Multiple sequence alignment - TraesCS5B01G537600
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 | TraesCS5B01G537600 | chr5B | 100.000 | 3332 | 0 | 0 | 1 | 3332 | 693449179 | 693452510 | 0.000000e+00 | 6154.0 |
1 | TraesCS5B01G537600 | chr5B | 94.572 | 1529 | 72 | 5 | 144 | 1663 | 693532026 | 693533552 | 0.000000e+00 | 2353.0 |
2 | TraesCS5B01G537600 | chr5B | 94.048 | 1529 | 79 | 6 | 144 | 1663 | 712305068 | 712303543 | 0.000000e+00 | 2309.0 |
3 | TraesCS5B01G537600 | chr5B | 92.955 | 1235 | 60 | 13 | 1956 | 3178 | 693533726 | 693534945 | 0.000000e+00 | 1773.0 |
4 | TraesCS5B01G537600 | chr5B | 90.630 | 1302 | 82 | 15 | 1890 | 3178 | 712303384 | 712302110 | 0.000000e+00 | 1692.0 |
5 | TraesCS5B01G537600 | chr5B | 89.256 | 363 | 36 | 2 | 1304 | 1663 | 693585829 | 693586191 | 5.070000e-123 | 451.0 |
6 | TraesCS5B01G537600 | chr5B | 95.783 | 166 | 6 | 1 | 3167 | 3332 | 712302053 | 712301889 | 1.970000e-67 | 267.0 |
7 | TraesCS5B01G537600 | chr5B | 95.210 | 167 | 6 | 2 | 3167 | 3332 | 693535002 | 693535167 | 2.550000e-66 | 263.0 |
8 | TraesCS5B01G537600 | chr5B | 79.825 | 342 | 48 | 16 | 440 | 771 | 693713046 | 693712716 | 2.590000e-56 | 230.0 |
9 | TraesCS5B01G537600 | chr5B | 90.789 | 152 | 13 | 1 | 3181 | 3332 | 595078373 | 595078523 | 5.640000e-48 | 202.0 |
10 | TraesCS5B01G537600 | chr5B | 80.162 | 247 | 37 | 11 | 221 | 461 | 693532222 | 693532462 | 1.230000e-39 | 174.0 |
11 | TraesCS5B01G537600 | chr5B | 79.032 | 248 | 38 | 12 | 221 | 461 | 712304872 | 712304632 | 1.240000e-34 | 158.0 |
12 | TraesCS5B01G537600 | chr5D | 92.736 | 1707 | 91 | 16 | 286 | 1974 | 559242149 | 559243840 | 0.000000e+00 | 2435.0 |
13 | TraesCS5B01G537600 | chr5D | 90.909 | 1188 | 75 | 22 | 2007 | 3178 | 559243832 | 559245002 | 0.000000e+00 | 1565.0 |
14 | TraesCS5B01G537600 | chr5D | 89.532 | 363 | 35 | 2 | 1304 | 1663 | 559466606 | 559466244 | 1.090000e-124 | 457.0 |
15 | TraesCS5B01G537600 | chr5D | 95.181 | 166 | 7 | 1 | 3167 | 3332 | 559245059 | 559245223 | 9.170000e-66 | 261.0 |
16 | TraesCS5B01G537600 | chr5D | 91.391 | 151 | 12 | 1 | 3182 | 3332 | 483971626 | 483971775 | 4.360000e-49 | 206.0 |
17 | TraesCS5B01G537600 | chr5D | 84.507 | 71 | 9 | 2 | 74 | 143 | 194672065 | 194671996 | 5.960000e-08 | 69.4 |
18 | TraesCS5B01G537600 | chr3A | 89.742 | 1394 | 121 | 14 | 390 | 1768 | 743644905 | 743643519 | 0.000000e+00 | 1762.0 |
19 | TraesCS5B01G537600 | chr4A | 89.327 | 1293 | 84 | 15 | 383 | 1663 | 612441985 | 612443235 | 0.000000e+00 | 1574.0 |
20 | TraesCS5B01G537600 | chr4A | 88.500 | 1287 | 115 | 18 | 1778 | 3052 | 612443279 | 612444544 | 0.000000e+00 | 1526.0 |
21 | TraesCS5B01G537600 | chr4A | 84.590 | 1207 | 151 | 24 | 123 | 1303 | 612999269 | 612998072 | 0.000000e+00 | 1166.0 |
22 | TraesCS5B01G537600 | chr4A | 87.042 | 764 | 80 | 12 | 174 | 920 | 612975760 | 612974999 | 0.000000e+00 | 845.0 |
23 | TraesCS5B01G537600 | chr4A | 88.331 | 617 | 57 | 10 | 1781 | 2397 | 612974138 | 612973537 | 0.000000e+00 | 726.0 |
24 | TraesCS5B01G537600 | chr4A | 84.724 | 635 | 64 | 15 | 1778 | 2396 | 613155357 | 613154740 | 3.680000e-169 | 604.0 |
25 | TraesCS5B01G537600 | chr4A | 84.083 | 578 | 62 | 16 | 1778 | 2339 | 612391747 | 612392310 | 6.330000e-147 | 531.0 |
26 | TraesCS5B01G537600 | chr4A | 89.617 | 366 | 32 | 3 | 1304 | 1663 | 612391334 | 612391699 | 8.420000e-126 | 460.0 |
27 | TraesCS5B01G537600 | chr4A | 90.000 | 360 | 30 | 3 | 1310 | 1663 | 613155764 | 613155405 | 8.420000e-126 | 460.0 |
28 | TraesCS5B01G537600 | chr4A | 80.671 | 626 | 79 | 25 | 414 | 1006 | 612685029 | 612684413 | 6.560000e-122 | 448.0 |
29 | TraesCS5B01G537600 | chr4A | 90.506 | 316 | 28 | 2 | 2017 | 2332 | 612998075 | 612997762 | 1.850000e-112 | 416.0 |
30 | TraesCS5B01G537600 | chr4A | 87.725 | 334 | 35 | 2 | 1009 | 1336 | 612974760 | 612974427 | 5.210000e-103 | 385.0 |
31 | TraesCS5B01G537600 | chr4A | 91.176 | 170 | 8 | 3 | 3167 | 3332 | 612444700 | 612444866 | 1.200000e-54 | 224.0 |
32 | TraesCS5B01G537600 | chr4A | 93.939 | 99 | 6 | 0 | 3080 | 3178 | 612444545 | 612444643 | 2.070000e-32 | 150.0 |
33 | TraesCS5B01G537600 | chr4A | 78.363 | 171 | 28 | 8 | 295 | 461 | 612685031 | 612684866 | 5.880000e-18 | 102.0 |
34 | TraesCS5B01G537600 | chr4A | 91.837 | 49 | 4 | 0 | 1163 | 1211 | 612372528 | 612372576 | 5.960000e-08 | 69.4 |
35 | TraesCS5B01G537600 | chr6D | 84.581 | 1109 | 87 | 39 | 1304 | 2397 | 136695851 | 136694812 | 0.000000e+00 | 1024.0 |
36 | TraesCS5B01G537600 | chr6A | 84.629 | 1106 | 83 | 39 | 1310 | 2396 | 178438303 | 178437266 | 0.000000e+00 | 1020.0 |
37 | TraesCS5B01G537600 | chr6A | 88.623 | 167 | 16 | 3 | 3167 | 3332 | 481621041 | 481620877 | 2.030000e-47 | 200.0 |
38 | TraesCS5B01G537600 | chr6B | 84.324 | 1110 | 89 | 34 | 1304 | 2397 | 234846291 | 234845251 | 0.000000e+00 | 1007.0 |
39 | TraesCS5B01G537600 | chr6B | 97.619 | 84 | 2 | 0 | 1 | 84 | 403316780 | 403316697 | 9.630000e-31 | 145.0 |
40 | TraesCS5B01G537600 | chrUn | 89.916 | 357 | 33 | 2 | 1310 | 1663 | 290197609 | 290197253 | 1.090000e-124 | 457.0 |
41 | TraesCS5B01G537600 | chr1D | 89.542 | 153 | 16 | 0 | 3180 | 3332 | 412456540 | 412456388 | 9.430000e-46 | 195.0 |
42 | TraesCS5B01G537600 | chr1D | 91.525 | 59 | 5 | 0 | 3120 | 3178 | 491438573 | 491438515 | 7.660000e-12 | 82.4 |
43 | TraesCS5B01G537600 | chr5A | 89.474 | 152 | 16 | 0 | 3181 | 3332 | 605741970 | 605742121 | 3.390000e-45 | 193.0 |
44 | TraesCS5B01G537600 | chr1B | 87.162 | 148 | 11 | 4 | 1 | 143 | 503453691 | 503453547 | 9.570000e-36 | 161.0 |
45 | TraesCS5B01G537600 | chr1B | 97.619 | 84 | 2 | 0 | 1 | 84 | 224492354 | 224492437 | 9.630000e-31 | 145.0 |
46 | TraesCS5B01G537600 | chr3B | 86.806 | 144 | 17 | 2 | 1 | 143 | 81069697 | 81069555 | 3.440000e-35 | 159.0 |
47 | TraesCS5B01G537600 | chr3B | 82.781 | 151 | 19 | 7 | 1 | 148 | 491402758 | 491402612 | 9.700000e-26 | 128.0 |
48 | TraesCS5B01G537600 | chr4B | 85.906 | 149 | 14 | 5 | 1 | 143 | 227626676 | 227626823 | 5.760000e-33 | 152.0 |
49 | TraesCS5B01G537600 | chr4B | 85.811 | 148 | 14 | 5 | 3 | 143 | 633664243 | 633664096 | 2.070000e-32 | 150.0 |
50 | TraesCS5B01G537600 | chr4B | 97.619 | 84 | 2 | 0 | 1 | 84 | 290185584 | 290185667 | 9.630000e-31 | 145.0 |
51 | TraesCS5B01G537600 | chr7B | 97.619 | 84 | 2 | 0 | 1 | 84 | 202547513 | 202547430 | 9.630000e-31 | 145.0 |
52 | TraesCS5B01G537600 | chr7A | 77.193 | 171 | 34 | 4 | 2731 | 2896 | 106824395 | 106824565 | 9.840000e-16 | 95.3 |
53 | TraesCS5B01G537600 | chr3D | 98.000 | 50 | 1 | 0 | 3129 | 3178 | 583478985 | 583479034 | 1.650000e-13 | 87.9 |
54 | TraesCS5B01G537600 | chr1A | 86.792 | 53 | 7 | 0 | 2651 | 2703 | 15465227 | 15465175 | 3.590000e-05 | 60.2 |
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 | TraesCS5B01G537600 | chr5B | 693449179 | 693452510 | 3331 | False | 6154.000000 | 6154 | 100.000000 | 1 | 3332 | 1 | chr5B.!!$F2 | 3331 |
1 | TraesCS5B01G537600 | chr5B | 693532026 | 693535167 | 3141 | False | 1140.750000 | 2353 | 90.724750 | 144 | 3332 | 4 | chr5B.!!$F4 | 3188 |
2 | TraesCS5B01G537600 | chr5B | 712301889 | 712305068 | 3179 | True | 1106.500000 | 2309 | 89.873250 | 144 | 3332 | 4 | chr5B.!!$R2 | 3188 |
3 | TraesCS5B01G537600 | chr5D | 559242149 | 559245223 | 3074 | False | 1420.333333 | 2435 | 92.942000 | 286 | 3332 | 3 | chr5D.!!$F2 | 3046 |
4 | TraesCS5B01G537600 | chr3A | 743643519 | 743644905 | 1386 | True | 1762.000000 | 1762 | 89.742000 | 390 | 1768 | 1 | chr3A.!!$R1 | 1378 |
5 | TraesCS5B01G537600 | chr4A | 612441985 | 612444866 | 2881 | False | 868.500000 | 1574 | 90.735500 | 383 | 3332 | 4 | chr4A.!!$F3 | 2949 |
6 | TraesCS5B01G537600 | chr4A | 612997762 | 612999269 | 1507 | True | 791.000000 | 1166 | 87.548000 | 123 | 2332 | 2 | chr4A.!!$R3 | 2209 |
7 | TraesCS5B01G537600 | chr4A | 612973537 | 612975760 | 2223 | True | 652.000000 | 845 | 87.699333 | 174 | 2397 | 3 | chr4A.!!$R2 | 2223 |
8 | TraesCS5B01G537600 | chr4A | 613154740 | 613155764 | 1024 | True | 532.000000 | 604 | 87.362000 | 1310 | 2396 | 2 | chr4A.!!$R4 | 1086 |
9 | TraesCS5B01G537600 | chr4A | 612391334 | 612392310 | 976 | False | 495.500000 | 531 | 86.850000 | 1304 | 2339 | 2 | chr4A.!!$F2 | 1035 |
10 | TraesCS5B01G537600 | chr4A | 612684413 | 612685031 | 618 | True | 275.000000 | 448 | 79.517000 | 295 | 1006 | 2 | chr4A.!!$R1 | 711 |
11 | TraesCS5B01G537600 | chr6D | 136694812 | 136695851 | 1039 | True | 1024.000000 | 1024 | 84.581000 | 1304 | 2397 | 1 | chr6D.!!$R1 | 1093 |
12 | TraesCS5B01G537600 | chr6A | 178437266 | 178438303 | 1037 | True | 1020.000000 | 1020 | 84.629000 | 1310 | 2396 | 1 | chr6A.!!$R1 | 1086 |
13 | TraesCS5B01G537600 | chr6B | 234845251 | 234846291 | 1040 | True | 1007.000000 | 1007 | 84.324000 | 1304 | 2397 | 1 | chr6B.!!$R1 | 1093 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
64 | 65 | 0.458543 | ATTCCGCTGCTAGTGTGTCG | 60.459 | 55.0 | 0.0 | 0.0 | 0.00 | 4.35 | F |
69 | 70 | 0.946221 | GCTGCTAGTGTGTCGTTGCT | 60.946 | 55.0 | 0.0 | 0.0 | 0.00 | 3.91 | F |
1109 | 1327 | 1.049289 | CCCTGGAGTAGTGGGGTAGC | 61.049 | 65.0 | 0.0 | 0.0 | 37.37 | 3.58 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1613 | 1865 | 0.317770 | CACAAAAGCACGCCGTGAAT | 60.318 | 50.0 | 23.33 | 5.38 | 35.23 | 2.57 | R |
1888 | 2217 | 0.744874 | TGGTCGCTACTACCATCTGC | 59.255 | 55.0 | 0.00 | 0.00 | 42.10 | 4.26 | R |
2935 | 3317 | 0.744874 | TCATCCGCTTTACCTCTCGG | 59.255 | 55.0 | 0.00 | 0.00 | 42.96 | 4.63 | 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 | 4.898320 | TGATGACTATGTTGTTGCTCTGT | 58.102 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
24 | 25 | 5.308014 | TGATGACTATGTTGTTGCTCTGTT | 58.692 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
25 | 26 | 6.463360 | TGATGACTATGTTGTTGCTCTGTTA | 58.537 | 36.000 | 0.00 | 0.00 | 0.00 | 2.41 |
26 | 27 | 7.105588 | TGATGACTATGTTGTTGCTCTGTTAT | 58.894 | 34.615 | 0.00 | 0.00 | 0.00 | 1.89 |
27 | 28 | 6.726258 | TGACTATGTTGTTGCTCTGTTATG | 57.274 | 37.500 | 0.00 | 0.00 | 0.00 | 1.90 |
28 | 29 | 5.122239 | TGACTATGTTGTTGCTCTGTTATGC | 59.878 | 40.000 | 0.00 | 0.00 | 0.00 | 3.14 |
29 | 30 | 5.248640 | ACTATGTTGTTGCTCTGTTATGCT | 58.751 | 37.500 | 0.00 | 0.00 | 0.00 | 3.79 |
30 | 31 | 5.707298 | ACTATGTTGTTGCTCTGTTATGCTT | 59.293 | 36.000 | 0.00 | 0.00 | 0.00 | 3.91 |
31 | 32 | 6.878923 | ACTATGTTGTTGCTCTGTTATGCTTA | 59.121 | 34.615 | 0.00 | 0.00 | 0.00 | 3.09 |
32 | 33 | 6.764308 | ATGTTGTTGCTCTGTTATGCTTAT | 57.236 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
33 | 34 | 7.864108 | ATGTTGTTGCTCTGTTATGCTTATA | 57.136 | 32.000 | 0.00 | 0.00 | 0.00 | 0.98 |
34 | 35 | 7.072177 | TGTTGTTGCTCTGTTATGCTTATAC | 57.928 | 36.000 | 0.00 | 0.00 | 0.00 | 1.47 |
35 | 36 | 6.093495 | TGTTGTTGCTCTGTTATGCTTATACC | 59.907 | 38.462 | 0.00 | 0.00 | 0.00 | 2.73 |
36 | 37 | 5.989477 | TGTTGCTCTGTTATGCTTATACCT | 58.011 | 37.500 | 0.00 | 0.00 | 0.00 | 3.08 |
37 | 38 | 5.817296 | TGTTGCTCTGTTATGCTTATACCTG | 59.183 | 40.000 | 0.00 | 0.00 | 0.00 | 4.00 |
38 | 39 | 5.869649 | TGCTCTGTTATGCTTATACCTGA | 57.130 | 39.130 | 0.00 | 0.00 | 0.00 | 3.86 |
39 | 40 | 5.847304 | TGCTCTGTTATGCTTATACCTGAG | 58.153 | 41.667 | 0.00 | 0.00 | 0.00 | 3.35 |
40 | 41 | 5.363868 | TGCTCTGTTATGCTTATACCTGAGT | 59.636 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
41 | 42 | 6.549736 | TGCTCTGTTATGCTTATACCTGAGTA | 59.450 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
42 | 43 | 6.864165 | GCTCTGTTATGCTTATACCTGAGTAC | 59.136 | 42.308 | 0.00 | 0.00 | 0.00 | 2.73 |
43 | 44 | 7.255660 | GCTCTGTTATGCTTATACCTGAGTACT | 60.256 | 40.741 | 0.00 | 0.00 | 0.00 | 2.73 |
44 | 45 | 8.534954 | TCTGTTATGCTTATACCTGAGTACTT | 57.465 | 34.615 | 0.00 | 0.00 | 0.00 | 2.24 |
45 | 46 | 9.636789 | TCTGTTATGCTTATACCTGAGTACTTA | 57.363 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
50 | 51 | 6.978338 | TGCTTATACCTGAGTACTTATTCCG | 58.022 | 40.000 | 0.00 | 0.00 | 0.00 | 4.30 |
51 | 52 | 5.862860 | GCTTATACCTGAGTACTTATTCCGC | 59.137 | 44.000 | 0.00 | 0.00 | 0.00 | 5.54 |
52 | 53 | 6.294620 | GCTTATACCTGAGTACTTATTCCGCT | 60.295 | 42.308 | 0.00 | 0.00 | 0.00 | 5.52 |
53 | 54 | 3.802948 | ACCTGAGTACTTATTCCGCTG | 57.197 | 47.619 | 0.00 | 0.00 | 0.00 | 5.18 |
54 | 55 | 2.159085 | ACCTGAGTACTTATTCCGCTGC | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 5.25 |
55 | 56 | 2.101582 | CCTGAGTACTTATTCCGCTGCT | 59.898 | 50.000 | 0.00 | 0.00 | 0.00 | 4.24 |
56 | 57 | 3.318275 | CCTGAGTACTTATTCCGCTGCTA | 59.682 | 47.826 | 0.00 | 0.00 | 0.00 | 3.49 |
57 | 58 | 4.541779 | CTGAGTACTTATTCCGCTGCTAG | 58.458 | 47.826 | 0.00 | 0.00 | 0.00 | 3.42 |
58 | 59 | 3.952323 | TGAGTACTTATTCCGCTGCTAGT | 59.048 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
59 | 60 | 4.202020 | TGAGTACTTATTCCGCTGCTAGTG | 60.202 | 45.833 | 0.00 | 0.00 | 0.00 | 2.74 |
60 | 61 | 3.700038 | AGTACTTATTCCGCTGCTAGTGT | 59.300 | 43.478 | 0.00 | 0.00 | 0.00 | 3.55 |
61 | 62 | 2.893637 | ACTTATTCCGCTGCTAGTGTG | 58.106 | 47.619 | 0.00 | 0.00 | 0.00 | 3.82 |
62 | 63 | 2.233922 | ACTTATTCCGCTGCTAGTGTGT | 59.766 | 45.455 | 0.00 | 0.00 | 0.00 | 3.72 |
63 | 64 | 2.579207 | TATTCCGCTGCTAGTGTGTC | 57.421 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
64 | 65 | 0.458543 | ATTCCGCTGCTAGTGTGTCG | 60.459 | 55.000 | 0.00 | 0.00 | 0.00 | 4.35 |
65 | 66 | 1.802337 | TTCCGCTGCTAGTGTGTCGT | 61.802 | 55.000 | 0.00 | 0.00 | 0.00 | 4.34 |
66 | 67 | 1.372997 | CCGCTGCTAGTGTGTCGTT | 60.373 | 57.895 | 0.00 | 0.00 | 0.00 | 3.85 |
67 | 68 | 1.617755 | CCGCTGCTAGTGTGTCGTTG | 61.618 | 60.000 | 0.00 | 0.00 | 0.00 | 4.10 |
68 | 69 | 1.493311 | GCTGCTAGTGTGTCGTTGC | 59.507 | 57.895 | 0.00 | 0.00 | 0.00 | 4.17 |
69 | 70 | 0.946221 | GCTGCTAGTGTGTCGTTGCT | 60.946 | 55.000 | 0.00 | 0.00 | 0.00 | 3.91 |
70 | 71 | 1.502231 | CTGCTAGTGTGTCGTTGCTT | 58.498 | 50.000 | 0.00 | 0.00 | 0.00 | 3.91 |
71 | 72 | 1.867233 | CTGCTAGTGTGTCGTTGCTTT | 59.133 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
72 | 73 | 1.597195 | TGCTAGTGTGTCGTTGCTTTG | 59.403 | 47.619 | 0.00 | 0.00 | 0.00 | 2.77 |
73 | 74 | 1.069906 | GCTAGTGTGTCGTTGCTTTGG | 60.070 | 52.381 | 0.00 | 0.00 | 0.00 | 3.28 |
74 | 75 | 2.479837 | CTAGTGTGTCGTTGCTTTGGA | 58.520 | 47.619 | 0.00 | 0.00 | 0.00 | 3.53 |
75 | 76 | 1.745232 | AGTGTGTCGTTGCTTTGGAA | 58.255 | 45.000 | 0.00 | 0.00 | 0.00 | 3.53 |
76 | 77 | 2.297701 | AGTGTGTCGTTGCTTTGGAAT | 58.702 | 42.857 | 0.00 | 0.00 | 0.00 | 3.01 |
77 | 78 | 2.687935 | AGTGTGTCGTTGCTTTGGAATT | 59.312 | 40.909 | 0.00 | 0.00 | 0.00 | 2.17 |
78 | 79 | 3.130340 | AGTGTGTCGTTGCTTTGGAATTT | 59.870 | 39.130 | 0.00 | 0.00 | 0.00 | 1.82 |
79 | 80 | 3.485743 | GTGTGTCGTTGCTTTGGAATTTC | 59.514 | 43.478 | 0.00 | 0.00 | 0.00 | 2.17 |
80 | 81 | 3.129462 | TGTGTCGTTGCTTTGGAATTTCA | 59.871 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
81 | 82 | 4.202101 | TGTGTCGTTGCTTTGGAATTTCAT | 60.202 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
82 | 83 | 4.382754 | GTGTCGTTGCTTTGGAATTTCATC | 59.617 | 41.667 | 0.00 | 0.00 | 0.00 | 2.92 |
83 | 84 | 4.037327 | TGTCGTTGCTTTGGAATTTCATCA | 59.963 | 37.500 | 0.00 | 0.00 | 0.00 | 3.07 |
84 | 85 | 4.618489 | GTCGTTGCTTTGGAATTTCATCAG | 59.382 | 41.667 | 0.00 | 0.00 | 0.00 | 2.90 |
85 | 86 | 4.278170 | TCGTTGCTTTGGAATTTCATCAGT | 59.722 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
86 | 87 | 4.383649 | CGTTGCTTTGGAATTTCATCAGTG | 59.616 | 41.667 | 0.00 | 0.00 | 0.00 | 3.66 |
87 | 88 | 5.531634 | GTTGCTTTGGAATTTCATCAGTGA | 58.468 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
88 | 89 | 5.125100 | TGCTTTGGAATTTCATCAGTGAC | 57.875 | 39.130 | 0.00 | 0.00 | 33.11 | 3.67 |
89 | 90 | 4.161333 | GCTTTGGAATTTCATCAGTGACG | 58.839 | 43.478 | 0.00 | 0.00 | 33.11 | 4.35 |
90 | 91 | 4.083324 | GCTTTGGAATTTCATCAGTGACGA | 60.083 | 41.667 | 0.00 | 0.00 | 33.11 | 4.20 |
91 | 92 | 5.562696 | GCTTTGGAATTTCATCAGTGACGAA | 60.563 | 40.000 | 0.00 | 0.00 | 33.11 | 3.85 |
92 | 93 | 6.573664 | TTTGGAATTTCATCAGTGACGAAT | 57.426 | 33.333 | 1.94 | 0.00 | 33.11 | 3.34 |
93 | 94 | 6.573664 | TTGGAATTTCATCAGTGACGAATT | 57.426 | 33.333 | 1.94 | 6.24 | 33.11 | 2.17 |
94 | 95 | 6.573664 | TGGAATTTCATCAGTGACGAATTT | 57.426 | 33.333 | 1.94 | 5.68 | 33.11 | 1.82 |
95 | 96 | 6.380995 | TGGAATTTCATCAGTGACGAATTTG | 58.619 | 36.000 | 12.33 | 0.00 | 33.11 | 2.32 |
96 | 97 | 6.016360 | TGGAATTTCATCAGTGACGAATTTGT | 60.016 | 34.615 | 12.33 | 0.00 | 33.11 | 2.83 |
97 | 98 | 7.174080 | TGGAATTTCATCAGTGACGAATTTGTA | 59.826 | 33.333 | 12.33 | 0.00 | 33.11 | 2.41 |
98 | 99 | 8.020819 | GGAATTTCATCAGTGACGAATTTGTAA | 58.979 | 33.333 | 12.33 | 0.00 | 33.11 | 2.41 |
99 | 100 | 9.393249 | GAATTTCATCAGTGACGAATTTGTAAA | 57.607 | 29.630 | 12.33 | 2.96 | 33.11 | 2.01 |
100 | 101 | 9.743057 | AATTTCATCAGTGACGAATTTGTAAAA | 57.257 | 25.926 | 1.94 | 0.00 | 33.11 | 1.52 |
101 | 102 | 9.743057 | ATTTCATCAGTGACGAATTTGTAAAAA | 57.257 | 25.926 | 1.94 | 0.00 | 33.11 | 1.94 |
102 | 103 | 9.743057 | TTTCATCAGTGACGAATTTGTAAAAAT | 57.257 | 25.926 | 1.94 | 0.00 | 33.11 | 1.82 |
103 | 104 | 8.948853 | TCATCAGTGACGAATTTGTAAAAATC | 57.051 | 30.769 | 0.00 | 0.00 | 0.00 | 2.17 |
104 | 105 | 7.744276 | TCATCAGTGACGAATTTGTAAAAATCG | 59.256 | 33.333 | 8.26 | 8.26 | 37.34 | 3.34 |
105 | 106 | 6.367421 | TCAGTGACGAATTTGTAAAAATCGG | 58.633 | 36.000 | 13.05 | 2.64 | 36.35 | 4.18 |
106 | 107 | 6.203145 | TCAGTGACGAATTTGTAAAAATCGGA | 59.797 | 34.615 | 13.05 | 0.51 | 36.35 | 4.55 |
107 | 108 | 7.021196 | CAGTGACGAATTTGTAAAAATCGGAT | 58.979 | 34.615 | 13.05 | 0.00 | 36.35 | 4.18 |
108 | 109 | 8.172484 | CAGTGACGAATTTGTAAAAATCGGATA | 58.828 | 33.333 | 13.05 | 0.00 | 36.35 | 2.59 |
109 | 110 | 8.889717 | AGTGACGAATTTGTAAAAATCGGATAT | 58.110 | 29.630 | 13.05 | 0.00 | 36.35 | 1.63 |
110 | 111 | 9.155053 | GTGACGAATTTGTAAAAATCGGATATC | 57.845 | 33.333 | 13.05 | 0.00 | 36.35 | 1.63 |
111 | 112 | 8.339714 | TGACGAATTTGTAAAAATCGGATATCC | 58.660 | 33.333 | 12.14 | 12.14 | 36.35 | 2.59 |
112 | 113 | 7.645402 | ACGAATTTGTAAAAATCGGATATCCC | 58.355 | 34.615 | 16.36 | 0.00 | 36.35 | 3.85 |
113 | 114 | 7.081976 | CGAATTTGTAAAAATCGGATATCCCC | 58.918 | 38.462 | 16.36 | 0.00 | 31.69 | 4.81 |
114 | 115 | 6.911250 | ATTTGTAAAAATCGGATATCCCCC | 57.089 | 37.500 | 16.36 | 0.00 | 0.00 | 5.40 |
135 | 136 | 5.338137 | CCCCCTCCCTTAATCGATATAACAC | 60.338 | 48.000 | 0.00 | 0.00 | 0.00 | 3.32 |
136 | 137 | 5.247564 | CCCCTCCCTTAATCGATATAACACA | 59.752 | 44.000 | 0.00 | 0.00 | 0.00 | 3.72 |
137 | 138 | 6.164176 | CCCTCCCTTAATCGATATAACACAC | 58.836 | 44.000 | 0.00 | 0.00 | 0.00 | 3.82 |
139 | 140 | 7.442656 | CCTCCCTTAATCGATATAACACACTT | 58.557 | 38.462 | 0.00 | 0.00 | 0.00 | 3.16 |
141 | 142 | 8.882415 | TCCCTTAATCGATATAACACACTTTC | 57.118 | 34.615 | 0.00 | 0.00 | 0.00 | 2.62 |
404 | 434 | 8.561738 | TTTCTTACAGGAAGACATTAATGACC | 57.438 | 34.615 | 22.16 | 16.79 | 44.12 | 4.02 |
410 | 441 | 6.264518 | ACAGGAAGACATTAATGACCGTTTTT | 59.735 | 34.615 | 22.16 | 5.84 | 0.00 | 1.94 |
695 | 734 | 8.154649 | GCTTTTGCATACATTACCACTACTAT | 57.845 | 34.615 | 0.00 | 0.00 | 46.58 | 2.12 |
721 | 761 | 7.152645 | ACTGAACGTATTTTGTCTCTGTGTAT | 58.847 | 34.615 | 0.00 | 0.00 | 0.00 | 2.29 |
733 | 778 | 5.884232 | TGTCTCTGTGTATAACCGACAGTAT | 59.116 | 40.000 | 0.00 | 0.00 | 38.60 | 2.12 |
855 | 915 | 2.765807 | CCCTGGCCTCTCGTCCAT | 60.766 | 66.667 | 3.32 | 0.00 | 0.00 | 3.41 |
979 | 1050 | 2.147958 | CTCGATCTCTAACCTCCTCCG | 58.852 | 57.143 | 0.00 | 0.00 | 0.00 | 4.63 |
1109 | 1327 | 1.049289 | CCCTGGAGTAGTGGGGTAGC | 61.049 | 65.000 | 0.00 | 0.00 | 37.37 | 3.58 |
1219 | 1437 | 1.068417 | CGTCCACGTCTTTGGTCCA | 59.932 | 57.895 | 0.00 | 0.00 | 37.93 | 4.02 |
1292 | 1516 | 3.066190 | CTCCGGTAGCGGTGACCA | 61.066 | 66.667 | 30.74 | 12.13 | 36.72 | 4.02 |
1325 | 1570 | 2.368548 | GGCAAGAGGGGTCAAATTTTGT | 59.631 | 45.455 | 8.89 | 0.00 | 0.00 | 2.83 |
1384 | 1632 | 3.703556 | TGTGTCAAAATCAAAGGAGCCAA | 59.296 | 39.130 | 0.00 | 0.00 | 0.00 | 4.52 |
1613 | 1865 | 6.545666 | TCAAAGTCTCAACAAATAAGAAGGCA | 59.454 | 34.615 | 0.00 | 0.00 | 0.00 | 4.75 |
1772 | 2071 | 5.384063 | TCTGTGCTGATTATCTAGCTAGC | 57.616 | 43.478 | 16.35 | 6.62 | 40.52 | 3.42 |
1844 | 2173 | 6.146184 | GCTTGAGAGCGCTGATGTTTATTATA | 59.854 | 38.462 | 18.48 | 0.00 | 39.48 | 0.98 |
1873 | 2202 | 9.710900 | TTGCACTGATTGATTAATCGTATCTAT | 57.289 | 29.630 | 21.46 | 12.47 | 44.55 | 1.98 |
1874 | 2203 | 9.710900 | TGCACTGATTGATTAATCGTATCTATT | 57.289 | 29.630 | 21.46 | 10.10 | 44.55 | 1.73 |
1888 | 2217 | 8.994429 | ATCGTATCTATTTTCTATGCCTCTTG | 57.006 | 34.615 | 0.00 | 0.00 | 0.00 | 3.02 |
1912 | 2241 | 1.171308 | TGGTAGTAGCGACCAGTGTC | 58.829 | 55.000 | 0.00 | 0.00 | 42.15 | 3.67 |
2003 | 2332 | 4.080919 | CCATGAAGACCTCAACTGTATCCA | 60.081 | 45.833 | 0.00 | 0.00 | 37.67 | 3.41 |
2106 | 2444 | 0.252742 | AACAAGGGGAGGACGAGGAT | 60.253 | 55.000 | 0.00 | 0.00 | 0.00 | 3.24 |
2162 | 2500 | 5.171476 | CGCTTGATCTATTGTATACCCCAG | 58.829 | 45.833 | 0.00 | 0.00 | 0.00 | 4.45 |
2280 | 2639 | 5.045578 | AGACTTTAGGGCTAGCTTTGATTCA | 60.046 | 40.000 | 15.72 | 0.00 | 0.00 | 2.57 |
2325 | 2684 | 9.104965 | CAACCTTGACCGTTCATATTAATAAGA | 57.895 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
2482 | 2841 | 1.077787 | GGTCCATGGCCATGTCGAA | 60.078 | 57.895 | 37.30 | 20.68 | 37.11 | 3.71 |
2546 | 2911 | 0.618458 | GGGTGTGAGGGCACTAATCA | 59.382 | 55.000 | 0.00 | 0.00 | 45.36 | 2.57 |
2688 | 3055 | 1.050988 | GCTCATCTGGGTAGGAGGCA | 61.051 | 60.000 | 0.00 | 0.00 | 0.00 | 4.75 |
2757 | 3132 | 0.733150 | GTATTGTTCTCGGCCAAGGC | 59.267 | 55.000 | 2.24 | 1.52 | 41.06 | 4.35 |
2817 | 3193 | 0.680061 | GAACAGAACACGGGGACTCT | 59.320 | 55.000 | 0.00 | 0.00 | 0.00 | 3.24 |
2987 | 3369 | 5.732647 | CGTCAGCACAATTATTTAGTTTCCG | 59.267 | 40.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3001 | 3383 | 8.726870 | ATTTAGTTTCCGGAAATAAATCTCGA | 57.273 | 30.769 | 31.13 | 15.05 | 32.36 | 4.04 |
3021 | 3403 | 4.023963 | TCGACAAACGATGTAATTGCCAAA | 60.024 | 37.500 | 0.00 | 0.00 | 46.45 | 3.28 |
3063 | 3446 | 0.822532 | CTAGGCGATACGGACCCAGT | 60.823 | 60.000 | 0.00 | 0.00 | 0.00 | 4.00 |
3100 | 3483 | 2.636830 | CTGTTTGCCGAGATCCTTGAT | 58.363 | 47.619 | 0.00 | 0.00 | 0.00 | 2.57 |
3178 | 3561 | 1.528586 | CTGAGTTGTGTTCTCGGCAAG | 59.471 | 52.381 | 0.00 | 0.00 | 34.99 | 4.01 |
3206 | 3656 | 6.432783 | CCCTGGAACAAAAGACATATACACAA | 59.567 | 38.462 | 0.00 | 0.00 | 38.70 | 3.33 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
1 | 2 | 4.898320 | ACAGAGCAACAACATAGTCATCA | 58.102 | 39.130 | 0.00 | 0.00 | 0.00 | 3.07 |
2 | 3 | 5.869753 | AACAGAGCAACAACATAGTCATC | 57.130 | 39.130 | 0.00 | 0.00 | 0.00 | 2.92 |
5 | 6 | 5.352569 | AGCATAACAGAGCAACAACATAGTC | 59.647 | 40.000 | 0.00 | 0.00 | 0.00 | 2.59 |
6 | 7 | 5.248640 | AGCATAACAGAGCAACAACATAGT | 58.751 | 37.500 | 0.00 | 0.00 | 0.00 | 2.12 |
7 | 8 | 5.808042 | AGCATAACAGAGCAACAACATAG | 57.192 | 39.130 | 0.00 | 0.00 | 0.00 | 2.23 |
8 | 9 | 7.864108 | ATAAGCATAACAGAGCAACAACATA | 57.136 | 32.000 | 0.00 | 0.00 | 0.00 | 2.29 |
9 | 10 | 6.764308 | ATAAGCATAACAGAGCAACAACAT | 57.236 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
10 | 11 | 6.093495 | GGTATAAGCATAACAGAGCAACAACA | 59.907 | 38.462 | 0.00 | 0.00 | 0.00 | 3.33 |
11 | 12 | 6.316390 | AGGTATAAGCATAACAGAGCAACAAC | 59.684 | 38.462 | 0.00 | 0.00 | 0.00 | 3.32 |
12 | 13 | 6.316140 | CAGGTATAAGCATAACAGAGCAACAA | 59.684 | 38.462 | 0.00 | 0.00 | 0.00 | 2.83 |
13 | 14 | 5.817296 | CAGGTATAAGCATAACAGAGCAACA | 59.183 | 40.000 | 0.00 | 0.00 | 0.00 | 3.33 |
14 | 15 | 6.049149 | TCAGGTATAAGCATAACAGAGCAAC | 58.951 | 40.000 | 0.00 | 0.00 | 0.00 | 4.17 |
15 | 16 | 6.127054 | ACTCAGGTATAAGCATAACAGAGCAA | 60.127 | 38.462 | 2.53 | 0.00 | 40.09 | 3.91 |
16 | 17 | 5.363868 | ACTCAGGTATAAGCATAACAGAGCA | 59.636 | 40.000 | 2.53 | 0.00 | 40.09 | 4.26 |
17 | 18 | 5.848406 | ACTCAGGTATAAGCATAACAGAGC | 58.152 | 41.667 | 2.53 | 0.00 | 40.09 | 4.09 |
18 | 19 | 8.172352 | AGTACTCAGGTATAAGCATAACAGAG | 57.828 | 38.462 | 0.00 | 1.38 | 41.45 | 3.35 |
19 | 20 | 8.534954 | AAGTACTCAGGTATAAGCATAACAGA | 57.465 | 34.615 | 0.00 | 0.00 | 0.00 | 3.41 |
24 | 25 | 8.737175 | CGGAATAAGTACTCAGGTATAAGCATA | 58.263 | 37.037 | 0.00 | 0.00 | 0.00 | 3.14 |
25 | 26 | 7.603651 | CGGAATAAGTACTCAGGTATAAGCAT | 58.396 | 38.462 | 0.00 | 0.00 | 0.00 | 3.79 |
26 | 27 | 6.516194 | GCGGAATAAGTACTCAGGTATAAGCA | 60.516 | 42.308 | 0.00 | 0.00 | 0.00 | 3.91 |
27 | 28 | 5.862860 | GCGGAATAAGTACTCAGGTATAAGC | 59.137 | 44.000 | 0.00 | 0.00 | 0.00 | 3.09 |
28 | 29 | 7.085116 | CAGCGGAATAAGTACTCAGGTATAAG | 58.915 | 42.308 | 0.00 | 0.00 | 0.00 | 1.73 |
29 | 30 | 6.516194 | GCAGCGGAATAAGTACTCAGGTATAA | 60.516 | 42.308 | 0.00 | 0.00 | 0.00 | 0.98 |
30 | 31 | 5.048224 | GCAGCGGAATAAGTACTCAGGTATA | 60.048 | 44.000 | 0.00 | 0.00 | 0.00 | 1.47 |
31 | 32 | 4.262079 | GCAGCGGAATAAGTACTCAGGTAT | 60.262 | 45.833 | 0.00 | 0.00 | 0.00 | 2.73 |
32 | 33 | 3.067742 | GCAGCGGAATAAGTACTCAGGTA | 59.932 | 47.826 | 0.00 | 0.00 | 0.00 | 3.08 |
33 | 34 | 2.159085 | GCAGCGGAATAAGTACTCAGGT | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
34 | 35 | 2.101582 | AGCAGCGGAATAAGTACTCAGG | 59.898 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
35 | 36 | 3.444703 | AGCAGCGGAATAAGTACTCAG | 57.555 | 47.619 | 0.00 | 0.00 | 0.00 | 3.35 |
36 | 37 | 3.952323 | ACTAGCAGCGGAATAAGTACTCA | 59.048 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
37 | 38 | 4.202030 | ACACTAGCAGCGGAATAAGTACTC | 60.202 | 45.833 | 0.00 | 0.00 | 0.00 | 2.59 |
38 | 39 | 3.700038 | ACACTAGCAGCGGAATAAGTACT | 59.300 | 43.478 | 0.00 | 0.00 | 0.00 | 2.73 |
39 | 40 | 3.797256 | CACACTAGCAGCGGAATAAGTAC | 59.203 | 47.826 | 0.00 | 0.00 | 0.00 | 2.73 |
40 | 41 | 3.446161 | ACACACTAGCAGCGGAATAAGTA | 59.554 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
41 | 42 | 2.233922 | ACACACTAGCAGCGGAATAAGT | 59.766 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
42 | 43 | 2.860735 | GACACACTAGCAGCGGAATAAG | 59.139 | 50.000 | 0.00 | 0.00 | 0.00 | 1.73 |
43 | 44 | 2.734175 | CGACACACTAGCAGCGGAATAA | 60.734 | 50.000 | 0.00 | 0.00 | 0.00 | 1.40 |
44 | 45 | 1.202256 | CGACACACTAGCAGCGGAATA | 60.202 | 52.381 | 0.00 | 0.00 | 0.00 | 1.75 |
45 | 46 | 0.458543 | CGACACACTAGCAGCGGAAT | 60.459 | 55.000 | 0.00 | 0.00 | 0.00 | 3.01 |
46 | 47 | 1.080772 | CGACACACTAGCAGCGGAA | 60.081 | 57.895 | 0.00 | 0.00 | 0.00 | 4.30 |
47 | 48 | 1.802337 | AACGACACACTAGCAGCGGA | 61.802 | 55.000 | 0.00 | 0.00 | 0.00 | 5.54 |
48 | 49 | 1.372997 | AACGACACACTAGCAGCGG | 60.373 | 57.895 | 0.00 | 0.00 | 0.00 | 5.52 |
49 | 50 | 1.775344 | CAACGACACACTAGCAGCG | 59.225 | 57.895 | 0.00 | 0.00 | 0.00 | 5.18 |
50 | 51 | 0.946221 | AGCAACGACACACTAGCAGC | 60.946 | 55.000 | 0.00 | 0.00 | 0.00 | 5.25 |
51 | 52 | 1.502231 | AAGCAACGACACACTAGCAG | 58.498 | 50.000 | 0.00 | 0.00 | 0.00 | 4.24 |
52 | 53 | 1.597195 | CAAAGCAACGACACACTAGCA | 59.403 | 47.619 | 0.00 | 0.00 | 0.00 | 3.49 |
53 | 54 | 1.069906 | CCAAAGCAACGACACACTAGC | 60.070 | 52.381 | 0.00 | 0.00 | 0.00 | 3.42 |
54 | 55 | 2.479837 | TCCAAAGCAACGACACACTAG | 58.520 | 47.619 | 0.00 | 0.00 | 0.00 | 2.57 |
55 | 56 | 2.605837 | TCCAAAGCAACGACACACTA | 57.394 | 45.000 | 0.00 | 0.00 | 0.00 | 2.74 |
56 | 57 | 1.745232 | TTCCAAAGCAACGACACACT | 58.255 | 45.000 | 0.00 | 0.00 | 0.00 | 3.55 |
57 | 58 | 2.774439 | ATTCCAAAGCAACGACACAC | 57.226 | 45.000 | 0.00 | 0.00 | 0.00 | 3.82 |
58 | 59 | 3.129462 | TGAAATTCCAAAGCAACGACACA | 59.871 | 39.130 | 0.00 | 0.00 | 0.00 | 3.72 |
59 | 60 | 3.701241 | TGAAATTCCAAAGCAACGACAC | 58.299 | 40.909 | 0.00 | 0.00 | 0.00 | 3.67 |
60 | 61 | 4.037327 | TGATGAAATTCCAAAGCAACGACA | 59.963 | 37.500 | 0.00 | 0.00 | 0.00 | 4.35 |
61 | 62 | 4.545610 | TGATGAAATTCCAAAGCAACGAC | 58.454 | 39.130 | 0.00 | 0.00 | 0.00 | 4.34 |
62 | 63 | 4.278170 | ACTGATGAAATTCCAAAGCAACGA | 59.722 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
63 | 64 | 4.383649 | CACTGATGAAATTCCAAAGCAACG | 59.616 | 41.667 | 0.00 | 0.00 | 0.00 | 4.10 |
64 | 65 | 5.403466 | GTCACTGATGAAATTCCAAAGCAAC | 59.597 | 40.000 | 0.00 | 0.00 | 36.31 | 4.17 |
65 | 66 | 5.531634 | GTCACTGATGAAATTCCAAAGCAA | 58.468 | 37.500 | 0.00 | 0.00 | 36.31 | 3.91 |
66 | 67 | 4.320421 | CGTCACTGATGAAATTCCAAAGCA | 60.320 | 41.667 | 0.00 | 0.00 | 36.31 | 3.91 |
67 | 68 | 4.083324 | TCGTCACTGATGAAATTCCAAAGC | 60.083 | 41.667 | 0.00 | 0.00 | 36.31 | 3.51 |
68 | 69 | 5.611796 | TCGTCACTGATGAAATTCCAAAG | 57.388 | 39.130 | 0.00 | 0.00 | 36.31 | 2.77 |
69 | 70 | 6.573664 | ATTCGTCACTGATGAAATTCCAAA | 57.426 | 33.333 | 16.02 | 0.00 | 40.33 | 3.28 |
70 | 71 | 6.573664 | AATTCGTCACTGATGAAATTCCAA | 57.426 | 33.333 | 16.02 | 0.00 | 40.33 | 3.53 |
71 | 72 | 6.016360 | ACAAATTCGTCACTGATGAAATTCCA | 60.016 | 34.615 | 16.02 | 0.00 | 40.33 | 3.53 |
72 | 73 | 6.381801 | ACAAATTCGTCACTGATGAAATTCC | 58.618 | 36.000 | 16.02 | 0.00 | 40.33 | 3.01 |
73 | 74 | 8.948853 | TTACAAATTCGTCACTGATGAAATTC | 57.051 | 30.769 | 16.02 | 0.00 | 40.33 | 2.17 |
74 | 75 | 9.743057 | TTTTACAAATTCGTCACTGATGAAATT | 57.257 | 25.926 | 16.02 | 11.88 | 40.33 | 1.82 |
75 | 76 | 9.743057 | TTTTTACAAATTCGTCACTGATGAAAT | 57.257 | 25.926 | 16.02 | 6.74 | 40.33 | 2.17 |
76 | 77 | 9.743057 | ATTTTTACAAATTCGTCACTGATGAAA | 57.257 | 25.926 | 16.02 | 0.00 | 40.33 | 2.69 |
77 | 78 | 9.393249 | GATTTTTACAAATTCGTCACTGATGAA | 57.607 | 29.630 | 14.71 | 14.71 | 41.04 | 2.57 |
78 | 79 | 7.744276 | CGATTTTTACAAATTCGTCACTGATGA | 59.256 | 33.333 | 0.00 | 0.00 | 32.35 | 2.92 |
79 | 80 | 7.007367 | CCGATTTTTACAAATTCGTCACTGATG | 59.993 | 37.037 | 10.79 | 0.00 | 32.35 | 3.07 |
80 | 81 | 7.021196 | CCGATTTTTACAAATTCGTCACTGAT | 58.979 | 34.615 | 10.79 | 0.00 | 32.35 | 2.90 |
81 | 82 | 6.203145 | TCCGATTTTTACAAATTCGTCACTGA | 59.797 | 34.615 | 10.79 | 1.50 | 32.35 | 3.41 |
82 | 83 | 6.367421 | TCCGATTTTTACAAATTCGTCACTG | 58.633 | 36.000 | 10.79 | 0.00 | 32.35 | 3.66 |
83 | 84 | 6.548441 | TCCGATTTTTACAAATTCGTCACT | 57.452 | 33.333 | 10.79 | 0.00 | 32.35 | 3.41 |
84 | 85 | 9.155053 | GATATCCGATTTTTACAAATTCGTCAC | 57.845 | 33.333 | 10.79 | 0.00 | 32.35 | 3.67 |
85 | 86 | 8.339714 | GGATATCCGATTTTTACAAATTCGTCA | 58.660 | 33.333 | 5.86 | 1.26 | 32.35 | 4.35 |
86 | 87 | 7.801783 | GGGATATCCGATTTTTACAAATTCGTC | 59.198 | 37.037 | 15.69 | 4.27 | 32.35 | 4.20 |
87 | 88 | 7.255346 | GGGGATATCCGATTTTTACAAATTCGT | 60.255 | 37.037 | 15.69 | 0.00 | 32.35 | 3.85 |
88 | 89 | 7.081976 | GGGGATATCCGATTTTTACAAATTCG | 58.918 | 38.462 | 15.69 | 6.56 | 32.35 | 3.34 |
89 | 90 | 7.375834 | GGGGGATATCCGATTTTTACAAATTC | 58.624 | 38.462 | 15.69 | 0.00 | 32.35 | 2.17 |
90 | 91 | 7.297936 | GGGGGATATCCGATTTTTACAAATT | 57.702 | 36.000 | 15.69 | 0.00 | 32.35 | 1.82 |
91 | 92 | 6.911250 | GGGGGATATCCGATTTTTACAAAT | 57.089 | 37.500 | 15.69 | 0.00 | 35.12 | 2.32 |
111 | 112 | 4.781087 | TGTTATATCGATTAAGGGAGGGGG | 59.219 | 45.833 | 1.71 | 0.00 | 0.00 | 5.40 |
112 | 113 | 5.247564 | TGTGTTATATCGATTAAGGGAGGGG | 59.752 | 44.000 | 1.71 | 0.00 | 0.00 | 4.79 |
113 | 114 | 6.014499 | AGTGTGTTATATCGATTAAGGGAGGG | 60.014 | 42.308 | 1.71 | 0.00 | 0.00 | 4.30 |
114 | 115 | 6.994221 | AGTGTGTTATATCGATTAAGGGAGG | 58.006 | 40.000 | 1.71 | 0.00 | 0.00 | 4.30 |
115 | 116 | 8.888579 | AAAGTGTGTTATATCGATTAAGGGAG | 57.111 | 34.615 | 1.71 | 0.00 | 0.00 | 4.30 |
116 | 117 | 8.479689 | TGAAAGTGTGTTATATCGATTAAGGGA | 58.520 | 33.333 | 1.71 | 0.00 | 0.00 | 4.20 |
117 | 118 | 8.657074 | TGAAAGTGTGTTATATCGATTAAGGG | 57.343 | 34.615 | 1.71 | 0.00 | 0.00 | 3.95 |
293 | 299 | 7.421530 | TTTGCTGAACACAAGAAGTATACTC | 57.578 | 36.000 | 5.70 | 0.20 | 0.00 | 2.59 |
620 | 655 | 7.968405 | TGATATGAGATATACACCGAAATCACG | 59.032 | 37.037 | 0.00 | 0.00 | 0.00 | 4.35 |
695 | 734 | 6.509656 | ACACAGAGACAAAATACGTTCAGTA | 58.490 | 36.000 | 0.00 | 0.00 | 40.03 | 2.74 |
721 | 761 | 2.696187 | TGGCTGCATATACTGTCGGTTA | 59.304 | 45.455 | 0.50 | 0.00 | 0.00 | 2.85 |
733 | 778 | 1.240641 | CGGTTGGTGTTGGCTGCATA | 61.241 | 55.000 | 0.50 | 0.00 | 0.00 | 3.14 |
855 | 915 | 4.973055 | CGGGGCGAACGGAACACA | 62.973 | 66.667 | 0.00 | 0.00 | 0.00 | 3.72 |
946 | 1011 | 5.759506 | AGAGATCGAGAAAGCTAAATCGA | 57.240 | 39.130 | 16.36 | 16.36 | 46.90 | 3.59 |
954 | 1019 | 3.634910 | AGGAGGTTAGAGATCGAGAAAGC | 59.365 | 47.826 | 0.00 | 0.00 | 0.00 | 3.51 |
979 | 1050 | 2.851588 | GATGGAGGGAGGGAGGGC | 60.852 | 72.222 | 0.00 | 0.00 | 0.00 | 5.19 |
991 | 1062 | 3.346315 | CAATTATGGGCATAGCGATGGA | 58.654 | 45.455 | 8.97 | 0.00 | 33.26 | 3.41 |
1107 | 1325 | 4.699522 | GGCGTGGGTTCTTCCGCT | 62.700 | 66.667 | 0.00 | 0.00 | 45.11 | 5.52 |
1148 | 1366 | 2.781158 | AAATAATGGTGGCCCGCGC | 61.781 | 57.895 | 0.00 | 0.00 | 0.00 | 6.86 |
1219 | 1437 | 2.190578 | GGAGGCTGGCGCATAAGT | 59.809 | 61.111 | 10.83 | 0.00 | 38.10 | 2.24 |
1292 | 1516 | 0.622665 | CTCTTGCCCATCCAGTCCTT | 59.377 | 55.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1325 | 1570 | 7.362834 | CCATACTACCTGCATCACAATTTTGAA | 60.363 | 37.037 | 0.00 | 0.00 | 0.00 | 2.69 |
1384 | 1632 | 5.136392 | AGGAAGTAGTATCAGTATCAGGGGT | 59.864 | 44.000 | 0.00 | 0.00 | 0.00 | 4.95 |
1419 | 1667 | 3.364764 | GCTTGACTGCTGTTGAAGATGAC | 60.365 | 47.826 | 16.03 | 0.00 | 0.00 | 3.06 |
1613 | 1865 | 0.317770 | CACAAAAGCACGCCGTGAAT | 60.318 | 50.000 | 23.33 | 5.38 | 35.23 | 2.57 |
1772 | 2071 | 7.371159 | TGATATTAGACAGCTCTTAATGGACG | 58.629 | 38.462 | 0.00 | 0.00 | 0.00 | 4.79 |
1844 | 2173 | 6.441093 | ACGATTAATCAATCAGTGCAATGT | 57.559 | 33.333 | 14.62 | 0.00 | 40.61 | 2.71 |
1888 | 2217 | 0.744874 | TGGTCGCTACTACCATCTGC | 59.255 | 55.000 | 0.00 | 0.00 | 42.10 | 4.26 |
1912 | 2241 | 9.829507 | AACTCAGATTTTATCATACTCTCCAAG | 57.170 | 33.333 | 0.00 | 0.00 | 0.00 | 3.61 |
1942 | 2271 | 6.012858 | AGGACCAGTACCAACAATCATTCTTA | 60.013 | 38.462 | 0.00 | 0.00 | 0.00 | 2.10 |
2003 | 2332 | 1.885887 | GTAGATCCTGAGAGCGAGCAT | 59.114 | 52.381 | 0.00 | 0.00 | 32.16 | 3.79 |
2106 | 2444 | 2.232941 | GACACCGATGGTTCTGGTTCTA | 59.767 | 50.000 | 0.00 | 0.00 | 31.02 | 2.10 |
2162 | 2500 | 4.248859 | TGCTCTGCAGAACATCTTAAGTC | 58.751 | 43.478 | 18.85 | 0.44 | 33.32 | 3.01 |
2280 | 2639 | 2.649831 | CAGCATTGCAGGAACACCT | 58.350 | 52.632 | 11.91 | 0.00 | 33.85 | 4.00 |
2294 | 2653 | 1.444119 | GAACGGTCAAGGTTGCAGCA | 61.444 | 55.000 | 2.05 | 0.00 | 0.00 | 4.41 |
2325 | 2684 | 8.988934 | CGCACAACTATATTCTGGTAAATATGT | 58.011 | 33.333 | 0.00 | 0.00 | 34.47 | 2.29 |
2339 | 2698 | 6.522054 | ACATAAGTAAGGCGCACAACTATAT | 58.478 | 36.000 | 10.83 | 6.87 | 0.00 | 0.86 |
2546 | 2911 | 2.521547 | ACCTAGGCCTACTTACACGT | 57.478 | 50.000 | 8.91 | 0.00 | 0.00 | 4.49 |
2674 | 3041 | 1.384502 | CCCATGCCTCCTACCCAGA | 60.385 | 63.158 | 0.00 | 0.00 | 0.00 | 3.86 |
2757 | 3132 | 1.614413 | GGTAGGATTCGGGCTGAGTAG | 59.386 | 57.143 | 0.00 | 0.00 | 0.00 | 2.57 |
2861 | 3243 | 4.675029 | CGTCCGGCCCGTGAAGTT | 62.675 | 66.667 | 0.85 | 0.00 | 0.00 | 2.66 |
2935 | 3317 | 0.744874 | TCATCCGCTTTACCTCTCGG | 59.255 | 55.000 | 0.00 | 0.00 | 42.96 | 4.63 |
2937 | 3319 | 2.427453 | TCACTCATCCGCTTTACCTCTC | 59.573 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
2939 | 3321 | 2.427453 | TCTCACTCATCCGCTTTACCTC | 59.573 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
2940 | 3322 | 2.166664 | GTCTCACTCATCCGCTTTACCT | 59.833 | 50.000 | 0.00 | 0.00 | 0.00 | 3.08 |
2941 | 3323 | 2.094182 | TGTCTCACTCATCCGCTTTACC | 60.094 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2942 | 3324 | 2.924290 | GTGTCTCACTCATCCGCTTTAC | 59.076 | 50.000 | 0.00 | 0.00 | 0.00 | 2.01 |
2943 | 3325 | 2.415491 | CGTGTCTCACTCATCCGCTTTA | 60.415 | 50.000 | 0.00 | 0.00 | 31.34 | 1.85 |
2950 | 3332 | 1.068264 | TGCTGACGTGTCTCACTCATC | 60.068 | 52.381 | 0.00 | 0.00 | 31.34 | 2.92 |
3001 | 3383 | 6.481644 | ACAAATTTGGCAATTACATCGTTTGT | 59.518 | 30.769 | 21.74 | 6.29 | 42.62 | 2.83 |
3021 | 3403 | 0.958822 | GCCACTCGGGAAACACAAAT | 59.041 | 50.000 | 0.00 | 0.00 | 40.01 | 2.32 |
3100 | 3483 | 8.307483 | TGGTTCATTTCTTTGACAAGTGTAAAA | 58.693 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
3178 | 3561 | 1.398692 | TGTCTTTTGTTCCAGGGCAC | 58.601 | 50.000 | 0.00 | 0.00 | 0.00 | 5.01 |

Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.