGAGCC | 58.402 | 50.000 | 0.00 | 0.00 | 42.38 | 4.70 |
203 | 204 | 0.601046 | TTGTGTCTCTGCTTGAGCCG | 60.601 | 55.000 | 0.00 | 0.00 | 42.38 | 5.52 |
204 | 205 | 1.005630 | GTGTCTCTGCTTGAGCCGT | 60.006 | 57.895 | 0.00 | 0.00 | 42.38 | 5.68 |
205 | 206 | 0.243907 | GTGTCTCTGCTTGAGCCGTA | 59.756 | 55.000 | 0.00 | 0.00 | 42.38 | 4.02 |
206 | 207 | 1.134965 | GTGTCTCTGCTTGAGCCGTAT | 60.135 | 52.381 | 0.00 | 0.00 | 42.38 | 3.06 |
207 | 208 | 1.134995 | TGTCTCTGCTTGAGCCGTATG | 60.135 | 52.381 | 0.00 | 0.00 | 42.38 | 2.39 |
208 | 209 | 1.135139 | GTCTCTGCTTGAGCCGTATGA | 59.865 | 52.381 | 0.00 | 0.00 | 42.38 | 2.15 |
209 | 210 | 1.406898 | TCTCTGCTTGAGCCGTATGAG | 59.593 | 52.381 | 0.00 | 1.69 | 42.38 | 2.90 |
210 | 211 | 0.461548 | TCTGCTTGAGCCGTATGAGG | 59.538 | 55.000 | 0.00 | 0.00 | 41.18 | 3.86 |
211 | 212 | 0.176680 | CTGCTTGAGCCGTATGAGGT | 59.823 | 55.000 | 0.00 | 0.00 | 41.18 | 3.85 |
212 | 213 | 0.108186 | TGCTTGAGCCGTATGAGGTG | 60.108 | 55.000 | 0.00 | 0.00 | 41.18 | 4.00 |
213 | 214 | 0.175760 | GCTTGAGCCGTATGAGGTGA | 59.824 | 55.000 | 0.00 | 0.00 | 34.31 | 4.02 |
214 | 215 | 1.405526 | GCTTGAGCCGTATGAGGTGAA | 60.406 | 52.381 | 0.00 | 0.00 | 34.31 | 3.18 |
215 | 216 | 2.935238 | GCTTGAGCCGTATGAGGTGAAA | 60.935 | 50.000 | 0.00 | 0.00 | 34.31 | 2.69 |
216 | 217 | 3.535561 | CTTGAGCCGTATGAGGTGAAAT | 58.464 | 45.455 | 0.00 | 0.00 | 0.00 | 2.17 |
217 | 218 | 3.627395 | TGAGCCGTATGAGGTGAAATT | 57.373 | 42.857 | 0.00 | 0.00 | 0.00 | 1.82 |
218 | 219 | 3.950397 | TGAGCCGTATGAGGTGAAATTT | 58.050 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
219 | 220 | 4.331968 | TGAGCCGTATGAGGTGAAATTTT | 58.668 | 39.130 | 0.00 | 0.00 | 0.00 | 1.82 |
220 | 221 | 4.394920 | TGAGCCGTATGAGGTGAAATTTTC | 59.605 | 41.667 | 2.05 | 2.05 | 0.00 | 2.29 |
221 | 222 | 4.331968 | AGCCGTATGAGGTGAAATTTTCA | 58.668 | 39.130 | 7.74 | 7.74 | 37.33 | 2.69 |
222 | 223 | 4.949856 | AGCCGTATGAGGTGAAATTTTCAT | 59.050 | 37.500 | 14.54 | 7.92 | 42.47 | 2.57 |
223 | 224 | 6.119536 | AGCCGTATGAGGTGAAATTTTCATA | 58.880 | 36.000 | 14.54 | 6.31 | 42.47 | 2.15 |
224 | 225 | 6.772716 | AGCCGTATGAGGTGAAATTTTCATAT | 59.227 | 34.615 | 14.54 | 6.89 | 42.47 | 1.78 |
225 | 226 | 7.936847 | AGCCGTATGAGGTGAAATTTTCATATA | 59.063 | 33.333 | 14.54 | 8.86 | 42.47 | 0.86 |
226 | 227 | 8.015658 | GCCGTATGAGGTGAAATTTTCATATAC | 58.984 | 37.037 | 14.54 | 16.51 | 42.47 | 1.47 |
227 | 228 | 8.221100 | CCGTATGAGGTGAAATTTTCATATACG | 58.779 | 37.037 | 27.66 | 27.66 | 42.47 | 3.06 |
228 | 229 | 8.221100 | CGTATGAGGTGAAATTTTCATATACGG | 58.779 | 37.037 | 27.36 | 19.09 | 42.47 | 4.02 |
229 | 230 | 6.371809 | TGAGGTGAAATTTTCATATACGGC | 57.628 | 37.500 | 14.54 | 0.86 | 42.47 | 5.68 |
230 | 231 | 6.119536 | TGAGGTGAAATTTTCATATACGGCT | 58.880 | 36.000 | 14.54 | 0.00 | 42.47 | 5.52 |
231 | 232 | 6.260050 | TGAGGTGAAATTTTCATATACGGCTC | 59.740 | 38.462 | 14.54 | 6.13 | 42.47 | 4.70 |
232 | 233 | 6.357367 | AGGTGAAATTTTCATATACGGCTCT | 58.643 | 36.000 | 14.54 | 0.00 | 42.47 | 4.09 |
233 | 234 | 6.828785 | AGGTGAAATTTTCATATACGGCTCTT | 59.171 | 34.615 | 14.54 | 0.00 | 42.47 | 2.85 |
234 | 235 | 7.990886 | AGGTGAAATTTTCATATACGGCTCTTA | 59.009 | 33.333 | 14.54 | 0.00 | 42.47 | 2.10 |
235 | 236 | 8.283291 | GGTGAAATTTTCATATACGGCTCTTAG | 58.717 | 37.037 | 14.54 | 0.00 | 42.47 | 2.18 |
236 | 237 | 9.042008 | GTGAAATTTTCATATACGGCTCTTAGA | 57.958 | 33.333 | 14.54 | 0.00 | 42.47 | 2.10 |
237 | 238 | 9.261180 | TGAAATTTTCATATACGGCTCTTAGAG | 57.739 | 33.333 | 7.74 | 4.63 | 34.08 | 2.43 |
238 | 239 | 9.477484 | GAAATTTTCATATACGGCTCTTAGAGA | 57.523 | 33.333 | 14.14 | 0.00 | 0.00 | 3.10 |
239 | 240 | 9.482627 | AAATTTTCATATACGGCTCTTAGAGAG | 57.517 | 33.333 | 14.14 | 8.40 | 45.04 | 3.20 |
240 | 241 | 6.576662 | TTTCATATACGGCTCTTAGAGAGG | 57.423 | 41.667 | 14.14 | 5.95 | 42.54 | 3.69 |
241 | 242 | 4.590918 | TCATATACGGCTCTTAGAGAGGG | 58.409 | 47.826 | 14.14 | 3.41 | 42.54 | 4.30 |
242 | 243 | 4.288887 | TCATATACGGCTCTTAGAGAGGGA | 59.711 | 45.833 | 14.14 | 0.12 | 42.54 | 4.20 |
243 | 244 | 2.345124 | TACGGCTCTTAGAGAGGGAC | 57.655 | 55.000 | 14.14 | 0.00 | 42.54 | 4.46 |
244 | 245 | 0.626916 | ACGGCTCTTAGAGAGGGACT | 59.373 | 55.000 | 14.14 | 0.00 | 42.54 | 3.85 |
245 | 246 | 1.006162 | ACGGCTCTTAGAGAGGGACTT | 59.994 | 52.381 | 14.14 | 0.00 | 42.54 | 3.01 |
246 | 247 | 1.407258 | CGGCTCTTAGAGAGGGACTTG | 59.593 | 57.143 | 14.14 | 0.00 | 42.54 | 3.16 |
247 | 248 | 1.760029 | GGCTCTTAGAGAGGGACTTGG | 59.240 | 57.143 | 14.14 | 0.00 | 42.54 | 3.61 |
248 | 249 | 1.760029 | GCTCTTAGAGAGGGACTTGGG | 59.240 | 57.143 | 14.14 | 0.00 | 42.54 | 4.12 |
249 | 250 | 2.890602 | GCTCTTAGAGAGGGACTTGGGT | 60.891 | 54.545 | 14.14 | 0.00 | 42.54 | 4.51 |
250 | 251 | 3.445987 | CTCTTAGAGAGGGACTTGGGTT | 58.554 | 50.000 | 2.53 | 0.00 | 41.55 | 4.11 |
251 | 252 | 4.611367 | CTCTTAGAGAGGGACTTGGGTTA | 58.389 | 47.826 | 2.53 | 0.00 | 41.55 | 2.85 |
252 | 253 | 4.611367 | TCTTAGAGAGGGACTTGGGTTAG | 58.389 | 47.826 | 0.00 | 0.00 | 41.55 | 2.34 |
253 | 254 | 4.045590 | TCTTAGAGAGGGACTTGGGTTAGT | 59.954 | 45.833 | 0.00 | 0.00 | 41.55 | 2.24 |
254 | 255 | 3.277416 | AGAGAGGGACTTGGGTTAGTT | 57.723 | 47.619 | 0.00 | 0.00 | 41.55 | 2.24 |
255 | 256 | 4.415224 | AGAGAGGGACTTGGGTTAGTTA | 57.585 | 45.455 | 0.00 | 0.00 | 41.55 | 2.24 |
256 | 257 | 4.095211 | AGAGAGGGACTTGGGTTAGTTAC | 58.905 | 47.826 | 0.00 | 0.00 | 41.55 | 2.50 |
257 | 258 | 3.179685 | AGAGGGACTTGGGTTAGTTACC | 58.820 | 50.000 | 0.00 | 0.00 | 43.41 | 2.85 |
258 | 259 | 3.179685 | GAGGGACTTGGGTTAGTTACCT | 58.820 | 50.000 | 0.00 | 0.00 | 43.60 | 3.08 |
259 | 260 | 4.046360 | AGAGGGACTTGGGTTAGTTACCTA | 59.954 | 45.833 | 0.00 | 0.00 | 43.60 | 3.08 |
260 | 261 | 4.967442 | GAGGGACTTGGGTTAGTTACCTAT | 59.033 | 45.833 | 0.00 | 0.00 | 43.60 | 2.57 |
261 | 262 | 5.356575 | AGGGACTTGGGTTAGTTACCTATT | 58.643 | 41.667 | 0.00 | 0.00 | 41.57 | 1.73 |
262 | 263 | 5.794289 | AGGGACTTGGGTTAGTTACCTATTT | 59.206 | 40.000 | 0.00 | 0.00 | 41.57 | 1.40 |
263 | 264 | 6.069789 | AGGGACTTGGGTTAGTTACCTATTTC | 60.070 | 42.308 | 0.00 | 0.00 | 41.57 | 2.17 |
264 | 265 | 6.296605 | GGGACTTGGGTTAGTTACCTATTTCA | 60.297 | 42.308 | 0.00 | 0.00 | 46.86 | 2.69 |
265 | 266 | 7.170277 | GGACTTGGGTTAGTTACCTATTTCAA | 58.830 | 38.462 | 0.00 | 0.00 | 46.86 | 2.69 |
266 | 267 | 7.832685 | GGACTTGGGTTAGTTACCTATTTCAAT | 59.167 | 37.037 | 0.00 | 0.00 | 46.86 | 2.57 |
267 | 268 | 9.895138 | GACTTGGGTTAGTTACCTATTTCAATA | 57.105 | 33.333 | 0.00 | 0.00 | 46.86 | 1.90 |
292 | 293 | 8.877864 | AAAGTATATGATTGGTTTGAGGAACA | 57.122 | 30.769 | 0.00 | 0.00 | 40.13 | 3.18 |
293 | 294 | 9.479549 | AAAGTATATGATTGGTTTGAGGAACAT | 57.520 | 29.630 | 0.00 | 0.00 | 40.13 | 2.71 |
294 | 295 | 8.682936 | AGTATATGATTGGTTTGAGGAACATC | 57.317 | 34.615 | 0.00 | 0.00 | 40.13 | 3.06 |
295 | 296 | 8.497745 | AGTATATGATTGGTTTGAGGAACATCT | 58.502 | 33.333 | 0.00 | 0.00 | 40.13 | 2.90 |
296 | 297 | 9.125026 | GTATATGATTGGTTTGAGGAACATCTT | 57.875 | 33.333 | 0.00 | 0.00 | 40.13 | 2.40 |
297 | 298 | 5.710513 | TGATTGGTTTGAGGAACATCTTG | 57.289 | 39.130 | 0.00 | 0.00 | 40.13 | 3.02 |
298 | 299 | 5.384336 | TGATTGGTTTGAGGAACATCTTGA | 58.616 | 37.500 | 0.00 | 0.00 | 40.13 | 3.02 |
299 | 300 | 5.474532 | TGATTGGTTTGAGGAACATCTTGAG | 59.525 | 40.000 | 0.00 | 0.00 | 40.13 | 3.02 |
300 | 301 | 4.705110 | TGGTTTGAGGAACATCTTGAGA | 57.295 | 40.909 | 0.00 | 0.00 | 40.13 | 3.27 |
301 | 302 | 5.246981 | TGGTTTGAGGAACATCTTGAGAT | 57.753 | 39.130 | 0.00 | 0.00 | 40.13 | 2.75 |
302 | 303 | 5.634118 | TGGTTTGAGGAACATCTTGAGATT | 58.366 | 37.500 | 0.00 | 0.00 | 40.13 | 2.40 |
303 | 304 | 5.707298 | TGGTTTGAGGAACATCTTGAGATTC | 59.293 | 40.000 | 0.00 | 0.00 | 40.13 | 2.52 |
304 | 305 | 5.707298 | GGTTTGAGGAACATCTTGAGATTCA | 59.293 | 40.000 | 0.00 | 0.00 | 40.13 | 2.57 |
305 | 306 | 6.128063 | GGTTTGAGGAACATCTTGAGATTCAG | 60.128 | 42.308 | 0.00 | 0.00 | 40.13 | 3.02 |
306 | 307 | 4.511527 | TGAGGAACATCTTGAGATTCAGC | 58.488 | 43.478 | 0.00 | 0.00 | 31.21 | 4.26 |
325 | 326 | 5.592054 | TCAGCACTGTTAGATGTGTATAGC | 58.408 | 41.667 | 0.00 | 0.00 | 36.63 | 2.97 |
490 | 491 | 3.114616 | CTGCAACTCCGTGCTCCG | 61.115 | 66.667 | 0.00 | 0.00 | 45.17 | 4.63 |
491 | 492 | 3.865929 | CTGCAACTCCGTGCTCCGT | 62.866 | 63.158 | 0.00 | 0.00 | 45.17 | 4.69 |
531 | 532 | 1.076533 | CGTCACTTTCATCCCGTCCG | 61.077 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
632 | 633 | 2.434884 | GCTTGACTGCTGCCGCTA | 60.435 | 61.111 | 0.70 | 0.00 | 36.97 | 4.26 |
669 | 671 | 1.764054 | CTCCCCCGCTCATCTCCTT | 60.764 | 63.158 | 0.00 | 0.00 | 0.00 | 3.36 |
713 | 715 | 2.676121 | CCCATTCGGTTGCTGCCA | 60.676 | 61.111 | 0.00 | 0.00 | 0.00 | 4.92 |
885 | 887 | 2.037367 | CCCCTCTGGTCCTCGTCA | 59.963 | 66.667 | 0.00 | 0.00 | 0.00 | 4.35 |
895 | 897 | 2.741985 | CCTCGTCATTGCCGTGCA | 60.742 | 61.111 | 0.00 | 0.00 | 36.47 | 4.57 |
913 | 915 | 1.152312 | ACACGAGGAGGGGTGAAGT | 60.152 | 57.895 | 0.00 | 0.00 | 37.58 | 3.01 |
1014 | 1019 | 2.231716 | TTCTCATGTCCTCTTCGGGA | 57.768 | 50.000 | 0.00 | 0.00 | 0.00 | 5.14 |
1022 | 1027 | 1.955080 | GTCCTCTTCGGGATATGTCGT | 59.045 | 52.381 | 0.00 | 0.00 | 37.73 | 4.34 |
1096 | 1101 | 1.538512 | GCTTCATGCGCATCCATATGT | 59.461 | 47.619 | 22.51 | 0.00 | 35.38 | 2.29 |
1100 | 1105 | 1.874872 | CATGCGCATCCATATGTGTGA | 59.125 | 47.619 | 22.51 | 0.00 | 44.04 | 3.58 |
1113 | 1118 | 3.715628 | ATGTGTGAACTCCTTTTGTGC | 57.284 | 42.857 | 0.00 | 0.00 | 0.00 | 4.57 |
1279 | 1285 | 3.647590 | TGCTTATGATCAGCAGGTATCCA | 59.352 | 43.478 | 0.09 | 0.00 | 42.49 | 3.41 |
1286 | 1292 | 6.252599 | TGATCAGCAGGTATCCACTTATTT | 57.747 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
1321 | 1327 | 3.220110 | GTGTACCGGGATGATCTGTCTA | 58.780 | 50.000 | 6.32 | 0.00 | 0.00 | 2.59 |
1361 | 1367 | 0.530211 | GATGATGCTCGAGCTGCTGT | 60.530 | 55.000 | 35.27 | 18.73 | 42.66 | 4.40 |
1582 | 1589 | 0.603975 | GCGTCAGCTTGACTCCCTTT | 60.604 | 55.000 | 12.45 | 0.00 | 44.85 | 3.11 |
1718 | 1725 | 2.979676 | CTTGCTTGCTCGTGGCCA | 60.980 | 61.111 | 0.00 | 0.00 | 40.92 | 5.36 |
1796 | 1803 | 1.687612 | CTGGATTGCTGGTGGTCCT | 59.312 | 57.895 | 0.00 | 0.00 | 34.23 | 3.85 |
1911 | 1920 | 2.681778 | CTGAGAGGGGCCAGTCGT | 60.682 | 66.667 | 4.39 | 0.00 | 0.00 | 4.34 |
2029 | 2038 | 3.044894 | GGACTCCTGGATCTTCCTTGAT | 58.955 | 50.000 | 0.00 | 0.00 | 37.46 | 2.57 |
2031 | 2040 | 4.080072 | GGACTCCTGGATCTTCCTTGATTT | 60.080 | 45.833 | 0.00 | 0.00 | 37.46 | 2.17 |
2061 | 2070 | 1.625315 | CTGACCAGGACATTGTGAGGA | 59.375 | 52.381 | 0.00 | 0.00 | 0.00 | 3.71 |
2084 | 2093 | 0.539051 | AATGTCTCTTGGCCTCCTCG | 59.461 | 55.000 | 3.32 | 0.00 | 0.00 | 4.63 |
2170 | 2179 | 6.634805 | CATCTACACAGTCAGGTACATCTTT | 58.365 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
2249 | 2258 | 4.767409 | TCTTCTCTTCGACCTCTTGATTCA | 59.233 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
2328 | 2337 | 2.893215 | TTCCACTCCGTCCTTCTCTA | 57.107 | 50.000 | 0.00 | 0.00 | 0.00 | 2.43 |
2338 | 2347 | 2.033550 | CGTCCTTCTCTATTCCGAGTGG | 59.966 | 54.545 | 0.00 | 0.00 | 32.83 | 4.00 |
2421 | 2430 | 4.529109 | TGTCGTGTCATTCTTGATACCA | 57.471 | 40.909 | 0.00 | 0.00 | 39.95 | 3.25 |
2557 | 2566 | 1.203441 | ACTTCTGCCAGCTCCCATGA | 61.203 | 55.000 | 0.00 | 0.00 | 0.00 | 3.07 |
2577 | 2586 | 1.545841 | TCTTGCTGCCTCTTCGTCTA | 58.454 | 50.000 | 0.00 | 0.00 | 0.00 | 2.59 |
2611 | 2620 | 3.017323 | GCATCATCGCCTTGGTCG | 58.983 | 61.111 | 0.00 | 0.00 | 0.00 | 4.79 |
2617 | 2626 | 1.091771 | CATCGCCTTGGTCGCATCTT | 61.092 | 55.000 | 0.00 | 0.00 | 0.00 | 2.40 |
2729 | 2738 | 6.403878 | TGGCAAATAGACTCAGTTACCTTAC | 58.596 | 40.000 | 0.00 | 0.00 | 0.00 | 2.34 |
2743 | 2752 | 6.662663 | CAGTTACCTTACCCTACTAGTGAGTT | 59.337 | 42.308 | 5.39 | 0.00 | 37.10 | 3.01 |
2758 | 2767 | 7.287061 | ACTAGTGAGTTAGTATCTCAGCATCT | 58.713 | 38.462 | 10.58 | 7.46 | 41.66 | 2.90 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
1 | 2 | 5.914898 | AGGCAGTTTATCGGCTTATTTTT | 57.085 | 34.783 | 0.00 | 0.00 | 37.40 | 1.94 |
2 | 3 | 7.717875 | TGTATAGGCAGTTTATCGGCTTATTTT | 59.282 | 33.333 | 0.00 | 0.00 | 39.33 | 1.82 |
3 | 4 | 7.221450 | TGTATAGGCAGTTTATCGGCTTATTT | 58.779 | 34.615 | 0.00 | 0.00 | 39.33 | 1.40 |
4 | 5 | 6.765403 | TGTATAGGCAGTTTATCGGCTTATT | 58.235 | 36.000 | 0.00 | 0.00 | 39.33 | 1.40 |
5 | 6 | 6.354794 | TGTATAGGCAGTTTATCGGCTTAT | 57.645 | 37.500 | 0.00 | 0.00 | 40.86 | 1.73 |
6 | 7 | 5.794726 | TGTATAGGCAGTTTATCGGCTTA | 57.205 | 39.130 | 0.00 | 0.00 | 39.09 | 3.09 |
7 | 8 | 4.682778 | TGTATAGGCAGTTTATCGGCTT | 57.317 | 40.909 | 0.00 | 0.00 | 39.09 | 4.35 |
8 | 9 | 4.682778 | TTGTATAGGCAGTTTATCGGCT | 57.317 | 40.909 | 0.00 | 0.00 | 41.51 | 5.52 |
9 | 10 | 4.994852 | TCATTGTATAGGCAGTTTATCGGC | 59.005 | 41.667 | 0.00 | 0.00 | 36.55 | 5.54 |
10 | 11 | 5.989168 | TGTCATTGTATAGGCAGTTTATCGG | 59.011 | 40.000 | 0.00 | 0.00 | 0.00 | 4.18 |
11 | 12 | 7.224753 | ACTTGTCATTGTATAGGCAGTTTATCG | 59.775 | 37.037 | 0.00 | 0.00 | 0.00 | 2.92 |
12 | 13 | 8.438676 | ACTTGTCATTGTATAGGCAGTTTATC | 57.561 | 34.615 | 0.00 | 0.00 | 0.00 | 1.75 |
17 | 18 | 9.712305 | GAATATACTTGTCATTGTATAGGCAGT | 57.288 | 33.333 | 10.18 | 0.00 | 35.79 | 4.40 |
18 | 19 | 9.935241 | AGAATATACTTGTCATTGTATAGGCAG | 57.065 | 33.333 | 10.18 | 0.00 | 35.79 | 4.85 |
19 | 20 | 9.929180 | GAGAATATACTTGTCATTGTATAGGCA | 57.071 | 33.333 | 10.18 | 0.00 | 35.79 | 4.75 |
20 | 21 | 9.929180 | TGAGAATATACTTGTCATTGTATAGGC | 57.071 | 33.333 | 10.18 | 6.45 | 35.79 | 3.93 |
104 | 105 | 5.296780 | GGTCGATTTGCCTTGAAGATATCAA | 59.703 | 40.000 | 5.32 | 0.00 | 45.71 | 2.57 |
105 | 106 | 4.816385 | GGTCGATTTGCCTTGAAGATATCA | 59.184 | 41.667 | 5.32 | 0.00 | 35.85 | 2.15 |
106 | 107 | 4.214332 | GGGTCGATTTGCCTTGAAGATATC | 59.786 | 45.833 | 0.00 | 0.00 | 0.00 | 1.63 |
107 | 108 | 4.137543 | GGGTCGATTTGCCTTGAAGATAT | 58.862 | 43.478 | 0.00 | 0.00 | 0.00 | 1.63 |
108 | 109 | 3.054728 | TGGGTCGATTTGCCTTGAAGATA | 60.055 | 43.478 | 0.00 | 0.00 | 0.00 | 1.98 |
109 | 110 | 2.290896 | TGGGTCGATTTGCCTTGAAGAT | 60.291 | 45.455 | 0.00 | 0.00 | 0.00 | 2.40 |
110 | 111 | 1.073125 | TGGGTCGATTTGCCTTGAAGA | 59.927 | 47.619 | 0.00 | 0.00 | 0.00 | 2.87 |
111 | 112 | 1.533625 | TGGGTCGATTTGCCTTGAAG | 58.466 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
112 | 113 | 1.988293 | TTGGGTCGATTTGCCTTGAA | 58.012 | 45.000 | 0.00 | 0.00 | 0.00 | 2.69 |
113 | 114 | 2.214376 | ATTGGGTCGATTTGCCTTGA | 57.786 | 45.000 | 0.00 | 0.00 | 0.00 | 3.02 |
114 | 115 | 2.230992 | TGAATTGGGTCGATTTGCCTTG | 59.769 | 45.455 | 0.00 | 0.00 | 0.00 | 3.61 |
115 | 116 | 2.493278 | CTGAATTGGGTCGATTTGCCTT | 59.507 | 45.455 | 0.00 | 0.00 | 0.00 | 4.35 |
116 | 117 | 2.094675 | CTGAATTGGGTCGATTTGCCT | 58.905 | 47.619 | 0.00 | 0.00 | 0.00 | 4.75 |
117 | 118 | 1.818674 | ACTGAATTGGGTCGATTTGCC | 59.181 | 47.619 | 0.00 | 0.00 | 0.00 | 4.52 |
118 | 119 | 2.415893 | CCACTGAATTGGGTCGATTTGC | 60.416 | 50.000 | 0.00 | 0.00 | 32.35 | 3.68 |
119 | 120 | 2.415893 | GCCACTGAATTGGGTCGATTTG | 60.416 | 50.000 | 0.00 | 0.00 | 37.10 | 2.32 |
120 | 121 | 1.818674 | GCCACTGAATTGGGTCGATTT | 59.181 | 47.619 | 0.00 | 0.00 | 37.10 | 2.17 |
121 | 122 | 1.004745 | AGCCACTGAATTGGGTCGATT | 59.995 | 47.619 | 0.00 | 0.00 | 44.30 | 3.34 |
122 | 123 | 0.620556 | AGCCACTGAATTGGGTCGAT | 59.379 | 50.000 | 0.00 | 0.00 | 44.30 | 3.59 |
123 | 124 | 0.321564 | CAGCCACTGAATTGGGTCGA | 60.322 | 55.000 | 0.00 | 0.00 | 44.30 | 4.20 |
124 | 125 | 0.321564 | TCAGCCACTGAATTGGGTCG | 60.322 | 55.000 | 0.00 | 0.00 | 44.30 | 4.79 |
125 | 126 | 1.747355 | CATCAGCCACTGAATTGGGTC | 59.253 | 52.381 | 0.74 | 0.00 | 44.30 | 4.46 |
127 | 128 | 2.133281 | TCATCAGCCACTGAATTGGG | 57.867 | 50.000 | 0.74 | 0.00 | 44.04 | 4.12 |
128 | 129 | 3.087031 | ACTTCATCAGCCACTGAATTGG | 58.913 | 45.455 | 0.74 | 0.00 | 44.04 | 3.16 |
129 | 130 | 4.778534 | AACTTCATCAGCCACTGAATTG | 57.221 | 40.909 | 0.74 | 0.00 | 44.04 | 2.32 |
130 | 131 | 5.302568 | TCAAAACTTCATCAGCCACTGAATT | 59.697 | 36.000 | 0.74 | 0.00 | 44.04 | 2.17 |
131 | 132 | 4.828939 | TCAAAACTTCATCAGCCACTGAAT | 59.171 | 37.500 | 0.74 | 0.00 | 44.04 | 2.57 |
132 | 133 | 4.206375 | TCAAAACTTCATCAGCCACTGAA | 58.794 | 39.130 | 0.74 | 0.00 | 44.04 | 3.02 |
133 | 134 | 3.819368 | TCAAAACTTCATCAGCCACTGA | 58.181 | 40.909 | 0.00 | 0.00 | 44.99 | 3.41 |
134 | 135 | 4.293415 | GTTCAAAACTTCATCAGCCACTG | 58.707 | 43.478 | 0.00 | 0.00 | 0.00 | 3.66 |
135 | 136 | 3.319122 | GGTTCAAAACTTCATCAGCCACT | 59.681 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
136 | 137 | 3.319122 | AGGTTCAAAACTTCATCAGCCAC | 59.681 | 43.478 | 0.00 | 0.00 | 0.00 | 5.01 |
137 | 138 | 3.565307 | AGGTTCAAAACTTCATCAGCCA | 58.435 | 40.909 | 0.00 | 0.00 | 0.00 | 4.75 |
138 | 139 | 4.590850 | AAGGTTCAAAACTTCATCAGCC | 57.409 | 40.909 | 0.00 | 0.00 | 0.00 | 4.85 |
139 | 140 | 6.908870 | AAAAAGGTTCAAAACTTCATCAGC | 57.091 | 33.333 | 0.00 | 0.00 | 0.00 | 4.26 |
191 | 192 | 0.461548 | CCTCATACGGCTCAAGCAGA | 59.538 | 55.000 | 9.15 | 0.00 | 44.36 | 4.26 |
192 | 193 | 0.176680 | ACCTCATACGGCTCAAGCAG | 59.823 | 55.000 | 4.13 | 2.21 | 44.36 | 4.24 |
193 | 194 | 0.108186 | CACCTCATACGGCTCAAGCA | 60.108 | 55.000 | 4.13 | 0.00 | 44.36 | 3.91 |
194 | 195 | 0.175760 | TCACCTCATACGGCTCAAGC | 59.824 | 55.000 | 0.00 | 0.00 | 41.14 | 4.01 |
195 | 196 | 2.672961 | TTCACCTCATACGGCTCAAG | 57.327 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
196 | 197 | 3.627395 | ATTTCACCTCATACGGCTCAA | 57.373 | 42.857 | 0.00 | 0.00 | 0.00 | 3.02 |
197 | 198 | 3.627395 | AATTTCACCTCATACGGCTCA | 57.373 | 42.857 | 0.00 | 0.00 | 0.00 | 4.26 |
198 | 199 | 4.394920 | TGAAAATTTCACCTCATACGGCTC | 59.605 | 41.667 | 4.03 | 0.00 | 34.08 | 4.70 |
199 | 200 | 4.331968 | TGAAAATTTCACCTCATACGGCT | 58.668 | 39.130 | 4.03 | 0.00 | 34.08 | 5.52 |
200 | 201 | 4.695217 | TGAAAATTTCACCTCATACGGC | 57.305 | 40.909 | 4.03 | 0.00 | 34.08 | 5.68 |
201 | 202 | 8.221100 | CGTATATGAAAATTTCACCTCATACGG | 58.779 | 37.037 | 25.80 | 16.77 | 43.48 | 4.02 |
202 | 203 | 8.221100 | CCGTATATGAAAATTTCACCTCATACG | 58.779 | 37.037 | 26.14 | 26.14 | 43.48 | 3.06 |
203 | 204 | 8.015658 | GCCGTATATGAAAATTTCACCTCATAC | 58.984 | 37.037 | 10.91 | 13.48 | 43.48 | 2.39 |
204 | 205 | 7.936847 | AGCCGTATATGAAAATTTCACCTCATA | 59.063 | 33.333 | 10.91 | 11.03 | 43.48 | 2.15 |
205 | 206 | 6.772716 | AGCCGTATATGAAAATTTCACCTCAT | 59.227 | 34.615 | 10.91 | 7.92 | 43.48 | 2.90 |
206 | 207 | 6.119536 | AGCCGTATATGAAAATTTCACCTCA | 58.880 | 36.000 | 10.91 | 0.00 | 43.48 | 3.86 |
207 | 208 | 6.483640 | AGAGCCGTATATGAAAATTTCACCTC | 59.516 | 38.462 | 10.91 | 8.04 | 43.48 | 3.85 |
208 | 209 | 6.357367 | AGAGCCGTATATGAAAATTTCACCT | 58.643 | 36.000 | 10.91 | 4.04 | 43.48 | 4.00 |
209 | 210 | 6.619801 | AGAGCCGTATATGAAAATTTCACC | 57.380 | 37.500 | 10.91 | 0.00 | 43.48 | 4.02 |
210 | 211 | 9.042008 | TCTAAGAGCCGTATATGAAAATTTCAC | 57.958 | 33.333 | 10.91 | 0.00 | 43.48 | 3.18 |
211 | 212 | 9.261180 | CTCTAAGAGCCGTATATGAAAATTTCA | 57.739 | 33.333 | 11.10 | 11.10 | 45.01 | 2.69 |
212 | 213 | 9.477484 | TCTCTAAGAGCCGTATATGAAAATTTC | 57.523 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
213 | 214 | 9.482627 | CTCTCTAAGAGCCGTATATGAAAATTT | 57.517 | 33.333 | 0.00 | 0.00 | 35.30 | 1.82 |
214 | 215 | 8.091449 | CCTCTCTAAGAGCCGTATATGAAAATT | 58.909 | 37.037 | 0.00 | 0.00 | 40.98 | 1.82 |
215 | 216 | 7.310113 | CCCTCTCTAAGAGCCGTATATGAAAAT | 60.310 | 40.741 | 0.00 | 0.00 | 40.98 | 1.82 |
216 | 217 | 6.015350 | CCCTCTCTAAGAGCCGTATATGAAAA | 60.015 | 42.308 | 0.00 | 0.00 | 40.98 | 2.29 |
217 | 218 | 5.477291 | CCCTCTCTAAGAGCCGTATATGAAA | 59.523 | 44.000 | 0.00 | 0.00 | 40.98 | 2.69 |
218 | 219 | 5.010933 | CCCTCTCTAAGAGCCGTATATGAA | 58.989 | 45.833 | 0.00 | 0.00 | 40.98 | 2.57 |
219 | 220 | 4.288887 | TCCCTCTCTAAGAGCCGTATATGA | 59.711 | 45.833 | 0.00 | 0.00 | 40.98 | 2.15 |
220 | 221 | 4.396790 | GTCCCTCTCTAAGAGCCGTATATG | 59.603 | 50.000 | 0.00 | 0.00 | 40.98 | 1.78 |
221 | 222 | 4.290196 | AGTCCCTCTCTAAGAGCCGTATAT | 59.710 | 45.833 | 0.00 | 0.00 | 40.98 | 0.86 |
222 | 223 | 3.651904 | AGTCCCTCTCTAAGAGCCGTATA | 59.348 | 47.826 | 0.00 | 0.00 | 40.98 | 1.47 |
223 | 224 | 2.444010 | AGTCCCTCTCTAAGAGCCGTAT | 59.556 | 50.000 | 0.00 | 0.00 | 40.98 | 3.06 |
224 | 225 | 1.845143 | AGTCCCTCTCTAAGAGCCGTA | 59.155 | 52.381 | 0.00 | 0.00 | 40.98 | 4.02 |
225 | 226 | 0.626916 | AGTCCCTCTCTAAGAGCCGT | 59.373 | 55.000 | 0.00 | 0.00 | 40.98 | 5.68 |
226 | 227 | 1.407258 | CAAGTCCCTCTCTAAGAGCCG | 59.593 | 57.143 | 0.00 | 0.00 | 40.98 | 5.52 |
227 | 228 | 1.760029 | CCAAGTCCCTCTCTAAGAGCC | 59.240 | 57.143 | 0.00 | 0.00 | 40.98 | 4.70 |
228 | 229 | 1.760029 | CCCAAGTCCCTCTCTAAGAGC | 59.240 | 57.143 | 0.00 | 0.00 | 40.98 | 4.09 |
229 | 230 | 3.108847 | ACCCAAGTCCCTCTCTAAGAG | 57.891 | 52.381 | 0.00 | 0.00 | 41.96 | 2.85 |
230 | 231 | 3.562108 | AACCCAAGTCCCTCTCTAAGA | 57.438 | 47.619 | 0.00 | 0.00 | 0.00 | 2.10 |
231 | 232 | 4.354662 | ACTAACCCAAGTCCCTCTCTAAG | 58.645 | 47.826 | 0.00 | 0.00 | 0.00 | 2.18 |
232 | 233 | 4.415224 | ACTAACCCAAGTCCCTCTCTAA | 57.585 | 45.455 | 0.00 | 0.00 | 0.00 | 2.10 |
233 | 234 | 4.415224 | AACTAACCCAAGTCCCTCTCTA | 57.585 | 45.455 | 0.00 | 0.00 | 0.00 | 2.43 |
234 | 235 | 3.277416 | AACTAACCCAAGTCCCTCTCT | 57.723 | 47.619 | 0.00 | 0.00 | 0.00 | 3.10 |
235 | 236 | 3.197333 | GGTAACTAACCCAAGTCCCTCTC | 59.803 | 52.174 | 0.00 | 0.00 | 43.16 | 3.20 |
236 | 237 | 3.179685 | GGTAACTAACCCAAGTCCCTCT | 58.820 | 50.000 | 0.00 | 0.00 | 43.16 | 3.69 |
237 | 238 | 3.623906 | GGTAACTAACCCAAGTCCCTC | 57.376 | 52.381 | 0.00 | 0.00 | 43.16 | 4.30 |
266 | 267 | 9.967451 | TGTTCCTCAAACCAATCATATACTTTA | 57.033 | 29.630 | 0.00 | 0.00 | 37.03 | 1.85 |
267 | 268 | 8.877864 | TGTTCCTCAAACCAATCATATACTTT | 57.122 | 30.769 | 0.00 | 0.00 | 37.03 | 2.66 |
268 | 269 | 9.125026 | GATGTTCCTCAAACCAATCATATACTT | 57.875 | 33.333 | 0.00 | 0.00 | 37.03 | 2.24 |
269 | 270 | 8.497745 | AGATGTTCCTCAAACCAATCATATACT | 58.502 | 33.333 | 0.00 | 0.00 | 37.03 | 2.12 |
270 | 271 | 8.682936 | AGATGTTCCTCAAACCAATCATATAC | 57.317 | 34.615 | 0.00 | 0.00 | 37.03 | 1.47 |
271 | 272 | 9.123902 | CAAGATGTTCCTCAAACCAATCATATA | 57.876 | 33.333 | 0.00 | 0.00 | 37.03 | 0.86 |
272 | 273 | 7.835682 | TCAAGATGTTCCTCAAACCAATCATAT | 59.164 | 33.333 | 0.00 | 0.00 | 37.03 | 1.78 |
273 | 274 | 7.174413 | TCAAGATGTTCCTCAAACCAATCATA | 58.826 | 34.615 | 0.00 | 0.00 | 37.03 | 2.15 |
274 | 275 | 6.012113 | TCAAGATGTTCCTCAAACCAATCAT | 58.988 | 36.000 | 0.00 | 0.00 | 37.03 | 2.45 |
275 | 276 | 5.384336 | TCAAGATGTTCCTCAAACCAATCA | 58.616 | 37.500 | 0.00 | 0.00 | 37.03 | 2.57 |
276 | 277 | 5.707298 | TCTCAAGATGTTCCTCAAACCAATC | 59.293 | 40.000 | 0.00 | 0.00 | 37.03 | 2.67 |
277 | 278 | 5.634118 | TCTCAAGATGTTCCTCAAACCAAT | 58.366 | 37.500 | 0.00 | 0.00 | 37.03 | 3.16 |
278 | 279 | 5.047566 | TCTCAAGATGTTCCTCAAACCAA | 57.952 | 39.130 | 0.00 | 0.00 | 37.03 | 3.67 |
279 | 280 | 4.705110 | TCTCAAGATGTTCCTCAAACCA | 57.295 | 40.909 | 0.00 | 0.00 | 37.03 | 3.67 |
280 | 281 | 5.707298 | TGAATCTCAAGATGTTCCTCAAACC | 59.293 | 40.000 | 0.00 | 0.00 | 37.03 | 3.27 |
281 | 282 | 6.622462 | GCTGAATCTCAAGATGTTCCTCAAAC | 60.622 | 42.308 | 0.00 | 0.00 | 38.43 | 2.93 |
282 | 283 | 5.413833 | GCTGAATCTCAAGATGTTCCTCAAA | 59.586 | 40.000 | 0.00 | 0.00 | 34.49 | 2.69 |
283 | 284 | 4.940046 | GCTGAATCTCAAGATGTTCCTCAA | 59.060 | 41.667 | 0.00 | 0.00 | 34.49 | 3.02 |
284 | 285 | 4.019950 | TGCTGAATCTCAAGATGTTCCTCA | 60.020 | 41.667 | 0.00 | 0.00 | 34.49 | 3.86 |
285 | 286 | 4.332268 | GTGCTGAATCTCAAGATGTTCCTC | 59.668 | 45.833 | 0.00 | 0.00 | 34.49 | 3.71 |
286 | 287 | 4.019501 | AGTGCTGAATCTCAAGATGTTCCT | 60.020 | 41.667 | 0.00 | 0.00 | 34.49 | 3.36 |
287 | 288 | 4.094590 | CAGTGCTGAATCTCAAGATGTTCC | 59.905 | 45.833 | 0.00 | 0.00 | 34.49 | 3.62 |
288 | 289 | 4.694509 | ACAGTGCTGAATCTCAAGATGTTC | 59.305 | 41.667 | 6.17 | 0.00 | 34.49 | 3.18 |
289 | 290 | 4.649692 | ACAGTGCTGAATCTCAAGATGTT | 58.350 | 39.130 | 6.17 | 0.00 | 34.49 | 2.71 |
290 | 291 | 4.283363 | ACAGTGCTGAATCTCAAGATGT | 57.717 | 40.909 | 6.17 | 0.00 | 34.49 | 3.06 |
291 | 292 | 6.104665 | TCTAACAGTGCTGAATCTCAAGATG | 58.895 | 40.000 | 6.17 | 0.00 | 34.49 | 2.90 |
292 | 293 | 6.291648 | TCTAACAGTGCTGAATCTCAAGAT | 57.708 | 37.500 | 6.17 | 0.00 | 36.07 | 2.40 |
293 | 294 | 5.728637 | TCTAACAGTGCTGAATCTCAAGA | 57.271 | 39.130 | 6.17 | 0.00 | 0.00 | 3.02 |
294 | 295 | 5.873712 | ACATCTAACAGTGCTGAATCTCAAG | 59.126 | 40.000 | 6.17 | 0.00 | 0.00 | 3.02 |
295 | 296 | 5.640783 | CACATCTAACAGTGCTGAATCTCAA | 59.359 | 40.000 | 6.17 | 0.00 | 0.00 | 3.02 |
296 | 297 | 5.173664 | CACATCTAACAGTGCTGAATCTCA | 58.826 | 41.667 | 6.17 | 0.00 | 0.00 | 3.27 |
297 | 298 | 5.174395 | ACACATCTAACAGTGCTGAATCTC | 58.826 | 41.667 | 6.17 | 0.00 | 39.30 | 2.75 |
298 | 299 | 5.157940 | ACACATCTAACAGTGCTGAATCT | 57.842 | 39.130 | 6.17 | 0.00 | 39.30 | 2.40 |
299 | 300 | 7.095857 | GCTATACACATCTAACAGTGCTGAATC | 60.096 | 40.741 | 6.17 | 0.00 | 39.30 | 2.52 |
300 | 301 | 6.703607 | GCTATACACATCTAACAGTGCTGAAT | 59.296 | 38.462 | 6.17 | 0.00 | 39.30 | 2.57 |
301 | 302 | 6.042777 | GCTATACACATCTAACAGTGCTGAA | 58.957 | 40.000 | 6.17 | 0.00 | 39.30 | 3.02 |
302 | 303 | 5.451937 | GGCTATACACATCTAACAGTGCTGA | 60.452 | 44.000 | 6.17 | 0.00 | 39.30 | 4.26 |
303 | 304 | 4.747108 | GGCTATACACATCTAACAGTGCTG | 59.253 | 45.833 | 0.00 | 0.00 | 39.30 | 4.41 |
304 | 305 | 4.202264 | GGGCTATACACATCTAACAGTGCT | 60.202 | 45.833 | 0.00 | 0.00 | 39.30 | 4.40 |
305 | 306 | 4.058817 | GGGCTATACACATCTAACAGTGC | 58.941 | 47.826 | 0.00 | 0.00 | 39.30 | 4.40 |
306 | 307 | 5.537300 | AGGGCTATACACATCTAACAGTG | 57.463 | 43.478 | 0.00 | 0.00 | 41.40 | 3.66 |
325 | 326 | 2.517998 | TGGGGATAAACCGAAAAGGG | 57.482 | 50.000 | 0.00 | 0.00 | 46.96 | 3.95 |
490 | 491 | 1.427020 | GCAGCCAGAATCGAGCAAC | 59.573 | 57.895 | 0.00 | 0.00 | 0.00 | 4.17 |
491 | 492 | 1.746615 | GGCAGCCAGAATCGAGCAA | 60.747 | 57.895 | 6.55 | 0.00 | 0.00 | 3.91 |
516 | 517 | 4.123571 | TCCGGACGGGATGAAAGT | 57.876 | 55.556 | 11.27 | 0.00 | 40.94 | 2.66 |
545 | 546 | 3.499737 | CGATGCAACGGGACAGCC | 61.500 | 66.667 | 8.71 | 0.00 | 0.00 | 4.85 |
699 | 701 | 2.629656 | GCAGTGGCAGCAACCGAAT | 61.630 | 57.895 | 0.00 | 0.00 | 40.72 | 3.34 |
705 | 707 | 3.286751 | GTTCGGCAGTGGCAGCAA | 61.287 | 61.111 | 17.80 | 3.10 | 43.71 | 3.91 |
743 | 745 | 2.352805 | GACCAGGGCAACAGAGGG | 59.647 | 66.667 | 0.00 | 0.00 | 39.74 | 4.30 |
895 | 897 | 1.152312 | ACTTCACCCCTCCTCGTGT | 60.152 | 57.895 | 0.00 | 0.00 | 0.00 | 4.49 |
946 | 949 | 2.575455 | TTTGTGGTCAACGGGCCCTT | 62.575 | 55.000 | 22.43 | 7.92 | 32.93 | 3.95 |
970 | 975 | 2.612672 | CACTCTGCTGCTATTGTCCATG | 59.387 | 50.000 | 0.00 | 0.00 | 0.00 | 3.66 |
971 | 976 | 2.502947 | TCACTCTGCTGCTATTGTCCAT | 59.497 | 45.455 | 0.00 | 0.00 | 0.00 | 3.41 |
972 | 977 | 1.901833 | TCACTCTGCTGCTATTGTCCA | 59.098 | 47.619 | 0.00 | 0.00 | 0.00 | 4.02 |
979 | 984 | 2.893489 | TGAGAAAGTCACTCTGCTGCTA | 59.107 | 45.455 | 0.00 | 0.00 | 35.66 | 3.49 |
1014 | 1019 | 1.136305 | CACCGAGGAACCACGACATAT | 59.864 | 52.381 | 11.77 | 0.00 | 0.00 | 1.78 |
1022 | 1027 | 3.691342 | CCGAGCACCGAGGAACCA | 61.691 | 66.667 | 0.00 | 0.00 | 41.76 | 3.67 |
1096 | 1101 | 1.021202 | CCGCACAAAAGGAGTTCACA | 58.979 | 50.000 | 0.00 | 0.00 | 0.00 | 3.58 |
1100 | 1105 | 0.396556 | AACCCCGCACAAAAGGAGTT | 60.397 | 50.000 | 0.00 | 0.00 | 0.00 | 3.01 |
1113 | 1118 | 3.068691 | TCGCCAGAGAGAACCCCG | 61.069 | 66.667 | 0.00 | 0.00 | 0.00 | 5.73 |
1279 | 1285 | 5.105554 | ACACAGAGAGAGCATCGAAATAAGT | 60.106 | 40.000 | 0.00 | 0.00 | 42.67 | 2.24 |
1286 | 1292 | 2.017782 | GGTACACAGAGAGAGCATCGA | 58.982 | 52.381 | 0.00 | 0.00 | 42.67 | 3.59 |
1321 | 1327 | 3.141398 | CATTGCACCACTGAGTGTAAGT | 58.859 | 45.455 | 12.15 | 0.00 | 43.97 | 2.24 |
1582 | 1589 | 0.814457 | GTGCCACAAACAACTGTCCA | 59.186 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1718 | 1725 | 1.689273 | GCACCTCCGAGATAGGAACAT | 59.311 | 52.381 | 0.00 | 0.00 | 40.25 | 2.71 |
1796 | 1803 | 1.595109 | CGAGCAGCCAACACAGACA | 60.595 | 57.895 | 0.00 | 0.00 | 0.00 | 3.41 |
1879 | 1888 | 3.244215 | CCTCTCAGTGTAAGCAGGTCAAA | 60.244 | 47.826 | 0.00 | 0.00 | 0.00 | 2.69 |
1881 | 1890 | 1.895798 | CCTCTCAGTGTAAGCAGGTCA | 59.104 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
1911 | 1920 | 1.227527 | CACAGAAGGTGTCACGGCA | 60.228 | 57.895 | 0.00 | 0.00 | 42.75 | 5.69 |
2061 | 2070 | 2.579860 | AGGAGGCCAAGAGACATTTGAT | 59.420 | 45.455 | 5.01 | 0.00 | 0.00 | 2.57 |
2067 | 2076 | 1.984570 | CCGAGGAGGCCAAGAGACA | 60.985 | 63.158 | 5.01 | 0.00 | 0.00 | 3.41 |
2084 | 2093 | 2.156051 | AACCAGTCGACGAAGAGCCC | 62.156 | 60.000 | 10.46 | 0.00 | 0.00 | 5.19 |
2170 | 2179 | 2.875296 | CTCCAGAATCCAAAACCCACA | 58.125 | 47.619 | 0.00 | 0.00 | 0.00 | 4.17 |
2249 | 2258 | 6.229936 | TCGGCAGTAAGAACATTAATAGGT | 57.770 | 37.500 | 0.00 | 0.00 | 0.00 | 3.08 |
2278 | 2287 | 4.096532 | CACGACTAGCAACAGGAAGAGATA | 59.903 | 45.833 | 0.00 | 0.00 | 0.00 | 1.98 |
2328 | 2337 | 2.859165 | ACATGTGAACCACTCGGAAT | 57.141 | 45.000 | 0.00 | 0.00 | 35.11 | 3.01 |
2338 | 2347 | 3.678548 | GGTAAGACGAGGAACATGTGAAC | 59.321 | 47.826 | 0.00 | 0.00 | 0.00 | 3.18 |
2557 | 2566 | 0.901124 | AGACGAAGAGGCAGCAAGAT | 59.099 | 50.000 | 0.00 | 0.00 | 0.00 | 2.40 |
2577 | 2586 | 2.743718 | CCACTGCTGGAAGGACGT | 59.256 | 61.111 | 0.00 | 0.00 | 40.55 | 4.34 |
2729 | 2738 | 6.428771 | GCTGAGATACTAACTCACTAGTAGGG | 59.571 | 46.154 | 1.45 | 0.00 | 37.70 | 3.53 |
2743 | 2752 | 6.782082 | AGTCAAACAGATGCTGAGATACTA | 57.218 | 37.500 | 0.82 | 0.00 | 35.18 | 1.82 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.